mkdir: cannot create directory ‘/rigel/psych/users/av2902/sb_cpac/preproc/’: File exists
[33mWARNING:[0m skipping mount of /rigel/psych/users/av2902/sb_cpac/scratch: no such file or directory
Running BIDS validator
#### Running C-PAC for sub-018
Number of participants to run in parallel: 1
Input directory: /bids_dataset
Output directory: /outputs/output
Working directory: /outputs/tmp
Crash directory: /outputs/crash
Log directory: /outputs/log
Remove working directory: False
Available memory: 100.0 (GB)
Available threads: 1
Number of threads for ANTs: 1
Parsing /bids_dataset..
Starting participant level processing
Run called with config file /outputs/cpac_pipeline_config_2020-11-12T22-06-11Z.yml
201112-22:06:23,831 nipype.workflow INFO:
C-PAC version: 1.7.2
Setting maximum number of cores per participant to 1
Setting number of participants at once to 1
Setting OMP_NUM_THREADS to 1
Setting MKL_NUM_THREADS to 1
Setting ANTS/ITK thread usage to 1
Maximum potential number of cores that might be used during this run: 1
201112-22:06:29,403 nipype.workflow INFO:
Pipeline building completed.
201112-22:06:29,404 nipype.workflow INFO:
Strategy forks:
- cpac_fmriprep-options
201112-22:06:32,60 nipype.workflow INFO:
Workflow resting_preproc_sub-018_ses-1 settings: ['check', 'execution', 'logging', 'monitoring']
201112-22:06:33,226 nipype.workflow INFO:
Running serially.
201112-22:06:33,235 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.func_gather_0.select_scan_params" in "/outputs/tmp/resting_preproc_sub-018_ses-1/func_gather_0/_scan_tgng_run-2/select_scan_params".
201112-22:06:33,268 nipype.workflow INFO:
[Node] Running "select_scan_params" ("CPAC.utils.interfaces.function.Function")
201112-22:06:33,508 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.func_gather_0.select_scan_params".
201112-22:06:33,519 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.func_gather_0.s3_scan_params" in "/outputs/tmp/resting_preproc_sub-018_ses-1/func_gather_0/_scan_tgng_run-2/s3_scan_params".
201112-22:06:33,527 nipype.workflow INFO:
[Node] Running "s3_scan_params" ("CPAC.utils.interfaces.function.Function")
201112-22:06:33,760 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.func_gather_0.s3_scan_params".
201112-22:06:33,762 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.scan_params_0" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_tgng_run-2/scan_params_0".
201112-22:06:33,771 nipype.workflow INFO:
[Node] Running "scan_params_0" ("CPAC.utils.interfaces.function.Function")
201112-22:06:34,1 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.scan_params_0".
201112-22:06:34,4 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.func_gather_0.selectrest" in "/outputs/tmp/resting_preproc_sub-018_ses-1/func_gather_0/_scan_tgng_run-2/selectrest".
201112-22:06:34,33 nipype.workflow INFO:
[Node] Running "selectrest" ("CPAC.utils.interfaces.function.Function")
201112-22:06:34,269 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.func_gather_0.selectrest".
201112-22:06:34,279 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.func_gather_0.check_for_s3" in "/outputs/tmp/resting_preproc_sub-018_ses-1/func_gather_0/_scan_tgng_run-2/check_for_s3".
201112-22:06:34,285 nipype.workflow INFO:
[Node] Running "check_for_s3" ("CPAC.utils.interfaces.function.Function")
201112-22:06:34,621 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.func_gather_0.check_for_s3".
201112-22:06:34,622 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.edit_func_0.func_get_idx" in "/outputs/tmp/resting_preproc_sub-018_ses-1/edit_func_0/_scan_tgng_run-2/func_get_idx".
201112-22:06:34,628 nipype.workflow INFO:
[Node] Running "func_get_idx" ("nipype.interfaces.utility.wrappers.Function")
201112-22:06:34,862 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.edit_func_0.func_get_idx".
201112-22:06:34,863 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.edit_func_0.func_drop_trs" in "/outputs/tmp/resting_preproc_sub-018_ses-1/edit_func_0/_scan_tgng_run-2/func_drop_trs".
201112-22:06:34,870 nipype.workflow INFO:
[Node] Running "func_drop_trs" ("nipype.interfaces.afni.utils.Calc"), a CommandLine Interface with command:
3dcalc -a /bids_dataset/sub-018/ses-1/func/sub-018_ses-1_task-tgng_run-2_bold.nii.gz[0..129] -expr "a" -prefix sub-018_ses-1_task-tgng_run-2_bold_calc.nii.gz
201112-22:06:35,116 nipype.interface INFO:
stderr 2020-11-12T22:06:35.115954:++ 3dcalc: AFNI version=AFNI_20.2.19 (Sep 27 2020) [64-bit]
201112-22:06:35,116 nipype.interface INFO:
stderr 2020-11-12T22:06:35.116837:++ Authored by: A cast of thousands
201112-22:06:40,887 nipype.interface INFO:
stderr 2020-11-12T22:06:40.887153:++ Output dataset ./sub-018_ses-1_task-tgng_run-2_bold_calc.nii.gz
201112-22:06:41,62 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.edit_func_0.func_drop_trs".
201112-22:06:41,63 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_deoblique" in "/outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/_scan_tgng_run-2/func_deoblique".
201112-22:06:41,111 nipype.workflow INFO:
[Node] Running "func_deoblique" ("nipype.interfaces.afni.utils.Refit"), a CommandLine Interface with command:
3drefit -deoblique /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/_scan_tgng_run-2/func_deoblique/sub-018_ses-1_task-tgng_run-2_bold_calc.nii.gz
201112-22:06:41,560 nipype.interface INFO:
stderr 2020-11-12T22:06:41.560847:++ 3drefit: AFNI version=AFNI_20.2.19 (Sep 27 2020) [64-bit]
201112-22:06:41,561 nipype.interface INFO:
stderr 2020-11-12T22:06:41.561184:++ Authored by: RW Cox
201112-22:06:41,596 nipype.interface INFO:
stderr 2020-11-12T22:06:41.596642:++ Processing AFNI dataset /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/_scan_tgng_run-2/func_deoblique/sub-018_ses-1_task-tgng_run-2_bold_calc.nii.gz
201112-22:06:41,597 nipype.interface INFO:
stderr 2020-11-12T22:06:41.597265: + deoblique
201112-22:06:41,597 nipype.interface INFO:
stderr 2020-11-12T22:06:41.597452: + loading and re-writing dataset /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/_scan_tgng_run-2/func_deoblique/sub-018_ses-1_task-tgng_run-2_bold_calc.nii.gz (/outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/_scan_tgng_run-2/func_deoblique/sub-018_ses-1_task-tgng_run-2_bold_calc.nii.gz in NIFTI storage)
201112-22:06:45,465 nipype.interface INFO:
stderr 2020-11-12T22:06:45.465525:++ 3drefit processed 1 datasets
201112-22:06:45,635 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_deoblique".
201112-22:06:45,636 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_reorient" in "/outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/_scan_tgng_run-2/func_reorient".
201112-22:06:45,642 nipype.workflow INFO:
[Node] Running "func_reorient" ("nipype.interfaces.afni.utils.Resample"), a CommandLine Interface with command:
3dresample -orient RPI -prefix sub-018_ses-1_task-tgng_run-2_bold_calc_resample.nii.gz -inset /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/_scan_tgng_run-2/func_reorient/sub-018_ses-1_task-tgng_run-2_bold_calc.nii.gz
201112-22:06:50,219 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_reorient".
201112-22:06:50,221 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_get_mean_RPI" in "/outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/_scan_tgng_run-2/func_get_mean_RPI".
201112-22:06:50,228 nipype.workflow INFO:
[Node] Running "func_get_mean_RPI" ("nipype.interfaces.afni.utils.TStat"), a CommandLine Interface with command:
3dTstat -mean -prefix sub-018_ses-1_task-tgng_run-2_bold_calc_resample_tstat.nii.gz /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/_scan_tgng_run-2/func_get_mean_RPI/sub-018_ses-1_task-tgng_run-2_bold_calc_resample.nii.gz
201112-22:06:50,591 nipype.interface INFO:
stderr 2020-11-12T22:06:50.591356:++ 3dTstat: AFNI version=AFNI_20.2.19 (Sep 27 2020) [64-bit]
201112-22:06:50,591 nipype.interface INFO:
stderr 2020-11-12T22:06:50.591946:++ Authored by: KR Hammett & RW Cox
201112-22:06:51,63 nipype.interface INFO:
stderr 2020-11-12T22:06:51.063712:++ Output dataset ./sub-018_ses-1_task-tgng_run-2_bold_calc_resample_tstat.nii.gz
201112-22:06:51,212 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_get_mean_RPI".
201112-22:06:51,213 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_generate_ref" in "/outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/_scan_tgng_run-2/func_generate_ref".
201112-22:06:51,221 nipype.workflow INFO:
[Node] Running "func_generate_ref" ("nipype.interfaces.afni.preprocess.Volreg"), a CommandLine Interface with command:
3dvolreg -twopass -Fourier -1Dfile sub-018_ses-1_task-tgng_run-2_bold_calc_resample.1D -1Dmatrix_save sub-018_ses-1_task-tgng_run-2_bold_calc_resample.aff12.1D -prefix sub-018_ses-1_task-tgng_run-2_bold_calc_resample_volreg.nii.gz -base /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/_scan_tgng_run-2/func_get_mean_RPI/sub-018_ses-1_task-tgng_run-2_bold_calc_resample_tstat.nii.gz -zpad 4 -maxdisp1D sub-018_ses-1_task-tgng_run-2_bold_calc_resample_md.1D /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/_scan_tgng_run-2/func_generate_ref/sub-018_ses-1_task-tgng_run-2_bold_calc_resample.nii.gz
201112-22:06:51,476 nipype.interface INFO:
stderr 2020-11-12T22:06:51.476542:++ 3dvolreg: AFNI version=AFNI_20.2.19 (Sep 27 2020) [64-bit]
201112-22:06:51,476 nipype.interface INFO:
stderr 2020-11-12T22:06:51.476850:++ Authored by: RW Cox
201112-22:06:51,495 nipype.interface INFO:
stderr 2020-11-12T22:06:51.495202:++ Coarse del was 10, replaced with 3
201112-22:08:39,237 nipype.interface INFO:
stderr 2020-11-12T22:08:39.237582:++ Max displacement in automask = 15.75 (mm) at sub-brick 106
201112-22:08:39,238 nipype.interface INFO:
stderr 2020-11-12T22:08:39.238530:++ Max delta displ in automask = 12.21 (mm) at sub-brick 109
201112-22:08:43,18 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_generate_ref".
201112-22:08:43,20 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_get_mean_motion" in "/outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/_scan_tgng_run-2/func_get_mean_motion".
201112-22:08:43,26 nipype.workflow INFO:
[Node] Running "func_get_mean_motion" ("nipype.interfaces.afni.utils.TStat"), a CommandLine Interface with command:
3dTstat -mean -prefix sub-018_ses-1_task-tgng_run-2_bold_calc_resample_volreg_tstat.nii.gz /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/_scan_tgng_run-2/func_get_mean_motion/sub-018_ses-1_task-tgng_run-2_bold_calc_resample_volreg.nii.gz
201112-22:08:43,279 nipype.interface INFO:
stderr 2020-11-12T22:08:43.279410:++ 3dTstat: AFNI version=AFNI_20.2.19 (Sep 27 2020) [64-bit]
201112-22:08:43,280 nipype.interface INFO:
stderr 2020-11-12T22:08:43.280208:++ Authored by: KR Hammett & RW Cox
201112-22:08:43,743 nipype.interface INFO:
stderr 2020-11-12T22:08:43.743335:++ Output dataset ./sub-018_ses-1_task-tgng_run-2_bold_calc_resample_volreg_tstat.nii.gz
201112-22:08:43,890 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_get_mean_motion".
201112-22:08:43,891 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_motion_correct_mcflirt" in "/outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/_scan_tgng_run-2/func_motion_correct_mcflirt".
201112-22:08:43,898 nipype.workflow INFO:
[Node] Running "func_motion_correct_mcflirt" ("nipype.interfaces.fsl.preprocess.MCFLIRT"), a CommandLine Interface with command:
mcflirt -in /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/_scan_tgng_run-2/func_reorient/sub-018_ses-1_task-tgng_run-2_bold_calc_resample.nii.gz -out /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/_scan_tgng_run-2/func_motion_correct_mcflirt/sub-018_ses-1_task-tgng_run-2_bold_calc_resample_mcf.nii.gz -reffile /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/_scan_tgng_run-2/func_get_mean_motion/sub-018_ses-1_task-tgng_run-2_bold_calc_resample_volreg_tstat.nii.gz -mats -plots -rmsabs -rmsrel
201112-22:09:06,911 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_motion_correct_mcflirt".
201112-22:09:06,920 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.gen_motion_stats_before_stc_fsl_afni_mean_mcflirt_0.calculate_FDJ" in "/outputs/tmp/resting_preproc_sub-018_ses-1/gen_motion_stats_before_stc_fsl_afni_mean_mcflirt_0/_scan_tgng_run-2/calculate_FDJ".
201112-22:09:06,926 nipype.workflow INFO:
[Node] Running "calculate_FDJ" ("CPAC.utils.interfaces.function.Function")
201112-22:09:07,155 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.gen_motion_stats_before_stc_fsl_afni_mean_mcflirt_0.calculate_FDJ".
201112-22:09:07,156 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.sinker_0_frame_wise_displacement_jenkinson" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_tgng_run-2/sinker_0_frame_wise_displacement_jenkinson".
201112-22:09:07,163 nipype.workflow INFO:
[Node] Running "sinker_0_frame_wise_displacement_jenkinson" ("CPAC.utils.interfaces.datasink.DataSink")
201112-22:09:07,398 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.sinker_0_frame_wise_displacement_jenkinson".
201112-22:09:07,400 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.sinker_0_max_displacement" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_tgng_run-2/sinker_0_max_displacement".
201112-22:09:07,409 nipype.workflow INFO:
[Node] Running "sinker_0_max_displacement" ("CPAC.utils.interfaces.datasink.DataSink")
201112-22:09:07,639 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.sinker_0_max_displacement".
201112-22:09:07,640 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.sinker_0_coordinate_transformation" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_tgng_run-2/sinker_0_coordinate_transformation".
201112-22:09:07,659 nipype.workflow INFO:
[Node] Running "sinker_0_coordinate_transformation" ("CPAC.utils.interfaces.datasink.DataSink")
201112-22:09:07,927 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.sinker_0_coordinate_transformation".
201112-22:09:07,938 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip.func_mean_skull" in "/outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_tgng_run-2/func_mean_skull".
201112-22:09:07,946 nipype.workflow INFO:
[Node] Running "func_mean_skull" ("nipype.interfaces.afni.utils.TStat"), a CommandLine Interface with command:
3dTstat -mean -prefix sub-018_ses-1_task-tgng_run-2_bold_calc_resample_mcf_tstat.nii.gz /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_tgng_run-2/func_mean_skull/sub-018_ses-1_task-tgng_run-2_bold_calc_resample_mcf.nii.gz
201112-22:09:08,200 nipype.interface INFO:
stderr 2020-11-12T22:09:08.200237:++ 3dTstat: AFNI version=AFNI_20.2.19 (Sep 27 2020) [64-bit]
201112-22:09:08,201 nipype.interface INFO:
stderr 2020-11-12T22:09:08.200956:++ Authored by: KR Hammett & RW Cox
201112-22:09:08,690 nipype.interface INFO:
stderr 2020-11-12T22:09:08.690137:++ Output dataset ./sub-018_ses-1_task-tgng_run-2_bold_calc_resample_mcf_tstat.nii.gz
201112-22:09:08,837 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip.func_mean_skull".
201112-22:09:08,838 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip.skullstrip_first_pass" in "/outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_tgng_run-2/skullstrip_first_pass".
201112-22:09:08,844 nipype.workflow INFO:
[Node] Running "skullstrip_first_pass" ("nipype.interfaces.fsl.preprocess.BET"), a CommandLine Interface with command:
bet /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_tgng_run-2/func_mean_skull/sub-018_ses-1_task-tgng_run-2_bold_calc_resample_mcf_tstat.nii.gz /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_tgng_run-2/skullstrip_first_pass/sub-018_ses-1_task-tgng_run-2_bold_calc_resample_mcf_tstat_brain.nii.gz -f 0.20 -m
201112-22:09:10,702 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip.skullstrip_first_pass".
201112-22:09:10,703 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip.skullstrip_first_dilate" in "/outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_tgng_run-2/skullstrip_first_dilate".
201112-22:09:10,709 nipype.workflow INFO:
[Node] Running "skullstrip_first_dilate" ("nipype.interfaces.fsl.maths.DilateImage"), a CommandLine Interface with command:
fslmaths -dt char /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_tgng_run-2/skullstrip_first_pass/sub-018_ses-1_task-tgng_run-2_bold_calc_resample_mcf_tstat_brain_mask.nii.gz -kernel sphere 6.0000 -dilF /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_tgng_run-2/skullstrip_first_dilate/sub-018_ses-1_task-tgng_run-2_bold_calc_resample_mcf_tstat_brain_mask_dil.nii.gz
201112-22:09:11,364 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip.skullstrip_first_dilate".
201112-22:09:11,366 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip.skullstrip_first_mask" in "/outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_tgng_run-2/skullstrip_first_mask".
201112-22:09:11,372 nipype.workflow INFO:
[Node] Running "skullstrip_first_mask" ("nipype.interfaces.fsl.maths.ApplyMask"), a CommandLine Interface with command:
fslmaths /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_tgng_run-2/skullstrip_first_pass/sub-018_ses-1_task-tgng_run-2_bold_calc_resample_mcf_tstat_brain.nii.gz -mas /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_tgng_run-2/skullstrip_first_dilate/sub-018_ses-1_task-tgng_run-2_bold_calc_resample_mcf_tstat_brain_mask_dil.nii.gz /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_tgng_run-2/skullstrip_first_mask/sub-018_ses-1_task-tgng_run-2_bold_calc_resample_mcf_tstat_brain_masked.nii.gz
201112-22:09:11,779 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip.skullstrip_first_mask".
201112-22:09:11,780 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip.unifize" in "/outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_tgng_run-2/unifize".
201112-22:09:11,786 nipype.workflow INFO:
[Node] Running "unifize" ("nipype.interfaces.afni.utils.Unifize"), a CommandLine Interface with command:
3dUnifize -clfrac 0.2 -rbt 18.3 65.0 90.0 -prefix uni.nii.gz -T2 -input /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_tgng_run-2/unifize/sub-018_ses-1_task-tgng_run-2_bold_calc_resample_mcf_tstat_brain_masked.nii.gz
201112-22:09:12,56 nipype.interface INFO:
stderr 2020-11-12T22:09:12.056166:++ 3dUnifize: AFNI version=AFNI_20.2.19 (Sep 27 2020) [64-bit]
201112-22:10:25,168 nipype.interface INFO:
stderr 2020-11-12T22:10:25.168274: + Pre-processing: IAV..UW[s4347]Im
201112-22:10:25,184 nipype.interface INFO:
stderr 2020-11-12T22:10:25.184879:++ Output dataset ./uni.nii.gz
201112-22:10:25,185 nipype.interface INFO:
stderr 2020-11-12T22:10:25.185157:++ ===== Elapsed = 73.1 sec
201112-22:10:25,354 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip.unifize".
201112-22:10:25,356 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip.skullstrip_second_pass" in "/outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_tgng_run-2/skullstrip_second_pass".
201112-22:10:25,362 nipype.workflow INFO:
[Node] Running "skullstrip_second_pass" ("nipype.interfaces.afni.preprocess.Automask"), a CommandLine Interface with command:
3dAutomask -apply_prefix uni_masked.nii.gz -dilate 1 -prefix uni_mask.nii.gz /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_tgng_run-2/skullstrip_second_pass/uni.nii.gz
201112-22:10:25,636 nipype.interface INFO:
stderr 2020-11-12T22:10:25.636703:++ 3dAutomask: AFNI version=AFNI_20.2.19 (Sep 27 2020) [64-bit]
201112-22:10:25,637 nipype.interface INFO:
stderr 2020-11-12T22:10:25.637049:++ Authored by: Emperor Zhark
201112-22:10:25,653 nipype.interface INFO:
stderr 2020-11-12T22:10:25.653029:++ Loading dataset /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_tgng_run-2/skullstrip_second_pass/uni.nii.gz
201112-22:10:25,657 nipype.interface INFO:
stderr 2020-11-12T22:10:25.657371:++ Forming automask
201112-22:10:25,661 nipype.interface INFO:
stderr 2020-11-12T22:10:25.661561: + Fixed clip level = 444.573486
201112-22:10:25,667 nipype.interface INFO:
stderr 2020-11-12T22:10:25.667855: + Used gradual clip level = 397.812775 .. 505.169861
201112-22:10:25,668 nipype.interface INFO:
stderr 2020-11-12T22:10:25.668063: + Number voxels above clip level = 28169
201112-22:10:25,668 nipype.interface INFO:
stderr 2020-11-12T22:10:25.668216: + Clustering voxels ...
201112-22:10:25,669 nipype.interface INFO:
stderr 2020-11-12T22:10:25.669267: + Largest cluster has 28160 voxels
201112-22:10:25,670 nipype.interface INFO:
stderr 2020-11-12T22:10:25.670536: + Clustering voxels ...
201112-22:10:25,671 nipype.interface INFO:
stderr 2020-11-12T22:10:25.671579: + Largest cluster has 27838 voxels
201112-22:10:25,675 nipype.interface INFO:
stderr 2020-11-12T22:10:25.675171: + Filled 482 voxels in small holes; now have 28320 voxels
201112-22:10:25,677 nipype.interface INFO:
stderr 2020-11-12T22:10:25.677297: + Clustering voxels ...
201112-22:10:25,678 nipype.interface INFO:
stderr 2020-11-12T22:10:25.678331: + Largest cluster has 28320 voxels
201112-22:10:25,678 nipype.interface INFO:
stderr 2020-11-12T22:10:25.678560: + Clustering non-brain voxels ...
201112-22:10:25,678 nipype.interface INFO:
stderr 2020-11-12T22:10:25.678699: + Clustering voxels ...
201112-22:10:25,681 nipype.interface INFO:
stderr 2020-11-12T22:10:25.681526: + Largest cluster has 110904 voxels
201112-22:10:25,681 nipype.interface INFO:
stderr 2020-11-12T22:10:25.681851: + Mask now has 28360 voxels
201112-22:10:25,682 nipype.interface INFO:
stderr 2020-11-12T22:10:25.682002:++ Dilating automask
201112-22:10:25,691 nipype.interface INFO:
stderr 2020-11-12T22:10:25.691440: + Clustering voxels ...
201112-22:10:25,693 nipype.interface INFO:
stderr 2020-11-12T22:10:25.693851: + Largest cluster has 105293 voxels
201112-22:10:25,694 nipype.interface INFO:
stderr 2020-11-12T22:10:25.694179:++ 33971 voxels in the mask [out of 139264: 24.39%]
201112-22:10:25,694 nipype.interface INFO:
stderr 2020-11-12T22:10:25.694344:++ first 10 x-planes are zero [from R]
201112-22:10:25,694 nipype.interface INFO:
stderr 2020-11-12T22:10:25.694515:++ last 9 x-planes are zero [from L]
201112-22:10:25,694 nipype.interface INFO:
stderr 2020-11-12T22:10:25.694657:++ first 3 y-planes are zero [from P]
201112-22:10:25,694 nipype.interface INFO:
stderr 2020-11-12T22:10:25.694801:++ last 7 y-planes are zero [from A]
201112-22:10:25,694 nipype.interface INFO:
stderr 2020-11-12T22:10:25.694935:++ first 0 z-planes are zero [from I]
201112-22:10:25,695 nipype.interface INFO:
stderr 2020-11-12T22:10:25.695068:++ last 1 z-planes are zero [from S]
201112-22:10:25,699 nipype.interface INFO:
stderr 2020-11-12T22:10:25.699680:++ Output dataset ./uni_mask.nii.gz
201112-22:10:25,699 nipype.interface INFO:
stderr 2020-11-12T22:10:25.699852:++ applying mask to original data
201112-22:10:25,700 nipype.interface INFO:
stderr 2020-11-12T22:10:25.700523:++ Writing masked data
201112-22:10:25,714 nipype.interface INFO:
stderr 2020-11-12T22:10:25.714038:++ Output dataset ./uni_masked.nii.gz
201112-22:10:25,714 nipype.interface INFO:
stderr 2020-11-12T22:10:25.714358:++ CPU time = 0.000000 sec
201112-22:10:25,859 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip.skullstrip_second_pass".
201112-22:10:25,861 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip.combine_masks" in "/outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_tgng_run-2/combine_masks".
201112-22:10:25,868 nipype.workflow INFO:
[Node] Running "combine_masks" ("nipype.interfaces.fsl.maths.BinaryMaths"), a CommandLine Interface with command:
fslmaths /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_tgng_run-2/skullstrip_first_pass/sub-018_ses-1_task-tgng_run-2_bold_calc_resample_mcf_tstat_brain_mask.nii.gz -mul /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_tgng_run-2/skullstrip_second_pass/uni_mask.nii.gz /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_tgng_run-2/combine_masks/sub-018_ses-1_task-tgng_run-2_bold_calc_resample_mcf_tstat_brain_mask_maths.nii.gz
201112-22:10:26,259 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip.combine_masks".
201112-22:10:26,261 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.gen_motion_stats_before_stc_fsl_afni_mean_mcflirt_0.cal_DVARS" in "/outputs/tmp/resting_preproc_sub-018_ses-1/gen_motion_stats_before_stc_fsl_afni_mean_mcflirt_0/_scan_tgng_run-2/cal_DVARS".
201112-22:10:26,268 nipype.workflow INFO:
[Node] Running "cal_DVARS" ("CPAC.utils.interfaces.function.Function")
201112-22:10:26,951 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.gen_motion_stats_before_stc_fsl_afni_mean_mcflirt_0.cal_DVARS".
201112-22:10:26,953 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip.func_extract_brain" in "/outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_tgng_run-2/func_extract_brain".
201112-22:10:26,960 nipype.workflow INFO:
[Node] Running "func_extract_brain" ("nipype.interfaces.afni.utils.Calc"), a CommandLine Interface with command:
3dcalc -a /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/_scan_tgng_run-2/func_motion_correct_mcflirt/sub-018_ses-1_task-tgng_run-2_bold_calc_resample_mcf.nii.gz -b /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_tgng_run-2/combine_masks/sub-018_ses-1_task-tgng_run-2_bold_calc_resample_mcf_tstat_brain_mask_maths.nii.gz -expr "a*b" -prefix sub-018_ses-1_task-tgng_run-2_bold_calc_resample_mcf_calc.nii.gz
201112-22:10:27,200 nipype.interface INFO:
stderr 2020-11-12T22:10:27.200421:++ 3dcalc: AFNI version=AFNI_20.2.19 (Sep 27 2020) [64-bit]
201112-22:10:27,200 nipype.interface INFO:
stderr 2020-11-12T22:10:27.200731:++ Authored by: A cast of thousands
201112-22:10:29,927 nipype.interface INFO:
stderr 2020-11-12T22:10:29.927334:++ Output dataset ./sub-018_ses-1_task-tgng_run-2_bold_calc_resample_mcf_calc.nii.gz
201112-22:10:30,99 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip.func_extract_brain".
201112-22:10:30,100 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_normalize" in "/outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/_scan_tgng_run-2/func_normalize".
201112-22:10:30,111 nipype.workflow INFO:
[Node] Running "func_normalize" ("nipype.interfaces.fsl.utils.ImageMaths"), a CommandLine Interface with command:
fslmaths /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_tgng_run-2/func_extract_brain/sub-018_ses-1_task-tgng_run-2_bold_calc_resample_mcf_calc.nii.gz -ing 10000 /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/_scan_tgng_run-2/func_normalize/sub-018_ses-1_task-tgng_run-2_bold_calc_resample_mcf_calc_maths.nii.gz -odt float
201112-22:10:32,260 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_normalize".
201112-22:10:32,261 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_mask_normalize" in "/outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/_scan_tgng_run-2/func_mask_normalize".
201112-22:10:32,272 nipype.workflow INFO:
[Node] Running "func_mask_normalize" ("nipype.interfaces.fsl.utils.ImageMaths"), a CommandLine Interface with command:
fslmaths /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/_scan_tgng_run-2/func_normalize/sub-018_ses-1_task-tgng_run-2_bold_calc_resample_mcf_calc_maths.nii.gz -Tmin -bin /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/_scan_tgng_run-2/func_mask_normalize/sub-018_ses-1_task-tgng_run-2_bold_calc_resample_mcf_calc_maths_maths.nii.gz -odt char
201112-22:10:33,274 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_mask_normalize".
201112-22:10:33,276 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_mean" in "/outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/_scan_tgng_run-2/func_mean".
201112-22:10:33,287 nipype.workflow INFO:
[Node] Running "func_mean" ("nipype.interfaces.afni.utils.TStat"), a CommandLine Interface with command:
3dTstat -mean -prefix sub-018_ses-1_task-tgng_run-2_bold_calc_resample_mcf_calc_tstat.nii.gz /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/_scan_tgng_run-2/func_mean/sub-018_ses-1_task-tgng_run-2_bold_calc_resample_mcf_calc.nii.gz
201112-22:10:33,539 nipype.interface INFO:
stderr 2020-11-12T22:10:33.539228:++ 3dTstat: AFNI version=AFNI_20.2.19 (Sep 27 2020) [64-bit]
201112-22:10:33,540 nipype.interface INFO:
stderr 2020-11-12T22:10:33.540034:++ Authored by: KR Hammett & RW Cox
201112-22:10:33,838 nipype.interface INFO:
stderr 2020-11-12T22:10:33.838506:++ Output dataset ./sub-018_ses-1_task-tgng_run-2_bold_calc_resample_mcf_calc_tstat.nii.gz
201112-22:10:34,6 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_mean".
201112-22:10:34,8 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.norm_motion_params" in "/outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/_scan_tgng_run-2/norm_motion_params".
201112-22:10:34,16 nipype.workflow INFO:
[Node] Running "norm_motion_params" ("CPAC.utils.interfaces.function.Function")
201112-22:10:34,250 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.norm_motion_params".
201112-22:10:34,251 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.qc_motion_0.motion_plot" in "/outputs/tmp/resting_preproc_sub-018_ses-1/qc_motion_0/_scan_tgng_run-2/motion_plot".
201112-22:10:34,261 nipype.workflow INFO:
[Node] Running "motion_plot" ("CPAC.utils.interfaces.function.Function")
201112-22:10:34,733 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.qc_motion_0.motion_plot".
201112-22:10:34,734 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.sinker_0_qc___movement_trans_plot" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_tgng_run-2/sinker_0_qc___movement_trans_plot".
201112-22:10:34,744 nipype.workflow INFO:
[Node] Running "sinker_0_qc___movement_trans_plot" ("CPAC.utils.interfaces.datasink.DataSink")
201112-22:10:34,957 nipype.interface INFO:
sub: /outputs/output/pipeline_cpac_fmriprep-options/sub-018_ses-1/qc___movement_trans_plot/_scan_tgng_run-2/motion_trans_plot.png -> /outputs/output/pipeline_cpac_fmriprep-options/sub-018_ses-1/qc/movement_trans_plot/_scan_tgng_run-2/motion_trans_plot.png
201112-22:10:34,974 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.sinker_0_qc___movement_trans_plot".
201112-22:10:34,976 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.sinker_0_qc___movement_rot_plot" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_tgng_run-2/sinker_0_qc___movement_rot_plot".
201112-22:10:34,985 nipype.workflow INFO:
[Node] Running "sinker_0_qc___movement_rot_plot" ("CPAC.utils.interfaces.datasink.DataSink")
201112-22:10:35,198 nipype.interface INFO:
sub: /outputs/output/pipeline_cpac_fmriprep-options/sub-018_ses-1/qc___movement_rot_plot/_scan_tgng_run-2/motion_rot_plot.png -> /outputs/output/pipeline_cpac_fmriprep-options/sub-018_ses-1/qc/movement_rot_plot/_scan_tgng_run-2/motion_rot_plot.png
201112-22:10:35,218 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.sinker_0_qc___movement_rot_plot".
201112-22:10:35,220 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.gen_motion_stats_before_stc_fsl_afni_mean_mcflirt_0.calc_motion_parameters" in "/outputs/tmp/resting_preproc_sub-018_ses-1/gen_motion_stats_before_stc_fsl_afni_mean_mcflirt_0/_scan_tgng_run-2/calc_motion_parameters".
201112-22:10:35,230 nipype.workflow INFO:
[Node] Running "calc_motion_parameters" ("CPAC.utils.interfaces.function.Function")
201112-22:10:35,464 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.gen_motion_stats_before_stc_fsl_afni_mean_mcflirt_0.calc_motion_parameters".
201112-22:10:35,466 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.sinker_0_motion_params" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_tgng_run-2/sinker_0_motion_params".
201112-22:10:35,476 nipype.workflow INFO:
[Node] Running "sinker_0_motion_params" ("CPAC.utils.interfaces.datasink.DataSink")
201112-22:10:35,705 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.sinker_0_motion_params".
201112-22:10:35,707 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.gen_motion_stats_before_stc_fsl_afni_mean_mcflirt_0.calculate_FD" in "/outputs/tmp/resting_preproc_sub-018_ses-1/gen_motion_stats_before_stc_fsl_afni_mean_mcflirt_0/_scan_tgng_run-2/calculate_FD".
201112-22:10:35,713 nipype.workflow INFO:
[Node] Running "calculate_FD" ("CPAC.utils.interfaces.function.Function")
201112-22:10:35,949 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.gen_motion_stats_before_stc_fsl_afni_mean_mcflirt_0.calculate_FD".
201112-22:10:35,951 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.sinker_0_frame_wise_displacement_power" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_tgng_run-2/sinker_0_frame_wise_displacement_power".
201112-22:10:35,960 nipype.workflow INFO:
[Node] Running "sinker_0_frame_wise_displacement_power" ("CPAC.utils.interfaces.datasink.DataSink")
201112-22:10:36,190 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.sinker_0_frame_wise_displacement_power".
201112-22:10:36,191 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.gen_motion_stats_before_stc_fsl_afni_mean_mcflirt_0.calc_power_parameters" in "/outputs/tmp/resting_preproc_sub-018_ses-1/gen_motion_stats_before_stc_fsl_afni_mean_mcflirt_0/_scan_tgng_run-2/calc_power_parameters".
201112-22:10:36,198 nipype.workflow INFO:
[Node] Running "calc_power_parameters" ("CPAC.utils.interfaces.function.Function")
201112-22:10:36,431 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.gen_motion_stats_before_stc_fsl_afni_mean_mcflirt_0.calc_power_parameters".
201112-22:10:36,432 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.sinker_0_power_params" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_tgng_run-2/sinker_0_power_params".
201112-22:10:36,443 nipype.workflow INFO:
[Node] Running "sinker_0_power_params" ("CPAC.utils.interfaces.datasink.DataSink")
201112-22:10:36,678 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.sinker_0_power_params".
201112-22:10:36,680 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.sinker_0_movement_parameters" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_tgng_run-2/sinker_0_movement_parameters".
201112-22:10:36,690 nipype.workflow INFO:
[Node] Running "sinker_0_movement_parameters" ("CPAC.utils.interfaces.datasink.DataSink")
201112-22:10:36,920 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.sinker_0_movement_parameters".
201112-22:10:36,921 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.func_despiked_0" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_tgng_run-2/func_despiked_0".
201112-22:10:36,930 nipype.workflow INFO:
[Node] Running "func_despiked_0" ("nipype.interfaces.afni.preprocess.Despike"), a CommandLine Interface with command:
3dDespike -prefix sub-018_ses-1_task-tgng_run-2_bold_calc_despike.nii.gz /outputs/tmp/resting_preproc_sub-018_ses-1/_scan_tgng_run-2/func_despiked_0/sub-018_ses-1_task-tgng_run-2_bold_calc.nii.gz
201112-22:10:37,211 nipype.interface INFO:
stderr 2020-11-12T22:10:37.211698:++ 3dDespike: AFNI version=AFNI_20.2.19 (Sep 27 2020) [64-bit]
201112-22:10:37,212 nipype.interface INFO:
stderr 2020-11-12T22:10:37.212170:++ Authored by: RW Cox
201112-22:10:37,224 nipype.interface INFO:
stderr 2020-11-12T22:10:37.224272:[7m*+ WARNING:[0m If you are performing spatial transformations on an oblique dset,
201112-22:10:37,224 nipype.interface INFO:
stderr 2020-11-12T22:10:37.224272: such as /outputs/tmp/resting_preproc_sub-018_ses-1/_scan_tgng_run-2/func_despiked_0/sub-018_ses-1_task-tgng_run-2_bold_calc.nii.gz,
201112-22:10:37,224 nipype.interface INFO:
stderr 2020-11-12T22:10:37.224272: or viewing/combining it with volumes of differing obliquity,
201112-22:10:37,224 nipype.interface INFO:
stderr 2020-11-12T22:10:37.224272: you should consider running:
201112-22:10:37,224 nipype.interface INFO:
stderr 2020-11-12T22:10:37.224272: 3dWarp -deoblique
201112-22:10:37,224 nipype.interface INFO:
stderr 2020-11-12T22:10:37.224272: on this and other oblique datasets in the same session.
201112-22:10:37,224 nipype.interface INFO:
stderr 2020-11-12T22:10:37.224272: See 3dWarp -help for details.
201112-22:10:37,225 nipype.interface INFO:
stderr 2020-11-12T22:10:37.225117:++ Oblique dataset:/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_tgng_run-2/func_despiked_0/sub-018_ses-1_task-tgng_run-2_bold_calc.nii.gz is 17.792933 degrees from plumb.
201112-22:10:37,225 nipype.interface INFO:
stderr 2020-11-12T22:10:37.225298:++ Input dataset is in short format, but output will be in float format
201112-22:10:37,225 nipype.interface INFO:
stderr 2020-11-12T22:10:37.225484:++ ignoring first 0 time points, using last 130
201112-22:10:37,225 nipype.interface INFO:
stderr 2020-11-12T22:10:37.225646:++ using 130 time points => -corder 4
201112-22:10:37,225 nipype.interface INFO:
stderr 2020-11-12T22:10:37.225804:++ Loading dataset /outputs/tmp/resting_preproc_sub-018_ses-1/_scan_tgng_run-2/func_despiked_0/sub-018_ses-1_task-tgng_run-2_bold_calc.nii.gz
201112-22:10:37,682 nipype.interface INFO:
stderr 2020-11-12T22:10:37.681952:++ 32072 voxels in the automask [out of 139264 in dataset]
201112-22:10:37,687 nipype.interface INFO:
stderr 2020-11-12T22:10:37.687532:++ 55444 voxels in the dilated automask [out of 139264 in dataset]
201112-22:10:37,698 nipype.interface INFO:
stderr 2020-11-12T22:10:37.698683:++ Procesing time series with OLD model fit algorithm
201112-22:10:37,698 nipype.interface INFO:
stderr 2020-11-12T22:10:37.698866:++ smash edit thresholds: 3.1 .. 5.0 MADs
201112-22:10:37,699 nipype.interface INFO:
stderr 2020-11-12T22:10:37.699022: + [ 3.457% .. 0.072% of normal distribution]
201112-22:10:37,700 nipype.interface INFO:
stderr 2020-11-12T22:10:37.700186: + [ 8.839% .. 3.125% of Laplace distribution]
201112-22:10:37,700 nipype.interface INFO:
stderr 2020-11-12T22:10:37.700368:++ start OpenMP thread #0
201112-22:10:43,481 nipype.interface INFO:
stderr 2020-11-12T22:10:43.481437:.........................
201112-22:10:43,482 nipype.interface INFO:
stderr 2020-11-12T22:10:43.482899:++ Elapsed despike time = 5s 782ms
201112-22:10:43,483 nipype.interface INFO:
stderr 2020-11-12T22:10:43.482899:
201112-22:10:43,483 nipype.interface INFO:
stderr 2020-11-12T22:10:43.482899:++ FINAL: 7207720 data points, 870691 edits [12.080%], 424841 big edits [5.894%]
201112-22:10:47,159 nipype.interface INFO:
stderr 2020-11-12T22:10:47.159705:++ Output dataset ./sub-018_ses-1_task-tgng_run-2_bold_calc_despike.nii.gz
201112-22:10:47,342 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.func_despiked_0".
201112-22:10:47,343 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.func_slice_timing_correction_0.slice_timing" in "/outputs/tmp/resting_preproc_sub-018_ses-1/func_slice_timing_correction_0/_scan_tgng_run-2/slice_timing".
201112-22:10:47,358 nipype.interface WARNING:
Passing a file prefixed by "@" will be deprecated; please use the `slice_timing` input
201112-22:10:47,360 nipype.workflow INFO:
[Node] Running "slice_timing" ("nipype.interfaces.afni.preprocess.TShift"), a CommandLine Interface with command:
3dTshift -prefix sub-018_ses-1_task-tgng_run-2_bold_calc_despike_tshift.nii.gz -tpattern @/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_tgng_run-2/scan_params_0/tpattern.txt -TR 2.0s /outputs/tmp/resting_preproc_sub-018_ses-1/func_slice_timing_correction_0/_scan_tgng_run-2/slice_timing/sub-018_ses-1_task-tgng_run-2_bold_calc_despike.nii.gz
201112-22:10:47,569 nipype.interface WARNING:
Passing a file prefixed by "@" will be deprecated; please use the `slice_timing` input
201112-22:10:47,631 nipype.interface INFO:
stderr 2020-11-12T22:10:47.631741:++ 3dTshift: AFNI version=AFNI_20.2.19 (Sep 27 2020) [64-bit]
201112-22:10:47,645 nipype.interface INFO:
stderr 2020-11-12T22:10:47.645111:[7m*+ WARNING:[0m If you are performing spatial transformations on an oblique dset,
201112-22:10:47,645 nipype.interface INFO:
stderr 2020-11-12T22:10:47.645111: such as /outputs/tmp/resting_preproc_sub-018_ses-1/func_slice_timing_correction_0/_scan_tgng_run-2/slice_timing/sub-018_ses-1_task-tgng_run-2_bold_calc_despike.nii.gz,
201112-22:10:47,645 nipype.interface INFO:
stderr 2020-11-12T22:10:47.645111: or viewing/combining it with volumes of differing obliquity,
201112-22:10:47,645 nipype.interface INFO:
stderr 2020-11-12T22:10:47.645111: you should consider running:
201112-22:10:47,645 nipype.interface INFO:
stderr 2020-11-12T22:10:47.645111: 3dWarp -deoblique
201112-22:10:47,645 nipype.interface INFO:
stderr 2020-11-12T22:10:47.645111: on this and other oblique datasets in the same session.
201112-22:10:47,645 nipype.interface INFO:
stderr 2020-11-12T22:10:47.645111: See 3dWarp -help for details.
201112-22:10:47,646 nipype.interface INFO:
stderr 2020-11-12T22:10:47.646044:++ Oblique dataset:/outputs/tmp/resting_preproc_sub-018_ses-1/func_slice_timing_correction_0/_scan_tgng_run-2/slice_timing/sub-018_ses-1_task-tgng_run-2_bold_calc_despike.nii.gz is 17.792933 degrees from plumb.
201112-22:10:51,863 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.func_slice_timing_correction_0.slice_timing".
201112-22:10:51,866 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.func_preproc_fsl_afni_mean_mcflirt_0.func_deoblique" in "/outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/_scan_tgng_run-2/func_deoblique".
201112-22:10:51,925 nipype.workflow INFO:
[Node] Running "func_deoblique" ("nipype.interfaces.afni.utils.Refit"), a CommandLine Interface with command:
3drefit -deoblique /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/_scan_tgng_run-2/func_deoblique/sub-018_ses-1_task-tgng_run-2_bold_calc_despike_tshift.nii.gz
201112-22:10:52,171 nipype.interface INFO:
stderr 2020-11-12T22:10:52.170996:++ 3drefit: AFNI version=AFNI_20.2.19 (Sep 27 2020) [64-bit]
201112-22:10:52,171 nipype.interface INFO:
stderr 2020-11-12T22:10:52.171316:++ Authored by: RW Cox
201112-22:10:52,183 nipype.interface INFO:
stderr 2020-11-12T22:10:52.183455:++ Processing AFNI dataset /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/_scan_tgng_run-2/func_deoblique/sub-018_ses-1_task-tgng_run-2_bold_calc_despike_tshift.nii.gz
201112-22:10:52,184 nipype.interface INFO:
stderr 2020-11-12T22:10:52.184379: + deoblique
201112-22:10:52,184 nipype.interface INFO:
stderr 2020-11-12T22:10:52.184892: + loading and re-writing dataset /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/_scan_tgng_run-2/func_deoblique/sub-018_ses-1_task-tgng_run-2_bold_calc_despike_tshift.nii.gz (/outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/_scan_tgng_run-2/func_deoblique/sub-018_ses-1_task-tgng_run-2_bold_calc_despike_tshift.nii.gz in NIFTI storage)
201112-22:10:54,271 nipype.interface INFO:
stderr 2020-11-12T22:10:54.271175:++ 3drefit processed 1 datasets
201112-22:10:54,440 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.func_preproc_fsl_afni_mean_mcflirt_0.func_deoblique".
201112-22:10:54,441 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.func_preproc_fsl_afni_mean_mcflirt_0.func_reorient" in "/outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/_scan_tgng_run-2/func_reorient".
201112-22:10:54,451 nipype.workflow INFO:
[Node] Running "func_reorient" ("nipype.interfaces.afni.utils.Resample"), a CommandLine Interface with command:
3dresample -orient RPI -prefix sub-018_ses-1_task-tgng_run-2_bold_calc_despike_tshift_resample.nii.gz -inset /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/_scan_tgng_run-2/func_reorient/sub-018_ses-1_task-tgng_run-2_bold_calc_despike_tshift.nii.gz
201112-22:10:57,159 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.func_preproc_fsl_afni_mean_mcflirt_0.func_reorient".
201112-22:10:57,161 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.func_preproc_fsl_afni_mean_mcflirt_0.func_get_mean_RPI" in "/outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/_scan_tgng_run-2/func_get_mean_RPI".
201112-22:10:57,168 nipype.workflow INFO:
[Node] Running "func_get_mean_RPI" ("nipype.interfaces.afni.utils.TStat"), a CommandLine Interface with command:
3dTstat -mean -prefix sub-018_ses-1_task-tgng_run-2_bold_calc_despike_tshift_resample_tstat.nii.gz /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/_scan_tgng_run-2/func_get_mean_RPI/sub-018_ses-1_task-tgng_run-2_bold_calc_despike_tshift_resample.nii.gz
201112-22:10:57,415 nipype.interface INFO:
stderr 2020-11-12T22:10:57.415400:++ 3dTstat: AFNI version=AFNI_20.2.19 (Sep 27 2020) [64-bit]
201112-22:10:57,416 nipype.interface INFO:
stderr 2020-11-12T22:10:57.416323:++ Authored by: KR Hammett & RW Cox
201112-22:10:58,19 nipype.interface INFO:
stderr 2020-11-12T22:10:58.019832:++ Output dataset ./sub-018_ses-1_task-tgng_run-2_bold_calc_despike_tshift_resample_tstat.nii.gz
201112-22:10:58,170 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.func_preproc_fsl_afni_mean_mcflirt_0.func_get_mean_RPI".
201112-22:10:58,171 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.func_preproc_fsl_afni_mean_mcflirt_0.func_generate_ref" in "/outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/_scan_tgng_run-2/func_generate_ref".
201112-22:10:58,182 nipype.workflow INFO:
[Node] Running "func_generate_ref" ("nipype.interfaces.afni.preprocess.Volreg"), a CommandLine Interface with command:
3dvolreg -twopass -Fourier -1Dfile sub-018_ses-1_task-tgng_run-2_bold_calc_despike_tshift_resample.1D -1Dmatrix_save sub-018_ses-1_task-tgng_run-2_bold_calc_despike_tshift_resample.aff12.1D -prefix sub-018_ses-1_task-tgng_run-2_bold_calc_despike_tshift_resample_volreg.nii.gz -base /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/_scan_tgng_run-2/func_get_mean_RPI/sub-018_ses-1_task-tgng_run-2_bold_calc_despike_tshift_resample_tstat.nii.gz -zpad 4 -maxdisp1D sub-018_ses-1_task-tgng_run-2_bold_calc_despike_tshift_resample_md.1D /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/_scan_tgng_run-2/func_generate_ref/sub-018_ses-1_task-tgng_run-2_bold_calc_despike_tshift_resample.nii.gz
201112-22:10:58,429 nipype.interface INFO:
stderr 2020-11-12T22:10:58.429370:++ 3dvolreg: AFNI version=AFNI_20.2.19 (Sep 27 2020) [64-bit]
201112-22:10:58,429 nipype.interface INFO:
stderr 2020-11-12T22:10:58.429798:++ Authored by: RW Cox
201112-22:10:58,437 nipype.interface INFO:
stderr 2020-11-12T22:10:58.437018:++ Coarse del was 10, replaced with 3
201112-22:12:45,279 nipype.interface INFO:
stderr 2020-11-12T22:12:45.279488:++ Max displacement in automask = 2.35 (mm) at sub-brick 50
201112-22:12:45,280 nipype.interface INFO:
stderr 2020-11-12T22:12:45.280328:++ Max delta displ in automask = 2.16 (mm) at sub-brick 52
201112-22:12:50,36 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.func_preproc_fsl_afni_mean_mcflirt_0.func_generate_ref".
201112-22:12:50,39 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.func_preproc_fsl_afni_mean_mcflirt_0.func_get_mean_motion" in "/outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/_scan_tgng_run-2/func_get_mean_motion".
201112-22:12:50,47 nipype.workflow INFO:
[Node] Running "func_get_mean_motion" ("nipype.interfaces.afni.utils.TStat"), a CommandLine Interface with command:
3dTstat -mean -prefix sub-018_ses-1_task-tgng_run-2_bold_calc_despike_tshift_resample_volreg_tstat.nii.gz /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/_scan_tgng_run-2/func_get_mean_motion/sub-018_ses-1_task-tgng_run-2_bold_calc_despike_tshift_resample_volreg.nii.gz
201112-22:12:50,297 nipype.interface INFO:
stderr 2020-11-12T22:12:50.297449:++ 3dTstat: AFNI version=AFNI_20.2.19 (Sep 27 2020) [64-bit]
201112-22:12:50,298 nipype.interface INFO:
stderr 2020-11-12T22:12:50.298047:++ Authored by: KR Hammett & RW Cox
201112-22:12:51,89 nipype.interface INFO:
stderr 2020-11-12T22:12:51.089477:++ Output dataset ./sub-018_ses-1_task-tgng_run-2_bold_calc_despike_tshift_resample_volreg_tstat.nii.gz
201112-22:12:51,239 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.func_preproc_fsl_afni_mean_mcflirt_0.func_get_mean_motion".
201112-22:12:51,240 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.func_preproc_fsl_afni_mean_mcflirt_0.func_motion_correct_mcflirt" in "/outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/_scan_tgng_run-2/func_motion_correct_mcflirt".
201112-22:12:51,251 nipype.workflow INFO:
[Node] Running "func_motion_correct_mcflirt" ("nipype.interfaces.fsl.preprocess.MCFLIRT"), a CommandLine Interface with command:
mcflirt -in /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/_scan_tgng_run-2/func_reorient/sub-018_ses-1_task-tgng_run-2_bold_calc_despike_tshift_resample.nii.gz -out /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/_scan_tgng_run-2/func_motion_correct_mcflirt/sub-018_ses-1_task-tgng_run-2_bold_calc_despike_tshift_resample_mcf.nii.gz -reffile /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/_scan_tgng_run-2/func_get_mean_motion/sub-018_ses-1_task-tgng_run-2_bold_calc_despike_tshift_resample_volreg_tstat.nii.gz -mats -plots -rmsabs -rmsrel
201112-22:13:12,228 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.func_preproc_fsl_afni_mean_mcflirt_0.func_motion_correct_mcflirt".
201112-22:13:12,236 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.sinker_0_motion_correct" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_tgng_run-2/sinker_0_motion_correct".
201112-22:13:12,248 nipype.workflow INFO:
[Node] Running "sinker_0_motion_correct" ("CPAC.utils.interfaces.datasink.DataSink")
201112-22:13:12,475 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.sinker_0_motion_correct".
201112-22:13:12,476 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.func_preproc_fsl_afni_mean_mcflirt_0.func_preproc_fsl_afni_mean_mcflirt_0_skullstrip.func_mean_skull" in "/outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/func_preproc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_tgng_run-2/func_mean_skull".
201112-22:13:12,489 nipype.workflow INFO:
[Node] Running "func_mean_skull" ("nipype.interfaces.afni.utils.TStat"), a CommandLine Interface with command:
3dTstat -mean -prefix sub-018_ses-1_task-tgng_run-2_bold_calc_despike_tshift_resample_mcf_tstat.nii.gz /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/func_preproc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_tgng_run-2/func_mean_skull/sub-018_ses-1_task-tgng_run-2_bold_calc_despike_tshift_resample_mcf.nii.gz
201112-22:13:12,738 nipype.interface INFO:
stderr 2020-11-12T22:13:12.738180:++ 3dTstat: AFNI version=AFNI_20.2.19 (Sep 27 2020) [64-bit]
201112-22:13:12,738 nipype.interface INFO:
stderr 2020-11-12T22:13:12.738854:++ Authored by: KR Hammett & RW Cox
201112-22:13:13,371 nipype.interface INFO:
stderr 2020-11-12T22:13:13.371882:++ Output dataset ./sub-018_ses-1_task-tgng_run-2_bold_calc_despike_tshift_resample_mcf_tstat.nii.gz
201112-22:13:13,522 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.func_preproc_fsl_afni_mean_mcflirt_0.func_preproc_fsl_afni_mean_mcflirt_0_skullstrip.func_mean_skull".
201112-22:13:13,523 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.func_preproc_fsl_afni_mean_mcflirt_0.func_preproc_fsl_afni_mean_mcflirt_0_skullstrip.skullstrip_first_pass" in "/outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/func_preproc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_tgng_run-2/skullstrip_first_pass".
201112-22:13:13,531 nipype.workflow INFO:
[Node] Running "skullstrip_first_pass" ("nipype.interfaces.fsl.preprocess.BET"), a CommandLine Interface with command:
bet /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/func_preproc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_tgng_run-2/func_mean_skull/sub-018_ses-1_task-tgng_run-2_bold_calc_despike_tshift_resample_mcf_tstat.nii.gz /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/func_preproc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_tgng_run-2/skullstrip_first_pass/sub-018_ses-1_task-tgng_run-2_bold_calc_despike_tshift_resample_mcf_tstat_brain.nii.gz -f 0.20 -m
201112-22:13:15,347 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.func_preproc_fsl_afni_mean_mcflirt_0.func_preproc_fsl_afni_mean_mcflirt_0_skullstrip.skullstrip_first_pass".
201112-22:13:15,348 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.func_preproc_fsl_afni_mean_mcflirt_0.func_preproc_fsl_afni_mean_mcflirt_0_skullstrip.skullstrip_first_dilate" in "/outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/func_preproc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_tgng_run-2/skullstrip_first_dilate".
201112-22:13:15,358 nipype.workflow INFO:
[Node] Running "skullstrip_first_dilate" ("nipype.interfaces.fsl.maths.DilateImage"), a CommandLine Interface with command:
fslmaths -dt char /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/func_preproc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_tgng_run-2/skullstrip_first_pass/sub-018_ses-1_task-tgng_run-2_bold_calc_despike_tshift_resample_mcf_tstat_brain_mask.nii.gz -kernel sphere 6.0000 -dilF /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/func_preproc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_tgng_run-2/skullstrip_first_dilate/sub-018_ses-1_task-tgng_run-2_bold_calc_despike_tshift_resample_mcf_tstat_brain_mask_dil.nii.gz
201112-22:13:16,0 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.func_preproc_fsl_afni_mean_mcflirt_0.func_preproc_fsl_afni_mean_mcflirt_0_skullstrip.skullstrip_first_dilate".
201112-22:13:16,2 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.func_preproc_fsl_afni_mean_mcflirt_0.func_preproc_fsl_afni_mean_mcflirt_0_skullstrip.skullstrip_first_mask" in "/outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/func_preproc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_tgng_run-2/skullstrip_first_mask".
201112-22:13:16,10 nipype.workflow INFO:
[Node] Running "skullstrip_first_mask" ("nipype.interfaces.fsl.maths.ApplyMask"), a CommandLine Interface with command:
fslmaths /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/func_preproc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_tgng_run-2/skullstrip_first_pass/sub-018_ses-1_task-tgng_run-2_bold_calc_despike_tshift_resample_mcf_tstat_brain.nii.gz -mas /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/func_preproc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_tgng_run-2/skullstrip_first_dilate/sub-018_ses-1_task-tgng_run-2_bold_calc_despike_tshift_resample_mcf_tstat_brain_mask_dil.nii.gz /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/func_preproc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_tgng_run-2/skullstrip_first_mask/sub-018_ses-1_task-tgng_run-2_bold_calc_despike_tshift_resample_mcf_tstat_brain_masked.nii.gz
201112-22:13:16,418 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.func_preproc_fsl_afni_mean_mcflirt_0.func_preproc_fsl_afni_mean_mcflirt_0_skullstrip.skullstrip_first_mask".
201112-22:13:16,420 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.func_preproc_fsl_afni_mean_mcflirt_0.func_preproc_fsl_afni_mean_mcflirt_0_skullstrip.unifize" in "/outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/func_preproc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_tgng_run-2/unifize".
201112-22:13:16,428 nipype.workflow INFO:
[Node] Running "unifize" ("nipype.interfaces.afni.utils.Unifize"), a CommandLine Interface with command:
3dUnifize -clfrac 0.2 -rbt 18.3 65.0 90.0 -prefix uni.nii.gz -T2 -input /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/func_preproc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_tgng_run-2/unifize/sub-018_ses-1_task-tgng_run-2_bold_calc_despike_tshift_resample_mcf_tstat_brain_masked.nii.gz
201112-22:13:16,676 nipype.interface INFO:
stderr 2020-11-12T22:13:16.676776:++ 3dUnifize: AFNI version=AFNI_20.2.19 (Sep 27 2020) [64-bit]
201112-22:14:29,892 nipype.interface INFO:
stderr 2020-11-12T22:14:29.891977: + Pre-processing: IAV..UW[s4299]Im
201112-22:14:29,907 nipype.interface INFO:
stderr 2020-11-12T22:14:29.907497:++ Output dataset ./uni.nii.gz
201112-22:14:29,907 nipype.interface INFO:
stderr 2020-11-12T22:14:29.907713:++ ===== Elapsed = 73.2 sec
201112-22:14:30,77 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.func_preproc_fsl_afni_mean_mcflirt_0.func_preproc_fsl_afni_mean_mcflirt_0_skullstrip.unifize".
201112-22:14:30,78 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.func_preproc_fsl_afni_mean_mcflirt_0.func_preproc_fsl_afni_mean_mcflirt_0_skullstrip.skullstrip_second_pass" in "/outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/func_preproc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_tgng_run-2/skullstrip_second_pass".
201112-22:14:30,87 nipype.workflow INFO:
[Node] Running "skullstrip_second_pass" ("nipype.interfaces.afni.preprocess.Automask"), a CommandLine Interface with command:
3dAutomask -apply_prefix uni_masked.nii.gz -dilate 1 -prefix uni_mask.nii.gz /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/func_preproc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_tgng_run-2/skullstrip_second_pass/uni.nii.gz
201112-22:14:30,335 nipype.interface INFO:
stderr 2020-11-12T22:14:30.334992:++ 3dAutomask: AFNI version=AFNI_20.2.19 (Sep 27 2020) [64-bit]
201112-22:14:30,335 nipype.interface INFO:
stderr 2020-11-12T22:14:30.335402:++ Authored by: Emperor Zhark
201112-22:14:30,338 nipype.interface INFO:
stderr 2020-11-12T22:14:30.338124:++ Loading dataset /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/func_preproc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_tgng_run-2/skullstrip_second_pass/uni.nii.gz
201112-22:14:30,343 nipype.interface INFO:
stderr 2020-11-12T22:14:30.343587:++ Forming automask
201112-22:14:30,345 nipype.interface INFO:
stderr 2020-11-12T22:14:30.345530: + Fixed clip level = 443.477570
201112-22:14:30,348 nipype.interface INFO:
stderr 2020-11-12T22:14:30.348784: + Used gradual clip level = 397.885010 .. 503.261292
201112-22:14:30,349 nipype.interface INFO:
stderr 2020-11-12T22:14:30.348984: + Number voxels above clip level = 28192
201112-22:14:30,349 nipype.interface INFO:
stderr 2020-11-12T22:14:30.349139: + Clustering voxels ...
201112-22:14:30,350 nipype.interface INFO:
stderr 2020-11-12T22:14:30.350194: + Largest cluster has 28183 voxels
201112-22:14:30,351 nipype.interface INFO:
stderr 2020-11-12T22:14:30.351470: + Clustering voxels ...
201112-22:14:30,352 nipype.interface INFO:
stderr 2020-11-12T22:14:30.352571: + Largest cluster has 27855 voxels
201112-22:14:30,356 nipype.interface INFO:
stderr 2020-11-12T22:14:30.356240: + Filled 483 voxels in small holes; now have 28338 voxels
201112-22:14:30,358 nipype.interface INFO:
stderr 2020-11-12T22:14:30.358378: + Clustering voxels ...
201112-22:14:30,359 nipype.interface INFO:
stderr 2020-11-12T22:14:30.359422: + Largest cluster has 28338 voxels
201112-22:14:30,359 nipype.interface INFO:
stderr 2020-11-12T22:14:30.359657: + Clustering non-brain voxels ...
201112-22:14:30,359 nipype.interface INFO:
stderr 2020-11-12T22:14:30.359799: + Clustering voxels ...
201112-22:14:30,362 nipype.interface INFO:
stderr 2020-11-12T22:14:30.362647: + Largest cluster has 110874 voxels
201112-22:14:30,362 nipype.interface INFO:
stderr 2020-11-12T22:14:30.362974: + Mask now has 28390 voxels
201112-22:14:30,363 nipype.interface INFO:
stderr 2020-11-12T22:14:30.363124:++ Dilating automask
201112-22:14:30,370 nipype.interface INFO:
stderr 2020-11-12T22:14:30.370919: + Clustering voxels ...
201112-22:14:30,373 nipype.interface INFO:
stderr 2020-11-12T22:14:30.373320: + Largest cluster has 105290 voxels
201112-22:14:30,373 nipype.interface INFO:
stderr 2020-11-12T22:14:30.373655:++ 33974 voxels in the mask [out of 139264: 24.40%]
201112-22:14:30,373 nipype.interface INFO:
stderr 2020-11-12T22:14:30.373823:++ first 10 x-planes are zero [from R]
201112-22:14:30,374 nipype.interface INFO:
stderr 2020-11-12T22:14:30.373983:++ last 9 x-planes are zero [from L]
201112-22:14:30,374 nipype.interface INFO:
stderr 2020-11-12T22:14:30.374120:++ first 3 y-planes are zero [from P]
201112-22:14:30,374 nipype.interface INFO:
stderr 2020-11-12T22:14:30.374263:++ last 7 y-planes are zero [from A]
201112-22:14:30,374 nipype.interface INFO:
stderr 2020-11-12T22:14:30.374392:++ first 0 z-planes are zero [from I]
201112-22:14:30,374 nipype.interface INFO:
stderr 2020-11-12T22:14:30.374541:++ last 1 z-planes are zero [from S]
201112-22:14:30,379 nipype.interface INFO:
stderr 2020-11-12T22:14:30.379151:++ Output dataset ./uni_mask.nii.gz
201112-22:14:30,379 nipype.interface INFO:
stderr 2020-11-12T22:14:30.379323:++ applying mask to original data
201112-22:14:30,380 nipype.interface INFO:
stderr 2020-11-12T22:14:30.379990:++ Writing masked data
201112-22:14:30,393 nipype.interface INFO:
stderr 2020-11-12T22:14:30.393950:++ Output dataset ./uni_masked.nii.gz
201112-22:14:30,394 nipype.interface INFO:
stderr 2020-11-12T22:14:30.394282:++ CPU time = 0.000000 sec
201112-22:14:30,544 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.func_preproc_fsl_afni_mean_mcflirt_0.func_preproc_fsl_afni_mean_mcflirt_0_skullstrip.skullstrip_second_pass".
201112-22:14:30,546 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.func_preproc_fsl_afni_mean_mcflirt_0.func_preproc_fsl_afni_mean_mcflirt_0_skullstrip.combine_masks" in "/outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/func_preproc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_tgng_run-2/combine_masks".
201112-22:14:30,554 nipype.workflow INFO:
[Node] Running "combine_masks" ("nipype.interfaces.fsl.maths.BinaryMaths"), a CommandLine Interface with command:
fslmaths /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/func_preproc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_tgng_run-2/skullstrip_first_pass/sub-018_ses-1_task-tgng_run-2_bold_calc_despike_tshift_resample_mcf_tstat_brain_mask.nii.gz -mul /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/func_preproc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_tgng_run-2/skullstrip_second_pass/uni_mask.nii.gz /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/func_preproc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_tgng_run-2/combine_masks/sub-018_ses-1_task-tgng_run-2_bold_calc_despike_tshift_resample_mcf_tstat_brain_mask_maths.nii.gz
201112-22:14:30,953 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.func_preproc_fsl_afni_mean_mcflirt_0.func_preproc_fsl_afni_mean_mcflirt_0_skullstrip.combine_masks".
201112-22:14:30,954 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.nuisance_regressor_0_0.GlobalSignal_merge_masks" in "/outputs/tmp/resting_preproc_sub-018_ses-1/nuisance_regressor_0_0/_scan_tgng_run-2/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/GlobalSignal_merge_masks".
201112-22:14:30,964 nipype.workflow INFO:
[Node] Running "GlobalSignal_merge_masks" ("nipype.interfaces.utility.base.Merge")
201112-22:14:31,195 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.nuisance_regressor_0_0.GlobalSignal_merge_masks".
201112-22:14:31,197 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.nuisance_regressor_0_0.GlobalSignal_union_masks" in "/outputs/tmp/resting_preproc_sub-018_ses-1/nuisance_regressor_0_0/_scan_tgng_run-2/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/GlobalSignal_union_masks".
201112-22:14:31,206 nipype.workflow INFO:
[Node] Running "GlobalSignal_union_masks" ("CPAC.utils.interfaces.masktool.MaskTool"), a CommandLine Interface with command:
3dmask_tool -prefix sub-018_ses-1_task-tgng_run-2_bold_calc_despike_tshift_resample_mcf_tstat_brain_mask_maths_mask.nii.gz -input /outputs/tmp/resting_preproc_sub-018_ses-1/nuisance_regressor_0_0/_scan_tgng_run-2/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/GlobalSignal_union_masks/sub-018_ses-1_task-tgng_run-2_bold_calc_despike_tshift_resample_mcf_tstat_brain_mask_maths.nii.gz
201112-22:14:31,649 nipype.interface INFO:
stderr 2020-11-12T22:14:31.649789:++ no -frac option: defaulting to -union
201112-22:14:31,650 nipype.interface INFO:
stderr 2020-11-12T22:14:31.650473:++ processing 1 input dataset(s), NN=2...
201112-22:14:31,650 nipype.interface INFO:
stderr 2020-11-12T22:14:31.650821:++ padding all datasets by 0 (for dilations)
201112-22:14:31,666 nipype.interface INFO:
stderr 2020-11-12T22:14:31.666059:++ frac 0 over 1 volumes gives min count 0
201112-22:14:31,666 nipype.interface INFO:
stderr 2020-11-12T22:14:31.666512:++ voxel limits: 0 clipped, 33911 survived, 105353 were zero
201112-22:14:31,666 nipype.interface INFO:
stderr 2020-11-12T22:14:31.666731:++ writing result sub-018_ses-1_task-tgng_run-2_bold_calc_despike_tshift_resample_mcf_tstat_brain_mask_maths_mask.nii.gz...
201112-22:14:31,673 nipype.interface INFO:
stderr 2020-11-12T22:14:31.673447:++ Output dataset ./sub-018_ses-1_task-tgng_run-2_bold_calc_despike_tshift_resample_mcf_tstat_brain_mask_maths_mask.nii.gz
201112-22:14:31,827 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.nuisance_regressor_0_0.GlobalSignal_union_masks".
201112-22:14:31,829 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.sinker_0_functional_brain_mask" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_tgng_run-2/sinker_0_functional_brain_mask".
201112-22:14:31,838 nipype.workflow INFO:
[Node] Running "sinker_0_functional_brain_mask" ("CPAC.utils.interfaces.datasink.DataSink")
201112-22:14:32,67 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.sinker_0_functional_brain_mask".
201112-22:14:32,69 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.functional_brain_mask_derivative_0" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_tgng_run-2/functional_brain_mask_derivative_0".
201112-22:14:32,75 nipype.workflow INFO:
[Node] Running "functional_brain_mask_derivative_0" ("CPAC.utils.interfaces.function.Function")
201112-22:14:32,288 nipype.workflow INFO:
[Node] Setting-up "functional_brain_mask_derivative" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_tgng_run-2/functional_brain_mask_derivative_0/functional_brain_mask_derivative".
201112-22:14:32,296 nipype.workflow INFO:
[Node] Running "functional_brain_mask_derivative" ("nipype.interfaces.afni.utils.Resample"), a CommandLine Interface with command:
3dresample -prefix sub-018_ses-1_task-tgng_run-2_bold_calc_despike_tshift_resample_mcf_tstat_brain_mask_maths_resample.nii.gz -rmode Cu -dxyz 2.000000 2.000000 2.000000 -inset /outputs/tmp/resting_preproc_sub-018_ses-1/_scan_tgng_run-2/functional_brain_mask_derivative_0/functional_brain_mask_derivative/sub-018_ses-1_task-tgng_run-2_bold_calc_despike_tshift_resample_mcf_tstat_brain_mask_maths.nii.gz
201112-22:14:32,779 nipype.workflow INFO:
[Node] Finished "functional_brain_mask_derivative".
201112-22:14:32,794 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.functional_brain_mask_derivative_0".
201112-22:14:32,796 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.func_preproc_fsl_afni_mean_mcflirt_0.func_preproc_fsl_afni_mean_mcflirt_0_skullstrip.func_extract_brain" in "/outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/func_preproc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_tgng_run-2/func_extract_brain".
201112-22:14:32,803 nipype.workflow INFO:
[Node] Running "func_extract_brain" ("nipype.interfaces.afni.utils.Calc"), a CommandLine Interface with command:
3dcalc -a /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/_scan_tgng_run-2/func_motion_correct_mcflirt/sub-018_ses-1_task-tgng_run-2_bold_calc_despike_tshift_resample_mcf.nii.gz -b /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/func_preproc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_tgng_run-2/combine_masks/sub-018_ses-1_task-tgng_run-2_bold_calc_despike_tshift_resample_mcf_tstat_brain_mask_maths.nii.gz -expr "a*b" -prefix sub-018_ses-1_task-tgng_run-2_bold_calc_despike_tshift_resample_mcf_calc.nii.gz
201112-22:14:33,48 nipype.interface INFO:
stderr 2020-11-12T22:14:33.048369:++ 3dcalc: AFNI version=AFNI_20.2.19 (Sep 27 2020) [64-bit]
201112-22:14:33,48 nipype.interface INFO:
stderr 2020-11-12T22:14:33.048689:++ Authored by: A cast of thousands
201112-22:14:36,79 nipype.interface INFO:
stderr 2020-11-12T22:14:36.079792:++ Output dataset ./sub-018_ses-1_task-tgng_run-2_bold_calc_despike_tshift_resample_mcf_calc.nii.gz
201112-22:14:36,252 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.func_preproc_fsl_afni_mean_mcflirt_0.func_preproc_fsl_afni_mean_mcflirt_0_skullstrip.func_extract_brain".
201112-22:14:36,253 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.func_preproc_fsl_afni_mean_mcflirt_0.func_normalize" in "/outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/_scan_tgng_run-2/func_normalize".
201112-22:14:36,260 nipype.workflow INFO:
[Node] Running "func_normalize" ("nipype.interfaces.fsl.utils.ImageMaths"), a CommandLine Interface with command:
fslmaths /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/func_preproc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_tgng_run-2/func_extract_brain/sub-018_ses-1_task-tgng_run-2_bold_calc_despike_tshift_resample_mcf_calc.nii.gz -ing 10000 /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/_scan_tgng_run-2/func_normalize/sub-018_ses-1_task-tgng_run-2_bold_calc_despike_tshift_resample_mcf_calc_maths.nii.gz -odt float
201112-22:14:38,436 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.func_preproc_fsl_afni_mean_mcflirt_0.func_normalize".
201112-22:14:38,437 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.nuisance_regressor_0_0.GlobalSignal_mean" in "/outputs/tmp/resting_preproc_sub-018_ses-1/nuisance_regressor_0_0/_scan_tgng_run-2/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/GlobalSignal_mean".
201112-22:14:38,446 nipype.workflow INFO:
[Node] Running "GlobalSignal_mean" ("nipype.interfaces.afni.preprocess.ROIStats"), a CommandLine Interface with command:
3dROIstats -mask /outputs/tmp/resting_preproc_sub-018_ses-1/nuisance_regressor_0_0/_scan_tgng_run-2/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/GlobalSignal_union_masks/sub-018_ses-1_task-tgng_run-2_bold_calc_despike_tshift_resample_mcf_tstat_brain_mask_maths_mask.nii.gz -1Dformat /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/_scan_tgng_run-2/func_normalize/sub-018_ses-1_task-tgng_run-2_bold_calc_despike_tshift_resample_mcf_calc_maths.nii.gz
201112-22:14:39,448 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.nuisance_regressor_0_0.GlobalSignal_mean".
201112-22:14:39,449 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.nuisance_regressor_0_0.functional_mean" in "/outputs/tmp/resting_preproc_sub-018_ses-1/nuisance_regressor_0_0/_scan_tgng_run-2/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/functional_mean".
201112-22:14:39,457 nipype.workflow INFO:
[Node] Running "functional_mean" ("nipype.interfaces.afni.utils.TStat"), a CommandLine Interface with command:
3dTstat -mean -prefix sub-018_ses-1_task-tgng_run-2_bold_calc_despike_tshift_resample_mcf_calc_maths_tstat.nii.gz /outputs/tmp/resting_preproc_sub-018_ses-1/nuisance_regressor_0_0/_scan_tgng_run-2/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/functional_mean/sub-018_ses-1_task-tgng_run-2_bold_calc_despike_tshift_resample_mcf_calc_maths.nii.gz
201112-22:14:39,698 nipype.interface INFO:
stderr 2020-11-12T22:14:39.698221:++ 3dTstat: AFNI version=AFNI_20.2.19 (Sep 27 2020) [64-bit]
201112-22:14:39,698 nipype.interface INFO:
stderr 2020-11-12T22:14:39.698631:++ Authored by: KR Hammett & RW Cox
201112-22:14:40,264 nipype.interface INFO:
stderr 2020-11-12T22:14:40.264895:++ Output dataset ./sub-018_ses-1_task-tgng_run-2_bold_calc_despike_tshift_resample_mcf_calc_maths_tstat.nii.gz
201112-22:14:40,440 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.nuisance_regressor_0_0.functional_mean".
201112-22:14:40,441 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.qc_snr_0.std_dev" in "/outputs/tmp/resting_preproc_sub-018_ses-1/qc_snr_0/_scan_tgng_run-2/std_dev".
201112-22:14:40,451 nipype.workflow INFO:
[Node] Running "std_dev" ("nipype.interfaces.afni.utils.TStat"), a CommandLine Interface with command:
3dTstat -stdev -mask /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/func_preproc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_tgng_run-2/combine_masks/sub-018_ses-1_task-tgng_run-2_bold_calc_despike_tshift_resample_mcf_tstat_brain_mask_maths.nii.gz -prefix sub-018_ses-1_task-tgng_run-2_bold_calc_despike_tshift_resample_mcf_calc_maths_tstat.nii.gz /outputs/tmp/resting_preproc_sub-018_ses-1/qc_snr_0/_scan_tgng_run-2/std_dev/sub-018_ses-1_task-tgng_run-2_bold_calc_despike_tshift_resample_mcf_calc_maths.nii.gz
201112-22:14:40,690 nipype.interface INFO:
stderr 2020-11-12T22:14:40.690238:++ 3dTstat: AFNI version=AFNI_20.2.19 (Sep 27 2020) [64-bit]
201112-22:14:40,690 nipype.interface INFO:
stderr 2020-11-12T22:14:40.690575:++ Authored by: KR Hammett & RW Cox
201112-22:14:41,208 nipype.interface INFO:
stderr 2020-11-12T22:14:41.208151:++ Output dataset ./sub-018_ses-1_task-tgng_run-2_bold_calc_despike_tshift_resample_mcf_calc_maths_tstat.nii.gz
201112-22:14:41,361 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.qc_snr_0.std_dev".
201112-22:14:41,362 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.sinker_0_functional_preprocessed" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_tgng_run-2/sinker_0_functional_preprocessed".
201112-22:14:41,371 nipype.workflow INFO:
[Node] Running "sinker_0_functional_preprocessed" ("CPAC.utils.interfaces.datasink.DataSink")
201112-22:14:41,601 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.sinker_0_functional_preprocessed".
201112-22:14:41,603 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.func_preproc_fsl_afni_mean_mcflirt_0.func_mask_normalize" in "/outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/_scan_tgng_run-2/func_mask_normalize".
201112-22:14:41,610 nipype.workflow INFO:
[Node] Running "func_mask_normalize" ("nipype.interfaces.fsl.utils.ImageMaths"), a CommandLine Interface with command:
fslmaths /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/_scan_tgng_run-2/func_normalize/sub-018_ses-1_task-tgng_run-2_bold_calc_despike_tshift_resample_mcf_calc_maths.nii.gz -Tmin -bin /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/_scan_tgng_run-2/func_mask_normalize/sub-018_ses-1_task-tgng_run-2_bold_calc_despike_tshift_resample_mcf_calc_maths_maths.nii.gz -odt char
201112-22:14:42,634 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.func_preproc_fsl_afni_mean_mcflirt_0.func_mask_normalize".
201112-22:14:42,636 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.sinker_0_functional_preprocessed_mask" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_tgng_run-2/sinker_0_functional_preprocessed_mask".
201112-22:14:42,646 nipype.workflow INFO:
[Node] Running "sinker_0_functional_preprocessed_mask" ("CPAC.utils.interfaces.datasink.DataSink")
201112-22:14:42,879 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.sinker_0_functional_preprocessed_mask".
201112-22:14:42,881 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.func_preproc_fsl_afni_mean_mcflirt_0.func_mean" in "/outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/_scan_tgng_run-2/func_mean".
201112-22:14:42,890 nipype.workflow INFO:
[Node] Running "func_mean" ("nipype.interfaces.afni.utils.TStat"), a CommandLine Interface with command:
3dTstat -mean -prefix sub-018_ses-1_task-tgng_run-2_bold_calc_despike_tshift_resample_mcf_calc_tstat.nii.gz /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/_scan_tgng_run-2/func_mean/sub-018_ses-1_task-tgng_run-2_bold_calc_despike_tshift_resample_mcf_calc.nii.gz
201112-22:14:43,140 nipype.interface INFO:
stderr 2020-11-12T22:14:43.140200:++ 3dTstat: AFNI version=AFNI_20.2.19 (Sep 27 2020) [64-bit]
201112-22:14:43,140 nipype.interface INFO:
stderr 2020-11-12T22:14:43.140783:++ Authored by: KR Hammett & RW Cox
201112-22:14:43,689 nipype.interface INFO:
stderr 2020-11-12T22:14:43.689358:++ Output dataset ./sub-018_ses-1_task-tgng_run-2_bold_calc_despike_tshift_resample_mcf_calc_tstat.nii.gz
201112-22:14:43,865 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.func_preproc_fsl_afni_mean_mcflirt_0.func_mean".
201112-22:14:43,866 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.sinker_0_mean_functional" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_tgng_run-2/sinker_0_mean_functional".
201112-22:14:43,875 nipype.workflow INFO:
[Node] Running "sinker_0_mean_functional" ("CPAC.utils.interfaces.datasink.DataSink")
201112-22:14:44,106 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.sinker_0_mean_functional".
201112-22:14:44,108 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.func_preproc_fsl_afni_mean_mcflirt_0.norm_motion_params" in "/outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/_scan_tgng_run-2/norm_motion_params".
201112-22:14:44,115 nipype.workflow INFO:
[Node] Running "norm_motion_params" ("CPAC.utils.interfaces.function.Function")
201112-22:14:44,348 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.func_preproc_fsl_afni_mean_mcflirt_0.norm_motion_params".
201112-22:14:44,349 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.sinker_0_slice_time_corrected" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_tgng_run-2/sinker_0_slice_time_corrected".
201112-22:14:44,358 nipype.workflow INFO:
[Node] Running "sinker_0_slice_time_corrected" ("CPAC.utils.interfaces.datasink.DataSink")
201112-22:14:44,588 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.sinker_0_slice_time_corrected".
201112-22:14:44,590 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.sinker_0_raw_functional" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_tgng_run-2/sinker_0_raw_functional".
201112-22:14:44,602 nipype.workflow INFO:
[Node] Running "sinker_0_raw_functional" ("CPAC.utils.interfaces.datasink.DataSink")
201112-22:14:44,941 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.sinker_0_raw_functional".
201112-22:14:44,942 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.func_gather_0.check_func_scan" in "/outputs/tmp/resting_preproc_sub-018_ses-1/func_gather_0/_scan_tgng_run-2/check_func_scan".
201112-22:14:44,979 nipype.workflow INFO:
[Node] Running "check_func_scan" ("CPAC.utils.interfaces.function.Function")
201112-22:14:45,212 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.func_gather_0.check_func_scan".
201112-22:14:45,223 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.func_gather_0.select_scan_params" in "/outputs/tmp/resting_preproc_sub-018_ses-1/func_gather_0/_scan_tgng_run-1/select_scan_params".
201112-22:14:45,255 nipype.workflow INFO:
[Node] Running "select_scan_params" ("CPAC.utils.interfaces.function.Function")
201112-22:14:45,493 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.func_gather_0.select_scan_params".
201112-22:14:45,504 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.func_gather_0.s3_scan_params" in "/outputs/tmp/resting_preproc_sub-018_ses-1/func_gather_0/_scan_tgng_run-1/s3_scan_params".
201112-22:14:45,513 nipype.workflow INFO:
[Node] Running "s3_scan_params" ("CPAC.utils.interfaces.function.Function")
201112-22:14:45,747 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.func_gather_0.s3_scan_params".
201112-22:14:45,750 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.scan_params_0" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_tgng_run-1/scan_params_0".
201112-22:14:45,761 nipype.workflow INFO:
[Node] Running "scan_params_0" ("CPAC.utils.interfaces.function.Function")
201112-22:14:45,992 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.scan_params_0".
201112-22:14:45,995 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.func_gather_0.selectrest" in "/outputs/tmp/resting_preproc_sub-018_ses-1/func_gather_0/_scan_tgng_run-1/selectrest".
201112-22:14:46,32 nipype.workflow INFO:
[Node] Running "selectrest" ("CPAC.utils.interfaces.function.Function")
201112-22:14:46,273 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.func_gather_0.selectrest".
201112-22:14:46,283 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.func_gather_0.check_for_s3" in "/outputs/tmp/resting_preproc_sub-018_ses-1/func_gather_0/_scan_tgng_run-1/check_for_s3".
201112-22:14:46,291 nipype.workflow INFO:
[Node] Running "check_for_s3" ("CPAC.utils.interfaces.function.Function")
201112-22:14:46,605 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.func_gather_0.check_for_s3".
201112-22:14:46,607 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.edit_func_0.func_get_idx" in "/outputs/tmp/resting_preproc_sub-018_ses-1/edit_func_0/_scan_tgng_run-1/func_get_idx".
201112-22:14:46,616 nipype.workflow INFO:
[Node] Running "func_get_idx" ("nipype.interfaces.utility.wrappers.Function")
201112-22:14:46,850 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.edit_func_0.func_get_idx".
201112-22:14:46,851 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.edit_func_0.func_drop_trs" in "/outputs/tmp/resting_preproc_sub-018_ses-1/edit_func_0/_scan_tgng_run-1/func_drop_trs".
201112-22:14:46,860 nipype.workflow INFO:
[Node] Running "func_drop_trs" ("nipype.interfaces.afni.utils.Calc"), a CommandLine Interface with command:
3dcalc -a /bids_dataset/sub-018/ses-1/func/sub-018_ses-1_task-tgng_run-1_bold.nii.gz[0..129] -expr "a" -prefix sub-018_ses-1_task-tgng_run-1_bold_calc.nii.gz
201112-22:14:47,116 nipype.interface INFO:
stderr 2020-11-12T22:14:47.116654:++ 3dcalc: AFNI version=AFNI_20.2.19 (Sep 27 2020) [64-bit]
201112-22:14:47,117 nipype.interface INFO:
stderr 2020-11-12T22:14:47.117080:++ Authored by: A cast of thousands
201112-22:14:52,988 nipype.interface INFO:
stderr 2020-11-12T22:14:52.988904:++ Output dataset ./sub-018_ses-1_task-tgng_run-1_bold_calc.nii.gz
201112-22:14:53,170 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.edit_func_0.func_drop_trs".
201112-22:14:53,171 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_deoblique" in "/outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/_scan_tgng_run-1/func_deoblique".
201112-22:14:53,218 nipype.workflow INFO:
[Node] Running "func_deoblique" ("nipype.interfaces.afni.utils.Refit"), a CommandLine Interface with command:
3drefit -deoblique /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/_scan_tgng_run-1/func_deoblique/sub-018_ses-1_task-tgng_run-1_bold_calc.nii.gz
201112-22:14:53,461 nipype.interface INFO:
stderr 2020-11-12T22:14:53.461050:++ 3drefit: AFNI version=AFNI_20.2.19 (Sep 27 2020) [64-bit]
201112-22:14:53,461 nipype.interface INFO:
stderr 2020-11-12T22:14:53.461363:++ Authored by: RW Cox
201112-22:14:53,473 nipype.interface INFO:
stderr 2020-11-12T22:14:53.473594:++ Processing AFNI dataset /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/_scan_tgng_run-1/func_deoblique/sub-018_ses-1_task-tgng_run-1_bold_calc.nii.gz
201112-22:14:53,474 nipype.interface INFO:
stderr 2020-11-12T22:14:53.474686: + deoblique
201112-22:14:53,475 nipype.interface INFO:
stderr 2020-11-12T22:14:53.475097: + loading and re-writing dataset /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/_scan_tgng_run-1/func_deoblique/sub-018_ses-1_task-tgng_run-1_bold_calc.nii.gz (/outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/_scan_tgng_run-1/func_deoblique/sub-018_ses-1_task-tgng_run-1_bold_calc.nii.gz in NIFTI storage)
201112-22:14:57,358 nipype.interface INFO:
stderr 2020-11-12T22:14:57.358329:++ 3drefit processed 1 datasets
201112-22:14:57,541 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_deoblique".
201112-22:14:57,542 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_reorient" in "/outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/_scan_tgng_run-1/func_reorient".
201112-22:14:57,550 nipype.workflow INFO:
[Node] Running "func_reorient" ("nipype.interfaces.afni.utils.Resample"), a CommandLine Interface with command:
3dresample -orient RPI -prefix sub-018_ses-1_task-tgng_run-1_bold_calc_resample.nii.gz -inset /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/_scan_tgng_run-1/func_reorient/sub-018_ses-1_task-tgng_run-1_bold_calc.nii.gz
201112-22:15:02,133 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_reorient".
201112-22:15:02,134 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_get_mean_RPI" in "/outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/_scan_tgng_run-1/func_get_mean_RPI".
201112-22:15:02,143 nipype.workflow INFO:
[Node] Running "func_get_mean_RPI" ("nipype.interfaces.afni.utils.TStat"), a CommandLine Interface with command:
3dTstat -mean -prefix sub-018_ses-1_task-tgng_run-1_bold_calc_resample_tstat.nii.gz /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/_scan_tgng_run-1/func_get_mean_RPI/sub-018_ses-1_task-tgng_run-1_bold_calc_resample.nii.gz
201112-22:15:02,394 nipype.interface INFO:
stderr 2020-11-12T22:15:02.394304:++ 3dTstat: AFNI version=AFNI_20.2.19 (Sep 27 2020) [64-bit]
201112-22:15:02,394 nipype.interface INFO:
stderr 2020-11-12T22:15:02.394838:++ Authored by: KR Hammett & RW Cox
201112-22:15:02,854 nipype.interface INFO:
stderr 2020-11-12T22:15:02.854077:++ Output dataset ./sub-018_ses-1_task-tgng_run-1_bold_calc_resample_tstat.nii.gz
201112-22:15:03,0 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_get_mean_RPI".
201112-22:15:03,1 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_generate_ref" in "/outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/_scan_tgng_run-1/func_generate_ref".
201112-22:15:03,11 nipype.workflow INFO:
[Node] Running "func_generate_ref" ("nipype.interfaces.afni.preprocess.Volreg"), a CommandLine Interface with command:
3dvolreg -twopass -Fourier -1Dfile sub-018_ses-1_task-tgng_run-1_bold_calc_resample.1D -1Dmatrix_save sub-018_ses-1_task-tgng_run-1_bold_calc_resample.aff12.1D -prefix sub-018_ses-1_task-tgng_run-1_bold_calc_resample_volreg.nii.gz -base /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/_scan_tgng_run-1/func_get_mean_RPI/sub-018_ses-1_task-tgng_run-1_bold_calc_resample_tstat.nii.gz -zpad 4 -maxdisp1D sub-018_ses-1_task-tgng_run-1_bold_calc_resample_md.1D /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/_scan_tgng_run-1/func_generate_ref/sub-018_ses-1_task-tgng_run-1_bold_calc_resample.nii.gz
201112-22:15:03,256 nipype.interface INFO:
stderr 2020-11-12T22:15:03.256403:++ 3dvolreg: AFNI version=AFNI_20.2.19 (Sep 27 2020) [64-bit]
201112-22:15:03,256 nipype.interface INFO:
stderr 2020-11-12T22:15:03.256935:++ Authored by: RW Cox
201112-22:15:03,267 nipype.interface INFO:
stderr 2020-11-12T22:15:03.267341:++ Coarse del was 10, replaced with 3
201112-22:16:50,83 nipype.interface INFO:
stderr 2020-11-12T22:16:50.083125:++ Max displacement in automask = 1.99 (mm) at sub-brick 73
201112-22:16:50,83 nipype.interface INFO:
stderr 2020-11-12T22:16:50.083967:++ Max delta displ in automask = 2.50 (mm) at sub-brick 94
201112-22:16:53,915 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_generate_ref".
201112-22:16:53,917 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_get_mean_motion" in "/outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/_scan_tgng_run-1/func_get_mean_motion".
201112-22:16:53,924 nipype.workflow INFO:
[Node] Running "func_get_mean_motion" ("nipype.interfaces.afni.utils.TStat"), a CommandLine Interface with command:
3dTstat -mean -prefix sub-018_ses-1_task-tgng_run-1_bold_calc_resample_volreg_tstat.nii.gz /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/_scan_tgng_run-1/func_get_mean_motion/sub-018_ses-1_task-tgng_run-1_bold_calc_resample_volreg.nii.gz
201112-22:16:54,179 nipype.interface INFO:
stderr 2020-11-12T22:16:54.178945:++ 3dTstat: AFNI version=AFNI_20.2.19 (Sep 27 2020) [64-bit]
201112-22:16:54,179 nipype.interface INFO:
stderr 2020-11-12T22:16:54.179425:++ Authored by: KR Hammett & RW Cox
201112-22:16:54,640 nipype.interface INFO:
stderr 2020-11-12T22:16:54.640831:++ Output dataset ./sub-018_ses-1_task-tgng_run-1_bold_calc_resample_volreg_tstat.nii.gz
201112-22:16:54,785 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_get_mean_motion".
201112-22:16:54,787 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_motion_correct_mcflirt" in "/outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/_scan_tgng_run-1/func_motion_correct_mcflirt".
201112-22:16:54,797 nipype.workflow INFO:
[Node] Running "func_motion_correct_mcflirt" ("nipype.interfaces.fsl.preprocess.MCFLIRT"), a CommandLine Interface with command:
mcflirt -in /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/_scan_tgng_run-1/func_reorient/sub-018_ses-1_task-tgng_run-1_bold_calc_resample.nii.gz -out /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/_scan_tgng_run-1/func_motion_correct_mcflirt/sub-018_ses-1_task-tgng_run-1_bold_calc_resample_mcf.nii.gz -reffile /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/_scan_tgng_run-1/func_get_mean_motion/sub-018_ses-1_task-tgng_run-1_bold_calc_resample_volreg_tstat.nii.gz -mats -plots -rmsabs -rmsrel
201112-22:17:18,66 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_motion_correct_mcflirt".
201112-22:17:18,72 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.gen_motion_stats_before_stc_fsl_afni_mean_mcflirt_0.calculate_FDJ" in "/outputs/tmp/resting_preproc_sub-018_ses-1/gen_motion_stats_before_stc_fsl_afni_mean_mcflirt_0/_scan_tgng_run-1/calculate_FDJ".
201112-22:17:18,81 nipype.workflow INFO:
[Node] Running "calculate_FDJ" ("CPAC.utils.interfaces.function.Function")
201112-22:17:18,307 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.gen_motion_stats_before_stc_fsl_afni_mean_mcflirt_0.calculate_FDJ".
201112-22:17:18,309 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.sinker_0_frame_wise_displacement_jenkinson" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_tgng_run-1/sinker_0_frame_wise_displacement_jenkinson".
201112-22:17:18,318 nipype.workflow INFO:
[Node] Running "sinker_0_frame_wise_displacement_jenkinson" ("CPAC.utils.interfaces.datasink.DataSink")
201112-22:17:18,547 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.sinker_0_frame_wise_displacement_jenkinson".
201112-22:17:18,549 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.sinker_0_max_displacement" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_tgng_run-1/sinker_0_max_displacement".
201112-22:17:18,559 nipype.workflow INFO:
[Node] Running "sinker_0_max_displacement" ("CPAC.utils.interfaces.datasink.DataSink")
201112-22:17:18,790 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.sinker_0_max_displacement".
201112-22:17:18,792 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.sinker_0_coordinate_transformation" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_tgng_run-1/sinker_0_coordinate_transformation".
201112-22:17:18,816 nipype.workflow INFO:
[Node] Running "sinker_0_coordinate_transformation" ("CPAC.utils.interfaces.datasink.DataSink")
201112-22:17:19,81 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.sinker_0_coordinate_transformation".
201112-22:17:19,91 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip.func_mean_skull" in "/outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_tgng_run-1/func_mean_skull".
201112-22:17:19,102 nipype.workflow INFO:
[Node] Running "func_mean_skull" ("nipype.interfaces.afni.utils.TStat"), a CommandLine Interface with command:
3dTstat -mean -prefix sub-018_ses-1_task-tgng_run-1_bold_calc_resample_mcf_tstat.nii.gz /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_tgng_run-1/func_mean_skull/sub-018_ses-1_task-tgng_run-1_bold_calc_resample_mcf.nii.gz
201112-22:17:19,360 nipype.interface INFO:
stderr 2020-11-12T22:17:19.360239:++ 3dTstat: AFNI version=AFNI_20.2.19 (Sep 27 2020) [64-bit]
201112-22:17:19,360 nipype.interface INFO:
stderr 2020-11-12T22:17:19.360829:++ Authored by: KR Hammett & RW Cox
201112-22:17:19,862 nipype.interface INFO:
stderr 2020-11-12T22:17:19.862032:++ Output dataset ./sub-018_ses-1_task-tgng_run-1_bold_calc_resample_mcf_tstat.nii.gz
201112-22:17:20,10 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip.func_mean_skull".
201112-22:17:20,11 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip.skullstrip_first_pass" in "/outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_tgng_run-1/skullstrip_first_pass".
201112-22:17:20,19 nipype.workflow INFO:
[Node] Running "skullstrip_first_pass" ("nipype.interfaces.fsl.preprocess.BET"), a CommandLine Interface with command:
bet /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_tgng_run-1/func_mean_skull/sub-018_ses-1_task-tgng_run-1_bold_calc_resample_mcf_tstat.nii.gz /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_tgng_run-1/skullstrip_first_pass/sub-018_ses-1_task-tgng_run-1_bold_calc_resample_mcf_tstat_brain.nii.gz -f 0.20 -m
201112-22:17:21,846 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip.skullstrip_first_pass".
201112-22:17:21,848 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip.skullstrip_first_dilate" in "/outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_tgng_run-1/skullstrip_first_dilate".
201112-22:17:21,856 nipype.workflow INFO:
[Node] Running "skullstrip_first_dilate" ("nipype.interfaces.fsl.maths.DilateImage"), a CommandLine Interface with command:
fslmaths -dt char /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_tgng_run-1/skullstrip_first_pass/sub-018_ses-1_task-tgng_run-1_bold_calc_resample_mcf_tstat_brain_mask.nii.gz -kernel sphere 6.0000 -dilF /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_tgng_run-1/skullstrip_first_dilate/sub-018_ses-1_task-tgng_run-1_bold_calc_resample_mcf_tstat_brain_mask_dil.nii.gz
201112-22:17:22,504 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip.skullstrip_first_dilate".
201112-22:17:22,506 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip.skullstrip_first_mask" in "/outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_tgng_run-1/skullstrip_first_mask".
201112-22:17:22,515 nipype.workflow INFO:
[Node] Running "skullstrip_first_mask" ("nipype.interfaces.fsl.maths.ApplyMask"), a CommandLine Interface with command:
fslmaths /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_tgng_run-1/skullstrip_first_pass/sub-018_ses-1_task-tgng_run-1_bold_calc_resample_mcf_tstat_brain.nii.gz -mas /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_tgng_run-1/skullstrip_first_dilate/sub-018_ses-1_task-tgng_run-1_bold_calc_resample_mcf_tstat_brain_mask_dil.nii.gz /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_tgng_run-1/skullstrip_first_mask/sub-018_ses-1_task-tgng_run-1_bold_calc_resample_mcf_tstat_brain_masked.nii.gz
201112-22:17:22,925 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip.skullstrip_first_mask".
201112-22:17:22,927 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip.unifize" in "/outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_tgng_run-1/unifize".
201112-22:17:22,935 nipype.workflow INFO:
[Node] Running "unifize" ("nipype.interfaces.afni.utils.Unifize"), a CommandLine Interface with command:
3dUnifize -clfrac 0.2 -rbt 18.3 65.0 90.0 -prefix uni.nii.gz -T2 -input /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_tgng_run-1/unifize/sub-018_ses-1_task-tgng_run-1_bold_calc_resample_mcf_tstat_brain_masked.nii.gz
201112-22:17:23,178 nipype.interface INFO:
stderr 2020-11-12T22:17:23.178737:++ 3dUnifize: AFNI version=AFNI_20.2.19 (Sep 27 2020) [64-bit]
201112-22:18:36,65 nipype.interface INFO:
stderr 2020-11-12T22:18:36.064994: + Pre-processing: IAV..UW[s4053]Im
201112-22:18:36,80 nipype.interface INFO:
stderr 2020-11-12T22:18:36.080360:++ Output dataset ./uni.nii.gz
201112-22:18:36,80 nipype.interface INFO:
stderr 2020-11-12T22:18:36.080660:++ ===== Elapsed = 72.9 sec
201112-22:18:36,256 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip.unifize".
201112-22:18:36,258 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip.skullstrip_second_pass" in "/outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_tgng_run-1/skullstrip_second_pass".
201112-22:18:36,267 nipype.workflow INFO:
[Node] Running "skullstrip_second_pass" ("nipype.interfaces.afni.preprocess.Automask"), a CommandLine Interface with command:
3dAutomask -apply_prefix uni_masked.nii.gz -dilate 1 -prefix uni_mask.nii.gz /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_tgng_run-1/skullstrip_second_pass/uni.nii.gz
201112-22:18:36,515 nipype.interface INFO:
stderr 2020-11-12T22:18:36.515394:++ 3dAutomask: AFNI version=AFNI_20.2.19 (Sep 27 2020) [64-bit]
201112-22:18:36,516 nipype.interface INFO:
stderr 2020-11-12T22:18:36.515982:++ Authored by: Emperor Zhark
201112-22:18:36,518 nipype.interface INFO:
stderr 2020-11-12T22:18:36.518664:++ Loading dataset /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_tgng_run-1/skullstrip_second_pass/uni.nii.gz
201112-22:18:36,524 nipype.interface INFO:
stderr 2020-11-12T22:18:36.524125:++ Forming automask
201112-22:18:36,526 nipype.interface INFO:
stderr 2020-11-12T22:18:36.526173: + Fixed clip level = 437.452484
201112-22:18:36,530 nipype.interface INFO:
stderr 2020-11-12T22:18:36.530378: + Used gradual clip level = 391.714417 .. 498.184113
201112-22:18:36,530 nipype.interface INFO:
stderr 2020-11-12T22:18:36.530634: + Number voxels above clip level = 28123
201112-22:18:36,530 nipype.interface INFO:
stderr 2020-11-12T22:18:36.530822: + Clustering voxels ...
201112-22:18:36,532 nipype.interface INFO:
stderr 2020-11-12T22:18:36.532189: + Largest cluster has 28099 voxels
201112-22:18:36,533 nipype.interface INFO:
stderr 2020-11-12T22:18:36.533877: + Clustering voxels ...
201112-22:18:36,535 nipype.interface INFO:
stderr 2020-11-12T22:18:36.535362: + Largest cluster has 27716 voxels
201112-22:18:36,539 nipype.interface INFO:
stderr 2020-11-12T22:18:36.539003: + Filled 556 voxels in small holes; now have 28272 voxels
201112-22:18:36,541 nipype.interface INFO:
stderr 2020-11-12T22:18:36.541472: + Filled 1 voxels in large holes; now have 28273 voxels
201112-22:18:36,542 nipype.interface INFO:
stderr 2020-11-12T22:18:36.542678: + Clustering voxels ...
201112-22:18:36,543 nipype.interface INFO:
stderr 2020-11-12T22:18:36.543719: + Largest cluster has 28271 voxels
201112-22:18:36,543 nipype.interface INFO:
stderr 2020-11-12T22:18:36.543947: + Clustering non-brain voxels ...
201112-22:18:36,544 nipype.interface INFO:
stderr 2020-11-12T22:18:36.544088: + Clustering voxels ...
201112-22:18:36,546 nipype.interface INFO:
stderr 2020-11-12T22:18:36.546925: + Largest cluster has 110961 voxels
201112-22:18:36,547 nipype.interface INFO:
stderr 2020-11-12T22:18:36.547252: + Mask now has 28303 voxels
201112-22:18:36,547 nipype.interface INFO:
stderr 2020-11-12T22:18:36.547403:++ Dilating automask
201112-22:18:36,553 nipype.interface INFO:
stderr 2020-11-12T22:18:36.553876: + Clustering voxels ...
201112-22:18:36,556 nipype.interface INFO:
stderr 2020-11-12T22:18:36.556336: + Largest cluster has 105383 voxels
201112-22:18:36,556 nipype.interface INFO:
stderr 2020-11-12T22:18:36.556674:++ 33881 voxels in the mask [out of 139264: 24.33%]
201112-22:18:36,556 nipype.interface INFO:
stderr 2020-11-12T22:18:36.556845:++ first 10 x-planes are zero [from R]
201112-22:18:36,557 nipype.interface INFO:
stderr 2020-11-12T22:18:36.557004:++ last 9 x-planes are zero [from L]
201112-22:18:36,557 nipype.interface INFO:
stderr 2020-11-12T22:18:36.557143:++ first 3 y-planes are zero [from P]
201112-22:18:36,557 nipype.interface INFO:
stderr 2020-11-12T22:18:36.557287:++ last 7 y-planes are zero [from A]
201112-22:18:36,557 nipype.interface INFO:
stderr 2020-11-12T22:18:36.557418:++ first 0 z-planes are zero [from I]
201112-22:18:36,557 nipype.interface INFO:
stderr 2020-11-12T22:18:36.557561:++ last 1 z-planes are zero [from S]
201112-22:18:36,561 nipype.interface INFO:
stderr 2020-11-12T22:18:36.561945:++ Output dataset ./uni_mask.nii.gz
201112-22:18:36,562 nipype.interface INFO:
stderr 2020-11-12T22:18:36.562120:++ applying mask to original data
201112-22:18:36,562 nipype.interface INFO:
stderr 2020-11-12T22:18:36.562788:++ Writing masked data
201112-22:18:36,576 nipype.interface INFO:
stderr 2020-11-12T22:18:36.576711:++ Output dataset ./uni_masked.nii.gz
201112-22:18:36,577 nipype.interface INFO:
stderr 2020-11-12T22:18:36.577001:++ CPU time = 0.000000 sec
201112-22:18:36,723 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip.skullstrip_second_pass".
201112-22:18:36,725 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip.combine_masks" in "/outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_tgng_run-1/combine_masks".
201112-22:18:36,733 nipype.workflow INFO:
[Node] Running "combine_masks" ("nipype.interfaces.fsl.maths.BinaryMaths"), a CommandLine Interface with command:
fslmaths /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_tgng_run-1/skullstrip_first_pass/sub-018_ses-1_task-tgng_run-1_bold_calc_resample_mcf_tstat_brain_mask.nii.gz -mul /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_tgng_run-1/skullstrip_second_pass/uni_mask.nii.gz /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_tgng_run-1/combine_masks/sub-018_ses-1_task-tgng_run-1_bold_calc_resample_mcf_tstat_brain_mask_maths.nii.gz
201112-22:18:37,131 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip.combine_masks".
201112-22:18:37,133 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.gen_motion_stats_before_stc_fsl_afni_mean_mcflirt_0.cal_DVARS" in "/outputs/tmp/resting_preproc_sub-018_ses-1/gen_motion_stats_before_stc_fsl_afni_mean_mcflirt_0/_scan_tgng_run-1/cal_DVARS".
201112-22:18:37,141 nipype.workflow INFO:
[Node] Running "cal_DVARS" ("CPAC.utils.interfaces.function.Function")
201112-22:18:37,811 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.gen_motion_stats_before_stc_fsl_afni_mean_mcflirt_0.cal_DVARS".
201112-22:18:37,813 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip.func_extract_brain" in "/outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_tgng_run-1/func_extract_brain".
201112-22:18:37,823 nipype.workflow INFO:
[Node] Running "func_extract_brain" ("nipype.interfaces.afni.utils.Calc"), a CommandLine Interface with command:
3dcalc -a /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/_scan_tgng_run-1/func_motion_correct_mcflirt/sub-018_ses-1_task-tgng_run-1_bold_calc_resample_mcf.nii.gz -b /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_tgng_run-1/combine_masks/sub-018_ses-1_task-tgng_run-1_bold_calc_resample_mcf_tstat_brain_mask_maths.nii.gz -expr "a*b" -prefix sub-018_ses-1_task-tgng_run-1_bold_calc_resample_mcf_calc.nii.gz
201112-22:18:38,66 nipype.interface INFO:
stderr 2020-11-12T22:18:38.066899:++ 3dcalc: AFNI version=AFNI_20.2.19 (Sep 27 2020) [64-bit]
201112-22:18:38,67 nipype.interface INFO:
stderr 2020-11-12T22:18:38.067202:++ Authored by: A cast of thousands
201112-22:18:40,780 nipype.interface INFO:
stderr 2020-11-12T22:18:40.779976:++ Output dataset ./sub-018_ses-1_task-tgng_run-1_bold_calc_resample_mcf_calc.nii.gz
201112-22:18:40,954 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip.func_extract_brain".
201112-22:18:40,956 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_normalize" in "/outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/_scan_tgng_run-1/func_normalize".
201112-22:18:40,964 nipype.workflow INFO:
[Node] Running "func_normalize" ("nipype.interfaces.fsl.utils.ImageMaths"), a CommandLine Interface with command:
fslmaths /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_tgng_run-1/func_extract_brain/sub-018_ses-1_task-tgng_run-1_bold_calc_resample_mcf_calc.nii.gz -ing 10000 /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/_scan_tgng_run-1/func_normalize/sub-018_ses-1_task-tgng_run-1_bold_calc_resample_mcf_calc_maths.nii.gz -odt float
201112-22:18:43,95 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_normalize".
201112-22:18:43,96 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_mask_normalize" in "/outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/_scan_tgng_run-1/func_mask_normalize".
201112-22:18:43,104 nipype.workflow INFO:
[Node] Running "func_mask_normalize" ("nipype.interfaces.fsl.utils.ImageMaths"), a CommandLine Interface with command:
fslmaths /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/_scan_tgng_run-1/func_normalize/sub-018_ses-1_task-tgng_run-1_bold_calc_resample_mcf_calc_maths.nii.gz -Tmin -bin /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/_scan_tgng_run-1/func_mask_normalize/sub-018_ses-1_task-tgng_run-1_bold_calc_resample_mcf_calc_maths_maths.nii.gz -odt char
201112-22:18:44,113 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_mask_normalize".
201112-22:18:44,114 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_mean" in "/outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/_scan_tgng_run-1/func_mean".
201112-22:18:44,122 nipype.workflow INFO:
[Node] Running "func_mean" ("nipype.interfaces.afni.utils.TStat"), a CommandLine Interface with command:
3dTstat -mean -prefix sub-018_ses-1_task-tgng_run-1_bold_calc_resample_mcf_calc_tstat.nii.gz /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/_scan_tgng_run-1/func_mean/sub-018_ses-1_task-tgng_run-1_bold_calc_resample_mcf_calc.nii.gz
201112-22:18:44,379 nipype.interface INFO:
stderr 2020-11-12T22:18:44.379061:++ 3dTstat: AFNI version=AFNI_20.2.19 (Sep 27 2020) [64-bit]
201112-22:18:44,379 nipype.interface INFO:
stderr 2020-11-12T22:18:44.379822:++ Authored by: KR Hammett & RW Cox
201112-22:18:44,678 nipype.interface INFO:
stderr 2020-11-12T22:18:44.678031:++ Output dataset ./sub-018_ses-1_task-tgng_run-1_bold_calc_resample_mcf_calc_tstat.nii.gz
201112-22:18:44,848 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_mean".
201112-22:18:44,849 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.norm_motion_params" in "/outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/_scan_tgng_run-1/norm_motion_params".
201112-22:18:44,857 nipype.workflow INFO:
[Node] Running "norm_motion_params" ("CPAC.utils.interfaces.function.Function")
201112-22:18:45,92 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.norm_motion_params".
201112-22:18:45,93 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.qc_motion_0.motion_plot" in "/outputs/tmp/resting_preproc_sub-018_ses-1/qc_motion_0/_scan_tgng_run-1/motion_plot".
201112-22:18:45,100 nipype.workflow INFO:
[Node] Running "motion_plot" ("CPAC.utils.interfaces.function.Function")
201112-22:18:45,552 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.qc_motion_0.motion_plot".
201112-22:18:45,553 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.sinker_0_qc___movement_trans_plot" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_tgng_run-1/sinker_0_qc___movement_trans_plot".
201112-22:18:45,562 nipype.workflow INFO:
[Node] Running "sinker_0_qc___movement_trans_plot" ("CPAC.utils.interfaces.datasink.DataSink")
201112-22:18:45,775 nipype.interface INFO:
sub: /outputs/output/pipeline_cpac_fmriprep-options/sub-018_ses-1/qc___movement_trans_plot/_scan_tgng_run-1/motion_trans_plot.png -> /outputs/output/pipeline_cpac_fmriprep-options/sub-018_ses-1/qc/movement_trans_plot/_scan_tgng_run-1/motion_trans_plot.png
201112-22:18:45,792 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.sinker_0_qc___movement_trans_plot".
201112-22:18:45,794 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.sinker_0_qc___movement_rot_plot" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_tgng_run-1/sinker_0_qc___movement_rot_plot".
201112-22:18:45,802 nipype.workflow INFO:
[Node] Running "sinker_0_qc___movement_rot_plot" ("CPAC.utils.interfaces.datasink.DataSink")
201112-22:18:46,16 nipype.interface INFO:
sub: /outputs/output/pipeline_cpac_fmriprep-options/sub-018_ses-1/qc___movement_rot_plot/_scan_tgng_run-1/motion_rot_plot.png -> /outputs/output/pipeline_cpac_fmriprep-options/sub-018_ses-1/qc/movement_rot_plot/_scan_tgng_run-1/motion_rot_plot.png
201112-22:18:46,35 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.sinker_0_qc___movement_rot_plot".
201112-22:18:46,37 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.gen_motion_stats_before_stc_fsl_afni_mean_mcflirt_0.calc_motion_parameters" in "/outputs/tmp/resting_preproc_sub-018_ses-1/gen_motion_stats_before_stc_fsl_afni_mean_mcflirt_0/_scan_tgng_run-1/calc_motion_parameters".
201112-22:18:46,46 nipype.workflow INFO:
[Node] Running "calc_motion_parameters" ("CPAC.utils.interfaces.function.Function")
201112-22:18:46,279 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.gen_motion_stats_before_stc_fsl_afni_mean_mcflirt_0.calc_motion_parameters".
201112-22:18:46,281 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.sinker_0_motion_params" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_tgng_run-1/sinker_0_motion_params".
201112-22:18:46,289 nipype.workflow INFO:
[Node] Running "sinker_0_motion_params" ("CPAC.utils.interfaces.datasink.DataSink")
201112-22:18:46,518 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.sinker_0_motion_params".
201112-22:18:46,519 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.gen_motion_stats_before_stc_fsl_afni_mean_mcflirt_0.calculate_FD" in "/outputs/tmp/resting_preproc_sub-018_ses-1/gen_motion_stats_before_stc_fsl_afni_mean_mcflirt_0/_scan_tgng_run-1/calculate_FD".
201112-22:18:46,526 nipype.workflow INFO:
[Node] Running "calculate_FD" ("CPAC.utils.interfaces.function.Function")
201112-22:18:46,758 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.gen_motion_stats_before_stc_fsl_afni_mean_mcflirt_0.calculate_FD".
201112-22:18:46,759 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.sinker_0_frame_wise_displacement_power" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_tgng_run-1/sinker_0_frame_wise_displacement_power".
201112-22:18:46,768 nipype.workflow INFO:
[Node] Running "sinker_0_frame_wise_displacement_power" ("CPAC.utils.interfaces.datasink.DataSink")
201112-22:18:46,998 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.sinker_0_frame_wise_displacement_power".
201112-22:18:46,999 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.gen_motion_stats_before_stc_fsl_afni_mean_mcflirt_0.calc_power_parameters" in "/outputs/tmp/resting_preproc_sub-018_ses-1/gen_motion_stats_before_stc_fsl_afni_mean_mcflirt_0/_scan_tgng_run-1/calc_power_parameters".
201112-22:18:47,7 nipype.workflow INFO:
[Node] Running "calc_power_parameters" ("CPAC.utils.interfaces.function.Function")
201112-22:18:47,238 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.gen_motion_stats_before_stc_fsl_afni_mean_mcflirt_0.calc_power_parameters".
201112-22:18:47,240 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.sinker_0_power_params" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_tgng_run-1/sinker_0_power_params".
201112-22:18:47,249 nipype.workflow INFO:
[Node] Running "sinker_0_power_params" ("CPAC.utils.interfaces.datasink.DataSink")
201112-22:18:47,479 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.sinker_0_power_params".
201112-22:18:47,481 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.sinker_0_movement_parameters" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_tgng_run-1/sinker_0_movement_parameters".
201112-22:18:47,490 nipype.workflow INFO:
[Node] Running "sinker_0_movement_parameters" ("CPAC.utils.interfaces.datasink.DataSink")
201112-22:18:47,719 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.sinker_0_movement_parameters".
201112-22:18:47,720 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.func_despiked_0" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_tgng_run-1/func_despiked_0".
201112-22:18:47,729 nipype.workflow INFO:
[Node] Running "func_despiked_0" ("nipype.interfaces.afni.preprocess.Despike"), a CommandLine Interface with command:
3dDespike -prefix sub-018_ses-1_task-tgng_run-1_bold_calc_despike.nii.gz /outputs/tmp/resting_preproc_sub-018_ses-1/_scan_tgng_run-1/func_despiked_0/sub-018_ses-1_task-tgng_run-1_bold_calc.nii.gz
201112-22:18:47,977 nipype.interface INFO:
stderr 2020-11-12T22:18:47.976917:++ 3dDespike: AFNI version=AFNI_20.2.19 (Sep 27 2020) [64-bit]
201112-22:18:47,977 nipype.interface INFO:
stderr 2020-11-12T22:18:47.977287:++ Authored by: RW Cox
201112-22:18:47,979 nipype.interface INFO:
stderr 2020-11-12T22:18:47.979323:[7m*+ WARNING:[0m If you are performing spatial transformations on an oblique dset,
201112-22:18:47,979 nipype.interface INFO:
stderr 2020-11-12T22:18:47.979323: such as /outputs/tmp/resting_preproc_sub-018_ses-1/_scan_tgng_run-1/func_despiked_0/sub-018_ses-1_task-tgng_run-1_bold_calc.nii.gz,
201112-22:18:47,979 nipype.interface INFO:
stderr 2020-11-12T22:18:47.979323: or viewing/combining it with volumes of differing obliquity,
201112-22:18:47,979 nipype.interface INFO:
stderr 2020-11-12T22:18:47.979323: you should consider running:
201112-22:18:47,979 nipype.interface INFO:
stderr 2020-11-12T22:18:47.979323: 3dWarp -deoblique
201112-22:18:47,980 nipype.interface INFO:
stderr 2020-11-12T22:18:47.979323: on this and other oblique datasets in the same session.
201112-22:18:47,980 nipype.interface INFO:
stderr 2020-11-12T22:18:47.979323: See 3dWarp -help for details.
201112-22:18:47,980 nipype.interface INFO:
stderr 2020-11-12T22:18:47.980234:++ Oblique dataset:/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_tgng_run-1/func_despiked_0/sub-018_ses-1_task-tgng_run-1_bold_calc.nii.gz is 17.792933 degrees from plumb.
201112-22:18:47,980 nipype.interface INFO:
stderr 2020-11-12T22:18:47.980407:++ Input dataset is in short format, but output will be in float format
201112-22:18:47,980 nipype.interface INFO:
stderr 2020-11-12T22:18:47.980575:++ ignoring first 0 time points, using last 130
201112-22:18:47,980 nipype.interface INFO:
stderr 2020-11-12T22:18:47.980734:++ using 130 time points => -corder 4
201112-22:18:47,980 nipype.interface INFO:
stderr 2020-11-12T22:18:47.980886:++ Loading dataset /outputs/tmp/resting_preproc_sub-018_ses-1/_scan_tgng_run-1/func_despiked_0/sub-018_ses-1_task-tgng_run-1_bold_calc.nii.gz
201112-22:18:48,433 nipype.interface INFO:
stderr 2020-11-12T22:18:48.433586:++ 32038 voxels in the automask [out of 139264 in dataset]
201112-22:18:48,439 nipype.interface INFO:
stderr 2020-11-12T22:18:48.439171:++ 55513 voxels in the dilated automask [out of 139264 in dataset]
201112-22:18:48,450 nipype.interface INFO:
stderr 2020-11-12T22:18:48.450320:++ Procesing time series with OLD model fit algorithm
201112-22:18:48,450 nipype.interface INFO:
stderr 2020-11-12T22:18:48.450511:++ smash edit thresholds: 3.1 .. 5.0 MADs
201112-22:18:48,450 nipype.interface INFO:
stderr 2020-11-12T22:18:48.450671: + [ 3.457% .. 0.072% of normal distribution]
201112-22:18:48,450 nipype.interface INFO:
stderr 2020-11-12T22:18:48.450826: + [ 8.839% .. 3.125% of Laplace distribution]
201112-22:18:48,450 nipype.interface INFO:
stderr 2020-11-12T22:18:48.450979:++ start OpenMP thread #0
201112-22:18:54,46 nipype.interface INFO:
stderr 2020-11-12T22:18:54.046816:.........................
201112-22:18:54,47 nipype.interface INFO:
stderr 2020-11-12T22:18:54.047292:++ Elapsed despike time = 5s 596ms
201112-22:18:54,47 nipype.interface INFO:
stderr 2020-11-12T22:18:54.047441:
201112-22:18:54,48 nipype.interface INFO:
stderr 2020-11-12T22:18:54.048274:++ FINAL: 7216690 data points, 625335 edits [8.665%], 164263 big edits [2.276%]
201112-22:18:57,811 nipype.interface INFO:
stderr 2020-11-12T22:18:57.811349:++ Output dataset ./sub-018_ses-1_task-tgng_run-1_bold_calc_despike.nii.gz
201112-22:18:58,3 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.func_despiked_0".
201112-22:18:58,5 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.func_slice_timing_correction_0.slice_timing" in "/outputs/tmp/resting_preproc_sub-018_ses-1/func_slice_timing_correction_0/_scan_tgng_run-1/slice_timing".
201112-22:18:58,15 nipype.interface WARNING:
Passing a file prefixed by "@" will be deprecated; please use the `slice_timing` input
201112-22:18:58,16 nipype.workflow INFO:
[Node] Running "slice_timing" ("nipype.interfaces.afni.preprocess.TShift"), a CommandLine Interface with command:
3dTshift -prefix sub-018_ses-1_task-tgng_run-1_bold_calc_despike_tshift.nii.gz -tpattern @/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_tgng_run-1/scan_params_0/tpattern.txt -TR 2.0s /outputs/tmp/resting_preproc_sub-018_ses-1/func_slice_timing_correction_0/_scan_tgng_run-1/slice_timing/sub-018_ses-1_task-tgng_run-1_bold_calc_despike.nii.gz
201112-22:18:58,229 nipype.interface WARNING:
Passing a file prefixed by "@" will be deprecated; please use the `slice_timing` input
201112-22:18:58,269 nipype.interface INFO:
stderr 2020-11-12T22:18:58.269336:++ 3dTshift: AFNI version=AFNI_20.2.19 (Sep 27 2020) [64-bit]
201112-22:18:58,273 nipype.interface INFO:
stderr 2020-11-12T22:18:58.273447:[7m*+ WARNING:[0m If you are performing spatial transformations on an oblique dset,
201112-22:18:58,273 nipype.interface INFO:
stderr 2020-11-12T22:18:58.273447: such as /outputs/tmp/resting_preproc_sub-018_ses-1/func_slice_timing_correction_0/_scan_tgng_run-1/slice_timing/sub-018_ses-1_task-tgng_run-1_bold_calc_despike.nii.gz,
201112-22:18:58,273 nipype.interface INFO:
stderr 2020-11-12T22:18:58.273447: or viewing/combining it with volumes of differing obliquity,
201112-22:18:58,273 nipype.interface INFO:
stderr 2020-11-12T22:18:58.273447: you should consider running:
201112-22:18:58,274 nipype.interface INFO:
stderr 2020-11-12T22:18:58.273447: 3dWarp -deoblique
201112-22:18:58,274 nipype.interface INFO:
stderr 2020-11-12T22:18:58.273447: on this and other oblique datasets in the same session.
201112-22:18:58,274 nipype.interface INFO:
stderr 2020-11-12T22:18:58.273447: See 3dWarp -help for details.
201112-22:18:58,274 nipype.interface INFO:
stderr 2020-11-12T22:18:58.274698:++ Oblique dataset:/outputs/tmp/resting_preproc_sub-018_ses-1/func_slice_timing_correction_0/_scan_tgng_run-1/slice_timing/sub-018_ses-1_task-tgng_run-1_bold_calc_despike.nii.gz is 17.792933 degrees from plumb.
201112-22:19:02,507 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.func_slice_timing_correction_0.slice_timing".
201112-22:19:02,508 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.func_preproc_fsl_afni_mean_mcflirt_0.func_deoblique" in "/outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/_scan_tgng_run-1/func_deoblique".
201112-22:19:02,567 nipype.workflow INFO:
[Node] Running "func_deoblique" ("nipype.interfaces.afni.utils.Refit"), a CommandLine Interface with command:
3drefit -deoblique /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/_scan_tgng_run-1/func_deoblique/sub-018_ses-1_task-tgng_run-1_bold_calc_despike_tshift.nii.gz
201112-22:19:02,813 nipype.interface INFO:
stderr 2020-11-12T22:19:02.813695:++ 3drefit: AFNI version=AFNI_20.2.19 (Sep 27 2020) [64-bit]
201112-22:19:02,814 nipype.interface INFO:
stderr 2020-11-12T22:19:02.814026:++ Authored by: RW Cox
201112-22:19:02,828 nipype.interface INFO:
stderr 2020-11-12T22:19:02.828367:++ Processing AFNI dataset /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/_scan_tgng_run-1/func_deoblique/sub-018_ses-1_task-tgng_run-1_bold_calc_despike_tshift.nii.gz
201112-22:19:02,829 nipype.interface INFO:
stderr 2020-11-12T22:19:02.829544: + deoblique
201112-22:19:02,829 nipype.interface INFO:
stderr 2020-11-12T22:19:02.829895: + loading and re-writing dataset /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/_scan_tgng_run-1/func_deoblique/sub-018_ses-1_task-tgng_run-1_bold_calc_despike_tshift.nii.gz (/outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/_scan_tgng_run-1/func_deoblique/sub-018_ses-1_task-tgng_run-1_bold_calc_despike_tshift.nii.gz in NIFTI storage)
201112-22:19:04,934 nipype.interface INFO:
stderr 2020-11-12T22:19:04.934356:++ 3drefit processed 1 datasets
201112-22:19:05,111 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.func_preproc_fsl_afni_mean_mcflirt_0.func_deoblique".
201112-22:19:05,112 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.func_preproc_fsl_afni_mean_mcflirt_0.func_reorient" in "/outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/_scan_tgng_run-1/func_reorient".
201112-22:19:05,121 nipype.workflow INFO:
[Node] Running "func_reorient" ("nipype.interfaces.afni.utils.Resample"), a CommandLine Interface with command:
3dresample -orient RPI -prefix sub-018_ses-1_task-tgng_run-1_bold_calc_despike_tshift_resample.nii.gz -inset /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/_scan_tgng_run-1/func_reorient/sub-018_ses-1_task-tgng_run-1_bold_calc_despike_tshift.nii.gz
201112-22:19:07,849 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.func_preproc_fsl_afni_mean_mcflirt_0.func_reorient".
201112-22:19:07,850 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.func_preproc_fsl_afni_mean_mcflirt_0.func_get_mean_RPI" in "/outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/_scan_tgng_run-1/func_get_mean_RPI".
201112-22:19:07,860 nipype.workflow INFO:
[Node] Running "func_get_mean_RPI" ("nipype.interfaces.afni.utils.TStat"), a CommandLine Interface with command:
3dTstat -mean -prefix sub-018_ses-1_task-tgng_run-1_bold_calc_despike_tshift_resample_tstat.nii.gz /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/_scan_tgng_run-1/func_get_mean_RPI/sub-018_ses-1_task-tgng_run-1_bold_calc_despike_tshift_resample.nii.gz
201112-22:19:08,113 nipype.interface INFO:
stderr 2020-11-12T22:19:08.113222:++ 3dTstat: AFNI version=AFNI_20.2.19 (Sep 27 2020) [64-bit]
201112-22:19:08,113 nipype.interface INFO:
stderr 2020-11-12T22:19:08.113695:++ Authored by: KR Hammett & RW Cox
201112-22:19:08,709 nipype.interface INFO:
stderr 2020-11-12T22:19:08.709913:++ Output dataset ./sub-018_ses-1_task-tgng_run-1_bold_calc_despike_tshift_resample_tstat.nii.gz
201112-22:19:08,861 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.func_preproc_fsl_afni_mean_mcflirt_0.func_get_mean_RPI".
201112-22:19:08,862 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.func_preproc_fsl_afni_mean_mcflirt_0.func_generate_ref" in "/outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/_scan_tgng_run-1/func_generate_ref".
201112-22:19:08,871 nipype.workflow INFO:
[Node] Running "func_generate_ref" ("nipype.interfaces.afni.preprocess.Volreg"), a CommandLine Interface with command:
3dvolreg -twopass -Fourier -1Dfile sub-018_ses-1_task-tgng_run-1_bold_calc_despike_tshift_resample.1D -1Dmatrix_save sub-018_ses-1_task-tgng_run-1_bold_calc_despike_tshift_resample.aff12.1D -prefix sub-018_ses-1_task-tgng_run-1_bold_calc_despike_tshift_resample_volreg.nii.gz -base /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/_scan_tgng_run-1/func_get_mean_RPI/sub-018_ses-1_task-tgng_run-1_bold_calc_despike_tshift_resample_tstat.nii.gz -zpad 4 -maxdisp1D sub-018_ses-1_task-tgng_run-1_bold_calc_despike_tshift_resample_md.1D /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/_scan_tgng_run-1/func_generate_ref/sub-018_ses-1_task-tgng_run-1_bold_calc_despike_tshift_resample.nii.gz
201112-22:19:09,111 nipype.interface INFO:
stderr 2020-11-12T22:19:09.111071:++ 3dvolreg: AFNI version=AFNI_20.2.19 (Sep 27 2020) [64-bit]
201112-22:19:09,111 nipype.interface INFO:
stderr 2020-11-12T22:19:09.111466:++ Authored by: RW Cox
201112-22:19:09,119 nipype.interface INFO:
stderr 2020-11-12T22:19:09.119107:++ Coarse del was 10, replaced with 3
201112-22:20:55,624 nipype.interface INFO:
stderr 2020-11-12T22:20:55.624738:++ Max displacement in automask = 1.25 (mm) at sub-brick 73
201112-22:20:55,625 nipype.interface INFO:
stderr 2020-11-12T22:20:55.625283:++ Max delta displ in automask = 1.35 (mm) at sub-brick 94
201112-22:21:00,350 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.func_preproc_fsl_afni_mean_mcflirt_0.func_generate_ref".
201112-22:21:00,352 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.func_preproc_fsl_afni_mean_mcflirt_0.func_get_mean_motion" in "/outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/_scan_tgng_run-1/func_get_mean_motion".
201112-22:21:00,360 nipype.workflow INFO:
[Node] Running "func_get_mean_motion" ("nipype.interfaces.afni.utils.TStat"), a CommandLine Interface with command:
3dTstat -mean -prefix sub-018_ses-1_task-tgng_run-1_bold_calc_despike_tshift_resample_volreg_tstat.nii.gz /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/_scan_tgng_run-1/func_get_mean_motion/sub-018_ses-1_task-tgng_run-1_bold_calc_despike_tshift_resample_volreg.nii.gz
201112-22:21:00,611 nipype.interface INFO:
stderr 2020-11-12T22:21:00.610921:++ 3dTstat: AFNI version=AFNI_20.2.19 (Sep 27 2020) [64-bit]
201112-22:21:00,611 nipype.interface INFO:
stderr 2020-11-12T22:21:00.611395:++ Authored by: KR Hammett & RW Cox
201112-22:21:01,404 nipype.interface INFO:
stderr 2020-11-12T22:21:01.404370:++ Output dataset ./sub-018_ses-1_task-tgng_run-1_bold_calc_despike_tshift_resample_volreg_tstat.nii.gz
201112-22:21:01,558 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.func_preproc_fsl_afni_mean_mcflirt_0.func_get_mean_motion".
201112-22:21:01,560 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.func_preproc_fsl_afni_mean_mcflirt_0.func_motion_correct_mcflirt" in "/outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/_scan_tgng_run-1/func_motion_correct_mcflirt".
201112-22:21:01,573 nipype.workflow INFO:
[Node] Running "func_motion_correct_mcflirt" ("nipype.interfaces.fsl.preprocess.MCFLIRT"), a CommandLine Interface with command:
mcflirt -in /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/_scan_tgng_run-1/func_reorient/sub-018_ses-1_task-tgng_run-1_bold_calc_despike_tshift_resample.nii.gz -out /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/_scan_tgng_run-1/func_motion_correct_mcflirt/sub-018_ses-1_task-tgng_run-1_bold_calc_despike_tshift_resample_mcf.nii.gz -reffile /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/_scan_tgng_run-1/func_get_mean_motion/sub-018_ses-1_task-tgng_run-1_bold_calc_despike_tshift_resample_volreg_tstat.nii.gz -mats -plots -rmsabs -rmsrel
201112-22:21:22,583 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.func_preproc_fsl_afni_mean_mcflirt_0.func_motion_correct_mcflirt".
201112-22:21:22,592 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.sinker_0_motion_correct" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_tgng_run-1/sinker_0_motion_correct".
201112-22:21:22,602 nipype.workflow INFO:
[Node] Running "sinker_0_motion_correct" ("CPAC.utils.interfaces.datasink.DataSink")
201112-22:21:22,832 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.sinker_0_motion_correct".
201112-22:21:22,833 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.func_preproc_fsl_afni_mean_mcflirt_0.func_preproc_fsl_afni_mean_mcflirt_0_skullstrip.func_mean_skull" in "/outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/func_preproc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_tgng_run-1/func_mean_skull".
201112-22:21:22,844 nipype.workflow INFO:
[Node] Running "func_mean_skull" ("nipype.interfaces.afni.utils.TStat"), a CommandLine Interface with command:
3dTstat -mean -prefix sub-018_ses-1_task-tgng_run-1_bold_calc_despike_tshift_resample_mcf_tstat.nii.gz /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/func_preproc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_tgng_run-1/func_mean_skull/sub-018_ses-1_task-tgng_run-1_bold_calc_despike_tshift_resample_mcf.nii.gz
201112-22:21:23,94 nipype.interface INFO:
stderr 2020-11-12T22:21:23.094896:++ 3dTstat: AFNI version=AFNI_20.2.19 (Sep 27 2020) [64-bit]
201112-22:21:23,95 nipype.interface INFO:
stderr 2020-11-12T22:21:23.095258:++ Authored by: KR Hammett & RW Cox
201112-22:21:23,727 nipype.interface INFO:
stderr 2020-11-12T22:21:23.726953:++ Output dataset ./sub-018_ses-1_task-tgng_run-1_bold_calc_despike_tshift_resample_mcf_tstat.nii.gz
201112-22:21:23,875 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.func_preproc_fsl_afni_mean_mcflirt_0.func_preproc_fsl_afni_mean_mcflirt_0_skullstrip.func_mean_skull".
201112-22:21:23,877 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.func_preproc_fsl_afni_mean_mcflirt_0.func_preproc_fsl_afni_mean_mcflirt_0_skullstrip.skullstrip_first_pass" in "/outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/func_preproc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_tgng_run-1/skullstrip_first_pass".
201112-22:21:23,886 nipype.workflow INFO:
[Node] Running "skullstrip_first_pass" ("nipype.interfaces.fsl.preprocess.BET"), a CommandLine Interface with command:
bet /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/func_preproc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_tgng_run-1/func_mean_skull/sub-018_ses-1_task-tgng_run-1_bold_calc_despike_tshift_resample_mcf_tstat.nii.gz /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/func_preproc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_tgng_run-1/skullstrip_first_pass/sub-018_ses-1_task-tgng_run-1_bold_calc_despike_tshift_resample_mcf_tstat_brain.nii.gz -f 0.20 -m
201112-22:21:25,700 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.func_preproc_fsl_afni_mean_mcflirt_0.func_preproc_fsl_afni_mean_mcflirt_0_skullstrip.skullstrip_first_pass".
201112-22:21:25,702 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.func_preproc_fsl_afni_mean_mcflirt_0.func_preproc_fsl_afni_mean_mcflirt_0_skullstrip.skullstrip_first_dilate" in "/outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/func_preproc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_tgng_run-1/skullstrip_first_dilate".
201112-22:21:25,710 nipype.workflow INFO:
[Node] Running "skullstrip_first_dilate" ("nipype.interfaces.fsl.maths.DilateImage"), a CommandLine Interface with command:
fslmaths -dt char /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/func_preproc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_tgng_run-1/skullstrip_first_pass/sub-018_ses-1_task-tgng_run-1_bold_calc_despike_tshift_resample_mcf_tstat_brain_mask.nii.gz -kernel sphere 6.0000 -dilF /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/func_preproc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_tgng_run-1/skullstrip_first_dilate/sub-018_ses-1_task-tgng_run-1_bold_calc_despike_tshift_resample_mcf_tstat_brain_mask_dil.nii.gz
201112-22:21:26,356 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.func_preproc_fsl_afni_mean_mcflirt_0.func_preproc_fsl_afni_mean_mcflirt_0_skullstrip.skullstrip_first_dilate".
201112-22:21:26,358 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.func_preproc_fsl_afni_mean_mcflirt_0.func_preproc_fsl_afni_mean_mcflirt_0_skullstrip.skullstrip_first_mask" in "/outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/func_preproc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_tgng_run-1/skullstrip_first_mask".
201112-22:21:26,367 nipype.workflow INFO:
[Node] Running "skullstrip_first_mask" ("nipype.interfaces.fsl.maths.ApplyMask"), a CommandLine Interface with command:
fslmaths /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/func_preproc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_tgng_run-1/skullstrip_first_pass/sub-018_ses-1_task-tgng_run-1_bold_calc_despike_tshift_resample_mcf_tstat_brain.nii.gz -mas /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/func_preproc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_tgng_run-1/skullstrip_first_dilate/sub-018_ses-1_task-tgng_run-1_bold_calc_despike_tshift_resample_mcf_tstat_brain_mask_dil.nii.gz /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/func_preproc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_tgng_run-1/skullstrip_first_mask/sub-018_ses-1_task-tgng_run-1_bold_calc_despike_tshift_resample_mcf_tstat_brain_masked.nii.gz
201112-22:21:26,778 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.func_preproc_fsl_afni_mean_mcflirt_0.func_preproc_fsl_afni_mean_mcflirt_0_skullstrip.skullstrip_first_mask".
201112-22:21:26,780 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.func_preproc_fsl_afni_mean_mcflirt_0.func_preproc_fsl_afni_mean_mcflirt_0_skullstrip.unifize" in "/outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/func_preproc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_tgng_run-1/unifize".
201112-22:21:26,789 nipype.workflow INFO:
[Node] Running "unifize" ("nipype.interfaces.afni.utils.Unifize"), a CommandLine Interface with command:
3dUnifize -clfrac 0.2 -rbt 18.3 65.0 90.0 -prefix uni.nii.gz -T2 -input /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/func_preproc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_tgng_run-1/unifize/sub-018_ses-1_task-tgng_run-1_bold_calc_despike_tshift_resample_mcf_tstat_brain_masked.nii.gz
201112-22:21:27,30 nipype.interface INFO:
stderr 2020-11-12T22:21:27.030409:++ 3dUnifize: AFNI version=AFNI_20.2.19 (Sep 27 2020) [64-bit]
201112-22:22:39,991 nipype.interface INFO:
stderr 2020-11-12T22:22:39.991813: + Pre-processing: IAV..UW[s4041]Im
201112-22:22:40,13 nipype.interface INFO:
stderr 2020-11-12T22:22:40.013346:++ Output dataset ./uni.nii.gz
201112-22:22:40,13 nipype.interface INFO:
stderr 2020-11-12T22:22:40.013606:++ ===== Elapsed = 73.0 sec
201112-22:22:40,182 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.func_preproc_fsl_afni_mean_mcflirt_0.func_preproc_fsl_afni_mean_mcflirt_0_skullstrip.unifize".
201112-22:22:40,184 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.func_preproc_fsl_afni_mean_mcflirt_0.func_preproc_fsl_afni_mean_mcflirt_0_skullstrip.skullstrip_second_pass" in "/outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/func_preproc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_tgng_run-1/skullstrip_second_pass".
201112-22:22:40,193 nipype.workflow INFO:
[Node] Running "skullstrip_second_pass" ("nipype.interfaces.afni.preprocess.Automask"), a CommandLine Interface with command:
3dAutomask -apply_prefix uni_masked.nii.gz -dilate 1 -prefix uni_mask.nii.gz /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/func_preproc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_tgng_run-1/skullstrip_second_pass/uni.nii.gz
201112-22:22:40,442 nipype.interface INFO:
stderr 2020-11-12T22:22:40.442922:++ 3dAutomask: AFNI version=AFNI_20.2.19 (Sep 27 2020) [64-bit]
201112-22:22:40,443 nipype.interface INFO:
stderr 2020-11-12T22:22:40.443217:++ Authored by: Emperor Zhark
201112-22:22:40,445 nipype.interface INFO:
stderr 2020-11-12T22:22:40.445617:++ Loading dataset /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/func_preproc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_tgng_run-1/skullstrip_second_pass/uni.nii.gz
201112-22:22:40,451 nipype.interface INFO:
stderr 2020-11-12T22:22:40.451625:++ Forming automask
201112-22:22:40,453 nipype.interface INFO:
stderr 2020-11-12T22:22:40.453921: + Fixed clip level = 437.352325
201112-22:22:40,457 nipype.interface INFO:
stderr 2020-11-12T22:22:40.457821: + Used gradual clip level = 391.957977 .. 497.604401
201112-22:22:40,458 nipype.interface INFO:
stderr 2020-11-12T22:22:40.458024: + Number voxels above clip level = 28163
201112-22:22:40,458 nipype.interface INFO:
stderr 2020-11-12T22:22:40.458178: + Clustering voxels ...
201112-22:22:40,459 nipype.interface INFO:
stderr 2020-11-12T22:22:40.459277: + Largest cluster has 28149 voxels
201112-22:22:40,460 nipype.interface INFO:
stderr 2020-11-12T22:22:40.460569: + Clustering voxels ...
201112-22:22:40,461 nipype.interface INFO:
stderr 2020-11-12T22:22:40.461642: + Largest cluster has 27751 voxels
201112-22:22:40,465 nipype.interface INFO:
stderr 2020-11-12T22:22:40.465381: + Filled 561 voxels in small holes; now have 28312 voxels
201112-22:22:40,467 nipype.interface INFO:
stderr 2020-11-12T22:22:40.467635: + Filled 1 voxels in large holes; now have 28313 voxels
201112-22:22:40,468 nipype.interface INFO:
stderr 2020-11-12T22:22:40.468860: + Clustering voxels ...
201112-22:22:40,469 nipype.interface INFO:
stderr 2020-11-12T22:22:40.469889: + Largest cluster has 28311 voxels
201112-22:22:40,470 nipype.interface INFO:
stderr 2020-11-12T22:22:40.470116: + Clustering non-brain voxels ...
201112-22:22:40,470 nipype.interface INFO:
stderr 2020-11-12T22:22:40.470257: + Clustering voxels ...
201112-22:22:40,473 nipype.interface INFO:
stderr 2020-11-12T22:22:40.473164: + Largest cluster has 110921 voxels
201112-22:22:40,473 nipype.interface INFO:
stderr 2020-11-12T22:22:40.473495: + Mask now has 28343 voxels
201112-22:22:40,473 nipype.interface INFO:
stderr 2020-11-12T22:22:40.473646:++ Dilating automask
201112-22:22:40,479 nipype.interface INFO:
stderr 2020-11-12T22:22:40.479677: + Clustering voxels ...
201112-22:22:40,482 nipype.interface INFO:
stderr 2020-11-12T22:22:40.482076: + Largest cluster has 105359 voxels
201112-22:22:40,482 nipype.interface INFO:
stderr 2020-11-12T22:22:40.482405:++ 33905 voxels in the mask [out of 139264: 24.35%]
201112-22:22:40,482 nipype.interface INFO:
stderr 2020-11-12T22:22:40.482579:++ first 10 x-planes are zero [from R]
201112-22:22:40,482 nipype.interface INFO:
stderr 2020-11-12T22:22:40.482739:++ last 9 x-planes are zero [from L]
201112-22:22:40,482 nipype.interface INFO:
stderr 2020-11-12T22:22:40.482877:++ first 3 y-planes are zero [from P]
201112-22:22:40,483 nipype.interface INFO:
stderr 2020-11-12T22:22:40.483021:++ last 7 y-planes are zero [from A]
201112-22:22:40,483 nipype.interface INFO:
stderr 2020-11-12T22:22:40.483155:++ first 0 z-planes are zero [from I]
201112-22:22:40,483 nipype.interface INFO:
stderr 2020-11-12T22:22:40.483289:++ last 1 z-planes are zero [from S]
201112-22:22:40,487 nipype.interface INFO:
stderr 2020-11-12T22:22:40.487830:++ Output dataset ./uni_mask.nii.gz
201112-22:22:40,488 nipype.interface INFO:
stderr 2020-11-12T22:22:40.488003:++ applying mask to original data
201112-22:22:40,488 nipype.interface INFO:
stderr 2020-11-12T22:22:40.488669:++ Writing masked data
201112-22:22:40,501 nipype.interface INFO:
stderr 2020-11-12T22:22:40.501918:++ Output dataset ./uni_masked.nii.gz
201112-22:22:40,502 nipype.interface INFO:
stderr 2020-11-12T22:22:40.502253:++ CPU time = 0.000000 sec
201112-22:22:40,652 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.func_preproc_fsl_afni_mean_mcflirt_0.func_preproc_fsl_afni_mean_mcflirt_0_skullstrip.skullstrip_second_pass".
201112-22:22:40,654 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.func_preproc_fsl_afni_mean_mcflirt_0.func_preproc_fsl_afni_mean_mcflirt_0_skullstrip.combine_masks" in "/outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/func_preproc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_tgng_run-1/combine_masks".
201112-22:22:40,662 nipype.workflow INFO:
[Node] Running "combine_masks" ("nipype.interfaces.fsl.maths.BinaryMaths"), a CommandLine Interface with command:
fslmaths /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/func_preproc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_tgng_run-1/skullstrip_first_pass/sub-018_ses-1_task-tgng_run-1_bold_calc_despike_tshift_resample_mcf_tstat_brain_mask.nii.gz -mul /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/func_preproc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_tgng_run-1/skullstrip_second_pass/uni_mask.nii.gz /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/func_preproc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_tgng_run-1/combine_masks/sub-018_ses-1_task-tgng_run-1_bold_calc_despike_tshift_resample_mcf_tstat_brain_mask_maths.nii.gz
201112-22:22:41,61 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.func_preproc_fsl_afni_mean_mcflirt_0.func_preproc_fsl_afni_mean_mcflirt_0_skullstrip.combine_masks".
201112-22:22:41,63 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.nuisance_regressor_0_0.GlobalSignal_merge_masks" in "/outputs/tmp/resting_preproc_sub-018_ses-1/nuisance_regressor_0_0/_scan_tgng_run-1/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/GlobalSignal_merge_masks".
201112-22:22:41,70 nipype.workflow INFO:
[Node] Running "GlobalSignal_merge_masks" ("nipype.interfaces.utility.base.Merge")
201112-22:22:41,300 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.nuisance_regressor_0_0.GlobalSignal_merge_masks".
201112-22:22:41,301 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.nuisance_regressor_0_0.GlobalSignal_union_masks" in "/outputs/tmp/resting_preproc_sub-018_ses-1/nuisance_regressor_0_0/_scan_tgng_run-1/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/GlobalSignal_union_masks".
201112-22:22:41,311 nipype.workflow INFO:
[Node] Running "GlobalSignal_union_masks" ("CPAC.utils.interfaces.masktool.MaskTool"), a CommandLine Interface with command:
3dmask_tool -prefix sub-018_ses-1_task-tgng_run-1_bold_calc_despike_tshift_resample_mcf_tstat_brain_mask_maths_mask.nii.gz -input /outputs/tmp/resting_preproc_sub-018_ses-1/nuisance_regressor_0_0/_scan_tgng_run-1/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/GlobalSignal_union_masks/sub-018_ses-1_task-tgng_run-1_bold_calc_despike_tshift_resample_mcf_tstat_brain_mask_maths.nii.gz
201112-22:22:41,592 nipype.interface INFO:
stderr 2020-11-12T22:22:41.592193:++ no -frac option: defaulting to -union
201112-22:22:41,592 nipype.interface INFO:
stderr 2020-11-12T22:22:41.592576:++ processing 1 input dataset(s), NN=2...
201112-22:22:41,592 nipype.interface INFO:
stderr 2020-11-12T22:22:41.592757:++ padding all datasets by 0 (for dilations)
201112-22:22:41,599 nipype.interface INFO:
stderr 2020-11-12T22:22:41.599436:++ frac 0 over 1 volumes gives min count 0
201112-22:22:41,600 nipype.interface INFO:
stderr 2020-11-12T22:22:41.599987:++ voxel limits: 0 clipped, 33847 survived, 105417 were zero
201112-22:22:41,600 nipype.interface INFO:
stderr 2020-11-12T22:22:41.600228:++ writing result sub-018_ses-1_task-tgng_run-1_bold_calc_despike_tshift_resample_mcf_tstat_brain_mask_maths_mask.nii.gz...
201112-22:22:41,605 nipype.interface INFO:
stderr 2020-11-12T22:22:41.605929:++ Output dataset ./sub-018_ses-1_task-tgng_run-1_bold_calc_despike_tshift_resample_mcf_tstat_brain_mask_maths_mask.nii.gz
201112-22:22:41,758 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.nuisance_regressor_0_0.GlobalSignal_union_masks".
201112-22:22:41,759 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.sinker_0_functional_brain_mask" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_tgng_run-1/sinker_0_functional_brain_mask".
201112-22:22:41,769 nipype.workflow INFO:
[Node] Running "sinker_0_functional_brain_mask" ("CPAC.utils.interfaces.datasink.DataSink")
201112-22:22:41,997 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.sinker_0_functional_brain_mask".
201112-22:22:41,999 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.functional_brain_mask_derivative_0" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_tgng_run-1/functional_brain_mask_derivative_0".
201112-22:22:42,6 nipype.workflow INFO:
[Node] Running "functional_brain_mask_derivative_0" ("CPAC.utils.interfaces.function.Function")
201112-22:22:42,218 nipype.workflow INFO:
[Node] Setting-up "functional_brain_mask_derivative" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_tgng_run-1/functional_brain_mask_derivative_0/functional_brain_mask_derivative".
201112-22:22:42,226 nipype.workflow INFO:
[Node] Running "functional_brain_mask_derivative" ("nipype.interfaces.afni.utils.Resample"), a CommandLine Interface with command:
3dresample -prefix sub-018_ses-1_task-tgng_run-1_bold_calc_despike_tshift_resample_mcf_tstat_brain_mask_maths_resample.nii.gz -rmode Cu -dxyz 2.000000 2.000000 2.000000 -inset /outputs/tmp/resting_preproc_sub-018_ses-1/_scan_tgng_run-1/functional_brain_mask_derivative_0/functional_brain_mask_derivative/sub-018_ses-1_task-tgng_run-1_bold_calc_despike_tshift_resample_mcf_tstat_brain_mask_maths.nii.gz
201112-22:22:42,705 nipype.workflow INFO:
[Node] Finished "functional_brain_mask_derivative".
201112-22:22:42,721 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.functional_brain_mask_derivative_0".
201112-22:22:42,722 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.func_preproc_fsl_afni_mean_mcflirt_0.func_preproc_fsl_afni_mean_mcflirt_0_skullstrip.func_extract_brain" in "/outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/func_preproc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_tgng_run-1/func_extract_brain".
201112-22:22:42,729 nipype.workflow INFO:
[Node] Running "func_extract_brain" ("nipype.interfaces.afni.utils.Calc"), a CommandLine Interface with command:
3dcalc -a /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/_scan_tgng_run-1/func_motion_correct_mcflirt/sub-018_ses-1_task-tgng_run-1_bold_calc_despike_tshift_resample_mcf.nii.gz -b /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/func_preproc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_tgng_run-1/combine_masks/sub-018_ses-1_task-tgng_run-1_bold_calc_despike_tshift_resample_mcf_tstat_brain_mask_maths.nii.gz -expr "a*b" -prefix sub-018_ses-1_task-tgng_run-1_bold_calc_despike_tshift_resample_mcf_calc.nii.gz
201112-22:22:42,973 nipype.interface INFO:
stderr 2020-11-12T22:22:42.973872:++ 3dcalc: AFNI version=AFNI_20.2.19 (Sep 27 2020) [64-bit]
201112-22:22:42,974 nipype.interface INFO:
stderr 2020-11-12T22:22:42.974189:++ Authored by: A cast of thousands
201112-22:22:46,1 nipype.interface INFO:
stderr 2020-11-12T22:22:46.001349:++ Output dataset ./sub-018_ses-1_task-tgng_run-1_bold_calc_despike_tshift_resample_mcf_calc.nii.gz
201112-22:22:46,182 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.func_preproc_fsl_afni_mean_mcflirt_0.func_preproc_fsl_afni_mean_mcflirt_0_skullstrip.func_extract_brain".
201112-22:22:46,183 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.func_preproc_fsl_afni_mean_mcflirt_0.func_normalize" in "/outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/_scan_tgng_run-1/func_normalize".
201112-22:22:46,191 nipype.workflow INFO:
[Node] Running "func_normalize" ("nipype.interfaces.fsl.utils.ImageMaths"), a CommandLine Interface with command:
fslmaths /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/func_preproc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_tgng_run-1/func_extract_brain/sub-018_ses-1_task-tgng_run-1_bold_calc_despike_tshift_resample_mcf_calc.nii.gz -ing 10000 /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/_scan_tgng_run-1/func_normalize/sub-018_ses-1_task-tgng_run-1_bold_calc_despike_tshift_resample_mcf_calc_maths.nii.gz -odt float
201112-22:22:54,207 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.func_preproc_fsl_afni_mean_mcflirt_0.func_normalize".
201112-22:22:54,208 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.nuisance_regressor_0_0.GlobalSignal_mean" in "/outputs/tmp/resting_preproc_sub-018_ses-1/nuisance_regressor_0_0/_scan_tgng_run-1/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/GlobalSignal_mean".
201112-22:22:54,217 nipype.workflow INFO:
[Node] Running "GlobalSignal_mean" ("nipype.interfaces.afni.preprocess.ROIStats"), a CommandLine Interface with command:
3dROIstats -mask /outputs/tmp/resting_preproc_sub-018_ses-1/nuisance_regressor_0_0/_scan_tgng_run-1/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/GlobalSignal_union_masks/sub-018_ses-1_task-tgng_run-1_bold_calc_despike_tshift_resample_mcf_tstat_brain_mask_maths_mask.nii.gz -1Dformat /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/_scan_tgng_run-1/func_normalize/sub-018_ses-1_task-tgng_run-1_bold_calc_despike_tshift_resample_mcf_calc_maths.nii.gz
201112-22:22:55,82 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.nuisance_regressor_0_0.GlobalSignal_mean".
201112-22:22:55,83 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.nuisance_regressor_0_0.functional_mean" in "/outputs/tmp/resting_preproc_sub-018_ses-1/nuisance_regressor_0_0/_scan_tgng_run-1/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/functional_mean".
201112-22:22:55,92 nipype.workflow INFO:
[Node] Running "functional_mean" ("nipype.interfaces.afni.utils.TStat"), a CommandLine Interface with command:
3dTstat -mean -prefix sub-018_ses-1_task-tgng_run-1_bold_calc_despike_tshift_resample_mcf_calc_maths_tstat.nii.gz /outputs/tmp/resting_preproc_sub-018_ses-1/nuisance_regressor_0_0/_scan_tgng_run-1/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/functional_mean/sub-018_ses-1_task-tgng_run-1_bold_calc_despike_tshift_resample_mcf_calc_maths.nii.gz
201112-22:22:55,337 nipype.interface INFO:
stderr 2020-11-12T22:22:55.337816:++ 3dTstat: AFNI version=AFNI_20.2.19 (Sep 27 2020) [64-bit]
201112-22:22:55,338 nipype.interface INFO:
stderr 2020-11-12T22:22:55.338125:++ Authored by: KR Hammett & RW Cox
201112-22:22:55,904 nipype.interface INFO:
stderr 2020-11-12T22:22:55.904764:++ Output dataset ./sub-018_ses-1_task-tgng_run-1_bold_calc_despike_tshift_resample_mcf_calc_maths_tstat.nii.gz
201112-22:22:56,58 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.nuisance_regressor_0_0.functional_mean".
201112-22:22:56,60 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.qc_snr_0.std_dev" in "/outputs/tmp/resting_preproc_sub-018_ses-1/qc_snr_0/_scan_tgng_run-1/std_dev".
201112-22:22:56,69 nipype.workflow INFO:
[Node] Running "std_dev" ("nipype.interfaces.afni.utils.TStat"), a CommandLine Interface with command:
3dTstat -stdev -mask /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/func_preproc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_tgng_run-1/combine_masks/sub-018_ses-1_task-tgng_run-1_bold_calc_despike_tshift_resample_mcf_tstat_brain_mask_maths.nii.gz -prefix sub-018_ses-1_task-tgng_run-1_bold_calc_despike_tshift_resample_mcf_calc_maths_tstat.nii.gz /outputs/tmp/resting_preproc_sub-018_ses-1/qc_snr_0/_scan_tgng_run-1/std_dev/sub-018_ses-1_task-tgng_run-1_bold_calc_despike_tshift_resample_mcf_calc_maths.nii.gz
201112-22:22:56,310 nipype.interface INFO:
stderr 2020-11-12T22:22:56.310318:++ 3dTstat: AFNI version=AFNI_20.2.19 (Sep 27 2020) [64-bit]
201112-22:22:56,310 nipype.interface INFO:
stderr 2020-11-12T22:22:56.310665:++ Authored by: KR Hammett & RW Cox
201112-22:22:56,820 nipype.interface INFO:
stderr 2020-11-12T22:22:56.820739:++ Output dataset ./sub-018_ses-1_task-tgng_run-1_bold_calc_despike_tshift_resample_mcf_calc_maths_tstat.nii.gz
201112-22:22:56,970 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.qc_snr_0.std_dev".
201112-22:22:56,971 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.sinker_0_functional_preprocessed" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_tgng_run-1/sinker_0_functional_preprocessed".
201112-22:22:56,980 nipype.workflow INFO:
[Node] Running "sinker_0_functional_preprocessed" ("CPAC.utils.interfaces.datasink.DataSink")
201112-22:22:57,209 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.sinker_0_functional_preprocessed".
201112-22:22:57,211 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.func_preproc_fsl_afni_mean_mcflirt_0.func_mask_normalize" in "/outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/_scan_tgng_run-1/func_mask_normalize".
201112-22:22:57,219 nipype.workflow INFO:
[Node] Running "func_mask_normalize" ("nipype.interfaces.fsl.utils.ImageMaths"), a CommandLine Interface with command:
fslmaths /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/_scan_tgng_run-1/func_normalize/sub-018_ses-1_task-tgng_run-1_bold_calc_despike_tshift_resample_mcf_calc_maths.nii.gz -Tmin -bin /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/_scan_tgng_run-1/func_mask_normalize/sub-018_ses-1_task-tgng_run-1_bold_calc_despike_tshift_resample_mcf_calc_maths_maths.nii.gz -odt char
201112-22:22:58,330 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.func_preproc_fsl_afni_mean_mcflirt_0.func_mask_normalize".
201112-22:22:58,331 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.sinker_0_functional_preprocessed_mask" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_tgng_run-1/sinker_0_functional_preprocessed_mask".
201112-22:22:58,340 nipype.workflow INFO:
[Node] Running "sinker_0_functional_preprocessed_mask" ("CPAC.utils.interfaces.datasink.DataSink")
201112-22:22:58,570 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.sinker_0_functional_preprocessed_mask".
201112-22:22:58,572 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.func_preproc_fsl_afni_mean_mcflirt_0.func_mean" in "/outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/_scan_tgng_run-1/func_mean".
201112-22:22:58,580 nipype.workflow INFO:
[Node] Running "func_mean" ("nipype.interfaces.afni.utils.TStat"), a CommandLine Interface with command:
3dTstat -mean -prefix sub-018_ses-1_task-tgng_run-1_bold_calc_despike_tshift_resample_mcf_calc_tstat.nii.gz /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/_scan_tgng_run-1/func_mean/sub-018_ses-1_task-tgng_run-1_bold_calc_despike_tshift_resample_mcf_calc.nii.gz
201112-22:22:58,818 nipype.interface INFO:
stderr 2020-11-12T22:22:58.818315:++ 3dTstat: AFNI version=AFNI_20.2.19 (Sep 27 2020) [64-bit]
201112-22:22:58,818 nipype.interface INFO:
stderr 2020-11-12T22:22:58.818865:++ Authored by: KR Hammett & RW Cox
201112-22:22:59,373 nipype.interface INFO:
stderr 2020-11-12T22:22:59.373207:++ Output dataset ./sub-018_ses-1_task-tgng_run-1_bold_calc_despike_tshift_resample_mcf_calc_tstat.nii.gz
201112-22:22:59,547 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.func_preproc_fsl_afni_mean_mcflirt_0.func_mean".
201112-22:22:59,549 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.sinker_0_mean_functional" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_tgng_run-1/sinker_0_mean_functional".
201112-22:22:59,558 nipype.workflow INFO:
[Node] Running "sinker_0_mean_functional" ("CPAC.utils.interfaces.datasink.DataSink")
201112-22:22:59,787 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.sinker_0_mean_functional".
201112-22:22:59,788 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.func_preproc_fsl_afni_mean_mcflirt_0.norm_motion_params" in "/outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/_scan_tgng_run-1/norm_motion_params".
201112-22:22:59,796 nipype.workflow INFO:
[Node] Running "norm_motion_params" ("CPAC.utils.interfaces.function.Function")
201112-22:23:00,28 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.func_preproc_fsl_afni_mean_mcflirt_0.norm_motion_params".
201112-22:23:00,29 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.sinker_0_slice_time_corrected" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_tgng_run-1/sinker_0_slice_time_corrected".
201112-22:23:00,38 nipype.workflow INFO:
[Node] Running "sinker_0_slice_time_corrected" ("CPAC.utils.interfaces.datasink.DataSink")
201112-22:23:00,269 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.sinker_0_slice_time_corrected".
201112-22:23:00,270 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.sinker_0_raw_functional" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_tgng_run-1/sinker_0_raw_functional".
201112-22:23:00,280 nipype.workflow INFO:
[Node] Running "sinker_0_raw_functional" ("CPAC.utils.interfaces.datasink.DataSink")
201112-22:23:04,298 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.sinker_0_raw_functional".
201112-22:23:04,300 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.func_gather_0.check_func_scan" in "/outputs/tmp/resting_preproc_sub-018_ses-1/func_gather_0/_scan_tgng_run-1/check_func_scan".
201112-22:23:04,335 nipype.workflow INFO:
[Node] Running "check_func_scan" ("CPAC.utils.interfaces.function.Function")
201112-22:23:04,712 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.func_gather_0.check_func_scan".
201112-22:23:04,720 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.func_gather_0.select_scan_params" in "/outputs/tmp/resting_preproc_sub-018_ses-1/func_gather_0/_scan_rest_run-1/select_scan_params".
201112-22:23:04,750 nipype.workflow INFO:
[Node] Running "select_scan_params" ("CPAC.utils.interfaces.function.Function")
201112-22:23:04,983 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.func_gather_0.select_scan_params".
201112-22:23:04,993 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.func_gather_0.s3_scan_params" in "/outputs/tmp/resting_preproc_sub-018_ses-1/func_gather_0/_scan_rest_run-1/s3_scan_params".
201112-22:23:05,5 nipype.workflow INFO:
[Node] Running "s3_scan_params" ("CPAC.utils.interfaces.function.Function")
201112-22:23:05,240 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.func_gather_0.s3_scan_params".
201112-22:23:05,243 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.scan_params_0" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_rest_run-1/scan_params_0".
201112-22:23:05,275 nipype.workflow INFO:
[Node] Running "scan_params_0" ("CPAC.utils.interfaces.function.Function")
201112-22:23:05,509 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.scan_params_0".
201112-22:23:05,511 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.func_gather_0.selectrest" in "/outputs/tmp/resting_preproc_sub-018_ses-1/func_gather_0/_scan_rest_run-1/selectrest".
201112-22:23:05,545 nipype.workflow INFO:
[Node] Running "selectrest" ("CPAC.utils.interfaces.function.Function")
201112-22:23:05,786 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.func_gather_0.selectrest".
201112-22:23:05,796 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.func_gather_0.check_for_s3" in "/outputs/tmp/resting_preproc_sub-018_ses-1/func_gather_0/_scan_rest_run-1/check_for_s3".
201112-22:23:05,803 nipype.workflow INFO:
[Node] Running "check_for_s3" ("CPAC.utils.interfaces.function.Function")
201112-22:23:06,99 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.func_gather_0.check_for_s3".
201112-22:23:06,100 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.edit_func_0.func_get_idx" in "/outputs/tmp/resting_preproc_sub-018_ses-1/edit_func_0/_scan_rest_run-1/func_get_idx".
201112-22:23:06,110 nipype.workflow INFO:
[Node] Running "func_get_idx" ("nipype.interfaces.utility.wrappers.Function")
201112-22:23:06,346 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.edit_func_0.func_get_idx".
201112-22:23:06,348 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.edit_func_0.func_drop_trs" in "/outputs/tmp/resting_preproc_sub-018_ses-1/edit_func_0/_scan_rest_run-1/func_drop_trs".
201112-22:23:06,358 nipype.workflow INFO:
[Node] Running "func_drop_trs" ("nipype.interfaces.afni.utils.Calc"), a CommandLine Interface with command:
3dcalc -a /bids_dataset/sub-018/ses-1/func/sub-018_ses-1_task-rest_run-1_bold.nii.gz[0..179] -expr "a" -prefix sub-018_ses-1_task-rest_run-1_bold_calc.nii.gz
201112-22:23:06,612 nipype.interface INFO:
stderr 2020-11-12T22:23:06.612877:++ 3dcalc: AFNI version=AFNI_20.2.19 (Sep 27 2020) [64-bit]
201112-22:23:06,613 nipype.interface INFO:
stderr 2020-11-12T22:23:06.613313:++ Authored by: A cast of thousands
201112-22:23:19,717 nipype.interface INFO:
stderr 2020-11-12T22:23:19.716973:++ Output dataset ./sub-018_ses-1_task-rest_run-1_bold_calc.nii.gz
201112-22:23:19,893 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.edit_func_0.func_drop_trs".
201112-22:23:19,894 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_deoblique" in "/outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/_scan_rest_run-1/func_deoblique".
201112-22:23:19,951 nipype.workflow INFO:
[Node] Running "func_deoblique" ("nipype.interfaces.afni.utils.Refit"), a CommandLine Interface with command:
3drefit -deoblique /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/_scan_rest_run-1/func_deoblique/sub-018_ses-1_task-rest_run-1_bold_calc.nii.gz
201112-22:23:20,201 nipype.interface INFO:
stderr 2020-11-12T22:23:20.201726:++ 3drefit: AFNI version=AFNI_20.2.19 (Sep 27 2020) [64-bit]
201112-22:23:20,202 nipype.interface INFO:
stderr 2020-11-12T22:23:20.202062:++ Authored by: RW Cox
201112-22:23:20,214 nipype.interface INFO:
stderr 2020-11-12T22:23:20.214896:++ Processing AFNI dataset /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/_scan_rest_run-1/func_deoblique/sub-018_ses-1_task-rest_run-1_bold_calc.nii.gz
201112-22:23:20,215 nipype.interface INFO:
stderr 2020-11-12T22:23:20.215629: + deoblique
201112-22:23:20,215 nipype.interface INFO:
stderr 2020-11-12T22:23:20.215829: + loading and re-writing dataset /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/_scan_rest_run-1/func_deoblique/sub-018_ses-1_task-rest_run-1_bold_calc.nii.gz (/outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/_scan_rest_run-1/func_deoblique/sub-018_ses-1_task-rest_run-1_bold_calc.nii.gz in NIFTI storage)
201112-22:23:25,909 nipype.interface INFO:
stderr 2020-11-12T22:23:25.909695:++ 3drefit processed 1 datasets
201112-22:23:26,82 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_deoblique".
201112-22:23:26,83 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_reorient" in "/outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/_scan_rest_run-1/func_reorient".
201112-22:23:26,92 nipype.workflow INFO:
[Node] Running "func_reorient" ("nipype.interfaces.afni.utils.Resample"), a CommandLine Interface with command:
3dresample -orient RPI -prefix sub-018_ses-1_task-rest_run-1_bold_calc_resample.nii.gz -inset /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/_scan_rest_run-1/func_reorient/sub-018_ses-1_task-rest_run-1_bold_calc.nii.gz
201112-22:23:32,560 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_reorient".
201112-22:23:32,561 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_get_mean_RPI" in "/outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/_scan_rest_run-1/func_get_mean_RPI".
201112-22:23:32,570 nipype.workflow INFO:
[Node] Running "func_get_mean_RPI" ("nipype.interfaces.afni.utils.TStat"), a CommandLine Interface with command:
3dTstat -mean -prefix sub-018_ses-1_task-rest_run-1_bold_calc_resample_tstat.nii.gz /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/_scan_rest_run-1/func_get_mean_RPI/sub-018_ses-1_task-rest_run-1_bold_calc_resample.nii.gz
201112-22:23:32,819 nipype.interface INFO:
stderr 2020-11-12T22:23:32.819357:++ 3dTstat: AFNI version=AFNI_20.2.19 (Sep 27 2020) [64-bit]
201112-22:23:32,820 nipype.interface INFO:
stderr 2020-11-12T22:23:32.819992:++ Authored by: KR Hammett & RW Cox
201112-22:23:33,387 nipype.interface INFO:
stderr 2020-11-12T22:23:33.387186:++ Output dataset ./sub-018_ses-1_task-rest_run-1_bold_calc_resample_tstat.nii.gz
201112-22:23:33,539 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_get_mean_RPI".
201112-22:23:33,540 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_generate_ref" in "/outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/_scan_rest_run-1/func_generate_ref".
201112-22:23:33,551 nipype.workflow INFO:
[Node] Running "func_generate_ref" ("nipype.interfaces.afni.preprocess.Volreg"), a CommandLine Interface with command:
3dvolreg -twopass -Fourier -1Dfile sub-018_ses-1_task-rest_run-1_bold_calc_resample.1D -1Dmatrix_save sub-018_ses-1_task-rest_run-1_bold_calc_resample.aff12.1D -prefix sub-018_ses-1_task-rest_run-1_bold_calc_resample_volreg.nii.gz -base /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/_scan_rest_run-1/func_get_mean_RPI/sub-018_ses-1_task-rest_run-1_bold_calc_resample_tstat.nii.gz -zpad 4 -maxdisp1D sub-018_ses-1_task-rest_run-1_bold_calc_resample_md.1D /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/_scan_rest_run-1/func_generate_ref/sub-018_ses-1_task-rest_run-1_bold_calc_resample.nii.gz
201112-22:23:33,805 nipype.interface INFO:
stderr 2020-11-12T22:23:33.805756:++ 3dvolreg: AFNI version=AFNI_20.2.19 (Sep 27 2020) [64-bit]
201112-22:23:33,806 nipype.interface INFO:
stderr 2020-11-12T22:23:33.806272:++ Authored by: RW Cox
201112-22:23:33,819 nipype.interface INFO:
stderr 2020-11-12T22:23:33.819531:++ Coarse del was 10, replaced with 3
201112-22:26:03,698 nipype.interface INFO:
stderr 2020-11-12T22:26:03.698793:++ Max displacement in automask = 32.55 (mm) at sub-brick 169
201112-22:26:03,699 nipype.interface INFO:
stderr 2020-11-12T22:26:03.699376:++ Max delta displ in automask = 25.99 (mm) at sub-brick 169
201112-22:26:09,251 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_generate_ref".
201112-22:26:09,253 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_get_mean_motion" in "/outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/_scan_rest_run-1/func_get_mean_motion".
201112-22:26:09,259 nipype.workflow INFO:
[Node] Running "func_get_mean_motion" ("nipype.interfaces.afni.utils.TStat"), a CommandLine Interface with command:
3dTstat -mean -prefix sub-018_ses-1_task-rest_run-1_bold_calc_resample_volreg_tstat.nii.gz /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/_scan_rest_run-1/func_get_mean_motion/sub-018_ses-1_task-rest_run-1_bold_calc_resample_volreg.nii.gz
201112-22:26:09,514 nipype.interface INFO:
stderr 2020-11-12T22:26:09.514062:++ 3dTstat: AFNI version=AFNI_20.2.19 (Sep 27 2020) [64-bit]
201112-22:26:09,514 nipype.interface INFO:
stderr 2020-11-12T22:26:09.514398:++ Authored by: KR Hammett & RW Cox
201112-22:26:10,89 nipype.interface INFO:
stderr 2020-11-12T22:26:10.088949:++ Output dataset ./sub-018_ses-1_task-rest_run-1_bold_calc_resample_volreg_tstat.nii.gz
201112-22:26:10,239 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_get_mean_motion".
201112-22:26:10,240 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_motion_correct_mcflirt" in "/outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/_scan_rest_run-1/func_motion_correct_mcflirt".
201112-22:26:10,250 nipype.workflow INFO:
[Node] Running "func_motion_correct_mcflirt" ("nipype.interfaces.fsl.preprocess.MCFLIRT"), a CommandLine Interface with command:
mcflirt -in /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/_scan_rest_run-1/func_reorient/sub-018_ses-1_task-rest_run-1_bold_calc_resample.nii.gz -out /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/_scan_rest_run-1/func_motion_correct_mcflirt/sub-018_ses-1_task-rest_run-1_bold_calc_resample_mcf.nii.gz -reffile /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/_scan_rest_run-1/func_get_mean_motion/sub-018_ses-1_task-rest_run-1_bold_calc_resample_volreg_tstat.nii.gz -mats -plots -rmsabs -rmsrel
201112-22:26:56,106 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_motion_correct_mcflirt".
201112-22:26:56,114 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.gen_motion_stats_before_stc_fsl_afni_mean_mcflirt_0.calculate_FDJ" in "/outputs/tmp/resting_preproc_sub-018_ses-1/gen_motion_stats_before_stc_fsl_afni_mean_mcflirt_0/_scan_rest_run-1/calculate_FDJ".
201112-22:26:56,124 nipype.workflow INFO:
[Node] Running "calculate_FDJ" ("CPAC.utils.interfaces.function.Function")
201112-22:26:56,352 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.gen_motion_stats_before_stc_fsl_afni_mean_mcflirt_0.calculate_FDJ".
201112-22:26:56,353 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.sinker_0_frame_wise_displacement_jenkinson" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_rest_run-1/sinker_0_frame_wise_displacement_jenkinson".
201112-22:26:56,362 nipype.workflow INFO:
[Node] Running "sinker_0_frame_wise_displacement_jenkinson" ("CPAC.utils.interfaces.datasink.DataSink")
201112-22:26:56,592 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.sinker_0_frame_wise_displacement_jenkinson".
201112-22:26:56,594 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.sinker_0_max_displacement" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_rest_run-1/sinker_0_max_displacement".
201112-22:26:56,605 nipype.workflow INFO:
[Node] Running "sinker_0_max_displacement" ("CPAC.utils.interfaces.datasink.DataSink")
201112-22:26:56,834 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.sinker_0_max_displacement".
201112-22:26:56,836 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.sinker_0_coordinate_transformation" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_rest_run-1/sinker_0_coordinate_transformation".
201112-22:26:56,862 nipype.workflow INFO:
[Node] Running "sinker_0_coordinate_transformation" ("CPAC.utils.interfaces.datasink.DataSink")
201112-22:26:57,141 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.sinker_0_coordinate_transformation".
201112-22:26:57,155 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip.func_mean_skull" in "/outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_rest_run-1/func_mean_skull".
201112-22:26:57,166 nipype.workflow INFO:
[Node] Running "func_mean_skull" ("nipype.interfaces.afni.utils.TStat"), a CommandLine Interface with command:
3dTstat -mean -prefix sub-018_ses-1_task-rest_run-1_bold_calc_resample_mcf_tstat.nii.gz /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_rest_run-1/func_mean_skull/sub-018_ses-1_task-rest_run-1_bold_calc_resample_mcf.nii.gz
201112-22:26:57,431 nipype.interface INFO:
stderr 2020-11-12T22:26:57.431548:++ 3dTstat: AFNI version=AFNI_20.2.19 (Sep 27 2020) [64-bit]
201112-22:26:57,431 nipype.interface INFO:
stderr 2020-11-12T22:26:57.431882:++ Authored by: KR Hammett & RW Cox
201112-22:26:58,33 nipype.interface INFO:
stderr 2020-11-12T22:26:58.033875:++ Output dataset ./sub-018_ses-1_task-rest_run-1_bold_calc_resample_mcf_tstat.nii.gz
201112-22:26:58,185 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip.func_mean_skull".
201112-22:26:58,187 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip.skullstrip_first_pass" in "/outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_rest_run-1/skullstrip_first_pass".
201112-22:26:58,195 nipype.workflow INFO:
[Node] Running "skullstrip_first_pass" ("nipype.interfaces.fsl.preprocess.BET"), a CommandLine Interface with command:
bet /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_rest_run-1/func_mean_skull/sub-018_ses-1_task-rest_run-1_bold_calc_resample_mcf_tstat.nii.gz /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_rest_run-1/skullstrip_first_pass/sub-018_ses-1_task-rest_run-1_bold_calc_resample_mcf_tstat_brain.nii.gz -f 0.20 -m
201112-22:27:00,29 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip.skullstrip_first_pass".
201112-22:27:00,31 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip.skullstrip_first_dilate" in "/outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_rest_run-1/skullstrip_first_dilate".
201112-22:27:00,38 nipype.workflow INFO:
[Node] Running "skullstrip_first_dilate" ("nipype.interfaces.fsl.maths.DilateImage"), a CommandLine Interface with command:
fslmaths -dt char /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_rest_run-1/skullstrip_first_pass/sub-018_ses-1_task-rest_run-1_bold_calc_resample_mcf_tstat_brain_mask.nii.gz -kernel sphere 6.0000 -dilF /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_rest_run-1/skullstrip_first_dilate/sub-018_ses-1_task-rest_run-1_bold_calc_resample_mcf_tstat_brain_mask_dil.nii.gz
201112-22:27:00,559 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip.skullstrip_first_dilate".
201112-22:27:00,560 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip.skullstrip_first_mask" in "/outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_rest_run-1/skullstrip_first_mask".
201112-22:27:00,569 nipype.workflow INFO:
[Node] Running "skullstrip_first_mask" ("nipype.interfaces.fsl.maths.ApplyMask"), a CommandLine Interface with command:
fslmaths /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_rest_run-1/skullstrip_first_pass/sub-018_ses-1_task-rest_run-1_bold_calc_resample_mcf_tstat_brain.nii.gz -mas /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_rest_run-1/skullstrip_first_dilate/sub-018_ses-1_task-rest_run-1_bold_calc_resample_mcf_tstat_brain_mask_dil.nii.gz /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_rest_run-1/skullstrip_first_mask/sub-018_ses-1_task-rest_run-1_bold_calc_resample_mcf_tstat_brain_masked.nii.gz
201112-22:27:00,976 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip.skullstrip_first_mask".
201112-22:27:00,978 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip.unifize" in "/outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_rest_run-1/unifize".
201112-22:27:00,987 nipype.workflow INFO:
[Node] Running "unifize" ("nipype.interfaces.afni.utils.Unifize"), a CommandLine Interface with command:
3dUnifize -clfrac 0.2 -rbt 18.3 65.0 90.0 -prefix uni.nii.gz -T2 -input /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_rest_run-1/unifize/sub-018_ses-1_task-rest_run-1_bold_calc_resample_mcf_tstat_brain_masked.nii.gz
201112-22:27:01,229 nipype.interface INFO:
stderr 2020-11-12T22:27:01.229565:++ 3dUnifize: AFNI version=AFNI_20.2.19 (Sep 27 2020) [64-bit]
201112-22:27:55,680 nipype.interface INFO:
stderr 2020-11-12T22:27:55.680234: + Pre-processing: IAV..UW[s3169]Im
201112-22:27:55,692 nipype.interface INFO:
stderr 2020-11-12T22:27:55.692233:++ Output dataset ./uni.nii.gz
201112-22:27:55,692 nipype.interface INFO:
stderr 2020-11-12T22:27:55.692514:++ ===== Elapsed = 54.5 sec
201112-22:27:55,865 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip.unifize".
201112-22:27:55,866 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip.skullstrip_second_pass" in "/outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_rest_run-1/skullstrip_second_pass".
201112-22:27:55,875 nipype.workflow INFO:
[Node] Running "skullstrip_second_pass" ("nipype.interfaces.afni.preprocess.Automask"), a CommandLine Interface with command:
3dAutomask -apply_prefix uni_masked.nii.gz -dilate 1 -prefix uni_mask.nii.gz /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_rest_run-1/skullstrip_second_pass/uni.nii.gz
201112-22:27:56,128 nipype.interface INFO:
stderr 2020-11-12T22:27:56.128104:++ 3dAutomask: AFNI version=AFNI_20.2.19 (Sep 27 2020) [64-bit]
201112-22:27:56,128 nipype.interface INFO:
stderr 2020-11-12T22:27:56.128787:++ Authored by: Emperor Zhark
201112-22:27:56,131 nipype.interface INFO:
stderr 2020-11-12T22:27:56.131420:++ Loading dataset /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_rest_run-1/skullstrip_second_pass/uni.nii.gz
201112-22:27:56,136 nipype.interface INFO:
stderr 2020-11-12T22:27:56.136503:++ Forming automask
201112-22:27:56,138 nipype.interface INFO:
stderr 2020-11-12T22:27:56.138145: + Fixed clip level = 477.363403
201112-22:27:56,142 nipype.interface INFO:
stderr 2020-11-12T22:27:56.142076: + Used gradual clip level = 429.920593 .. 540.676025
201112-22:27:56,142 nipype.interface INFO:
stderr 2020-11-12T22:27:56.142319: + Number voxels above clip level = 16496
201112-22:27:56,142 nipype.interface INFO:
stderr 2020-11-12T22:27:56.142516: + Clustering voxels ...
201112-22:27:56,143 nipype.interface INFO:
stderr 2020-11-12T22:27:56.143730: + Largest cluster has 16495 voxels
201112-22:27:56,145 nipype.interface INFO:
stderr 2020-11-12T22:27:56.145200: + Clustering voxels ...
201112-22:27:56,146 nipype.interface INFO:
stderr 2020-11-12T22:27:56.146001: + Largest cluster has 16375 voxels
201112-22:27:56,149 nipype.interface INFO:
stderr 2020-11-12T22:27:56.149304: + Filled 187 voxels in small holes; now have 16562 voxels
201112-22:27:56,151 nipype.interface INFO:
stderr 2020-11-12T22:27:56.151256: + Clustering voxels ...
201112-22:27:56,152 nipype.interface INFO:
stderr 2020-11-12T22:27:56.152048: + Largest cluster has 16562 voxels
201112-22:27:56,152 nipype.interface INFO:
stderr 2020-11-12T22:27:56.152272: + Clustering non-brain voxels ...
201112-22:27:56,152 nipype.interface INFO:
stderr 2020-11-12T22:27:56.152412: + Clustering voxels ...
201112-22:27:56,155 nipype.interface INFO:
stderr 2020-11-12T22:27:56.155516: + Largest cluster has 118594 voxels
201112-22:27:56,155 nipype.interface INFO:
stderr 2020-11-12T22:27:56.155839: + Mask now has 16574 voxels
201112-22:27:56,156 nipype.interface INFO:
stderr 2020-11-12T22:27:56.155990:++ Dilating automask
201112-22:27:56,161 nipype.interface INFO:
stderr 2020-11-12T22:27:56.161942: + Clustering voxels ...
201112-22:27:56,164 nipype.interface INFO:
stderr 2020-11-12T22:27:56.164642: + Largest cluster has 114749 voxels
201112-22:27:56,164 nipype.interface INFO:
stderr 2020-11-12T22:27:56.164964:++ 20419 voxels in the mask [out of 135168: 15.11%]
201112-22:27:56,165 nipype.interface INFO:
stderr 2020-11-12T22:27:56.165135:++ first 13 x-planes are zero [from R]
201112-22:27:56,165 nipype.interface INFO:
stderr 2020-11-12T22:27:56.165297:++ last 12 x-planes are zero [from L]
201112-22:27:56,165 nipype.interface INFO:
stderr 2020-11-12T22:27:56.165441:++ first 7 y-planes are zero [from P]
201112-22:27:56,165 nipype.interface INFO:
stderr 2020-11-12T22:27:56.165599:++ last 10 y-planes are zero [from A]
201112-22:27:56,165 nipype.interface INFO:
stderr 2020-11-12T22:27:56.165736:++ first 2 z-planes are zero [from I]
201112-22:27:56,165 nipype.interface INFO:
stderr 2020-11-12T22:27:56.165883:++ last 4 z-planes are zero [from S]
201112-22:27:56,169 nipype.interface INFO:
stderr 2020-11-12T22:27:56.169846:++ Output dataset ./uni_mask.nii.gz
201112-22:27:56,170 nipype.interface INFO:
stderr 2020-11-12T22:27:56.170019:++ applying mask to original data
201112-22:27:56,170 nipype.interface INFO:
stderr 2020-11-12T22:27:56.170673:++ Writing masked data
201112-22:27:56,181 nipype.interface INFO:
stderr 2020-11-12T22:27:56.181480:++ Output dataset ./uni_masked.nii.gz
201112-22:27:56,181 nipype.interface INFO:
stderr 2020-11-12T22:27:56.181815:++ CPU time = 0.000000 sec
201112-22:27:56,332 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip.skullstrip_second_pass".
201112-22:27:56,334 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip.combine_masks" in "/outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_rest_run-1/combine_masks".
201112-22:27:56,341 nipype.workflow INFO:
[Node] Running "combine_masks" ("nipype.interfaces.fsl.maths.BinaryMaths"), a CommandLine Interface with command:
fslmaths /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_rest_run-1/skullstrip_first_pass/sub-018_ses-1_task-rest_run-1_bold_calc_resample_mcf_tstat_brain_mask.nii.gz -mul /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_rest_run-1/skullstrip_second_pass/uni_mask.nii.gz /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_rest_run-1/combine_masks/sub-018_ses-1_task-rest_run-1_bold_calc_resample_mcf_tstat_brain_mask_maths.nii.gz
201112-22:27:56,743 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip.combine_masks".
201112-22:27:56,745 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.gen_motion_stats_before_stc_fsl_afni_mean_mcflirt_0.cal_DVARS" in "/outputs/tmp/resting_preproc_sub-018_ses-1/gen_motion_stats_before_stc_fsl_afni_mean_mcflirt_0/_scan_rest_run-1/cal_DVARS".
201112-22:27:56,755 nipype.workflow INFO:
[Node] Running "cal_DVARS" ("CPAC.utils.interfaces.function.Function")
201112-22:27:57,521 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.gen_motion_stats_before_stc_fsl_afni_mean_mcflirt_0.cal_DVARS".
201112-22:27:57,522 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip.func_extract_brain" in "/outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_rest_run-1/func_extract_brain".
201112-22:27:57,532 nipype.workflow INFO:
[Node] Running "func_extract_brain" ("nipype.interfaces.afni.utils.Calc"), a CommandLine Interface with command:
3dcalc -a /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/_scan_rest_run-1/func_motion_correct_mcflirt/sub-018_ses-1_task-rest_run-1_bold_calc_resample_mcf.nii.gz -b /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_rest_run-1/combine_masks/sub-018_ses-1_task-rest_run-1_bold_calc_resample_mcf_tstat_brain_mask_maths.nii.gz -expr "a*b" -prefix sub-018_ses-1_task-rest_run-1_bold_calc_resample_mcf_calc.nii.gz
201112-22:27:57,778 nipype.interface INFO:
stderr 2020-11-12T22:27:57.778714:++ 3dcalc: AFNI version=AFNI_20.2.19 (Sep 27 2020) [64-bit]
201112-22:27:57,779 nipype.interface INFO:
stderr 2020-11-12T22:27:57.779021:++ Authored by: A cast of thousands
201112-22:28:01,67 nipype.interface INFO:
stderr 2020-11-12T22:28:01.067763:++ Output dataset ./sub-018_ses-1_task-rest_run-1_bold_calc_resample_mcf_calc.nii.gz
201112-22:28:01,250 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip.func_extract_brain".
201112-22:28:01,251 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_normalize" in "/outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/_scan_rest_run-1/func_normalize".
201112-22:28:01,259 nipype.workflow INFO:
[Node] Running "func_normalize" ("nipype.interfaces.fsl.utils.ImageMaths"), a CommandLine Interface with command:
fslmaths /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_rest_run-1/func_extract_brain/sub-018_ses-1_task-rest_run-1_bold_calc_resample_mcf_calc.nii.gz -ing 10000 /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/_scan_rest_run-1/func_normalize/sub-018_ses-1_task-rest_run-1_bold_calc_resample_mcf_calc_maths.nii.gz -odt float
201112-22:28:03,466 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_normalize".
201112-22:28:03,468 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_mask_normalize" in "/outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/_scan_rest_run-1/func_mask_normalize".
201112-22:28:03,476 nipype.workflow INFO:
[Node] Running "func_mask_normalize" ("nipype.interfaces.fsl.utils.ImageMaths"), a CommandLine Interface with command:
fslmaths /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/_scan_rest_run-1/func_normalize/sub-018_ses-1_task-rest_run-1_bold_calc_resample_mcf_calc_maths.nii.gz -Tmin -bin /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/_scan_rest_run-1/func_mask_normalize/sub-018_ses-1_task-rest_run-1_bold_calc_resample_mcf_calc_maths_maths.nii.gz -odt char
201112-22:28:04,687 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_mask_normalize".
201112-22:28:04,692 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_mean" in "/outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/_scan_rest_run-1/func_mean".
201112-22:28:04,702 nipype.workflow INFO:
[Node] Running "func_mean" ("nipype.interfaces.afni.utils.TStat"), a CommandLine Interface with command:
3dTstat -mean -prefix sub-018_ses-1_task-rest_run-1_bold_calc_resample_mcf_calc_tstat.nii.gz /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/_scan_rest_run-1/func_mean/sub-018_ses-1_task-rest_run-1_bold_calc_resample_mcf_calc.nii.gz
201112-22:28:04,961 nipype.interface INFO:
stderr 2020-11-12T22:28:04.961728:++ 3dTstat: AFNI version=AFNI_20.2.19 (Sep 27 2020) [64-bit]
201112-22:28:04,962 nipype.interface INFO:
stderr 2020-11-12T22:28:04.962053:++ Authored by: KR Hammett & RW Cox
201112-22:28:05,325 nipype.interface INFO:
stderr 2020-11-12T22:28:05.325859:++ Output dataset ./sub-018_ses-1_task-rest_run-1_bold_calc_resample_mcf_calc_tstat.nii.gz
201112-22:28:05,499 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_mean".
201112-22:28:05,501 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.norm_motion_params" in "/outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/_scan_rest_run-1/norm_motion_params".
201112-22:28:05,509 nipype.workflow INFO:
[Node] Running "norm_motion_params" ("CPAC.utils.interfaces.function.Function")
201112-22:28:05,740 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.norm_motion_params".
201112-22:28:05,741 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.qc_motion_0.motion_plot" in "/outputs/tmp/resting_preproc_sub-018_ses-1/qc_motion_0/_scan_rest_run-1/motion_plot".
201112-22:28:05,748 nipype.workflow INFO:
[Node] Running "motion_plot" ("CPAC.utils.interfaces.function.Function")
201112-22:28:06,190 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.qc_motion_0.motion_plot".
201112-22:28:06,191 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.sinker_0_qc___movement_trans_plot" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_rest_run-1/sinker_0_qc___movement_trans_plot".
201112-22:28:06,200 nipype.workflow INFO:
[Node] Running "sinker_0_qc___movement_trans_plot" ("CPAC.utils.interfaces.datasink.DataSink")
201112-22:28:06,409 nipype.interface INFO:
sub: /outputs/output/pipeline_cpac_fmriprep-options/sub-018_ses-1/qc___movement_trans_plot/_scan_rest_run-1/motion_trans_plot.png -> /outputs/output/pipeline_cpac_fmriprep-options/sub-018_ses-1/qc/movement_trans_plot/_scan_rest_run-1/motion_trans_plot.png
201112-22:28:06,426 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.sinker_0_qc___movement_trans_plot".
201112-22:28:06,428 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.sinker_0_qc___movement_rot_plot" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_rest_run-1/sinker_0_qc___movement_rot_plot".
201112-22:28:06,437 nipype.workflow INFO:
[Node] Running "sinker_0_qc___movement_rot_plot" ("CPAC.utils.interfaces.datasink.DataSink")
201112-22:28:06,649 nipype.interface INFO:
sub: /outputs/output/pipeline_cpac_fmriprep-options/sub-018_ses-1/qc___movement_rot_plot/_scan_rest_run-1/motion_rot_plot.png -> /outputs/output/pipeline_cpac_fmriprep-options/sub-018_ses-1/qc/movement_rot_plot/_scan_rest_run-1/motion_rot_plot.png
201112-22:28:06,668 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.sinker_0_qc___movement_rot_plot".
201112-22:28:06,670 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.gen_motion_stats_before_stc_fsl_afni_mean_mcflirt_0.calc_motion_parameters" in "/outputs/tmp/resting_preproc_sub-018_ses-1/gen_motion_stats_before_stc_fsl_afni_mean_mcflirt_0/_scan_rest_run-1/calc_motion_parameters".
201112-22:28:06,679 nipype.workflow INFO:
[Node] Running "calc_motion_parameters" ("CPAC.utils.interfaces.function.Function")
201112-22:28:06,915 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.gen_motion_stats_before_stc_fsl_afni_mean_mcflirt_0.calc_motion_parameters".
201112-22:28:06,918 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.sinker_0_motion_params" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_rest_run-1/sinker_0_motion_params".
201112-22:28:06,928 nipype.workflow INFO:
[Node] Running "sinker_0_motion_params" ("CPAC.utils.interfaces.datasink.DataSink")
201112-22:28:07,159 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.sinker_0_motion_params".
201112-22:28:07,161 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.gen_motion_stats_before_stc_fsl_afni_mean_mcflirt_0.calculate_FD" in "/outputs/tmp/resting_preproc_sub-018_ses-1/gen_motion_stats_before_stc_fsl_afni_mean_mcflirt_0/_scan_rest_run-1/calculate_FD".
201112-22:28:07,168 nipype.workflow INFO:
[Node] Running "calculate_FD" ("CPAC.utils.interfaces.function.Function")
201112-22:28:07,401 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.gen_motion_stats_before_stc_fsl_afni_mean_mcflirt_0.calculate_FD".
201112-22:28:07,402 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.sinker_0_frame_wise_displacement_power" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_rest_run-1/sinker_0_frame_wise_displacement_power".
201112-22:28:07,411 nipype.workflow INFO:
[Node] Running "sinker_0_frame_wise_displacement_power" ("CPAC.utils.interfaces.datasink.DataSink")
201112-22:28:07,640 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.sinker_0_frame_wise_displacement_power".
201112-22:28:07,641 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.gen_motion_stats_before_stc_fsl_afni_mean_mcflirt_0.calc_power_parameters" in "/outputs/tmp/resting_preproc_sub-018_ses-1/gen_motion_stats_before_stc_fsl_afni_mean_mcflirt_0/_scan_rest_run-1/calc_power_parameters".
201112-22:28:07,648 nipype.workflow INFO:
[Node] Running "calc_power_parameters" ("CPAC.utils.interfaces.function.Function")
201112-22:28:07,882 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.gen_motion_stats_before_stc_fsl_afni_mean_mcflirt_0.calc_power_parameters".
201112-22:28:07,883 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.sinker_0_power_params" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_rest_run-1/sinker_0_power_params".
201112-22:28:07,892 nipype.workflow INFO:
[Node] Running "sinker_0_power_params" ("CPAC.utils.interfaces.datasink.DataSink")
201112-22:28:08,127 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.sinker_0_power_params".
201112-22:28:08,129 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.sinker_0_movement_parameters" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_rest_run-1/sinker_0_movement_parameters".
201112-22:28:08,139 nipype.workflow INFO:
[Node] Running "sinker_0_movement_parameters" ("CPAC.utils.interfaces.datasink.DataSink")
201112-22:28:08,375 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.sinker_0_movement_parameters".
201112-22:28:08,377 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.func_despiked_0" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_rest_run-1/func_despiked_0".
201112-22:28:08,387 nipype.workflow INFO:
[Node] Running "func_despiked_0" ("nipype.interfaces.afni.preprocess.Despike"), a CommandLine Interface with command:
3dDespike -prefix sub-018_ses-1_task-rest_run-1_bold_calc_despike.nii.gz /outputs/tmp/resting_preproc_sub-018_ses-1/_scan_rest_run-1/func_despiked_0/sub-018_ses-1_task-rest_run-1_bold_calc.nii.gz
201112-22:28:08,636 nipype.interface INFO:
stderr 2020-11-12T22:28:08.636362:++ 3dDespike: AFNI version=AFNI_20.2.19 (Sep 27 2020) [64-bit]
201112-22:28:08,636 nipype.interface INFO:
stderr 2020-11-12T22:28:08.636723:++ Authored by: RW Cox
201112-22:28:08,639 nipype.interface INFO:
stderr 2020-11-12T22:28:08.639033:[7m*+ WARNING:[0m If you are performing spatial transformations on an oblique dset,
201112-22:28:08,639 nipype.interface INFO:
stderr 2020-11-12T22:28:08.639033: such as /outputs/tmp/resting_preproc_sub-018_ses-1/_scan_rest_run-1/func_despiked_0/sub-018_ses-1_task-rest_run-1_bold_calc.nii.gz,
201112-22:28:08,639 nipype.interface INFO:
stderr 2020-11-12T22:28:08.639033: or viewing/combining it with volumes of differing obliquity,
201112-22:28:08,639 nipype.interface INFO:
stderr 2020-11-12T22:28:08.639033: you should consider running:
201112-22:28:08,639 nipype.interface INFO:
stderr 2020-11-12T22:28:08.639033: 3dWarp -deoblique
201112-22:28:08,639 nipype.interface INFO:
stderr 2020-11-12T22:28:08.639033: on this and other oblique datasets in the same session.
201112-22:28:08,639 nipype.interface INFO:
stderr 2020-11-12T22:28:08.639033: See 3dWarp -help for details.
201112-22:28:08,639 nipype.interface INFO:
stderr 2020-11-12T22:28:08.639892:++ Oblique dataset:/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_rest_run-1/func_despiked_0/sub-018_ses-1_task-rest_run-1_bold_calc.nii.gz is 17.792944 degrees from plumb.
201112-22:28:08,640 nipype.interface INFO:
stderr 2020-11-12T22:28:08.640080:++ Input dataset is in short format, but output will be in float format
201112-22:28:08,640 nipype.interface INFO:
stderr 2020-11-12T22:28:08.640252:++ ignoring first 0 time points, using last 180
201112-22:28:08,640 nipype.interface INFO:
stderr 2020-11-12T22:28:08.640426:++ using 180 time points => -corder 6
201112-22:28:08,640 nipype.interface INFO:
stderr 2020-11-12T22:28:08.640642:++ Loading dataset /outputs/tmp/resting_preproc_sub-018_ses-1/_scan_rest_run-1/func_despiked_0/sub-018_ses-1_task-rest_run-1_bold_calc.nii.gz
201112-22:28:09,223 nipype.interface INFO:
stderr 2020-11-12T22:28:09.223275:++ 18798 voxels in the automask [out of 135168 in dataset]
201112-22:28:09,229 nipype.interface INFO:
stderr 2020-11-12T22:28:09.229168:++ 36278 voxels in the dilated automask [out of 135168 in dataset]
201112-22:28:09,244 nipype.interface INFO:
stderr 2020-11-12T22:28:09.244254:++ Procesing time series with OLD model fit algorithm
201112-22:28:09,244 nipype.interface INFO:
stderr 2020-11-12T22:28:09.244495:++ smash edit thresholds: 3.1 .. 5.0 MADs
201112-22:28:09,244 nipype.interface INFO:
stderr 2020-11-12T22:28:09.244656: + [ 3.457% .. 0.072% of normal distribution]
201112-22:28:09,244 nipype.interface INFO:
stderr 2020-11-12T22:28:09.244805: + [ 8.839% .. 3.125% of Laplace distribution]
201112-22:28:09,244 nipype.interface INFO:
stderr 2020-11-12T22:28:09.244960:++ start OpenMP thread #0
201112-22:28:17,583 nipype.interface INFO:
stderr 2020-11-12T22:28:17.583424:................
201112-22:28:17,583 nipype.interface INFO:
stderr 2020-11-12T22:28:17.583906:++ Elapsed despike time = 8s 339ms
201112-22:28:17,584 nipype.interface INFO:
stderr 2020-11-12T22:28:17.584054:
201112-22:28:17,585 nipype.interface INFO:
stderr 2020-11-12T22:28:17.585176:++ FINAL: 6530040 data points, 1069763 edits [16.382%], 578814 big edits [8.864%]
201112-22:28:20,833 nipype.interface INFO:
stderr 2020-11-12T22:28:20.833864:++ Output dataset ./sub-018_ses-1_task-rest_run-1_bold_calc_despike.nii.gz
201112-22:28:21,22 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.func_despiked_0".
201112-22:28:21,23 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.func_slice_timing_correction_0.slice_timing" in "/outputs/tmp/resting_preproc_sub-018_ses-1/func_slice_timing_correction_0/_scan_rest_run-1/slice_timing".
201112-22:28:21,34 nipype.interface WARNING:
Passing a file prefixed by "@" will be deprecated; please use the `slice_timing` input
201112-22:28:21,35 nipype.workflow INFO:
[Node] Running "slice_timing" ("nipype.interfaces.afni.preprocess.TShift"), a CommandLine Interface with command:
3dTshift -prefix sub-018_ses-1_task-rest_run-1_bold_calc_despike_tshift.nii.gz -tpattern @/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_rest_run-1/scan_params_0/tpattern.txt -TR 2.0s /outputs/tmp/resting_preproc_sub-018_ses-1/func_slice_timing_correction_0/_scan_rest_run-1/slice_timing/sub-018_ses-1_task-rest_run-1_bold_calc_despike.nii.gz
201112-22:28:21,247 nipype.interface WARNING:
Passing a file prefixed by "@" will be deprecated; please use the `slice_timing` input
201112-22:28:21,289 nipype.interface INFO:
stderr 2020-11-12T22:28:21.289270:++ 3dTshift: AFNI version=AFNI_20.2.19 (Sep 27 2020) [64-bit]
201112-22:28:21,294 nipype.interface INFO:
stderr 2020-11-12T22:28:21.294083:[7m*+ WARNING:[0m If you are performing spatial transformations on an oblique dset,
201112-22:28:21,294 nipype.interface INFO:
stderr 2020-11-12T22:28:21.294083: such as /outputs/tmp/resting_preproc_sub-018_ses-1/func_slice_timing_correction_0/_scan_rest_run-1/slice_timing/sub-018_ses-1_task-rest_run-1_bold_calc_despike.nii.gz,
201112-22:28:21,294 nipype.interface INFO:
stderr 2020-11-12T22:28:21.294083: or viewing/combining it with volumes of differing obliquity,
201112-22:28:21,295 nipype.interface INFO:
stderr 2020-11-12T22:28:21.294083: you should consider running:
201112-22:28:21,295 nipype.interface INFO:
stderr 2020-11-12T22:28:21.294083: 3dWarp -deoblique
201112-22:28:21,295 nipype.interface INFO:
stderr 2020-11-12T22:28:21.294083: on this and other oblique datasets in the same session.
201112-22:28:21,295 nipype.interface INFO:
stderr 2020-11-12T22:28:21.294083: See 3dWarp -help for details.
201112-22:28:21,295 nipype.interface INFO:
stderr 2020-11-12T22:28:21.295424:++ Oblique dataset:/outputs/tmp/resting_preproc_sub-018_ses-1/func_slice_timing_correction_0/_scan_rest_run-1/slice_timing/sub-018_ses-1_task-rest_run-1_bold_calc_despike.nii.gz is 17.792944 degrees from plumb.
201112-22:28:25,974 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.func_slice_timing_correction_0.slice_timing".
201112-22:28:25,975 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.func_preproc_fsl_afni_mean_mcflirt_0.func_deoblique" in "/outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/_scan_rest_run-1/func_deoblique".
201112-22:28:26,31 nipype.workflow INFO:
[Node] Running "func_deoblique" ("nipype.interfaces.afni.utils.Refit"), a CommandLine Interface with command:
3drefit -deoblique /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/_scan_rest_run-1/func_deoblique/sub-018_ses-1_task-rest_run-1_bold_calc_despike_tshift.nii.gz
201112-22:28:26,280 nipype.interface INFO:
stderr 2020-11-12T22:28:26.280690:++ 3drefit: AFNI version=AFNI_20.2.19 (Sep 27 2020) [64-bit]
201112-22:28:26,281 nipype.interface INFO:
stderr 2020-11-12T22:28:26.281015:++ Authored by: RW Cox
201112-22:28:26,283 nipype.interface INFO:
stderr 2020-11-12T22:28:26.283805:++ Processing AFNI dataset /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/_scan_rest_run-1/func_deoblique/sub-018_ses-1_task-rest_run-1_bold_calc_despike_tshift.nii.gz
201112-22:28:26,284 nipype.interface INFO:
stderr 2020-11-12T22:28:26.284421: + deoblique
201112-22:28:26,284 nipype.interface INFO:
stderr 2020-11-12T22:28:26.284861: + loading and re-writing dataset /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/_scan_rest_run-1/func_deoblique/sub-018_ses-1_task-rest_run-1_bold_calc_despike_tshift.nii.gz (/outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/_scan_rest_run-1/func_deoblique/sub-018_ses-1_task-rest_run-1_bold_calc_despike_tshift.nii.gz in NIFTI storage)
201112-22:28:28,553 nipype.interface INFO:
stderr 2020-11-12T22:28:28.553174:++ 3drefit processed 1 datasets
201112-22:28:28,728 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.func_preproc_fsl_afni_mean_mcflirt_0.func_deoblique".
201112-22:28:28,729 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.func_preproc_fsl_afni_mean_mcflirt_0.func_reorient" in "/outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/_scan_rest_run-1/func_reorient".
201112-22:28:28,738 nipype.workflow INFO:
[Node] Running "func_reorient" ("nipype.interfaces.afni.utils.Resample"), a CommandLine Interface with command:
3dresample -orient RPI -prefix sub-018_ses-1_task-rest_run-1_bold_calc_despike_tshift_resample.nii.gz -inset /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/_scan_rest_run-1/func_reorient/sub-018_ses-1_task-rest_run-1_bold_calc_despike_tshift.nii.gz
201112-22:28:31,684 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.func_preproc_fsl_afni_mean_mcflirt_0.func_reorient".
201112-22:28:31,686 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.func_preproc_fsl_afni_mean_mcflirt_0.func_get_mean_RPI" in "/outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/_scan_rest_run-1/func_get_mean_RPI".
201112-22:28:31,695 nipype.workflow INFO:
[Node] Running "func_get_mean_RPI" ("nipype.interfaces.afni.utils.TStat"), a CommandLine Interface with command:
3dTstat -mean -prefix sub-018_ses-1_task-rest_run-1_bold_calc_despike_tshift_resample_tstat.nii.gz /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/_scan_rest_run-1/func_get_mean_RPI/sub-018_ses-1_task-rest_run-1_bold_calc_despike_tshift_resample.nii.gz
201112-22:28:31,938 nipype.interface INFO:
stderr 2020-11-12T22:28:31.938581:++ 3dTstat: AFNI version=AFNI_20.2.19 (Sep 27 2020) [64-bit]
201112-22:28:31,938 nipype.interface INFO:
stderr 2020-11-12T22:28:31.938885:++ Authored by: KR Hammett & RW Cox
201112-22:28:32,663 nipype.interface INFO:
stderr 2020-11-12T22:28:32.663136:++ Output dataset ./sub-018_ses-1_task-rest_run-1_bold_calc_despike_tshift_resample_tstat.nii.gz
201112-22:28:32,817 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.func_preproc_fsl_afni_mean_mcflirt_0.func_get_mean_RPI".
201112-22:28:32,819 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.func_preproc_fsl_afni_mean_mcflirt_0.func_generate_ref" in "/outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/_scan_rest_run-1/func_generate_ref".
201112-22:28:32,828 nipype.workflow INFO:
[Node] Running "func_generate_ref" ("nipype.interfaces.afni.preprocess.Volreg"), a CommandLine Interface with command:
3dvolreg -twopass -Fourier -1Dfile sub-018_ses-1_task-rest_run-1_bold_calc_despike_tshift_resample.1D -1Dmatrix_save sub-018_ses-1_task-rest_run-1_bold_calc_despike_tshift_resample.aff12.1D -prefix sub-018_ses-1_task-rest_run-1_bold_calc_despike_tshift_resample_volreg.nii.gz -base /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/_scan_rest_run-1/func_get_mean_RPI/sub-018_ses-1_task-rest_run-1_bold_calc_despike_tshift_resample_tstat.nii.gz -zpad 4 -maxdisp1D sub-018_ses-1_task-rest_run-1_bold_calc_despike_tshift_resample_md.1D /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/_scan_rest_run-1/func_generate_ref/sub-018_ses-1_task-rest_run-1_bold_calc_despike_tshift_resample.nii.gz
201112-22:28:33,69 nipype.interface INFO:
stderr 2020-11-12T22:28:33.069361:++ 3dvolreg: AFNI version=AFNI_20.2.19 (Sep 27 2020) [64-bit]
201112-22:28:33,69 nipype.interface INFO:
stderr 2020-11-12T22:28:33.069786:++ Authored by: RW Cox
201112-22:28:33,77 nipype.interface INFO:
stderr 2020-11-12T22:28:33.076981:++ Coarse del was 10, replaced with 3
201112-22:31:00,606 nipype.interface INFO:
stderr 2020-11-12T22:31:00.606084:++ Max displacement in automask = 10.77 (mm) at sub-brick 174
201112-22:31:00,606 nipype.interface INFO:
stderr 2020-11-12T22:31:00.606547:++ Max delta displ in automask = 4.41 (mm) at sub-brick 172
201112-22:31:07,98 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.func_preproc_fsl_afni_mean_mcflirt_0.func_generate_ref".
201112-22:31:07,100 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.func_preproc_fsl_afni_mean_mcflirt_0.func_get_mean_motion" in "/outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/_scan_rest_run-1/func_get_mean_motion".
201112-22:31:07,107 nipype.workflow INFO:
[Node] Running "func_get_mean_motion" ("nipype.interfaces.afni.utils.TStat"), a CommandLine Interface with command:
3dTstat -mean -prefix sub-018_ses-1_task-rest_run-1_bold_calc_despike_tshift_resample_volreg_tstat.nii.gz /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/_scan_rest_run-1/func_get_mean_motion/sub-018_ses-1_task-rest_run-1_bold_calc_despike_tshift_resample_volreg.nii.gz
201112-22:31:07,354 nipype.interface INFO:
stderr 2020-11-12T22:31:07.354886:++ 3dTstat: AFNI version=AFNI_20.2.19 (Sep 27 2020) [64-bit]
201112-22:31:07,355 nipype.interface INFO:
stderr 2020-11-12T22:31:07.355192:++ Authored by: KR Hammett & RW Cox
201112-22:31:08,382 nipype.interface INFO:
stderr 2020-11-12T22:31:08.382038:++ Output dataset ./sub-018_ses-1_task-rest_run-1_bold_calc_despike_tshift_resample_volreg_tstat.nii.gz
201112-22:31:08,562 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.func_preproc_fsl_afni_mean_mcflirt_0.func_get_mean_motion".
201112-22:31:08,563 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.func_preproc_fsl_afni_mean_mcflirt_0.func_motion_correct_mcflirt" in "/outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/_scan_rest_run-1/func_motion_correct_mcflirt".
201112-22:31:08,573 nipype.workflow INFO:
[Node] Running "func_motion_correct_mcflirt" ("nipype.interfaces.fsl.preprocess.MCFLIRT"), a CommandLine Interface with command:
mcflirt -in /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/_scan_rest_run-1/func_reorient/sub-018_ses-1_task-rest_run-1_bold_calc_despike_tshift_resample.nii.gz -out /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/_scan_rest_run-1/func_motion_correct_mcflirt/sub-018_ses-1_task-rest_run-1_bold_calc_despike_tshift_resample_mcf.nii.gz -reffile /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/_scan_rest_run-1/func_get_mean_motion/sub-018_ses-1_task-rest_run-1_bold_calc_despike_tshift_resample_volreg_tstat.nii.gz -mats -plots -rmsabs -rmsrel
201112-22:31:50,676 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.func_preproc_fsl_afni_mean_mcflirt_0.func_motion_correct_mcflirt".
201112-22:31:50,685 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.sinker_0_motion_correct" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_rest_run-1/sinker_0_motion_correct".
201112-22:31:50,695 nipype.workflow INFO:
[Node] Running "sinker_0_motion_correct" ("CPAC.utils.interfaces.datasink.DataSink")
201112-22:31:50,923 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.sinker_0_motion_correct".
201112-22:31:50,925 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.func_preproc_fsl_afni_mean_mcflirt_0.func_preproc_fsl_afni_mean_mcflirt_0_skullstrip.func_mean_skull" in "/outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/func_preproc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_rest_run-1/func_mean_skull".
201112-22:31:50,935 nipype.workflow INFO:
[Node] Running "func_mean_skull" ("nipype.interfaces.afni.utils.TStat"), a CommandLine Interface with command:
3dTstat -mean -prefix sub-018_ses-1_task-rest_run-1_bold_calc_despike_tshift_resample_mcf_tstat.nii.gz /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/func_preproc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_rest_run-1/func_mean_skull/sub-018_ses-1_task-rest_run-1_bold_calc_despike_tshift_resample_mcf.nii.gz
201112-22:31:51,184 nipype.interface INFO:
stderr 2020-11-12T22:31:51.184822:++ 3dTstat: AFNI version=AFNI_20.2.19 (Sep 27 2020) [64-bit]
201112-22:31:51,185 nipype.interface INFO:
stderr 2020-11-12T22:31:51.185174:++ Authored by: KR Hammett & RW Cox
201112-22:31:51,953 nipype.interface INFO:
stderr 2020-11-12T22:31:51.953002:++ Output dataset ./sub-018_ses-1_task-rest_run-1_bold_calc_despike_tshift_resample_mcf_tstat.nii.gz
201112-22:31:52,109 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.func_preproc_fsl_afni_mean_mcflirt_0.func_preproc_fsl_afni_mean_mcflirt_0_skullstrip.func_mean_skull".
201112-22:31:52,111 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.func_preproc_fsl_afni_mean_mcflirt_0.func_preproc_fsl_afni_mean_mcflirt_0_skullstrip.skullstrip_first_pass" in "/outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/func_preproc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_rest_run-1/skullstrip_first_pass".
201112-22:31:52,119 nipype.workflow INFO:
[Node] Running "skullstrip_first_pass" ("nipype.interfaces.fsl.preprocess.BET"), a CommandLine Interface with command:
bet /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/func_preproc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_rest_run-1/func_mean_skull/sub-018_ses-1_task-rest_run-1_bold_calc_despike_tshift_resample_mcf_tstat.nii.gz /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/func_preproc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_rest_run-1/skullstrip_first_pass/sub-018_ses-1_task-rest_run-1_bold_calc_despike_tshift_resample_mcf_tstat_brain.nii.gz -f 0.20 -m
201112-22:31:53,940 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.func_preproc_fsl_afni_mean_mcflirt_0.func_preproc_fsl_afni_mean_mcflirt_0_skullstrip.skullstrip_first_pass".
201112-22:31:53,941 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.func_preproc_fsl_afni_mean_mcflirt_0.func_preproc_fsl_afni_mean_mcflirt_0_skullstrip.skullstrip_first_dilate" in "/outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/func_preproc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_rest_run-1/skullstrip_first_dilate".
201112-22:31:53,948 nipype.workflow INFO:
[Node] Running "skullstrip_first_dilate" ("nipype.interfaces.fsl.maths.DilateImage"), a CommandLine Interface with command:
fslmaths -dt char /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/func_preproc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_rest_run-1/skullstrip_first_pass/sub-018_ses-1_task-rest_run-1_bold_calc_despike_tshift_resample_mcf_tstat_brain_mask.nii.gz -kernel sphere 6.0000 -dilF /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/func_preproc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_rest_run-1/skullstrip_first_dilate/sub-018_ses-1_task-rest_run-1_bold_calc_despike_tshift_resample_mcf_tstat_brain_mask_dil.nii.gz
201112-22:31:54,468 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.func_preproc_fsl_afni_mean_mcflirt_0.func_preproc_fsl_afni_mean_mcflirt_0_skullstrip.skullstrip_first_dilate".
201112-22:31:54,469 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.func_preproc_fsl_afni_mean_mcflirt_0.func_preproc_fsl_afni_mean_mcflirt_0_skullstrip.skullstrip_first_mask" in "/outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/func_preproc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_rest_run-1/skullstrip_first_mask".
201112-22:31:54,479 nipype.workflow INFO:
[Node] Running "skullstrip_first_mask" ("nipype.interfaces.fsl.maths.ApplyMask"), a CommandLine Interface with command:
fslmaths /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/func_preproc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_rest_run-1/skullstrip_first_pass/sub-018_ses-1_task-rest_run-1_bold_calc_despike_tshift_resample_mcf_tstat_brain.nii.gz -mas /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/func_preproc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_rest_run-1/skullstrip_first_dilate/sub-018_ses-1_task-rest_run-1_bold_calc_despike_tshift_resample_mcf_tstat_brain_mask_dil.nii.gz /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/func_preproc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_rest_run-1/skullstrip_first_mask/sub-018_ses-1_task-rest_run-1_bold_calc_despike_tshift_resample_mcf_tstat_brain_masked.nii.gz
201112-22:31:54,880 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.func_preproc_fsl_afni_mean_mcflirt_0.func_preproc_fsl_afni_mean_mcflirt_0_skullstrip.skullstrip_first_mask".
201112-22:31:54,881 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.func_preproc_fsl_afni_mean_mcflirt_0.func_preproc_fsl_afni_mean_mcflirt_0_skullstrip.unifize" in "/outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/func_preproc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_rest_run-1/unifize".
201112-22:31:54,890 nipype.workflow INFO:
[Node] Running "unifize" ("nipype.interfaces.afni.utils.Unifize"), a CommandLine Interface with command:
3dUnifize -clfrac 0.2 -rbt 18.3 65.0 90.0 -prefix uni.nii.gz -T2 -input /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/func_preproc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_rest_run-1/unifize/sub-018_ses-1_task-rest_run-1_bold_calc_despike_tshift_resample_mcf_tstat_brain_masked.nii.gz
201112-22:31:55,137 nipype.interface INFO:
stderr 2020-11-12T22:31:55.137039:++ 3dUnifize: AFNI version=AFNI_20.2.19 (Sep 27 2020) [64-bit]
201112-22:32:49,738 nipype.interface INFO:
stderr 2020-11-12T22:32:49.738482: + Pre-processing: IAV..UW[s3150]Im
201112-22:32:49,750 nipype.interface INFO:
stderr 2020-11-12T22:32:49.750353:++ Output dataset ./uni.nii.gz
201112-22:32:49,750 nipype.interface INFO:
stderr 2020-11-12T22:32:49.750646:++ ===== Elapsed = 54.6 sec
201112-22:32:49,923 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.func_preproc_fsl_afni_mean_mcflirt_0.func_preproc_fsl_afni_mean_mcflirt_0_skullstrip.unifize".
201112-22:32:49,924 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.func_preproc_fsl_afni_mean_mcflirt_0.func_preproc_fsl_afni_mean_mcflirt_0_skullstrip.skullstrip_second_pass" in "/outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/func_preproc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_rest_run-1/skullstrip_second_pass".
201112-22:32:49,932 nipype.workflow INFO:
[Node] Running "skullstrip_second_pass" ("nipype.interfaces.afni.preprocess.Automask"), a CommandLine Interface with command:
3dAutomask -apply_prefix uni_masked.nii.gz -dilate 1 -prefix uni_mask.nii.gz /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/func_preproc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_rest_run-1/skullstrip_second_pass/uni.nii.gz
201112-22:32:50,183 nipype.interface INFO:
stderr 2020-11-12T22:32:50.183250:++ 3dAutomask: AFNI version=AFNI_20.2.19 (Sep 27 2020) [64-bit]
201112-22:32:50,183 nipype.interface INFO:
stderr 2020-11-12T22:32:50.183567:++ Authored by: Emperor Zhark
201112-22:32:50,186 nipype.interface INFO:
stderr 2020-11-12T22:32:50.186381:++ Loading dataset /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/func_preproc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_rest_run-1/skullstrip_second_pass/uni.nii.gz
201112-22:32:50,192 nipype.interface INFO:
stderr 2020-11-12T22:32:50.192339:++ Forming automask
201112-22:32:50,194 nipype.interface INFO:
stderr 2020-11-12T22:32:50.194901: + Fixed clip level = 476.107513
201112-22:32:50,198 nipype.interface INFO:
stderr 2020-11-12T22:32:50.198028: + Used gradual clip level = 428.346832 .. 539.398499
201112-22:32:50,198 nipype.interface INFO:
stderr 2020-11-12T22:32:50.198233: + Number voxels above clip level = 16499
201112-22:32:50,198 nipype.interface INFO:
stderr 2020-11-12T22:32:50.198392: + Clustering voxels ...
201112-22:32:50,199 nipype.interface INFO:
stderr 2020-11-12T22:32:50.199189: + Largest cluster has 16498 voxels
201112-22:32:50,200 nipype.interface INFO:
stderr 2020-11-12T22:32:50.200228: + Clustering voxels ...
201112-22:32:50,201 nipype.interface INFO:
stderr 2020-11-12T22:32:50.201029: + Largest cluster has 16376 voxels
201112-22:32:50,204 nipype.interface INFO:
stderr 2020-11-12T22:32:50.204528: + Filled 179 voxels in small holes; now have 16555 voxels
201112-22:32:50,206 nipype.interface INFO:
stderr 2020-11-12T22:32:50.206440: + Clustering voxels ...
201112-22:32:50,207 nipype.interface INFO:
stderr 2020-11-12T22:32:50.207282: + Largest cluster has 16555 voxels
201112-22:32:50,207 nipype.interface INFO:
stderr 2020-11-12T22:32:50.207530: + Clustering non-brain voxels ...
201112-22:32:50,207 nipype.interface INFO:
stderr 2020-11-12T22:32:50.207675: + Clustering voxels ...
201112-22:32:50,210 nipype.interface INFO:
stderr 2020-11-12T22:32:50.210755: + Largest cluster has 118601 voxels
201112-22:32:50,211 nipype.interface INFO:
stderr 2020-11-12T22:32:50.211079: + Mask now has 16567 voxels
201112-22:32:50,211 nipype.interface INFO:
stderr 2020-11-12T22:32:50.211232:++ Dilating automask
201112-22:32:50,216 nipype.interface INFO:
stderr 2020-11-12T22:32:50.216389: + Clustering voxels ...
201112-22:32:50,218 nipype.interface INFO:
stderr 2020-11-12T22:32:50.218965: + Largest cluster has 114763 voxels
201112-22:32:50,219 nipype.interface INFO:
stderr 2020-11-12T22:32:50.219290:++ 20405 voxels in the mask [out of 135168: 15.10%]
201112-22:32:50,219 nipype.interface INFO:
stderr 2020-11-12T22:32:50.219468:++ first 13 x-planes are zero [from R]
201112-22:32:50,219 nipype.interface INFO:
stderr 2020-11-12T22:32:50.219638:++ last 12 x-planes are zero [from L]
201112-22:32:50,219 nipype.interface INFO:
stderr 2020-11-12T22:32:50.219783:++ first 7 y-planes are zero [from P]
201112-22:32:50,219 nipype.interface INFO:
stderr 2020-11-12T22:32:50.219936:++ last 10 y-planes are zero [from A]
201112-22:32:50,220 nipype.interface INFO:
stderr 2020-11-12T22:32:50.220076:++ first 2 z-planes are zero [from I]
201112-22:32:50,220 nipype.interface INFO:
stderr 2020-11-12T22:32:50.220217:++ last 4 z-planes are zero [from S]
201112-22:32:50,224 nipype.interface INFO:
stderr 2020-11-12T22:32:50.224777:++ Output dataset ./uni_mask.nii.gz
201112-22:32:50,225 nipype.interface INFO:
stderr 2020-11-12T22:32:50.224984:++ applying mask to original data
201112-22:32:50,225 nipype.interface INFO:
stderr 2020-11-12T22:32:50.225866:++ Writing masked data
201112-22:32:50,237 nipype.interface INFO:
stderr 2020-11-12T22:32:50.237197:++ Output dataset ./uni_masked.nii.gz
201112-22:32:50,237 nipype.interface INFO:
stderr 2020-11-12T22:32:50.237526:++ CPU time = 0.000000 sec
201112-22:32:50,387 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.func_preproc_fsl_afni_mean_mcflirt_0.func_preproc_fsl_afni_mean_mcflirt_0_skullstrip.skullstrip_second_pass".
201112-22:32:50,388 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.func_preproc_fsl_afni_mean_mcflirt_0.func_preproc_fsl_afni_mean_mcflirt_0_skullstrip.combine_masks" in "/outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/func_preproc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_rest_run-1/combine_masks".
201112-22:32:50,396 nipype.workflow INFO:
[Node] Running "combine_masks" ("nipype.interfaces.fsl.maths.BinaryMaths"), a CommandLine Interface with command:
fslmaths /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/func_preproc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_rest_run-1/skullstrip_first_pass/sub-018_ses-1_task-rest_run-1_bold_calc_despike_tshift_resample_mcf_tstat_brain_mask.nii.gz -mul /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/func_preproc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_rest_run-1/skullstrip_second_pass/uni_mask.nii.gz /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/func_preproc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_rest_run-1/combine_masks/sub-018_ses-1_task-rest_run-1_bold_calc_despike_tshift_resample_mcf_tstat_brain_mask_maths.nii.gz
201112-22:32:50,791 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.func_preproc_fsl_afni_mean_mcflirt_0.func_preproc_fsl_afni_mean_mcflirt_0_skullstrip.combine_masks".
201112-22:32:50,792 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.nuisance_regressor_0_0.GlobalSignal_merge_masks" in "/outputs/tmp/resting_preproc_sub-018_ses-1/nuisance_regressor_0_0/_scan_rest_run-1/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/GlobalSignal_merge_masks".
201112-22:32:50,799 nipype.workflow INFO:
[Node] Running "GlobalSignal_merge_masks" ("nipype.interfaces.utility.base.Merge")
201112-22:32:51,27 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.nuisance_regressor_0_0.GlobalSignal_merge_masks".
201112-22:32:51,28 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.nuisance_regressor_0_0.GlobalSignal_union_masks" in "/outputs/tmp/resting_preproc_sub-018_ses-1/nuisance_regressor_0_0/_scan_rest_run-1/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/GlobalSignal_union_masks".
201112-22:32:51,37 nipype.workflow INFO:
[Node] Running "GlobalSignal_union_masks" ("CPAC.utils.interfaces.masktool.MaskTool"), a CommandLine Interface with command:
3dmask_tool -prefix sub-018_ses-1_task-rest_run-1_bold_calc_despike_tshift_resample_mcf_tstat_brain_mask_maths_mask.nii.gz -input /outputs/tmp/resting_preproc_sub-018_ses-1/nuisance_regressor_0_0/_scan_rest_run-1/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/GlobalSignal_union_masks/sub-018_ses-1_task-rest_run-1_bold_calc_despike_tshift_resample_mcf_tstat_brain_mask_maths.nii.gz
201112-22:32:51,286 nipype.interface INFO:
stderr 2020-11-12T22:32:51.286213:++ no -frac option: defaulting to -union
201112-22:32:51,286 nipype.interface INFO:
stderr 2020-11-12T22:32:51.286765:++ processing 1 input dataset(s), NN=2...
201112-22:32:51,287 nipype.interface INFO:
stderr 2020-11-12T22:32:51.287009:++ padding all datasets by 0 (for dilations)
201112-22:32:51,295 nipype.interface INFO:
stderr 2020-11-12T22:32:51.294990:++ frac 0 over 1 volumes gives min count 0
201112-22:32:51,295 nipype.interface INFO:
stderr 2020-11-12T22:32:51.295433:++ voxel limits: 0 clipped, 20381 survived, 114787 were zero
201112-22:32:51,295 nipype.interface INFO:
stderr 2020-11-12T22:32:51.295652:++ writing result sub-018_ses-1_task-rest_run-1_bold_calc_despike_tshift_resample_mcf_tstat_brain_mask_maths_mask.nii.gz...
201112-22:32:51,300 nipype.interface INFO:
stderr 2020-11-12T22:32:51.300822:++ Output dataset ./sub-018_ses-1_task-rest_run-1_bold_calc_despike_tshift_resample_mcf_tstat_brain_mask_maths_mask.nii.gz
201112-22:32:51,452 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.nuisance_regressor_0_0.GlobalSignal_union_masks".
201112-22:32:51,453 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.sinker_0_functional_brain_mask" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_rest_run-1/sinker_0_functional_brain_mask".
201112-22:32:51,461 nipype.workflow INFO:
[Node] Running "sinker_0_functional_brain_mask" ("CPAC.utils.interfaces.datasink.DataSink")
201112-22:32:51,692 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.sinker_0_functional_brain_mask".
201112-22:32:51,693 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.functional_brain_mask_derivative_0" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_rest_run-1/functional_brain_mask_derivative_0".
201112-22:32:51,699 nipype.workflow INFO:
[Node] Running "functional_brain_mask_derivative_0" ("CPAC.utils.interfaces.function.Function")
201112-22:32:51,909 nipype.workflow INFO:
[Node] Setting-up "functional_brain_mask_derivative" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_rest_run-1/functional_brain_mask_derivative_0/functional_brain_mask_derivative".
201112-22:32:51,917 nipype.workflow INFO:
[Node] Running "functional_brain_mask_derivative" ("nipype.interfaces.afni.utils.Resample"), a CommandLine Interface with command:
3dresample -prefix sub-018_ses-1_task-rest_run-1_bold_calc_despike_tshift_resample_mcf_tstat_brain_mask_maths_resample.nii.gz -rmode Cu -dxyz 2.000000 2.000000 2.000000 -inset /outputs/tmp/resting_preproc_sub-018_ses-1/_scan_rest_run-1/functional_brain_mask_derivative_0/functional_brain_mask_derivative/sub-018_ses-1_task-rest_run-1_bold_calc_despike_tshift_resample_mcf_tstat_brain_mask_maths.nii.gz
201112-22:32:52,420 nipype.workflow INFO:
[Node] Finished "functional_brain_mask_derivative".
201112-22:32:52,435 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.functional_brain_mask_derivative_0".
201112-22:32:52,437 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.func_preproc_fsl_afni_mean_mcflirt_0.func_preproc_fsl_afni_mean_mcflirt_0_skullstrip.func_extract_brain" in "/outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/func_preproc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_rest_run-1/func_extract_brain".
201112-22:32:52,444 nipype.workflow INFO:
[Node] Running "func_extract_brain" ("nipype.interfaces.afni.utils.Calc"), a CommandLine Interface with command:
3dcalc -a /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/_scan_rest_run-1/func_motion_correct_mcflirt/sub-018_ses-1_task-rest_run-1_bold_calc_despike_tshift_resample_mcf.nii.gz -b /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/func_preproc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_rest_run-1/combine_masks/sub-018_ses-1_task-rest_run-1_bold_calc_despike_tshift_resample_mcf_tstat_brain_mask_maths.nii.gz -expr "a*b" -prefix sub-018_ses-1_task-rest_run-1_bold_calc_despike_tshift_resample_mcf_calc.nii.gz
201112-22:32:52,688 nipype.interface INFO:
stderr 2020-11-12T22:32:52.688548:++ 3dcalc: AFNI version=AFNI_20.2.19 (Sep 27 2020) [64-bit]
201112-22:32:52,688 nipype.interface INFO:
stderr 2020-11-12T22:32:52.688867:++ Authored by: A cast of thousands
201112-22:32:56,278 nipype.interface INFO:
stderr 2020-11-12T22:32:56.278050:++ Output dataset ./sub-018_ses-1_task-rest_run-1_bold_calc_despike_tshift_resample_mcf_calc.nii.gz
201112-22:32:56,458 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.func_preproc_fsl_afni_mean_mcflirt_0.func_preproc_fsl_afni_mean_mcflirt_0_skullstrip.func_extract_brain".
201112-22:32:56,460 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.func_preproc_fsl_afni_mean_mcflirt_0.func_normalize" in "/outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/_scan_rest_run-1/func_normalize".
201112-22:32:56,469 nipype.workflow INFO:
[Node] Running "func_normalize" ("nipype.interfaces.fsl.utils.ImageMaths"), a CommandLine Interface with command:
fslmaths /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/func_preproc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_rest_run-1/func_extract_brain/sub-018_ses-1_task-rest_run-1_bold_calc_despike_tshift_resample_mcf_calc.nii.gz -ing 10000 /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/_scan_rest_run-1/func_normalize/sub-018_ses-1_task-rest_run-1_bold_calc_despike_tshift_resample_mcf_calc_maths.nii.gz -odt float
201112-22:32:58,789 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.func_preproc_fsl_afni_mean_mcflirt_0.func_normalize".
201112-22:32:58,790 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.nuisance_regressor_0_0.GlobalSignal_mean" in "/outputs/tmp/resting_preproc_sub-018_ses-1/nuisance_regressor_0_0/_scan_rest_run-1/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/GlobalSignal_mean".
201112-22:32:58,799 nipype.workflow INFO:
[Node] Running "GlobalSignal_mean" ("nipype.interfaces.afni.preprocess.ROIStats"), a CommandLine Interface with command:
3dROIstats -mask /outputs/tmp/resting_preproc_sub-018_ses-1/nuisance_regressor_0_0/_scan_rest_run-1/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/GlobalSignal_union_masks/sub-018_ses-1_task-rest_run-1_bold_calc_despike_tshift_resample_mcf_tstat_brain_mask_maths_mask.nii.gz -1Dformat /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/_scan_rest_run-1/func_normalize/sub-018_ses-1_task-rest_run-1_bold_calc_despike_tshift_resample_mcf_calc_maths.nii.gz
201112-22:32:59,785 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.nuisance_regressor_0_0.GlobalSignal_mean".
201112-22:32:59,787 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.nuisance_regressor_0_0.functional_mean" in "/outputs/tmp/resting_preproc_sub-018_ses-1/nuisance_regressor_0_0/_scan_rest_run-1/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/functional_mean".
201112-22:32:59,794 nipype.workflow INFO:
[Node] Running "functional_mean" ("nipype.interfaces.afni.utils.TStat"), a CommandLine Interface with command:
3dTstat -mean -prefix sub-018_ses-1_task-rest_run-1_bold_calc_despike_tshift_resample_mcf_calc_maths_tstat.nii.gz /outputs/tmp/resting_preproc_sub-018_ses-1/nuisance_regressor_0_0/_scan_rest_run-1/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/functional_mean/sub-018_ses-1_task-rest_run-1_bold_calc_despike_tshift_resample_mcf_calc_maths.nii.gz
201112-22:33:00,38 nipype.interface INFO:
stderr 2020-11-12T22:33:00.038520:++ 3dTstat: AFNI version=AFNI_20.2.19 (Sep 27 2020) [64-bit]
201112-22:33:00,38 nipype.interface INFO:
stderr 2020-11-12T22:33:00.038889:++ Authored by: KR Hammett & RW Cox
201112-22:33:00,743 nipype.interface INFO:
stderr 2020-11-12T22:33:00.743904:++ Output dataset ./sub-018_ses-1_task-rest_run-1_bold_calc_despike_tshift_resample_mcf_calc_maths_tstat.nii.gz
201112-22:33:00,899 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.nuisance_regressor_0_0.functional_mean".
201112-22:33:00,900 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.qc_snr_0.std_dev" in "/outputs/tmp/resting_preproc_sub-018_ses-1/qc_snr_0/_scan_rest_run-1/std_dev".
201112-22:33:00,909 nipype.workflow INFO:
[Node] Running "std_dev" ("nipype.interfaces.afni.utils.TStat"), a CommandLine Interface with command:
3dTstat -stdev -mask /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/func_preproc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_rest_run-1/combine_masks/sub-018_ses-1_task-rest_run-1_bold_calc_despike_tshift_resample_mcf_tstat_brain_mask_maths.nii.gz -prefix sub-018_ses-1_task-rest_run-1_bold_calc_despike_tshift_resample_mcf_calc_maths_tstat.nii.gz /outputs/tmp/resting_preproc_sub-018_ses-1/qc_snr_0/_scan_rest_run-1/std_dev/sub-018_ses-1_task-rest_run-1_bold_calc_despike_tshift_resample_mcf_calc_maths.nii.gz
201112-22:33:01,149 nipype.interface INFO:
stderr 2020-11-12T22:33:01.149288:++ 3dTstat: AFNI version=AFNI_20.2.19 (Sep 27 2020) [64-bit]
201112-22:33:01,149 nipype.interface INFO:
stderr 2020-11-12T22:33:01.149761:++ Authored by: KR Hammett & RW Cox
201112-22:33:01,778 nipype.interface INFO:
stderr 2020-11-12T22:33:01.778801:++ Output dataset ./sub-018_ses-1_task-rest_run-1_bold_calc_despike_tshift_resample_mcf_calc_maths_tstat.nii.gz
201112-22:33:01,959 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.qc_snr_0.std_dev".
201112-22:33:01,961 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.sinker_0_functional_preprocessed" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_rest_run-1/sinker_0_functional_preprocessed".
201112-22:33:01,970 nipype.workflow INFO:
[Node] Running "sinker_0_functional_preprocessed" ("CPAC.utils.interfaces.datasink.DataSink")
201112-22:33:02,200 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.sinker_0_functional_preprocessed".
201112-22:33:02,202 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.func_preproc_fsl_afni_mean_mcflirt_0.func_mask_normalize" in "/outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/_scan_rest_run-1/func_mask_normalize".
201112-22:33:02,210 nipype.workflow INFO:
[Node] Running "func_mask_normalize" ("nipype.interfaces.fsl.utils.ImageMaths"), a CommandLine Interface with command:
fslmaths /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/_scan_rest_run-1/func_normalize/sub-018_ses-1_task-rest_run-1_bold_calc_despike_tshift_resample_mcf_calc_maths.nii.gz -Tmin -bin /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/_scan_rest_run-1/func_mask_normalize/sub-018_ses-1_task-rest_run-1_bold_calc_despike_tshift_resample_mcf_calc_maths_maths.nii.gz -odt char
201112-22:33:03,483 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.func_preproc_fsl_afni_mean_mcflirt_0.func_mask_normalize".
201112-22:33:03,484 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.sinker_0_functional_preprocessed_mask" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_rest_run-1/sinker_0_functional_preprocessed_mask".
201112-22:33:03,494 nipype.workflow INFO:
[Node] Running "sinker_0_functional_preprocessed_mask" ("CPAC.utils.interfaces.datasink.DataSink")
201112-22:33:03,724 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.sinker_0_functional_preprocessed_mask".
201112-22:33:03,726 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.func_preproc_fsl_afni_mean_mcflirt_0.func_mean" in "/outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/_scan_rest_run-1/func_mean".
201112-22:33:03,734 nipype.workflow INFO:
[Node] Running "func_mean" ("nipype.interfaces.afni.utils.TStat"), a CommandLine Interface with command:
3dTstat -mean -prefix sub-018_ses-1_task-rest_run-1_bold_calc_despike_tshift_resample_mcf_calc_tstat.nii.gz /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/_scan_rest_run-1/func_mean/sub-018_ses-1_task-rest_run-1_bold_calc_despike_tshift_resample_mcf_calc.nii.gz
201112-22:33:03,979 nipype.interface INFO:
stderr 2020-11-12T22:33:03.979396:++ 3dTstat: AFNI version=AFNI_20.2.19 (Sep 27 2020) [64-bit]
201112-22:33:03,979 nipype.interface INFO:
stderr 2020-11-12T22:33:03.979733:++ Authored by: KR Hammett & RW Cox
201112-22:33:04,665 nipype.interface INFO:
stderr 2020-11-12T22:33:04.665777:++ Output dataset ./sub-018_ses-1_task-rest_run-1_bold_calc_despike_tshift_resample_mcf_calc_tstat.nii.gz
201112-22:33:04,834 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.func_preproc_fsl_afni_mean_mcflirt_0.func_mean".
201112-22:33:04,835 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.sinker_0_mean_functional" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_rest_run-1/sinker_0_mean_functional".
201112-22:33:04,846 nipype.workflow INFO:
[Node] Running "sinker_0_mean_functional" ("CPAC.utils.interfaces.datasink.DataSink")
201112-22:33:05,78 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.sinker_0_mean_functional".
201112-22:33:05,80 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.func_preproc_fsl_afni_mean_mcflirt_0.norm_motion_params" in "/outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/_scan_rest_run-1/norm_motion_params".
201112-22:33:05,89 nipype.workflow INFO:
[Node] Running "norm_motion_params" ("CPAC.utils.interfaces.function.Function")
201112-22:33:05,320 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.func_preproc_fsl_afni_mean_mcflirt_0.norm_motion_params".
201112-22:33:05,321 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.sinker_0_slice_time_corrected" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_rest_run-1/sinker_0_slice_time_corrected".
201112-22:33:05,330 nipype.workflow INFO:
[Node] Running "sinker_0_slice_time_corrected" ("CPAC.utils.interfaces.datasink.DataSink")
201112-22:33:05,561 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.sinker_0_slice_time_corrected".
201112-22:33:05,563 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.sinker_0_raw_functional" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_rest_run-1/sinker_0_raw_functional".
201112-22:33:05,572 nipype.workflow INFO:
[Node] Running "sinker_0_raw_functional" ("CPAC.utils.interfaces.datasink.DataSink")
201112-22:33:05,932 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.sinker_0_raw_functional".
201112-22:33:05,934 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.func_gather_0.check_func_scan" in "/outputs/tmp/resting_preproc_sub-018_ses-1/func_gather_0/_scan_rest_run-1/check_func_scan".
201112-22:33:05,970 nipype.workflow INFO:
[Node] Running "check_func_scan" ("CPAC.utils.interfaces.function.Function")
201112-22:33:06,202 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.func_gather_0.check_func_scan".
201112-22:33:06,212 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.func_gather_0.select_scan_params" in "/outputs/tmp/resting_preproc_sub-018_ses-1/func_gather_0/_scan_ms_run-1/select_scan_params".
201112-22:33:06,243 nipype.workflow INFO:
[Node] Running "select_scan_params" ("CPAC.utils.interfaces.function.Function")
201112-22:33:06,482 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.func_gather_0.select_scan_params".
201112-22:33:06,493 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.func_gather_0.s3_scan_params" in "/outputs/tmp/resting_preproc_sub-018_ses-1/func_gather_0/_scan_ms_run-1/s3_scan_params".
201112-22:33:06,502 nipype.workflow INFO:
[Node] Running "s3_scan_params" ("CPAC.utils.interfaces.function.Function")
201112-22:33:06,737 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.func_gather_0.s3_scan_params".
201112-22:33:06,740 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.scan_params_0" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_ms_run-1/scan_params_0".
201112-22:33:06,751 nipype.workflow INFO:
[Node] Running "scan_params_0" ("CPAC.utils.interfaces.function.Function")
201112-22:33:06,987 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.scan_params_0".
201112-22:33:06,989 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.func_gather_0.selectrest" in "/outputs/tmp/resting_preproc_sub-018_ses-1/func_gather_0/_scan_ms_run-1/selectrest".
201112-22:33:07,23 nipype.workflow INFO:
[Node] Running "selectrest" ("CPAC.utils.interfaces.function.Function")
201112-22:33:07,261 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.func_gather_0.selectrest".
201112-22:33:07,271 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.func_gather_0.check_for_s3" in "/outputs/tmp/resting_preproc_sub-018_ses-1/func_gather_0/_scan_ms_run-1/check_for_s3".
201112-22:33:07,279 nipype.workflow INFO:
[Node] Running "check_for_s3" ("CPAC.utils.interfaces.function.Function")
201112-22:33:07,617 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.func_gather_0.check_for_s3".
201112-22:33:07,618 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.edit_func_0.func_get_idx" in "/outputs/tmp/resting_preproc_sub-018_ses-1/edit_func_0/_scan_ms_run-1/func_get_idx".
201112-22:33:07,627 nipype.workflow INFO:
[Node] Running "func_get_idx" ("nipype.interfaces.utility.wrappers.Function")
201112-22:33:07,860 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.edit_func_0.func_get_idx".
201112-22:33:07,861 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.edit_func_0.func_drop_trs" in "/outputs/tmp/resting_preproc_sub-018_ses-1/edit_func_0/_scan_ms_run-1/func_drop_trs".
201112-22:33:07,870 nipype.workflow INFO:
[Node] Running "func_drop_trs" ("nipype.interfaces.afni.utils.Calc"), a CommandLine Interface with command:
3dcalc -a /bids_dataset/sub-018/ses-1/func/sub-018_ses-1_task-ms_run-1_bold.nii.gz[0..142] -expr "a" -prefix sub-018_ses-1_task-ms_run-1_bold_calc.nii.gz
201112-22:33:08,119 nipype.interface INFO:
stderr 2020-11-12T22:33:08.118988:++ 3dcalc: AFNI version=AFNI_20.2.19 (Sep 27 2020) [64-bit]
201112-22:33:08,119 nipype.interface INFO:
stderr 2020-11-12T22:33:08.119346:++ Authored by: A cast of thousands
201112-22:33:14,420 nipype.interface INFO:
stderr 2020-11-12T22:33:14.419906:++ Output dataset ./sub-018_ses-1_task-ms_run-1_bold_calc.nii.gz
201112-22:33:14,600 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.edit_func_0.func_drop_trs".
201112-22:33:14,601 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_deoblique" in "/outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/_scan_ms_run-1/func_deoblique".
201112-22:33:14,650 nipype.workflow INFO:
[Node] Running "func_deoblique" ("nipype.interfaces.afni.utils.Refit"), a CommandLine Interface with command:
3drefit -deoblique /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/_scan_ms_run-1/func_deoblique/sub-018_ses-1_task-ms_run-1_bold_calc.nii.gz
201112-22:33:14,894 nipype.interface INFO:
stderr 2020-11-12T22:33:14.894032:++ 3drefit: AFNI version=AFNI_20.2.19 (Sep 27 2020) [64-bit]
201112-22:33:14,894 nipype.interface INFO:
stderr 2020-11-12T22:33:14.894348:++ Authored by: RW Cox
201112-22:33:14,903 nipype.interface INFO:
stderr 2020-11-12T22:33:14.903593:++ Processing AFNI dataset /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/_scan_ms_run-1/func_deoblique/sub-018_ses-1_task-ms_run-1_bold_calc.nii.gz
201112-22:33:14,904 nipype.interface INFO:
stderr 2020-11-12T22:33:14.904230: + deoblique
201112-22:33:14,904 nipype.interface INFO:
stderr 2020-11-12T22:33:14.904412: + loading and re-writing dataset /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/_scan_ms_run-1/func_deoblique/sub-018_ses-1_task-ms_run-1_bold_calc.nii.gz (/outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/_scan_ms_run-1/func_deoblique/sub-018_ses-1_task-ms_run-1_bold_calc.nii.gz in NIFTI storage)
201112-22:33:19,163 nipype.interface INFO:
stderr 2020-11-12T22:33:19.163300:++ 3drefit processed 1 datasets
201112-22:33:19,340 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_deoblique".
201112-22:33:19,341 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_reorient" in "/outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/_scan_ms_run-1/func_reorient".
201112-22:33:19,349 nipype.workflow INFO:
[Node] Running "func_reorient" ("nipype.interfaces.afni.utils.Resample"), a CommandLine Interface with command:
3dresample -orient RPI -prefix sub-018_ses-1_task-ms_run-1_bold_calc_resample.nii.gz -inset /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/_scan_ms_run-1/func_reorient/sub-018_ses-1_task-ms_run-1_bold_calc.nii.gz
201112-22:33:24,310 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_reorient".
201112-22:33:24,311 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_get_mean_RPI" in "/outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/_scan_ms_run-1/func_get_mean_RPI".
201112-22:33:24,319 nipype.workflow INFO:
[Node] Running "func_get_mean_RPI" ("nipype.interfaces.afni.utils.TStat"), a CommandLine Interface with command:
3dTstat -mean -prefix sub-018_ses-1_task-ms_run-1_bold_calc_resample_tstat.nii.gz /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/_scan_ms_run-1/func_get_mean_RPI/sub-018_ses-1_task-ms_run-1_bold_calc_resample.nii.gz
201112-22:33:24,559 nipype.interface INFO:
stderr 2020-11-12T22:33:24.559569:++ 3dTstat: AFNI version=AFNI_20.2.19 (Sep 27 2020) [64-bit]
201112-22:33:24,559 nipype.interface INFO:
stderr 2020-11-12T22:33:24.559872:++ Authored by: KR Hammett & RW Cox
201112-22:33:25,45 nipype.interface INFO:
stderr 2020-11-12T22:33:25.045097:++ Output dataset ./sub-018_ses-1_task-ms_run-1_bold_calc_resample_tstat.nii.gz
201112-22:33:25,197 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_get_mean_RPI".
201112-22:33:25,198 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_generate_ref" in "/outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/_scan_ms_run-1/func_generate_ref".
201112-22:33:25,208 nipype.workflow INFO:
[Node] Running "func_generate_ref" ("nipype.interfaces.afni.preprocess.Volreg"), a CommandLine Interface with command:
3dvolreg -twopass -Fourier -1Dfile sub-018_ses-1_task-ms_run-1_bold_calc_resample.1D -1Dmatrix_save sub-018_ses-1_task-ms_run-1_bold_calc_resample.aff12.1D -prefix sub-018_ses-1_task-ms_run-1_bold_calc_resample_volreg.nii.gz -base /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/_scan_ms_run-1/func_get_mean_RPI/sub-018_ses-1_task-ms_run-1_bold_calc_resample_tstat.nii.gz -zpad 4 -maxdisp1D sub-018_ses-1_task-ms_run-1_bold_calc_resample_md.1D /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/_scan_ms_run-1/func_generate_ref/sub-018_ses-1_task-ms_run-1_bold_calc_resample.nii.gz
201112-22:33:25,450 nipype.interface INFO:
stderr 2020-11-12T22:33:25.450440:++ 3dvolreg: AFNI version=AFNI_20.2.19 (Sep 27 2020) [64-bit]
201112-22:33:25,450 nipype.interface INFO:
stderr 2020-11-12T22:33:25.450746:++ Authored by: RW Cox
201112-22:33:25,460 nipype.interface INFO:
stderr 2020-11-12T22:33:25.460138:++ Coarse del was 10, replaced with 3
201112-22:35:24,813 nipype.interface INFO:
stderr 2020-11-12T22:35:24.813062:++ Max displacement in automask = 3.77 (mm) at sub-brick 69
201112-22:35:24,813 nipype.interface INFO:
stderr 2020-11-12T22:35:24.813623:++ Max delta displ in automask = 3.20 (mm) at sub-brick 69
201112-22:35:29,209 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_generate_ref".
201112-22:35:29,211 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_get_mean_motion" in "/outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/_scan_ms_run-1/func_get_mean_motion".
201112-22:35:29,217 nipype.workflow INFO:
[Node] Running "func_get_mean_motion" ("nipype.interfaces.afni.utils.TStat"), a CommandLine Interface with command:
3dTstat -mean -prefix sub-018_ses-1_task-ms_run-1_bold_calc_resample_volreg_tstat.nii.gz /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/_scan_ms_run-1/func_get_mean_motion/sub-018_ses-1_task-ms_run-1_bold_calc_resample_volreg.nii.gz
201112-22:35:29,468 nipype.interface INFO:
stderr 2020-11-12T22:35:29.468758:++ 3dTstat: AFNI version=AFNI_20.2.19 (Sep 27 2020) [64-bit]
201112-22:35:29,469 nipype.interface INFO:
stderr 2020-11-12T22:35:29.469100:++ Authored by: KR Hammett & RW Cox
201112-22:35:29,963 nipype.interface INFO:
stderr 2020-11-12T22:35:29.963906:++ Output dataset ./sub-018_ses-1_task-ms_run-1_bold_calc_resample_volreg_tstat.nii.gz
201112-22:35:30,117 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_get_mean_motion".
201112-22:35:30,118 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_motion_correct_mcflirt" in "/outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/_scan_ms_run-1/func_motion_correct_mcflirt".
201112-22:35:30,128 nipype.workflow INFO:
[Node] Running "func_motion_correct_mcflirt" ("nipype.interfaces.fsl.preprocess.MCFLIRT"), a CommandLine Interface with command:
mcflirt -in /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/_scan_ms_run-1/func_reorient/sub-018_ses-1_task-ms_run-1_bold_calc_resample.nii.gz -out /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/_scan_ms_run-1/func_motion_correct_mcflirt/sub-018_ses-1_task-ms_run-1_bold_calc_resample_mcf.nii.gz -reffile /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/_scan_ms_run-1/func_get_mean_motion/sub-018_ses-1_task-ms_run-1_bold_calc_resample_volreg_tstat.nii.gz -mats -plots -rmsabs -rmsrel
201112-22:35:55,341 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_motion_correct_mcflirt".
201112-22:35:55,350 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.gen_motion_stats_before_stc_fsl_afni_mean_mcflirt_0.calculate_FDJ" in "/outputs/tmp/resting_preproc_sub-018_ses-1/gen_motion_stats_before_stc_fsl_afni_mean_mcflirt_0/_scan_ms_run-1/calculate_FDJ".
201112-22:35:55,358 nipype.workflow INFO:
[Node] Running "calculate_FDJ" ("CPAC.utils.interfaces.function.Function")
201112-22:35:55,588 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.gen_motion_stats_before_stc_fsl_afni_mean_mcflirt_0.calculate_FDJ".
201112-22:35:55,589 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.sinker_0_frame_wise_displacement_jenkinson" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_ms_run-1/sinker_0_frame_wise_displacement_jenkinson".
201112-22:35:55,600 nipype.workflow INFO:
[Node] Running "sinker_0_frame_wise_displacement_jenkinson" ("CPAC.utils.interfaces.datasink.DataSink")
201112-22:35:55,827 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.sinker_0_frame_wise_displacement_jenkinson".
201112-22:35:55,829 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.sinker_0_max_displacement" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_ms_run-1/sinker_0_max_displacement".
201112-22:35:55,840 nipype.workflow INFO:
[Node] Running "sinker_0_max_displacement" ("CPAC.utils.interfaces.datasink.DataSink")
201112-22:35:56,67 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.sinker_0_max_displacement".
201112-22:35:56,69 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.sinker_0_coordinate_transformation" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_ms_run-1/sinker_0_coordinate_transformation".
201112-22:35:56,91 nipype.workflow INFO:
[Node] Running "sinker_0_coordinate_transformation" ("CPAC.utils.interfaces.datasink.DataSink")
201112-22:35:56,361 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.sinker_0_coordinate_transformation".
201112-22:35:56,373 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip.func_mean_skull" in "/outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_ms_run-1/func_mean_skull".
201112-22:35:56,383 nipype.workflow INFO:
[Node] Running "func_mean_skull" ("nipype.interfaces.afni.utils.TStat"), a CommandLine Interface with command:
3dTstat -mean -prefix sub-018_ses-1_task-ms_run-1_bold_calc_resample_mcf_tstat.nii.gz /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_ms_run-1/func_mean_skull/sub-018_ses-1_task-ms_run-1_bold_calc_resample_mcf.nii.gz
201112-22:35:56,633 nipype.interface INFO:
stderr 2020-11-12T22:35:56.633592:++ 3dTstat: AFNI version=AFNI_20.2.19 (Sep 27 2020) [64-bit]
201112-22:35:56,634 nipype.interface INFO:
stderr 2020-11-12T22:35:56.634090:++ Authored by: KR Hammett & RW Cox
201112-22:35:57,166 nipype.interface INFO:
stderr 2020-11-12T22:35:57.166158:++ Output dataset ./sub-018_ses-1_task-ms_run-1_bold_calc_resample_mcf_tstat.nii.gz
201112-22:35:57,318 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip.func_mean_skull".
201112-22:35:57,320 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip.skullstrip_first_pass" in "/outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_ms_run-1/skullstrip_first_pass".
201112-22:35:57,328 nipype.workflow INFO:
[Node] Running "skullstrip_first_pass" ("nipype.interfaces.fsl.preprocess.BET"), a CommandLine Interface with command:
bet /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_ms_run-1/func_mean_skull/sub-018_ses-1_task-ms_run-1_bold_calc_resample_mcf_tstat.nii.gz /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_ms_run-1/skullstrip_first_pass/sub-018_ses-1_task-ms_run-1_bold_calc_resample_mcf_tstat_brain.nii.gz -f 0.20 -m
201112-22:35:59,169 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip.skullstrip_first_pass".
201112-22:35:59,170 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip.skullstrip_first_dilate" in "/outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_ms_run-1/skullstrip_first_dilate".
201112-22:35:59,179 nipype.workflow INFO:
[Node] Running "skullstrip_first_dilate" ("nipype.interfaces.fsl.maths.DilateImage"), a CommandLine Interface with command:
fslmaths -dt char /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_ms_run-1/skullstrip_first_pass/sub-018_ses-1_task-ms_run-1_bold_calc_resample_mcf_tstat_brain_mask.nii.gz -kernel sphere 6.0000 -dilF /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_ms_run-1/skullstrip_first_dilate/sub-018_ses-1_task-ms_run-1_bold_calc_resample_mcf_tstat_brain_mask_dil.nii.gz
201112-22:35:59,828 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip.skullstrip_first_dilate".
201112-22:35:59,829 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip.skullstrip_first_mask" in "/outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_ms_run-1/skullstrip_first_mask".
201112-22:35:59,838 nipype.workflow INFO:
[Node] Running "skullstrip_first_mask" ("nipype.interfaces.fsl.maths.ApplyMask"), a CommandLine Interface with command:
fslmaths /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_ms_run-1/skullstrip_first_pass/sub-018_ses-1_task-ms_run-1_bold_calc_resample_mcf_tstat_brain.nii.gz -mas /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_ms_run-1/skullstrip_first_dilate/sub-018_ses-1_task-ms_run-1_bold_calc_resample_mcf_tstat_brain_mask_dil.nii.gz /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_ms_run-1/skullstrip_first_mask/sub-018_ses-1_task-ms_run-1_bold_calc_resample_mcf_tstat_brain_masked.nii.gz
201112-22:36:00,253 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip.skullstrip_first_mask".
201112-22:36:00,254 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip.unifize" in "/outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_ms_run-1/unifize".
201112-22:36:00,263 nipype.workflow INFO:
[Node] Running "unifize" ("nipype.interfaces.afni.utils.Unifize"), a CommandLine Interface with command:
3dUnifize -clfrac 0.2 -rbt 18.3 65.0 90.0 -prefix uni.nii.gz -T2 -input /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_ms_run-1/unifize/sub-018_ses-1_task-ms_run-1_bold_calc_resample_mcf_tstat_brain_masked.nii.gz
201112-22:36:00,507 nipype.interface INFO:
stderr 2020-11-12T22:36:00.507444:++ 3dUnifize: AFNI version=AFNI_20.2.19 (Sep 27 2020) [64-bit]
201112-22:37:13,158 nipype.interface INFO:
stderr 2020-11-12T22:37:13.158284: + Pre-processing: IAV..UW[s4188]Im
201112-22:37:13,174 nipype.interface INFO:
stderr 2020-11-12T22:37:13.174150:++ Output dataset ./uni.nii.gz
201112-22:37:13,174 nipype.interface INFO:
stderr 2020-11-12T22:37:13.174439:++ ===== Elapsed = 72.7 sec
201112-22:37:13,347 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip.unifize".
201112-22:37:13,349 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip.skullstrip_second_pass" in "/outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_ms_run-1/skullstrip_second_pass".
201112-22:37:13,358 nipype.workflow INFO:
[Node] Running "skullstrip_second_pass" ("nipype.interfaces.afni.preprocess.Automask"), a CommandLine Interface with command:
3dAutomask -apply_prefix uni_masked.nii.gz -dilate 1 -prefix uni_mask.nii.gz /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_ms_run-1/skullstrip_second_pass/uni.nii.gz
201112-22:37:13,608 nipype.interface INFO:
stderr 2020-11-12T22:37:13.608263:++ 3dAutomask: AFNI version=AFNI_20.2.19 (Sep 27 2020) [64-bit]
201112-22:37:13,608 nipype.interface INFO:
stderr 2020-11-12T22:37:13.608942:++ Authored by: Emperor Zhark
201112-22:37:13,611 nipype.interface INFO:
stderr 2020-11-12T22:37:13.611698:++ Loading dataset /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_ms_run-1/skullstrip_second_pass/uni.nii.gz
201112-22:37:13,617 nipype.interface INFO:
stderr 2020-11-12T22:37:13.617020:++ Forming automask
201112-22:37:13,618 nipype.interface INFO:
stderr 2020-11-12T22:37:13.618785: + Fixed clip level = 438.350891
201112-22:37:13,623 nipype.interface INFO:
stderr 2020-11-12T22:37:13.622999: + Used gradual clip level = 393.845795 .. 490.089172
201112-22:37:13,623 nipype.interface INFO:
stderr 2020-11-12T22:37:13.623253: + Number voxels above clip level = 28052
201112-22:37:13,623 nipype.interface INFO:
stderr 2020-11-12T22:37:13.623444: + Clustering voxels ...
201112-22:37:13,625 nipype.interface INFO:
stderr 2020-11-12T22:37:13.625038: + Largest cluster has 28044 voxels
201112-22:37:13,626 nipype.interface INFO:
stderr 2020-11-12T22:37:13.626343: + Clustering voxels ...
201112-22:37:13,627 nipype.interface INFO:
stderr 2020-11-12T22:37:13.627411: + Largest cluster has 27627 voxels
201112-22:37:13,630 nipype.interface INFO:
stderr 2020-11-12T22:37:13.630774: + Filled 627 voxels in small holes; now have 28254 voxels
201112-22:37:13,637 nipype.interface INFO:
stderr 2020-11-12T22:37:13.637185: + Filled 9 voxels in large holes; now have 28263 voxels
201112-22:37:13,638 nipype.interface INFO:
stderr 2020-11-12T22:37:13.638389: + Clustering voxels ...
201112-22:37:13,639 nipype.interface INFO:
stderr 2020-11-12T22:37:13.639432: + Largest cluster has 28263 voxels
201112-22:37:13,639 nipype.interface INFO:
stderr 2020-11-12T22:37:13.639666: + Clustering non-brain voxels ...
201112-22:37:13,639 nipype.interface INFO:
stderr 2020-11-12T22:37:13.639810: + Clustering voxels ...
201112-22:37:13,642 nipype.interface INFO:
stderr 2020-11-12T22:37:13.642693: + Largest cluster has 110934 voxels
201112-22:37:13,643 nipype.interface INFO:
stderr 2020-11-12T22:37:13.643022: + Mask now has 28330 voxels
201112-22:37:13,643 nipype.interface INFO:
stderr 2020-11-12T22:37:13.643174:++ Dilating automask
201112-22:37:13,649 nipype.interface INFO:
stderr 2020-11-12T22:37:13.649506: + Clustering voxels ...
201112-22:37:13,652 nipype.interface INFO:
stderr 2020-11-12T22:37:13.652162: + Largest cluster has 105352 voxels
201112-22:37:13,652 nipype.interface INFO:
stderr 2020-11-12T22:37:13.652498:++ 33912 voxels in the mask [out of 139264: 24.35%]
201112-22:37:13,652 nipype.interface INFO:
stderr 2020-11-12T22:37:13.652669:++ first 10 x-planes are zero [from R]
201112-22:37:13,652 nipype.interface INFO:
stderr 2020-11-12T22:37:13.652831:++ last 9 x-planes are zero [from L]
201112-22:37:13,652 nipype.interface INFO:
stderr 2020-11-12T22:37:13.652970:++ first 3 y-planes are zero [from P]
201112-22:37:13,653 nipype.interface INFO:
stderr 2020-11-12T22:37:13.653118:++ last 8 y-planes are zero [from A]
201112-22:37:13,653 nipype.interface INFO:
stderr 2020-11-12T22:37:13.653251:++ first 0 z-planes are zero [from I]
201112-22:37:13,653 nipype.interface INFO:
stderr 2020-11-12T22:37:13.653385:++ last 1 z-planes are zero [from S]
201112-22:37:13,657 nipype.interface INFO:
stderr 2020-11-12T22:37:13.657733:++ Output dataset ./uni_mask.nii.gz
201112-22:37:13,657 nipype.interface INFO:
stderr 2020-11-12T22:37:13.657907:++ applying mask to original data
201112-22:37:13,658 nipype.interface INFO:
stderr 2020-11-12T22:37:13.658574:++ Writing masked data
201112-22:37:13,671 nipype.interface INFO:
stderr 2020-11-12T22:37:13.671838:++ Output dataset ./uni_masked.nii.gz
201112-22:37:13,672 nipype.interface INFO:
stderr 2020-11-12T22:37:13.672176:++ CPU time = 0.000000 sec
201112-22:37:13,822 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip.skullstrip_second_pass".
201112-22:37:13,823 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip.combine_masks" in "/outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_ms_run-1/combine_masks".
201112-22:37:13,831 nipype.workflow INFO:
[Node] Running "combine_masks" ("nipype.interfaces.fsl.maths.BinaryMaths"), a CommandLine Interface with command:
fslmaths /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_ms_run-1/skullstrip_first_pass/sub-018_ses-1_task-ms_run-1_bold_calc_resample_mcf_tstat_brain_mask.nii.gz -mul /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_ms_run-1/skullstrip_second_pass/uni_mask.nii.gz /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_ms_run-1/combine_masks/sub-018_ses-1_task-ms_run-1_bold_calc_resample_mcf_tstat_brain_mask_maths.nii.gz
201112-22:37:14,227 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip.combine_masks".
201112-22:37:14,229 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.gen_motion_stats_before_stc_fsl_afni_mean_mcflirt_0.cal_DVARS" in "/outputs/tmp/resting_preproc_sub-018_ses-1/gen_motion_stats_before_stc_fsl_afni_mean_mcflirt_0/_scan_ms_run-1/cal_DVARS".
201112-22:37:14,238 nipype.workflow INFO:
[Node] Running "cal_DVARS" ("CPAC.utils.interfaces.function.Function")
201112-22:37:14,957 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.gen_motion_stats_before_stc_fsl_afni_mean_mcflirt_0.cal_DVARS".
201112-22:37:14,959 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip.func_extract_brain" in "/outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_ms_run-1/func_extract_brain".
201112-22:37:14,969 nipype.workflow INFO:
[Node] Running "func_extract_brain" ("nipype.interfaces.afni.utils.Calc"), a CommandLine Interface with command:
3dcalc -a /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/_scan_ms_run-1/func_motion_correct_mcflirt/sub-018_ses-1_task-ms_run-1_bold_calc_resample_mcf.nii.gz -b /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_ms_run-1/combine_masks/sub-018_ses-1_task-ms_run-1_bold_calc_resample_mcf_tstat_brain_mask_maths.nii.gz -expr "a*b" -prefix sub-018_ses-1_task-ms_run-1_bold_calc_resample_mcf_calc.nii.gz
201112-22:37:15,210 nipype.interface INFO:
stderr 2020-11-12T22:37:15.210410:++ 3dcalc: AFNI version=AFNI_20.2.19 (Sep 27 2020) [64-bit]
201112-22:37:15,210 nipype.interface INFO:
stderr 2020-11-12T22:37:15.210726:++ Authored by: A cast of thousands
201112-22:37:18,212 nipype.interface INFO:
stderr 2020-11-12T22:37:18.212027:++ Output dataset ./sub-018_ses-1_task-ms_run-1_bold_calc_resample_mcf_calc.nii.gz
201112-22:37:18,387 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip.func_extract_brain".
201112-22:37:18,388 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_normalize" in "/outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/_scan_ms_run-1/func_normalize".
201112-22:37:18,397 nipype.workflow INFO:
[Node] Running "func_normalize" ("nipype.interfaces.fsl.utils.ImageMaths"), a CommandLine Interface with command:
fslmaths /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_ms_run-1/func_extract_brain/sub-018_ses-1_task-ms_run-1_bold_calc_resample_mcf_calc.nii.gz -ing 10000 /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/_scan_ms_run-1/func_normalize/sub-018_ses-1_task-ms_run-1_bold_calc_resample_mcf_calc_maths.nii.gz -odt float
201112-22:37:20,614 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_normalize".
201112-22:37:20,616 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_mask_normalize" in "/outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/_scan_ms_run-1/func_mask_normalize".
201112-22:37:20,626 nipype.workflow INFO:
[Node] Running "func_mask_normalize" ("nipype.interfaces.fsl.utils.ImageMaths"), a CommandLine Interface with command:
fslmaths /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/_scan_ms_run-1/func_normalize/sub-018_ses-1_task-ms_run-1_bold_calc_resample_mcf_calc_maths.nii.gz -Tmin -bin /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/_scan_ms_run-1/func_mask_normalize/sub-018_ses-1_task-ms_run-1_bold_calc_resample_mcf_calc_maths_maths.nii.gz -odt char
201112-22:37:21,697 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_mask_normalize".
201112-22:37:21,698 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_mean" in "/outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/_scan_ms_run-1/func_mean".
201112-22:37:21,708 nipype.workflow INFO:
[Node] Running "func_mean" ("nipype.interfaces.afni.utils.TStat"), a CommandLine Interface with command:
3dTstat -mean -prefix sub-018_ses-1_task-ms_run-1_bold_calc_resample_mcf_calc_tstat.nii.gz /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/_scan_ms_run-1/func_mean/sub-018_ses-1_task-ms_run-1_bold_calc_resample_mcf_calc.nii.gz
201112-22:37:21,958 nipype.interface INFO:
stderr 2020-11-12T22:37:21.958009:++ 3dTstat: AFNI version=AFNI_20.2.19 (Sep 27 2020) [64-bit]
201112-22:37:21,958 nipype.interface INFO:
stderr 2020-11-12T22:37:21.958439:++ Authored by: KR Hammett & RW Cox
201112-22:37:22,287 nipype.interface INFO:
stderr 2020-11-12T22:37:22.287324:++ Output dataset ./sub-018_ses-1_task-ms_run-1_bold_calc_resample_mcf_calc_tstat.nii.gz
201112-22:37:22,463 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_mean".
201112-22:37:22,465 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.norm_motion_params" in "/outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/_scan_ms_run-1/norm_motion_params".
201112-22:37:22,473 nipype.workflow INFO:
[Node] Running "norm_motion_params" ("CPAC.utils.interfaces.function.Function")
201112-22:37:22,707 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.norm_motion_params".
201112-22:37:22,708 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.qc_motion_0.motion_plot" in "/outputs/tmp/resting_preproc_sub-018_ses-1/qc_motion_0/_scan_ms_run-1/motion_plot".
201112-22:37:22,715 nipype.workflow INFO:
[Node] Running "motion_plot" ("CPAC.utils.interfaces.function.Function")
201112-22:37:23,156 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.qc_motion_0.motion_plot".
201112-22:37:23,158 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.sinker_0_qc___movement_trans_plot" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_ms_run-1/sinker_0_qc___movement_trans_plot".
201112-22:37:23,167 nipype.workflow INFO:
[Node] Running "sinker_0_qc___movement_trans_plot" ("CPAC.utils.interfaces.datasink.DataSink")
201112-22:37:23,378 nipype.interface INFO:
sub: /outputs/output/pipeline_cpac_fmriprep-options/sub-018_ses-1/qc___movement_trans_plot/_scan_ms_run-1/motion_trans_plot.png -> /outputs/output/pipeline_cpac_fmriprep-options/sub-018_ses-1/qc/movement_trans_plot/_scan_ms_run-1/motion_trans_plot.png
201112-22:37:23,396 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.sinker_0_qc___movement_trans_plot".
201112-22:37:23,397 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.sinker_0_qc___movement_rot_plot" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_ms_run-1/sinker_0_qc___movement_rot_plot".
201112-22:37:23,407 nipype.workflow INFO:
[Node] Running "sinker_0_qc___movement_rot_plot" ("CPAC.utils.interfaces.datasink.DataSink")
201112-22:37:23,618 nipype.interface INFO:
sub: /outputs/output/pipeline_cpac_fmriprep-options/sub-018_ses-1/qc___movement_rot_plot/_scan_ms_run-1/motion_rot_plot.png -> /outputs/output/pipeline_cpac_fmriprep-options/sub-018_ses-1/qc/movement_rot_plot/_scan_ms_run-1/motion_rot_plot.png
201112-22:37:23,638 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.sinker_0_qc___movement_rot_plot".
201112-22:37:23,640 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.gen_motion_stats_before_stc_fsl_afni_mean_mcflirt_0.calc_motion_parameters" in "/outputs/tmp/resting_preproc_sub-018_ses-1/gen_motion_stats_before_stc_fsl_afni_mean_mcflirt_0/_scan_ms_run-1/calc_motion_parameters".
201112-22:37:23,650 nipype.workflow INFO:
[Node] Running "calc_motion_parameters" ("CPAC.utils.interfaces.function.Function")
201112-22:37:23,883 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.gen_motion_stats_before_stc_fsl_afni_mean_mcflirt_0.calc_motion_parameters".
201112-22:37:23,884 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.sinker_0_motion_params" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_ms_run-1/sinker_0_motion_params".
201112-22:37:23,894 nipype.workflow INFO:
[Node] Running "sinker_0_motion_params" ("CPAC.utils.interfaces.datasink.DataSink")
201112-22:37:24,127 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.sinker_0_motion_params".
201112-22:37:24,129 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.gen_motion_stats_before_stc_fsl_afni_mean_mcflirt_0.calculate_FD" in "/outputs/tmp/resting_preproc_sub-018_ses-1/gen_motion_stats_before_stc_fsl_afni_mean_mcflirt_0/_scan_ms_run-1/calculate_FD".
201112-22:37:24,136 nipype.workflow INFO:
[Node] Running "calculate_FD" ("CPAC.utils.interfaces.function.Function")
201112-22:37:24,370 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.gen_motion_stats_before_stc_fsl_afni_mean_mcflirt_0.calculate_FD".
201112-22:37:24,371 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.sinker_0_frame_wise_displacement_power" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_ms_run-1/sinker_0_frame_wise_displacement_power".
201112-22:37:24,382 nipype.workflow INFO:
[Node] Running "sinker_0_frame_wise_displacement_power" ("CPAC.utils.interfaces.datasink.DataSink")
201112-22:37:24,616 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.sinker_0_frame_wise_displacement_power".
201112-22:37:24,618 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.gen_motion_stats_before_stc_fsl_afni_mean_mcflirt_0.calc_power_parameters" in "/outputs/tmp/resting_preproc_sub-018_ses-1/gen_motion_stats_before_stc_fsl_afni_mean_mcflirt_0/_scan_ms_run-1/calc_power_parameters".
201112-22:37:24,626 nipype.workflow INFO:
[Node] Running "calc_power_parameters" ("CPAC.utils.interfaces.function.Function")
201112-22:37:24,860 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.gen_motion_stats_before_stc_fsl_afni_mean_mcflirt_0.calc_power_parameters".
201112-22:37:24,861 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.sinker_0_power_params" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_ms_run-1/sinker_0_power_params".
201112-22:37:24,872 nipype.workflow INFO:
[Node] Running "sinker_0_power_params" ("CPAC.utils.interfaces.datasink.DataSink")
201112-22:37:25,107 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.sinker_0_power_params".
201112-22:37:25,109 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.sinker_0_movement_parameters" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_ms_run-1/sinker_0_movement_parameters".
201112-22:37:25,118 nipype.workflow INFO:
[Node] Running "sinker_0_movement_parameters" ("CPAC.utils.interfaces.datasink.DataSink")
201112-22:37:25,362 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.sinker_0_movement_parameters".
201112-22:37:25,365 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.func_despiked_0" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_ms_run-1/func_despiked_0".
201112-22:37:25,374 nipype.workflow INFO:
[Node] Running "func_despiked_0" ("nipype.interfaces.afni.preprocess.Despike"), a CommandLine Interface with command:
3dDespike -prefix sub-018_ses-1_task-ms_run-1_bold_calc_despike.nii.gz /outputs/tmp/resting_preproc_sub-018_ses-1/_scan_ms_run-1/func_despiked_0/sub-018_ses-1_task-ms_run-1_bold_calc.nii.gz
201112-22:37:25,632 nipype.interface INFO:
stderr 2020-11-12T22:37:25.632126:++ 3dDespike: AFNI version=AFNI_20.2.19 (Sep 27 2020) [64-bit]
201112-22:37:25,632 nipype.interface INFO:
stderr 2020-11-12T22:37:25.632694:++ Authored by: RW Cox
201112-22:37:25,635 nipype.interface INFO:
stderr 2020-11-12T22:37:25.635684:[7m*+ WARNING:[0m If you are performing spatial transformations on an oblique dset,
201112-22:37:25,635 nipype.interface INFO:
stderr 2020-11-12T22:37:25.635684: such as /outputs/tmp/resting_preproc_sub-018_ses-1/_scan_ms_run-1/func_despiked_0/sub-018_ses-1_task-ms_run-1_bold_calc.nii.gz,
201112-22:37:25,635 nipype.interface INFO:
stderr 2020-11-12T22:37:25.635684: or viewing/combining it with volumes of differing obliquity,
201112-22:37:25,636 nipype.interface INFO:
stderr 2020-11-12T22:37:25.635684: you should consider running:
201112-22:37:25,636 nipype.interface INFO:
stderr 2020-11-12T22:37:25.635684: 3dWarp -deoblique
201112-22:37:25,636 nipype.interface INFO:
stderr 2020-11-12T22:37:25.635684: on this and other oblique datasets in the same session.
201112-22:37:25,636 nipype.interface INFO:
stderr 2020-11-12T22:37:25.635684: See 3dWarp -help for details.
201112-22:37:25,636 nipype.interface INFO:
stderr 2020-11-12T22:37:25.636545:++ Oblique dataset:/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_ms_run-1/func_despiked_0/sub-018_ses-1_task-ms_run-1_bold_calc.nii.gz is 17.792933 degrees from plumb.
201112-22:37:25,636 nipype.interface INFO:
stderr 2020-11-12T22:37:25.636734:++ Input dataset is in short format, but output will be in float format
201112-22:37:25,636 nipype.interface INFO:
stderr 2020-11-12T22:37:25.636906:++ ignoring first 0 time points, using last 143
201112-22:37:25,637 nipype.interface INFO:
stderr 2020-11-12T22:37:25.637078:++ using 143 time points => -corder 5
201112-22:37:25,637 nipype.interface INFO:
stderr 2020-11-12T22:37:25.637241:++ Loading dataset /outputs/tmp/resting_preproc_sub-018_ses-1/_scan_ms_run-1/func_despiked_0/sub-018_ses-1_task-ms_run-1_bold_calc.nii.gz
201112-22:37:26,140 nipype.interface INFO:
stderr 2020-11-12T22:37:26.140394:++ 32036 voxels in the automask [out of 139264 in dataset]
201112-22:37:26,146 nipype.interface INFO:
stderr 2020-11-12T22:37:26.145997:++ 55569 voxels in the dilated automask [out of 139264 in dataset]
201112-22:37:26,157 nipype.interface INFO:
stderr 2020-11-12T22:37:26.157706:++ Procesing time series with OLD model fit algorithm
201112-22:37:26,157 nipype.interface INFO:
stderr 2020-11-12T22:37:26.157898:++ smash edit thresholds: 3.1 .. 5.0 MADs
201112-22:37:26,158 nipype.interface INFO:
stderr 2020-11-12T22:37:26.158055: + [ 3.457% .. 0.072% of normal distribution]
201112-22:37:26,158 nipype.interface INFO:
stderr 2020-11-12T22:37:26.158203: + [ 8.839% .. 3.125% of Laplace distribution]
201112-22:37:26,158 nipype.interface INFO:
stderr 2020-11-12T22:37:26.158357:++ start OpenMP thread #0
201112-22:37:33,766 nipype.interface INFO:
stderr 2020-11-12T22:37:33.766685:........................
201112-22:37:33,767 nipype.interface INFO:
stderr 2020-11-12T22:37:33.767161:++ Elapsed despike time = 7s 608ms
201112-22:37:33,767 nipype.interface INFO:
stderr 2020-11-12T22:37:33.767310:
201112-22:37:33,768 nipype.interface INFO:
stderr 2020-11-12T22:37:33.768225:++ FINAL: 7946367 data points, 655900 edits [8.254%], 165494 big edits [2.083%]
201112-22:37:37,903 nipype.interface INFO:
stderr 2020-11-12T22:37:37.903371:++ Output dataset ./sub-018_ses-1_task-ms_run-1_bold_calc_despike.nii.gz
201112-22:37:38,92 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.func_despiked_0".
201112-22:37:38,94 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.func_slice_timing_correction_0.slice_timing" in "/outputs/tmp/resting_preproc_sub-018_ses-1/func_slice_timing_correction_0/_scan_ms_run-1/slice_timing".
201112-22:37:38,105 nipype.interface WARNING:
Passing a file prefixed by "@" will be deprecated; please use the `slice_timing` input
201112-22:37:38,106 nipype.workflow INFO:
[Node] Running "slice_timing" ("nipype.interfaces.afni.preprocess.TShift"), a CommandLine Interface with command:
3dTshift -prefix sub-018_ses-1_task-ms_run-1_bold_calc_despike_tshift.nii.gz -tpattern @/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_ms_run-1/scan_params_0/tpattern.txt -TR 2.0s /outputs/tmp/resting_preproc_sub-018_ses-1/func_slice_timing_correction_0/_scan_ms_run-1/slice_timing/sub-018_ses-1_task-ms_run-1_bold_calc_despike.nii.gz
201112-22:37:38,318 nipype.interface WARNING:
Passing a file prefixed by "@" will be deprecated; please use the `slice_timing` input
201112-22:37:38,357 nipype.interface INFO:
stderr 2020-11-12T22:37:38.357862:++ 3dTshift: AFNI version=AFNI_20.2.19 (Sep 27 2020) [64-bit]
201112-22:37:38,361 nipype.interface INFO:
stderr 2020-11-12T22:37:38.361252:[7m*+ WARNING:[0m If you are performing spatial transformations on an oblique dset,
201112-22:37:38,361 nipype.interface INFO:
stderr 2020-11-12T22:37:38.361252: such as /outputs/tmp/resting_preproc_sub-018_ses-1/func_slice_timing_correction_0/_scan_ms_run-1/slice_timing/sub-018_ses-1_task-ms_run-1_bold_calc_despike.nii.gz,
201112-22:37:38,361 nipype.interface INFO:
stderr 2020-11-12T22:37:38.361252: or viewing/combining it with volumes of differing obliquity,
201112-22:37:38,361 nipype.interface INFO:
stderr 2020-11-12T22:37:38.361252: you should consider running:
201112-22:37:38,361 nipype.interface INFO:
stderr 2020-11-12T22:37:38.361252: 3dWarp -deoblique
201112-22:37:38,362 nipype.interface INFO:
stderr 2020-11-12T22:37:38.361252: on this and other oblique datasets in the same session.
201112-22:37:38,362 nipype.interface INFO:
stderr 2020-11-12T22:37:38.361252: See 3dWarp -help for details.
201112-22:37:38,362 nipype.interface INFO:
stderr 2020-11-12T22:37:38.362332:++ Oblique dataset:/outputs/tmp/resting_preproc_sub-018_ses-1/func_slice_timing_correction_0/_scan_ms_run-1/slice_timing/sub-018_ses-1_task-ms_run-1_bold_calc_despike.nii.gz is 17.792933 degrees from plumb.
201112-22:37:42,952 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.func_slice_timing_correction_0.slice_timing".
201112-22:37:42,954 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.func_preproc_fsl_afni_mean_mcflirt_0.func_deoblique" in "/outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/_scan_ms_run-1/func_deoblique".
201112-22:37:43,13 nipype.workflow INFO:
[Node] Running "func_deoblique" ("nipype.interfaces.afni.utils.Refit"), a CommandLine Interface with command:
3drefit -deoblique /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/_scan_ms_run-1/func_deoblique/sub-018_ses-1_task-ms_run-1_bold_calc_despike_tshift.nii.gz
201112-22:37:43,260 nipype.interface INFO:
stderr 2020-11-12T22:37:43.260379:++ 3drefit: AFNI version=AFNI_20.2.19 (Sep 27 2020) [64-bit]
201112-22:37:43,260 nipype.interface INFO:
stderr 2020-11-12T22:37:43.260715:++ Authored by: RW Cox
201112-22:37:43,272 nipype.interface INFO:
stderr 2020-11-12T22:37:43.272698:++ Processing AFNI dataset /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/_scan_ms_run-1/func_deoblique/sub-018_ses-1_task-ms_run-1_bold_calc_despike_tshift.nii.gz
201112-22:37:43,273 nipype.interface INFO:
stderr 2020-11-12T22:37:43.273631: + deoblique
201112-22:37:43,273 nipype.interface INFO:
stderr 2020-11-12T22:37:43.273911: + loading and re-writing dataset /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/_scan_ms_run-1/func_deoblique/sub-018_ses-1_task-ms_run-1_bold_calc_despike_tshift.nii.gz (/outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/_scan_ms_run-1/func_deoblique/sub-018_ses-1_task-ms_run-1_bold_calc_despike_tshift.nii.gz in NIFTI storage)
201112-22:37:45,571 nipype.interface INFO:
stderr 2020-11-12T22:37:45.571113:++ 3drefit processed 1 datasets
201112-22:37:45,743 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.func_preproc_fsl_afni_mean_mcflirt_0.func_deoblique".
201112-22:37:45,744 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.func_preproc_fsl_afni_mean_mcflirt_0.func_reorient" in "/outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/_scan_ms_run-1/func_reorient".
201112-22:37:45,754 nipype.workflow INFO:
[Node] Running "func_reorient" ("nipype.interfaces.afni.utils.Resample"), a CommandLine Interface with command:
3dresample -orient RPI -prefix sub-018_ses-1_task-ms_run-1_bold_calc_despike_tshift_resample.nii.gz -inset /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/_scan_ms_run-1/func_reorient/sub-018_ses-1_task-ms_run-1_bold_calc_despike_tshift.nii.gz
201112-22:37:48,697 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.func_preproc_fsl_afni_mean_mcflirt_0.func_reorient".
201112-22:37:48,699 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.func_preproc_fsl_afni_mean_mcflirt_0.func_get_mean_RPI" in "/outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/_scan_ms_run-1/func_get_mean_RPI".
201112-22:37:48,707 nipype.workflow INFO:
[Node] Running "func_get_mean_RPI" ("nipype.interfaces.afni.utils.TStat"), a CommandLine Interface with command:
3dTstat -mean -prefix sub-018_ses-1_task-ms_run-1_bold_calc_despike_tshift_resample_tstat.nii.gz /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/_scan_ms_run-1/func_get_mean_RPI/sub-018_ses-1_task-ms_run-1_bold_calc_despike_tshift_resample.nii.gz
201112-22:37:48,956 nipype.interface INFO:
stderr 2020-11-12T22:37:48.956622:++ 3dTstat: AFNI version=AFNI_20.2.19 (Sep 27 2020) [64-bit]
201112-22:37:48,956 nipype.interface INFO:
stderr 2020-11-12T22:37:48.956926:++ Authored by: KR Hammett & RW Cox
201112-22:37:49,602 nipype.interface INFO:
stderr 2020-11-12T22:37:49.602065:++ Output dataset ./sub-018_ses-1_task-ms_run-1_bold_calc_despike_tshift_resample_tstat.nii.gz
201112-22:37:49,758 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.func_preproc_fsl_afni_mean_mcflirt_0.func_get_mean_RPI".
201112-22:37:49,759 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.func_preproc_fsl_afni_mean_mcflirt_0.func_generate_ref" in "/outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/_scan_ms_run-1/func_generate_ref".
201112-22:37:49,770 nipype.workflow INFO:
[Node] Running "func_generate_ref" ("nipype.interfaces.afni.preprocess.Volreg"), a CommandLine Interface with command:
3dvolreg -twopass -Fourier -1Dfile sub-018_ses-1_task-ms_run-1_bold_calc_despike_tshift_resample.1D -1Dmatrix_save sub-018_ses-1_task-ms_run-1_bold_calc_despike_tshift_resample.aff12.1D -prefix sub-018_ses-1_task-ms_run-1_bold_calc_despike_tshift_resample_volreg.nii.gz -base /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/_scan_ms_run-1/func_get_mean_RPI/sub-018_ses-1_task-ms_run-1_bold_calc_despike_tshift_resample_tstat.nii.gz -zpad 4 -maxdisp1D sub-018_ses-1_task-ms_run-1_bold_calc_despike_tshift_resample_md.1D /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/_scan_ms_run-1/func_generate_ref/sub-018_ses-1_task-ms_run-1_bold_calc_despike_tshift_resample.nii.gz
201112-22:37:50,11 nipype.interface INFO:
stderr 2020-11-12T22:37:50.011302:++ 3dvolreg: AFNI version=AFNI_20.2.19 (Sep 27 2020) [64-bit]
201112-22:37:50,11 nipype.interface INFO:
stderr 2020-11-12T22:37:50.011732:++ Authored by: RW Cox
201112-22:37:50,21 nipype.interface INFO:
stderr 2020-11-12T22:37:50.021048:++ Coarse del was 10, replaced with 3
201112-22:39:48,723 nipype.interface INFO:
stderr 2020-11-12T22:39:48.723472:++ Max displacement in automask = 1.81 (mm) at sub-brick 69
201112-22:39:48,724 nipype.interface INFO:
stderr 2020-11-12T22:39:48.724035:++ Max delta displ in automask = 1.45 (mm) at sub-brick 69
201112-22:39:53,883 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.func_preproc_fsl_afni_mean_mcflirt_0.func_generate_ref".
201112-22:39:53,885 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.func_preproc_fsl_afni_mean_mcflirt_0.func_get_mean_motion" in "/outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/_scan_ms_run-1/func_get_mean_motion".
201112-22:39:53,891 nipype.workflow INFO:
[Node] Running "func_get_mean_motion" ("nipype.interfaces.afni.utils.TStat"), a CommandLine Interface with command:
3dTstat -mean -prefix sub-018_ses-1_task-ms_run-1_bold_calc_despike_tshift_resample_volreg_tstat.nii.gz /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/_scan_ms_run-1/func_get_mean_motion/sub-018_ses-1_task-ms_run-1_bold_calc_despike_tshift_resample_volreg.nii.gz
201112-22:39:54,142 nipype.interface INFO:
stderr 2020-11-12T22:39:54.142865:++ 3dTstat: AFNI version=AFNI_20.2.19 (Sep 27 2020) [64-bit]
201112-22:39:54,143 nipype.interface INFO:
stderr 2020-11-12T22:39:54.143261:++ Authored by: KR Hammett & RW Cox
201112-22:39:55,6 nipype.interface INFO:
stderr 2020-11-12T22:39:55.006174:++ Output dataset ./sub-018_ses-1_task-ms_run-1_bold_calc_despike_tshift_resample_volreg_tstat.nii.gz
201112-22:39:55,188 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.func_preproc_fsl_afni_mean_mcflirt_0.func_get_mean_motion".
201112-22:39:55,189 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.func_preproc_fsl_afni_mean_mcflirt_0.func_motion_correct_mcflirt" in "/outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/_scan_ms_run-1/func_motion_correct_mcflirt".
201112-22:39:55,198 nipype.workflow INFO:
[Node] Running "func_motion_correct_mcflirt" ("nipype.interfaces.fsl.preprocess.MCFLIRT"), a CommandLine Interface with command:
mcflirt -in /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/_scan_ms_run-1/func_reorient/sub-018_ses-1_task-ms_run-1_bold_calc_despike_tshift_resample.nii.gz -out /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/_scan_ms_run-1/func_motion_correct_mcflirt/sub-018_ses-1_task-ms_run-1_bold_calc_despike_tshift_resample_mcf.nii.gz -reffile /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/_scan_ms_run-1/func_get_mean_motion/sub-018_ses-1_task-ms_run-1_bold_calc_despike_tshift_resample_volreg_tstat.nii.gz -mats -plots -rmsabs -rmsrel
201112-22:40:17,947 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.func_preproc_fsl_afni_mean_mcflirt_0.func_motion_correct_mcflirt".
201112-22:40:17,956 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.sinker_0_motion_correct" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_ms_run-1/sinker_0_motion_correct".
201112-22:40:17,966 nipype.workflow INFO:
[Node] Running "sinker_0_motion_correct" ("CPAC.utils.interfaces.datasink.DataSink")
201112-22:40:18,194 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.sinker_0_motion_correct".
201112-22:40:18,195 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.func_preproc_fsl_afni_mean_mcflirt_0.func_preproc_fsl_afni_mean_mcflirt_0_skullstrip.func_mean_skull" in "/outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/func_preproc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_ms_run-1/func_mean_skull".
201112-22:40:18,205 nipype.workflow INFO:
[Node] Running "func_mean_skull" ("nipype.interfaces.afni.utils.TStat"), a CommandLine Interface with command:
3dTstat -mean -prefix sub-018_ses-1_task-ms_run-1_bold_calc_despike_tshift_resample_mcf_tstat.nii.gz /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/func_preproc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_ms_run-1/func_mean_skull/sub-018_ses-1_task-ms_run-1_bold_calc_despike_tshift_resample_mcf.nii.gz
201112-22:40:18,448 nipype.interface INFO:
stderr 2020-11-12T22:40:18.448544:++ 3dTstat: AFNI version=AFNI_20.2.19 (Sep 27 2020) [64-bit]
201112-22:40:18,448 nipype.interface INFO:
stderr 2020-11-12T22:40:18.448857:++ Authored by: KR Hammett & RW Cox
201112-22:40:19,136 nipype.interface INFO:
stderr 2020-11-12T22:40:19.136209:++ Output dataset ./sub-018_ses-1_task-ms_run-1_bold_calc_despike_tshift_resample_mcf_tstat.nii.gz
201112-22:40:19,287 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.func_preproc_fsl_afni_mean_mcflirt_0.func_preproc_fsl_afni_mean_mcflirt_0_skullstrip.func_mean_skull".
201112-22:40:19,288 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.func_preproc_fsl_afni_mean_mcflirt_0.func_preproc_fsl_afni_mean_mcflirt_0_skullstrip.skullstrip_first_pass" in "/outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/func_preproc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_ms_run-1/skullstrip_first_pass".
201112-22:40:19,297 nipype.workflow INFO:
[Node] Running "skullstrip_first_pass" ("nipype.interfaces.fsl.preprocess.BET"), a CommandLine Interface with command:
bet /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/func_preproc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_ms_run-1/func_mean_skull/sub-018_ses-1_task-ms_run-1_bold_calc_despike_tshift_resample_mcf_tstat.nii.gz /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/func_preproc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_ms_run-1/skullstrip_first_pass/sub-018_ses-1_task-ms_run-1_bold_calc_despike_tshift_resample_mcf_tstat_brain.nii.gz -f 0.20 -m
201112-22:40:21,110 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.func_preproc_fsl_afni_mean_mcflirt_0.func_preproc_fsl_afni_mean_mcflirt_0_skullstrip.skullstrip_first_pass".
201112-22:40:21,111 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.func_preproc_fsl_afni_mean_mcflirt_0.func_preproc_fsl_afni_mean_mcflirt_0_skullstrip.skullstrip_first_dilate" in "/outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/func_preproc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_ms_run-1/skullstrip_first_dilate".
201112-22:40:21,120 nipype.workflow INFO:
[Node] Running "skullstrip_first_dilate" ("nipype.interfaces.fsl.maths.DilateImage"), a CommandLine Interface with command:
fslmaths -dt char /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/func_preproc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_ms_run-1/skullstrip_first_pass/sub-018_ses-1_task-ms_run-1_bold_calc_despike_tshift_resample_mcf_tstat_brain_mask.nii.gz -kernel sphere 6.0000 -dilF /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/func_preproc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_ms_run-1/skullstrip_first_dilate/sub-018_ses-1_task-ms_run-1_bold_calc_despike_tshift_resample_mcf_tstat_brain_mask_dil.nii.gz
201112-22:40:21,757 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.func_preproc_fsl_afni_mean_mcflirt_0.func_preproc_fsl_afni_mean_mcflirt_0_skullstrip.skullstrip_first_dilate".
201112-22:40:21,758 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.func_preproc_fsl_afni_mean_mcflirt_0.func_preproc_fsl_afni_mean_mcflirt_0_skullstrip.skullstrip_first_mask" in "/outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/func_preproc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_ms_run-1/skullstrip_first_mask".
201112-22:40:21,767 nipype.workflow INFO:
[Node] Running "skullstrip_first_mask" ("nipype.interfaces.fsl.maths.ApplyMask"), a CommandLine Interface with command:
fslmaths /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/func_preproc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_ms_run-1/skullstrip_first_pass/sub-018_ses-1_task-ms_run-1_bold_calc_despike_tshift_resample_mcf_tstat_brain.nii.gz -mas /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/func_preproc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_ms_run-1/skullstrip_first_dilate/sub-018_ses-1_task-ms_run-1_bold_calc_despike_tshift_resample_mcf_tstat_brain_mask_dil.nii.gz /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/func_preproc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_ms_run-1/skullstrip_first_mask/sub-018_ses-1_task-ms_run-1_bold_calc_despike_tshift_resample_mcf_tstat_brain_masked.nii.gz
201112-22:40:22,178 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.func_preproc_fsl_afni_mean_mcflirt_0.func_preproc_fsl_afni_mean_mcflirt_0_skullstrip.skullstrip_first_mask".
201112-22:40:22,179 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.func_preproc_fsl_afni_mean_mcflirt_0.func_preproc_fsl_afni_mean_mcflirt_0_skullstrip.unifize" in "/outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/func_preproc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_ms_run-1/unifize".
201112-22:40:22,189 nipype.workflow INFO:
[Node] Running "unifize" ("nipype.interfaces.afni.utils.Unifize"), a CommandLine Interface with command:
3dUnifize -clfrac 0.2 -rbt 18.3 65.0 90.0 -prefix uni.nii.gz -T2 -input /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/func_preproc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_ms_run-1/unifize/sub-018_ses-1_task-ms_run-1_bold_calc_despike_tshift_resample_mcf_tstat_brain_masked.nii.gz
201112-22:40:22,429 nipype.interface INFO:
stderr 2020-11-12T22:40:22.429886:++ 3dUnifize: AFNI version=AFNI_20.2.19 (Sep 27 2020) [64-bit]
201112-22:41:35,152 nipype.interface INFO:
stderr 2020-11-12T22:41:35.152495: + Pre-processing: IAV..UW[s4172]Im
201112-22:41:35,168 nipype.interface INFO:
stderr 2020-11-12T22:41:35.168473:++ Output dataset ./uni.nii.gz
201112-22:41:35,168 nipype.interface INFO:
stderr 2020-11-12T22:41:35.168742:++ ===== Elapsed = 72.7 sec
201112-22:41:35,338 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.func_preproc_fsl_afni_mean_mcflirt_0.func_preproc_fsl_afni_mean_mcflirt_0_skullstrip.unifize".
201112-22:41:35,340 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.func_preproc_fsl_afni_mean_mcflirt_0.func_preproc_fsl_afni_mean_mcflirt_0_skullstrip.skullstrip_second_pass" in "/outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/func_preproc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_ms_run-1/skullstrip_second_pass".
201112-22:41:35,348 nipype.workflow INFO:
[Node] Running "skullstrip_second_pass" ("nipype.interfaces.afni.preprocess.Automask"), a CommandLine Interface with command:
3dAutomask -apply_prefix uni_masked.nii.gz -dilate 1 -prefix uni_mask.nii.gz /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/func_preproc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_ms_run-1/skullstrip_second_pass/uni.nii.gz
201112-22:41:35,607 nipype.interface INFO:
stderr 2020-11-12T22:41:35.607837:++ 3dAutomask: AFNI version=AFNI_20.2.19 (Sep 27 2020) [64-bit]
201112-22:41:35,608 nipype.interface INFO:
stderr 2020-11-12T22:41:35.608329:++ Authored by: Emperor Zhark
201112-22:41:35,610 nipype.interface INFO:
stderr 2020-11-12T22:41:35.610251:++ Loading dataset /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/func_preproc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_ms_run-1/skullstrip_second_pass/uni.nii.gz
201112-22:41:35,614 nipype.interface INFO:
stderr 2020-11-12T22:41:35.614044:++ Forming automask
201112-22:41:35,615 nipype.interface INFO:
stderr 2020-11-12T22:41:35.615802: + Fixed clip level = 438.095032
201112-22:41:35,620 nipype.interface INFO:
stderr 2020-11-12T22:41:35.620206: + Used gradual clip level = 393.737549 .. 489.838531
201112-22:41:35,620 nipype.interface INFO:
stderr 2020-11-12T22:41:35.620464: + Number voxels above clip level = 28063
201112-22:41:35,620 nipype.interface INFO:
stderr 2020-11-12T22:41:35.620654: + Clustering voxels ...
201112-22:41:35,622 nipype.interface INFO:
stderr 2020-11-12T22:41:35.622041: + Largest cluster has 28055 voxels
201112-22:41:35,623 nipype.interface INFO:
stderr 2020-11-12T22:41:35.623724: + Clustering voxels ...
201112-22:41:35,625 nipype.interface INFO:
stderr 2020-11-12T22:41:35.625223: + Largest cluster has 27627 voxels
201112-22:41:35,628 nipype.interface INFO:
stderr 2020-11-12T22:41:35.628581: + Filled 630 voxels in small holes; now have 28257 voxels
201112-22:41:35,634 nipype.interface INFO:
stderr 2020-11-12T22:41:35.634846: + Filled 9 voxels in large holes; now have 28266 voxels
201112-22:41:35,636 nipype.interface INFO:
stderr 2020-11-12T22:41:35.636043: + Clustering voxels ...
201112-22:41:35,637 nipype.interface INFO:
stderr 2020-11-12T22:41:35.637077: + Largest cluster has 28266 voxels
201112-22:41:35,637 nipype.interface INFO:
stderr 2020-11-12T22:41:35.637303: + Clustering non-brain voxels ...
201112-22:41:35,637 nipype.interface INFO:
stderr 2020-11-12T22:41:35.637443: + Clustering voxels ...
201112-22:41:35,640 nipype.interface INFO:
stderr 2020-11-12T22:41:35.640306: + Largest cluster has 110931 voxels
201112-22:41:35,640 nipype.interface INFO:
stderr 2020-11-12T22:41:35.640635: + Mask now has 28333 voxels
201112-22:41:35,640 nipype.interface INFO:
stderr 2020-11-12T22:41:35.640786:++ Dilating automask
201112-22:41:35,646 nipype.interface INFO:
stderr 2020-11-12T22:41:35.646804: + Clustering voxels ...
201112-22:41:35,649 nipype.interface INFO:
stderr 2020-11-12T22:41:35.649462: + Largest cluster has 105354 voxels
201112-22:41:35,649 nipype.interface INFO:
stderr 2020-11-12T22:41:35.649794:++ 33910 voxels in the mask [out of 139264: 24.35%]
201112-22:41:35,649 nipype.interface INFO:
stderr 2020-11-12T22:41:35.649961:++ first 10 x-planes are zero [from R]
201112-22:41:35,650 nipype.interface INFO:
stderr 2020-11-12T22:41:35.650121:++ last 9 x-planes are zero [from L]
201112-22:41:35,650 nipype.interface INFO:
stderr 2020-11-12T22:41:35.650258:++ first 3 y-planes are zero [from P]
201112-22:41:35,650 nipype.interface INFO:
stderr 2020-11-12T22:41:35.650403:++ last 8 y-planes are zero [from A]
201112-22:41:35,650 nipype.interface INFO:
stderr 2020-11-12T22:41:35.650540:++ first 0 z-planes are zero [from I]
201112-22:41:35,650 nipype.interface INFO:
stderr 2020-11-12T22:41:35.650675:++ last 1 z-planes are zero [from S]
201112-22:41:35,655 nipype.interface INFO:
stderr 2020-11-12T22:41:35.655329:++ Output dataset ./uni_mask.nii.gz
201112-22:41:35,655 nipype.interface INFO:
stderr 2020-11-12T22:41:35.655566:++ applying mask to original data
201112-22:41:35,656 nipype.interface INFO:
stderr 2020-11-12T22:41:35.656454:++ Writing masked data
201112-22:41:35,671 nipype.interface INFO:
stderr 2020-11-12T22:41:35.671088:++ Output dataset ./uni_masked.nii.gz
201112-22:41:35,671 nipype.interface INFO:
stderr 2020-11-12T22:41:35.671407:++ CPU time = 0.000000 sec
201112-22:41:35,818 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.func_preproc_fsl_afni_mean_mcflirt_0.func_preproc_fsl_afni_mean_mcflirt_0_skullstrip.skullstrip_second_pass".
201112-22:41:35,820 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.func_preproc_fsl_afni_mean_mcflirt_0.func_preproc_fsl_afni_mean_mcflirt_0_skullstrip.combine_masks" in "/outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/func_preproc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_ms_run-1/combine_masks".
201112-22:41:35,828 nipype.workflow INFO:
[Node] Running "combine_masks" ("nipype.interfaces.fsl.maths.BinaryMaths"), a CommandLine Interface with command:
fslmaths /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/func_preproc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_ms_run-1/skullstrip_first_pass/sub-018_ses-1_task-ms_run-1_bold_calc_despike_tshift_resample_mcf_tstat_brain_mask.nii.gz -mul /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/func_preproc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_ms_run-1/skullstrip_second_pass/uni_mask.nii.gz /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/func_preproc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_ms_run-1/combine_masks/sub-018_ses-1_task-ms_run-1_bold_calc_despike_tshift_resample_mcf_tstat_brain_mask_maths.nii.gz
201112-22:41:36,223 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.func_preproc_fsl_afni_mean_mcflirt_0.func_preproc_fsl_afni_mean_mcflirt_0_skullstrip.combine_masks".
201112-22:41:36,224 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.nuisance_regressor_0_0.GlobalSignal_merge_masks" in "/outputs/tmp/resting_preproc_sub-018_ses-1/nuisance_regressor_0_0/_scan_ms_run-1/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/GlobalSignal_merge_masks".
201112-22:41:36,232 nipype.workflow INFO:
[Node] Running "GlobalSignal_merge_masks" ("nipype.interfaces.utility.base.Merge")
201112-22:41:36,463 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.nuisance_regressor_0_0.GlobalSignal_merge_masks".
201112-22:41:36,465 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.nuisance_regressor_0_0.GlobalSignal_union_masks" in "/outputs/tmp/resting_preproc_sub-018_ses-1/nuisance_regressor_0_0/_scan_ms_run-1/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/GlobalSignal_union_masks".
201112-22:41:36,475 nipype.workflow INFO:
[Node] Running "GlobalSignal_union_masks" ("CPAC.utils.interfaces.masktool.MaskTool"), a CommandLine Interface with command:
3dmask_tool -prefix sub-018_ses-1_task-ms_run-1_bold_calc_despike_tshift_resample_mcf_tstat_brain_mask_maths_mask.nii.gz -input /outputs/tmp/resting_preproc_sub-018_ses-1/nuisance_regressor_0_0/_scan_ms_run-1/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/GlobalSignal_union_masks/sub-018_ses-1_task-ms_run-1_bold_calc_despike_tshift_resample_mcf_tstat_brain_mask_maths.nii.gz
201112-22:41:36,718 nipype.interface INFO:
stderr 2020-11-12T22:41:36.718851:++ no -frac option: defaulting to -union
201112-22:41:36,719 nipype.interface INFO:
stderr 2020-11-12T22:41:36.719159:++ processing 1 input dataset(s), NN=2...
201112-22:41:36,719 nipype.interface INFO:
stderr 2020-11-12T22:41:36.719317:++ padding all datasets by 0 (for dilations)
201112-22:41:36,724 nipype.interface INFO:
stderr 2020-11-12T22:41:36.724495:++ frac 0 over 1 volumes gives min count 0
201112-22:41:36,724 nipype.interface INFO:
stderr 2020-11-12T22:41:36.724880:++ voxel limits: 0 clipped, 33838 survived, 105426 were zero
201112-22:41:36,725 nipype.interface INFO:
stderr 2020-11-12T22:41:36.725048:++ writing result sub-018_ses-1_task-ms_run-1_bold_calc_despike_tshift_resample_mcf_tstat_brain_mask_maths_mask.nii.gz...
201112-22:41:36,729 nipype.interface INFO:
stderr 2020-11-12T22:41:36.729698:++ Output dataset ./sub-018_ses-1_task-ms_run-1_bold_calc_despike_tshift_resample_mcf_tstat_brain_mask_maths_mask.nii.gz
201112-22:41:36,879 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.nuisance_regressor_0_0.GlobalSignal_union_masks".
201112-22:41:36,880 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.sinker_0_functional_brain_mask" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_ms_run-1/sinker_0_functional_brain_mask".
201112-22:41:36,889 nipype.workflow INFO:
[Node] Running "sinker_0_functional_brain_mask" ("CPAC.utils.interfaces.datasink.DataSink")
201112-22:41:37,116 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.sinker_0_functional_brain_mask".
201112-22:41:37,118 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.functional_brain_mask_derivative_0" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_ms_run-1/functional_brain_mask_derivative_0".
201112-22:41:37,125 nipype.workflow INFO:
[Node] Running "functional_brain_mask_derivative_0" ("CPAC.utils.interfaces.function.Function")
201112-22:41:37,336 nipype.workflow INFO:
[Node] Setting-up "functional_brain_mask_derivative" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_ms_run-1/functional_brain_mask_derivative_0/functional_brain_mask_derivative".
201112-22:41:37,343 nipype.workflow INFO:
[Node] Running "functional_brain_mask_derivative" ("nipype.interfaces.afni.utils.Resample"), a CommandLine Interface with command:
3dresample -prefix sub-018_ses-1_task-ms_run-1_bold_calc_despike_tshift_resample_mcf_tstat_brain_mask_maths_resample.nii.gz -rmode Cu -dxyz 2.000000 2.000000 2.000000 -inset /outputs/tmp/resting_preproc_sub-018_ses-1/_scan_ms_run-1/functional_brain_mask_derivative_0/functional_brain_mask_derivative/sub-018_ses-1_task-ms_run-1_bold_calc_despike_tshift_resample_mcf_tstat_brain_mask_maths.nii.gz
201112-22:41:37,822 nipype.workflow INFO:
[Node] Finished "functional_brain_mask_derivative".
201112-22:41:37,838 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.functional_brain_mask_derivative_0".
201112-22:41:37,839 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.func_preproc_fsl_afni_mean_mcflirt_0.func_preproc_fsl_afni_mean_mcflirt_0_skullstrip.func_extract_brain" in "/outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/func_preproc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_ms_run-1/func_extract_brain".
201112-22:41:37,847 nipype.workflow INFO:
[Node] Running "func_extract_brain" ("nipype.interfaces.afni.utils.Calc"), a CommandLine Interface with command:
3dcalc -a /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/_scan_ms_run-1/func_motion_correct_mcflirt/sub-018_ses-1_task-ms_run-1_bold_calc_despike_tshift_resample_mcf.nii.gz -b /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/func_preproc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_ms_run-1/combine_masks/sub-018_ses-1_task-ms_run-1_bold_calc_despike_tshift_resample_mcf_tstat_brain_mask_maths.nii.gz -expr "a*b" -prefix sub-018_ses-1_task-ms_run-1_bold_calc_despike_tshift_resample_mcf_calc.nii.gz
201112-22:41:38,91 nipype.interface INFO:
stderr 2020-11-12T22:41:38.091840:++ 3dcalc: AFNI version=AFNI_20.2.19 (Sep 27 2020) [64-bit]
201112-22:41:38,92 nipype.interface INFO:
stderr 2020-11-12T22:41:38.092171:++ Authored by: A cast of thousands
201112-22:41:41,421 nipype.interface INFO:
stderr 2020-11-12T22:41:41.421593:++ Output dataset ./sub-018_ses-1_task-ms_run-1_bold_calc_despike_tshift_resample_mcf_calc.nii.gz
201112-22:41:41,601 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.func_preproc_fsl_afni_mean_mcflirt_0.func_preproc_fsl_afni_mean_mcflirt_0_skullstrip.func_extract_brain".
201112-22:41:41,602 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.func_preproc_fsl_afni_mean_mcflirt_0.func_normalize" in "/outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/_scan_ms_run-1/func_normalize".
201112-22:41:41,610 nipype.workflow INFO:
[Node] Running "func_normalize" ("nipype.interfaces.fsl.utils.ImageMaths"), a CommandLine Interface with command:
fslmaths /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/func_preproc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_ms_run-1/func_extract_brain/sub-018_ses-1_task-ms_run-1_bold_calc_despike_tshift_resample_mcf_calc.nii.gz -ing 10000 /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/_scan_ms_run-1/func_normalize/sub-018_ses-1_task-ms_run-1_bold_calc_despike_tshift_resample_mcf_calc_maths.nii.gz -odt float
201112-22:41:43,970 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.func_preproc_fsl_afni_mean_mcflirt_0.func_normalize".
201112-22:41:43,971 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.nuisance_regressor_0_0.GlobalSignal_mean" in "/outputs/tmp/resting_preproc_sub-018_ses-1/nuisance_regressor_0_0/_scan_ms_run-1/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/GlobalSignal_mean".
201112-22:41:43,979 nipype.workflow INFO:
[Node] Running "GlobalSignal_mean" ("nipype.interfaces.afni.preprocess.ROIStats"), a CommandLine Interface with command:
3dROIstats -mask /outputs/tmp/resting_preproc_sub-018_ses-1/nuisance_regressor_0_0/_scan_ms_run-1/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/GlobalSignal_union_masks/sub-018_ses-1_task-ms_run-1_bold_calc_despike_tshift_resample_mcf_tstat_brain_mask_maths_mask.nii.gz -1Dformat /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/_scan_ms_run-1/func_normalize/sub-018_ses-1_task-ms_run-1_bold_calc_despike_tshift_resample_mcf_calc_maths.nii.gz
201112-22:41:44,897 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.nuisance_regressor_0_0.GlobalSignal_mean".
201112-22:41:44,899 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.nuisance_regressor_0_0.functional_mean" in "/outputs/tmp/resting_preproc_sub-018_ses-1/nuisance_regressor_0_0/_scan_ms_run-1/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/functional_mean".
201112-22:41:44,908 nipype.workflow INFO:
[Node] Running "functional_mean" ("nipype.interfaces.afni.utils.TStat"), a CommandLine Interface with command:
3dTstat -mean -prefix sub-018_ses-1_task-ms_run-1_bold_calc_despike_tshift_resample_mcf_calc_maths_tstat.nii.gz /outputs/tmp/resting_preproc_sub-018_ses-1/nuisance_regressor_0_0/_scan_ms_run-1/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/functional_mean/sub-018_ses-1_task-ms_run-1_bold_calc_despike_tshift_resample_mcf_calc_maths.nii.gz
201112-22:41:45,148 nipype.interface INFO:
stderr 2020-11-12T22:41:45.148758:++ 3dTstat: AFNI version=AFNI_20.2.19 (Sep 27 2020) [64-bit]
201112-22:41:45,149 nipype.interface INFO:
stderr 2020-11-12T22:41:45.149062:++ Authored by: KR Hammett & RW Cox
201112-22:41:45,758 nipype.interface INFO:
stderr 2020-11-12T22:41:45.758104:++ Output dataset ./sub-018_ses-1_task-ms_run-1_bold_calc_despike_tshift_resample_mcf_calc_maths_tstat.nii.gz
201112-22:41:45,911 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.nuisance_regressor_0_0.functional_mean".
201112-22:41:45,912 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.qc_snr_0.std_dev" in "/outputs/tmp/resting_preproc_sub-018_ses-1/qc_snr_0/_scan_ms_run-1/std_dev".
201112-22:41:45,921 nipype.workflow INFO:
[Node] Running "std_dev" ("nipype.interfaces.afni.utils.TStat"), a CommandLine Interface with command:
3dTstat -stdev -mask /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/func_preproc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_ms_run-1/combine_masks/sub-018_ses-1_task-ms_run-1_bold_calc_despike_tshift_resample_mcf_tstat_brain_mask_maths.nii.gz -prefix sub-018_ses-1_task-ms_run-1_bold_calc_despike_tshift_resample_mcf_calc_maths_tstat.nii.gz /outputs/tmp/resting_preproc_sub-018_ses-1/qc_snr_0/_scan_ms_run-1/std_dev/sub-018_ses-1_task-ms_run-1_bold_calc_despike_tshift_resample_mcf_calc_maths.nii.gz
201112-22:41:46,160 nipype.interface INFO:
stderr 2020-11-12T22:41:46.160451:++ 3dTstat: AFNI version=AFNI_20.2.19 (Sep 27 2020) [64-bit]
201112-22:41:46,161 nipype.interface INFO:
stderr 2020-11-12T22:41:46.161090:++ Authored by: KR Hammett & RW Cox
201112-22:41:46,719 nipype.interface INFO:
stderr 2020-11-12T22:41:46.719252:++ Output dataset ./sub-018_ses-1_task-ms_run-1_bold_calc_despike_tshift_resample_mcf_calc_maths_tstat.nii.gz
201112-22:41:46,900 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.qc_snr_0.std_dev".
201112-22:41:46,901 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.sinker_0_functional_preprocessed" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_ms_run-1/sinker_0_functional_preprocessed".
201112-22:41:46,910 nipype.workflow INFO:
[Node] Running "sinker_0_functional_preprocessed" ("CPAC.utils.interfaces.datasink.DataSink")
201112-22:41:47,138 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.sinker_0_functional_preprocessed".
201112-22:41:47,140 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.func_preproc_fsl_afni_mean_mcflirt_0.func_mask_normalize" in "/outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/_scan_ms_run-1/func_mask_normalize".
201112-22:41:47,148 nipype.workflow INFO:
[Node] Running "func_mask_normalize" ("nipype.interfaces.fsl.utils.ImageMaths"), a CommandLine Interface with command:
fslmaths /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/_scan_ms_run-1/func_normalize/sub-018_ses-1_task-ms_run-1_bold_calc_despike_tshift_resample_mcf_calc_maths.nii.gz -Tmin -bin /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/_scan_ms_run-1/func_mask_normalize/sub-018_ses-1_task-ms_run-1_bold_calc_despike_tshift_resample_mcf_calc_maths_maths.nii.gz -odt char
201112-22:41:48,239 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.func_preproc_fsl_afni_mean_mcflirt_0.func_mask_normalize".
201112-22:41:48,240 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.sinker_0_functional_preprocessed_mask" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_ms_run-1/sinker_0_functional_preprocessed_mask".
201112-22:41:48,250 nipype.workflow INFO:
[Node] Running "sinker_0_functional_preprocessed_mask" ("CPAC.utils.interfaces.datasink.DataSink")
201112-22:41:48,482 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.sinker_0_functional_preprocessed_mask".
201112-22:41:48,483 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.func_preproc_fsl_afni_mean_mcflirt_0.func_mean" in "/outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/_scan_ms_run-1/func_mean".
201112-22:41:48,492 nipype.workflow INFO:
[Node] Running "func_mean" ("nipype.interfaces.afni.utils.TStat"), a CommandLine Interface with command:
3dTstat -mean -prefix sub-018_ses-1_task-ms_run-1_bold_calc_despike_tshift_resample_mcf_calc_tstat.nii.gz /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/_scan_ms_run-1/func_mean/sub-018_ses-1_task-ms_run-1_bold_calc_despike_tshift_resample_mcf_calc.nii.gz
201112-22:41:48,747 nipype.interface INFO:
stderr 2020-11-12T22:41:48.747104:++ 3dTstat: AFNI version=AFNI_20.2.19 (Sep 27 2020) [64-bit]
201112-22:41:48,747 nipype.interface INFO:
stderr 2020-11-12T22:41:48.747657:++ Authored by: KR Hammett & RW Cox
201112-22:41:49,343 nipype.interface INFO:
stderr 2020-11-12T22:41:49.343869:++ Output dataset ./sub-018_ses-1_task-ms_run-1_bold_calc_despike_tshift_resample_mcf_calc_tstat.nii.gz
201112-22:41:49,522 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.func_preproc_fsl_afni_mean_mcflirt_0.func_mean".
201112-22:41:49,523 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.sinker_0_mean_functional" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_ms_run-1/sinker_0_mean_functional".
201112-22:41:49,532 nipype.workflow INFO:
[Node] Running "sinker_0_mean_functional" ("CPAC.utils.interfaces.datasink.DataSink")
201112-22:41:49,767 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.sinker_0_mean_functional".
201112-22:41:49,769 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.func_preproc_fsl_afni_mean_mcflirt_0.norm_motion_params" in "/outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/_scan_ms_run-1/norm_motion_params".
201112-22:41:49,778 nipype.workflow INFO:
[Node] Running "norm_motion_params" ("CPAC.utils.interfaces.function.Function")
201112-22:41:50,10 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.func_preproc_fsl_afni_mean_mcflirt_0.norm_motion_params".
201112-22:41:50,11 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.sinker_0_slice_time_corrected" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_ms_run-1/sinker_0_slice_time_corrected".
201112-22:41:50,20 nipype.workflow INFO:
[Node] Running "sinker_0_slice_time_corrected" ("CPAC.utils.interfaces.datasink.DataSink")
201112-22:41:50,248 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.sinker_0_slice_time_corrected".
201112-22:41:50,250 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.sinker_0_raw_functional" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_ms_run-1/sinker_0_raw_functional".
201112-22:41:50,262 nipype.workflow INFO:
[Node] Running "sinker_0_raw_functional" ("CPAC.utils.interfaces.datasink.DataSink")
201112-22:41:50,608 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.sinker_0_raw_functional".
201112-22:41:50,610 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.func_gather_0.check_func_scan" in "/outputs/tmp/resting_preproc_sub-018_ses-1/func_gather_0/_scan_ms_run-1/check_func_scan".
201112-22:41:50,647 nipype.workflow INFO:
[Node] Running "check_func_scan" ("CPAC.utils.interfaces.function.Function")
201112-22:41:50,881 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.func_gather_0.check_func_scan".
201112-22:41:50,892 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.func_gather_0.select_scan_params" in "/outputs/tmp/resting_preproc_sub-018_ses-1/func_gather_0/_scan_matching_run-3/select_scan_params".
201112-22:41:50,925 nipype.workflow INFO:
[Node] Running "select_scan_params" ("CPAC.utils.interfaces.function.Function")
201112-22:41:51,163 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.func_gather_0.select_scan_params".
201112-22:41:51,174 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.func_gather_0.s3_scan_params" in "/outputs/tmp/resting_preproc_sub-018_ses-1/func_gather_0/_scan_matching_run-3/s3_scan_params".
201112-22:41:51,183 nipype.workflow INFO:
[Node] Running "s3_scan_params" ("CPAC.utils.interfaces.function.Function")
201112-22:41:51,416 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.func_gather_0.s3_scan_params".
201112-22:41:51,419 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.scan_params_0" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_matching_run-3/scan_params_0".
201112-22:41:51,430 nipype.workflow INFO:
[Node] Running "scan_params_0" ("CPAC.utils.interfaces.function.Function")
201112-22:41:51,659 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.scan_params_0".
201112-22:41:51,661 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.func_gather_0.selectrest" in "/outputs/tmp/resting_preproc_sub-018_ses-1/func_gather_0/_scan_matching_run-3/selectrest".
201112-22:41:51,695 nipype.workflow INFO:
[Node] Running "selectrest" ("CPAC.utils.interfaces.function.Function")
201112-22:41:51,929 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.func_gather_0.selectrest".
201112-22:41:51,940 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.func_gather_0.check_for_s3" in "/outputs/tmp/resting_preproc_sub-018_ses-1/func_gather_0/_scan_matching_run-3/check_for_s3".
201112-22:41:51,947 nipype.workflow INFO:
[Node] Running "check_for_s3" ("CPAC.utils.interfaces.function.Function")
201112-22:41:52,274 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.func_gather_0.check_for_s3".
201112-22:41:52,275 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.edit_func_0.func_get_idx" in "/outputs/tmp/resting_preproc_sub-018_ses-1/edit_func_0/_scan_matching_run-3/func_get_idx".
201112-22:41:52,285 nipype.workflow INFO:
[Node] Running "func_get_idx" ("nipype.interfaces.utility.wrappers.Function")
201112-22:41:52,518 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.edit_func_0.func_get_idx".
201112-22:41:52,520 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.edit_func_0.func_drop_trs" in "/outputs/tmp/resting_preproc_sub-018_ses-1/edit_func_0/_scan_matching_run-3/func_drop_trs".
201112-22:41:52,529 nipype.workflow INFO:
[Node] Running "func_drop_trs" ("nipype.interfaces.afni.utils.Calc"), a CommandLine Interface with command:
3dcalc -a /bids_dataset/sub-018/ses-1/func/sub-018_ses-1_task-matching_run-3_bold.nii.gz[0..98] -expr "a" -prefix sub-018_ses-1_task-matching_run-3_bold_calc.nii.gz
201112-22:41:52,778 nipype.interface INFO:
stderr 2020-11-12T22:41:52.778562:++ 3dcalc: AFNI version=AFNI_20.2.19 (Sep 27 2020) [64-bit]
201112-22:41:52,778 nipype.interface INFO:
stderr 2020-11-12T22:41:52.778921:++ Authored by: A cast of thousands
201112-22:41:57,209 nipype.interface INFO:
stderr 2020-11-12T22:41:57.209694:++ Output dataset ./sub-018_ses-1_task-matching_run-3_bold_calc.nii.gz
201112-22:41:57,384 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.edit_func_0.func_drop_trs".
201112-22:41:57,386 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_deoblique" in "/outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/_scan_matching_run-3/func_deoblique".
201112-22:41:57,423 nipype.workflow INFO:
[Node] Running "func_deoblique" ("nipype.interfaces.afni.utils.Refit"), a CommandLine Interface with command:
3drefit -deoblique /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/_scan_matching_run-3/func_deoblique/sub-018_ses-1_task-matching_run-3_bold_calc.nii.gz
201112-22:41:57,675 nipype.interface INFO:
stderr 2020-11-12T22:41:57.675657:++ 3drefit: AFNI version=AFNI_20.2.19 (Sep 27 2020) [64-bit]
201112-22:41:57,676 nipype.interface INFO:
stderr 2020-11-12T22:41:57.676008:++ Authored by: RW Cox
201112-22:41:57,678 nipype.interface INFO:
stderr 2020-11-12T22:41:57.678862:++ Processing AFNI dataset /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/_scan_matching_run-3/func_deoblique/sub-018_ses-1_task-matching_run-3_bold_calc.nii.gz
201112-22:41:57,679 nipype.interface INFO:
stderr 2020-11-12T22:41:57.679732: + deoblique
201112-22:41:57,679 nipype.interface INFO:
stderr 2020-11-12T22:41:57.679949: + loading and re-writing dataset /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/_scan_matching_run-3/func_deoblique/sub-018_ses-1_task-matching_run-3_bold_calc.nii.gz (/outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/_scan_matching_run-3/func_deoblique/sub-018_ses-1_task-matching_run-3_bold_calc.nii.gz in NIFTI storage)
201112-22:42:00,661 nipype.interface INFO:
stderr 2020-11-12T22:42:00.661012:++ 3drefit processed 1 datasets
201112-22:42:00,837 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_deoblique".
201112-22:42:00,839 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_reorient" in "/outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/_scan_matching_run-3/func_reorient".
201112-22:42:00,849 nipype.workflow INFO:
[Node] Running "func_reorient" ("nipype.interfaces.afni.utils.Resample"), a CommandLine Interface with command:
3dresample -orient RPI -prefix sub-018_ses-1_task-matching_run-3_bold_calc_resample.nii.gz -inset /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/_scan_matching_run-3/func_reorient/sub-018_ses-1_task-matching_run-3_bold_calc.nii.gz
201112-22:42:04,378 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_reorient".
201112-22:42:04,379 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_get_mean_RPI" in "/outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/_scan_matching_run-3/func_get_mean_RPI".
201112-22:42:04,388 nipype.workflow INFO:
[Node] Running "func_get_mean_RPI" ("nipype.interfaces.afni.utils.TStat"), a CommandLine Interface with command:
3dTstat -mean -prefix sub-018_ses-1_task-matching_run-3_bold_calc_resample_tstat.nii.gz /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/_scan_matching_run-3/func_get_mean_RPI/sub-018_ses-1_task-matching_run-3_bold_calc_resample.nii.gz
201112-22:42:04,629 nipype.interface INFO:
stderr 2020-11-12T22:42:04.629004:++ 3dTstat: AFNI version=AFNI_20.2.19 (Sep 27 2020) [64-bit]
201112-22:42:04,629 nipype.interface INFO:
stderr 2020-11-12T22:42:04.629306:++ Authored by: KR Hammett & RW Cox
201112-22:42:04,985 nipype.interface INFO:
stderr 2020-11-12T22:42:04.985228:++ Output dataset ./sub-018_ses-1_task-matching_run-3_bold_calc_resample_tstat.nii.gz
201112-22:42:05,137 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_get_mean_RPI".
201112-22:42:05,139 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_generate_ref" in "/outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/_scan_matching_run-3/func_generate_ref".
201112-22:42:05,148 nipype.workflow INFO:
[Node] Running "func_generate_ref" ("nipype.interfaces.afni.preprocess.Volreg"), a CommandLine Interface with command:
3dvolreg -twopass -Fourier -1Dfile sub-018_ses-1_task-matching_run-3_bold_calc_resample.1D -1Dmatrix_save sub-018_ses-1_task-matching_run-3_bold_calc_resample.aff12.1D -prefix sub-018_ses-1_task-matching_run-3_bold_calc_resample_volreg.nii.gz -base /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/_scan_matching_run-3/func_get_mean_RPI/sub-018_ses-1_task-matching_run-3_bold_calc_resample_tstat.nii.gz -zpad 4 -maxdisp1D sub-018_ses-1_task-matching_run-3_bold_calc_resample_md.1D /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/_scan_matching_run-3/func_generate_ref/sub-018_ses-1_task-matching_run-3_bold_calc_resample.nii.gz
201112-22:42:05,389 nipype.interface INFO:
stderr 2020-11-12T22:42:05.389545:++ 3dvolreg: AFNI version=AFNI_20.2.19 (Sep 27 2020) [64-bit]
201112-22:42:05,389 nipype.interface INFO:
stderr 2020-11-12T22:42:05.389843:++ Authored by: RW Cox
201112-22:42:05,399 nipype.interface INFO:
stderr 2020-11-12T22:42:05.398992:++ Coarse del was 10, replaced with 3
201112-22:43:26,943 nipype.interface INFO:
stderr 2020-11-12T22:43:26.943879:++ Max displacement in automask = 5.72 (mm) at sub-brick 3
201112-22:43:26,944 nipype.interface INFO:
stderr 2020-11-12T22:43:26.944438:++ Max delta displ in automask = 4.57 (mm) at sub-brick 1
201112-22:43:29,902 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_generate_ref".
201112-22:43:29,904 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_get_mean_motion" in "/outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/_scan_matching_run-3/func_get_mean_motion".
201112-22:43:29,911 nipype.workflow INFO:
[Node] Running "func_get_mean_motion" ("nipype.interfaces.afni.utils.TStat"), a CommandLine Interface with command:
3dTstat -mean -prefix sub-018_ses-1_task-matching_run-3_bold_calc_resample_volreg_tstat.nii.gz /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/_scan_matching_run-3/func_get_mean_motion/sub-018_ses-1_task-matching_run-3_bold_calc_resample_volreg.nii.gz
201112-22:43:30,162 nipype.interface INFO:
stderr 2020-11-12T22:43:30.162446:++ 3dTstat: AFNI version=AFNI_20.2.19 (Sep 27 2020) [64-bit]
201112-22:43:30,162 nipype.interface INFO:
stderr 2020-11-12T22:43:30.162838:++ Authored by: KR Hammett & RW Cox
201112-22:43:30,522 nipype.interface INFO:
stderr 2020-11-12T22:43:30.522189:++ Output dataset ./sub-018_ses-1_task-matching_run-3_bold_calc_resample_volreg_tstat.nii.gz
201112-22:43:30,672 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_get_mean_motion".
201112-22:43:30,673 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_motion_correct_mcflirt" in "/outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/_scan_matching_run-3/func_motion_correct_mcflirt".
201112-22:43:30,682 nipype.workflow INFO:
[Node] Running "func_motion_correct_mcflirt" ("nipype.interfaces.fsl.preprocess.MCFLIRT"), a CommandLine Interface with command:
mcflirt -in /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/_scan_matching_run-3/func_reorient/sub-018_ses-1_task-matching_run-3_bold_calc_resample.nii.gz -out /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/_scan_matching_run-3/func_motion_correct_mcflirt/sub-018_ses-1_task-matching_run-3_bold_calc_resample_mcf.nii.gz -reffile /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/_scan_matching_run-3/func_get_mean_motion/sub-018_ses-1_task-matching_run-3_bold_calc_resample_volreg_tstat.nii.gz -mats -plots -rmsabs -rmsrel
201112-22:43:48,572 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_motion_correct_mcflirt".
201112-22:43:48,579 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.gen_motion_stats_before_stc_fsl_afni_mean_mcflirt_0.calculate_FDJ" in "/outputs/tmp/resting_preproc_sub-018_ses-1/gen_motion_stats_before_stc_fsl_afni_mean_mcflirt_0/_scan_matching_run-3/calculate_FDJ".
201112-22:43:48,587 nipype.workflow INFO:
[Node] Running "calculate_FDJ" ("CPAC.utils.interfaces.function.Function")
201112-22:43:48,818 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.gen_motion_stats_before_stc_fsl_afni_mean_mcflirt_0.calculate_FDJ".
201112-22:43:48,819 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.sinker_0_frame_wise_displacement_jenkinson" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_matching_run-3/sinker_0_frame_wise_displacement_jenkinson".
201112-22:43:48,829 nipype.workflow INFO:
[Node] Running "sinker_0_frame_wise_displacement_jenkinson" ("CPAC.utils.interfaces.datasink.DataSink")
201112-22:43:49,60 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.sinker_0_frame_wise_displacement_jenkinson".
201112-22:43:49,61 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.sinker_0_max_displacement" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_matching_run-3/sinker_0_max_displacement".
201112-22:43:49,73 nipype.workflow INFO:
[Node] Running "sinker_0_max_displacement" ("CPAC.utils.interfaces.datasink.DataSink")
201112-22:43:49,307 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.sinker_0_max_displacement".
201112-22:43:49,309 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.sinker_0_coordinate_transformation" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_matching_run-3/sinker_0_coordinate_transformation".
201112-22:43:49,329 nipype.workflow INFO:
[Node] Running "sinker_0_coordinate_transformation" ("CPAC.utils.interfaces.datasink.DataSink")
201112-22:43:49,589 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.sinker_0_coordinate_transformation".
201112-22:43:49,596 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip.func_mean_skull" in "/outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_matching_run-3/func_mean_skull".
201112-22:43:49,606 nipype.workflow INFO:
[Node] Running "func_mean_skull" ("nipype.interfaces.afni.utils.TStat"), a CommandLine Interface with command:
3dTstat -mean -prefix sub-018_ses-1_task-matching_run-3_bold_calc_resample_mcf_tstat.nii.gz /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_matching_run-3/func_mean_skull/sub-018_ses-1_task-matching_run-3_bold_calc_resample_mcf.nii.gz
201112-22:43:49,858 nipype.interface INFO:
stderr 2020-11-12T22:43:49.858827:++ 3dTstat: AFNI version=AFNI_20.2.19 (Sep 27 2020) [64-bit]
201112-22:43:49,859 nipype.interface INFO:
stderr 2020-11-12T22:43:49.859170:++ Authored by: KR Hammett & RW Cox
201112-22:43:50,240 nipype.interface INFO:
stderr 2020-11-12T22:43:50.240108:++ Output dataset ./sub-018_ses-1_task-matching_run-3_bold_calc_resample_mcf_tstat.nii.gz
201112-22:43:50,389 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip.func_mean_skull".
201112-22:43:50,391 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip.skullstrip_first_pass" in "/outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_matching_run-3/skullstrip_first_pass".
201112-22:43:50,399 nipype.workflow INFO:
[Node] Running "skullstrip_first_pass" ("nipype.interfaces.fsl.preprocess.BET"), a CommandLine Interface with command:
bet /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_matching_run-3/func_mean_skull/sub-018_ses-1_task-matching_run-3_bold_calc_resample_mcf_tstat.nii.gz /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_matching_run-3/skullstrip_first_pass/sub-018_ses-1_task-matching_run-3_bold_calc_resample_mcf_tstat_brain.nii.gz -f 0.20 -m
201112-22:43:52,217 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip.skullstrip_first_pass".
201112-22:43:52,218 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip.skullstrip_first_dilate" in "/outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_matching_run-3/skullstrip_first_dilate".
201112-22:43:52,227 nipype.workflow INFO:
[Node] Running "skullstrip_first_dilate" ("nipype.interfaces.fsl.maths.DilateImage"), a CommandLine Interface with command:
fslmaths -dt char /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_matching_run-3/skullstrip_first_pass/sub-018_ses-1_task-matching_run-3_bold_calc_resample_mcf_tstat_brain_mask.nii.gz -kernel sphere 6.0000 -dilF /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_matching_run-3/skullstrip_first_dilate/sub-018_ses-1_task-matching_run-3_bold_calc_resample_mcf_tstat_brain_mask_dil.nii.gz
201112-22:43:52,876 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip.skullstrip_first_dilate".
201112-22:43:52,878 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip.skullstrip_first_mask" in "/outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_matching_run-3/skullstrip_first_mask".
201112-22:43:52,887 nipype.workflow INFO:
[Node] Running "skullstrip_first_mask" ("nipype.interfaces.fsl.maths.ApplyMask"), a CommandLine Interface with command:
fslmaths /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_matching_run-3/skullstrip_first_pass/sub-018_ses-1_task-matching_run-3_bold_calc_resample_mcf_tstat_brain.nii.gz -mas /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_matching_run-3/skullstrip_first_dilate/sub-018_ses-1_task-matching_run-3_bold_calc_resample_mcf_tstat_brain_mask_dil.nii.gz /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_matching_run-3/skullstrip_first_mask/sub-018_ses-1_task-matching_run-3_bold_calc_resample_mcf_tstat_brain_masked.nii.gz
201112-22:43:53,303 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip.skullstrip_first_mask".
201112-22:43:53,305 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip.unifize" in "/outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_matching_run-3/unifize".
201112-22:43:53,314 nipype.workflow INFO:
[Node] Running "unifize" ("nipype.interfaces.afni.utils.Unifize"), a CommandLine Interface with command:
3dUnifize -clfrac 0.2 -rbt 18.3 65.0 90.0 -prefix uni.nii.gz -T2 -input /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_matching_run-3/unifize/sub-018_ses-1_task-matching_run-3_bold_calc_resample_mcf_tstat_brain_masked.nii.gz
201112-22:43:53,557 nipype.interface INFO:
stderr 2020-11-12T22:43:53.557513:++ 3dUnifize: AFNI version=AFNI_20.2.19 (Sep 27 2020) [64-bit]
201112-22:45:07,59 nipype.interface INFO:
stderr 2020-11-12T22:45:07.059819: + Pre-processing: IAV..UW[s4532]Im
201112-22:45:07,76 nipype.interface INFO:
stderr 2020-11-12T22:45:07.076096:++ Output dataset ./uni.nii.gz
201112-22:45:07,76 nipype.interface INFO:
stderr 2020-11-12T22:45:07.076313:++ ===== Elapsed = 73.5 sec
201112-22:45:07,246 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip.unifize".
201112-22:45:07,247 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip.skullstrip_second_pass" in "/outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_matching_run-3/skullstrip_second_pass".
201112-22:45:07,256 nipype.workflow INFO:
[Node] Running "skullstrip_second_pass" ("nipype.interfaces.afni.preprocess.Automask"), a CommandLine Interface with command:
3dAutomask -apply_prefix uni_masked.nii.gz -dilate 1 -prefix uni_mask.nii.gz /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_matching_run-3/skullstrip_second_pass/uni.nii.gz
201112-22:45:07,506 nipype.interface INFO:
stderr 2020-11-12T22:45:07.506015:++ 3dAutomask: AFNI version=AFNI_20.2.19 (Sep 27 2020) [64-bit]
201112-22:45:07,506 nipype.interface INFO:
stderr 2020-11-12T22:45:07.506325:++ Authored by: Emperor Zhark
201112-22:45:07,509 nipype.interface INFO:
stderr 2020-11-12T22:45:07.509077:++ Loading dataset /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_matching_run-3/skullstrip_second_pass/uni.nii.gz
201112-22:45:07,514 nipype.interface INFO:
stderr 2020-11-12T22:45:07.514968:++ Forming automask
201112-22:45:07,516 nipype.interface INFO:
stderr 2020-11-12T22:45:07.516614: + Fixed clip level = 448.162140
201112-22:45:07,519 nipype.interface INFO:
stderr 2020-11-12T22:45:07.519888: + Used gradual clip level = 401.683838 .. 500.957672
201112-22:45:07,520 nipype.interface INFO:
stderr 2020-11-12T22:45:07.520099: + Number voxels above clip level = 28162
201112-22:45:07,520 nipype.interface INFO:
stderr 2020-11-12T22:45:07.520262: + Clustering voxels ...
201112-22:45:07,521 nipype.interface INFO:
stderr 2020-11-12T22:45:07.521321: + Largest cluster has 28152 voxels
201112-22:45:07,522 nipype.interface INFO:
stderr 2020-11-12T22:45:07.522847: + Clustering voxels ...
201112-22:45:07,523 nipype.interface INFO:
stderr 2020-11-12T22:45:07.523921: + Largest cluster has 27864 voxels
201112-22:45:07,527 nipype.interface INFO:
stderr 2020-11-12T22:45:07.527303: + Filled 438 voxels in small holes; now have 28302 voxels
201112-22:45:07,529 nipype.interface INFO:
stderr 2020-11-12T22:45:07.529765: + Filled 1 voxels in large holes; now have 28303 voxels
201112-22:45:07,531 nipype.interface INFO:
stderr 2020-11-12T22:45:07.530985: + Clustering voxels ...
201112-22:45:07,532 nipype.interface INFO:
stderr 2020-11-12T22:45:07.532036: + Largest cluster has 28303 voxels
201112-22:45:07,532 nipype.interface INFO:
stderr 2020-11-12T22:45:07.532271: + Clustering non-brain voxels ...
201112-22:45:07,532 nipype.interface INFO:
stderr 2020-11-12T22:45:07.532421: + Clustering voxels ...
201112-22:45:07,535 nipype.interface INFO:
stderr 2020-11-12T22:45:07.535647: + Largest cluster has 110911 voxels
201112-22:45:07,536 nipype.interface INFO:
stderr 2020-11-12T22:45:07.535984: + Mask now has 28353 voxels
201112-22:45:07,536 nipype.interface INFO:
stderr 2020-11-12T22:45:07.536145:++ Dilating automask
201112-22:45:07,551 nipype.interface INFO:
stderr 2020-11-12T22:45:07.551916: + Clustering voxels ...
201112-22:45:07,554 nipype.interface INFO:
stderr 2020-11-12T22:45:07.554350: + Largest cluster has 105350 voxels
201112-22:45:07,554 nipype.interface INFO:
stderr 2020-11-12T22:45:07.554702:++ 33914 voxels in the mask [out of 139264: 24.35%]
201112-22:45:07,554 nipype.interface INFO:
stderr 2020-11-12T22:45:07.554876:++ first 10 x-planes are zero [from R]
201112-22:45:07,555 nipype.interface INFO:
stderr 2020-11-12T22:45:07.555040:++ last 9 x-planes are zero [from L]
201112-22:45:07,555 nipype.interface INFO:
stderr 2020-11-12T22:45:07.555184:++ first 3 y-planes are zero [from P]
201112-22:45:07,555 nipype.interface INFO:
stderr 2020-11-12T22:45:07.555337:++ last 8 y-planes are zero [from A]
201112-22:45:07,555 nipype.interface INFO:
stderr 2020-11-12T22:45:07.555478:++ first 0 z-planes are zero [from I]
201112-22:45:07,555 nipype.interface INFO:
stderr 2020-11-12T22:45:07.555618:++ last 1 z-planes are zero [from S]
201112-22:45:07,559 nipype.interface INFO:
stderr 2020-11-12T22:45:07.559941:++ Output dataset ./uni_mask.nii.gz
201112-22:45:07,560 nipype.interface INFO:
stderr 2020-11-12T22:45:07.560118:++ applying mask to original data
201112-22:45:07,560 nipype.interface INFO:
stderr 2020-11-12T22:45:07.560793:++ Writing masked data
201112-22:45:07,575 nipype.interface INFO:
stderr 2020-11-12T22:45:07.575495:++ Output dataset ./uni_masked.nii.gz
201112-22:45:07,575 nipype.interface INFO:
stderr 2020-11-12T22:45:07.575758:++ CPU time = 0.000000 sec
201112-22:45:07,723 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip.skullstrip_second_pass".
201112-22:45:07,725 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip.combine_masks" in "/outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_matching_run-3/combine_masks".
201112-22:45:07,733 nipype.workflow INFO:
[Node] Running "combine_masks" ("nipype.interfaces.fsl.maths.BinaryMaths"), a CommandLine Interface with command:
fslmaths /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_matching_run-3/skullstrip_first_pass/sub-018_ses-1_task-matching_run-3_bold_calc_resample_mcf_tstat_brain_mask.nii.gz -mul /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_matching_run-3/skullstrip_second_pass/uni_mask.nii.gz /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_matching_run-3/combine_masks/sub-018_ses-1_task-matching_run-3_bold_calc_resample_mcf_tstat_brain_mask_maths.nii.gz
201112-22:45:08,129 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip.combine_masks".
201112-22:45:08,130 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.gen_motion_stats_before_stc_fsl_afni_mean_mcflirt_0.cal_DVARS" in "/outputs/tmp/resting_preproc_sub-018_ses-1/gen_motion_stats_before_stc_fsl_afni_mean_mcflirt_0/_scan_matching_run-3/cal_DVARS".
201112-22:45:08,138 nipype.workflow INFO:
[Node] Running "cal_DVARS" ("CPAC.utils.interfaces.function.Function")
201112-22:45:08,693 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.gen_motion_stats_before_stc_fsl_afni_mean_mcflirt_0.cal_DVARS".
201112-22:45:08,695 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip.func_extract_brain" in "/outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_matching_run-3/func_extract_brain".
201112-22:45:08,705 nipype.workflow INFO:
[Node] Running "func_extract_brain" ("nipype.interfaces.afni.utils.Calc"), a CommandLine Interface with command:
3dcalc -a /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/_scan_matching_run-3/func_motion_correct_mcflirt/sub-018_ses-1_task-matching_run-3_bold_calc_resample_mcf.nii.gz -b /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_matching_run-3/combine_masks/sub-018_ses-1_task-matching_run-3_bold_calc_resample_mcf_tstat_brain_mask_maths.nii.gz -expr "a*b" -prefix sub-018_ses-1_task-matching_run-3_bold_calc_resample_mcf_calc.nii.gz
201112-22:45:08,952 nipype.interface INFO:
stderr 2020-11-12T22:45:08.952182:++ 3dcalc: AFNI version=AFNI_20.2.19 (Sep 27 2020) [64-bit]
201112-22:45:08,952 nipype.interface INFO:
stderr 2020-11-12T22:45:08.952721:++ Authored by: A cast of thousands
201112-22:45:11,13 nipype.interface INFO:
stderr 2020-11-12T22:45:11.013813:++ Output dataset ./sub-018_ses-1_task-matching_run-3_bold_calc_resample_mcf_calc.nii.gz
201112-22:45:11,189 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip.func_extract_brain".
201112-22:45:11,191 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_normalize" in "/outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/_scan_matching_run-3/func_normalize".
201112-22:45:11,200 nipype.workflow INFO:
[Node] Running "func_normalize" ("nipype.interfaces.fsl.utils.ImageMaths"), a CommandLine Interface with command:
fslmaths /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_matching_run-3/func_extract_brain/sub-018_ses-1_task-matching_run-3_bold_calc_resample_mcf_calc.nii.gz -ing 10000 /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/_scan_matching_run-3/func_normalize/sub-018_ses-1_task-matching_run-3_bold_calc_resample_mcf_calc_maths.nii.gz -odt float
201112-22:45:12,853 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_normalize".
201112-22:45:12,854 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_mask_normalize" in "/outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/_scan_matching_run-3/func_mask_normalize".
201112-22:45:12,864 nipype.workflow INFO:
[Node] Running "func_mask_normalize" ("nipype.interfaces.fsl.utils.ImageMaths"), a CommandLine Interface with command:
fslmaths /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/_scan_matching_run-3/func_normalize/sub-018_ses-1_task-matching_run-3_bold_calc_resample_mcf_calc_maths.nii.gz -Tmin -bin /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/_scan_matching_run-3/func_mask_normalize/sub-018_ses-1_task-matching_run-3_bold_calc_resample_mcf_calc_maths_maths.nii.gz -odt char
201112-22:45:13,716 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_mask_normalize".
201112-22:45:13,717 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_mean" in "/outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/_scan_matching_run-3/func_mean".
201112-22:45:13,727 nipype.workflow INFO:
[Node] Running "func_mean" ("nipype.interfaces.afni.utils.TStat"), a CommandLine Interface with command:
3dTstat -mean -prefix sub-018_ses-1_task-matching_run-3_bold_calc_resample_mcf_calc_tstat.nii.gz /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/_scan_matching_run-3/func_mean/sub-018_ses-1_task-matching_run-3_bold_calc_resample_mcf_calc.nii.gz
201112-22:45:13,972 nipype.interface INFO:
stderr 2020-11-12T22:45:13.972513:++ 3dTstat: AFNI version=AFNI_20.2.19 (Sep 27 2020) [64-bit]
201112-22:45:13,972 nipype.interface INFO:
stderr 2020-11-12T22:45:13.972839:++ Authored by: KR Hammett & RW Cox
201112-22:45:14,205 nipype.interface INFO:
stderr 2020-11-12T22:45:14.205223:++ Output dataset ./sub-018_ses-1_task-matching_run-3_bold_calc_resample_mcf_calc_tstat.nii.gz
201112-22:45:14,359 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_mean".
201112-22:45:14,360 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.norm_motion_params" in "/outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/_scan_matching_run-3/norm_motion_params".
201112-22:45:14,368 nipype.workflow INFO:
[Node] Running "norm_motion_params" ("CPAC.utils.interfaces.function.Function")
201112-22:45:14,598 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.norm_motion_params".
201112-22:45:14,599 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.qc_motion_0.motion_plot" in "/outputs/tmp/resting_preproc_sub-018_ses-1/qc_motion_0/_scan_matching_run-3/motion_plot".
201112-22:45:14,606 nipype.workflow INFO:
[Node] Running "motion_plot" ("CPAC.utils.interfaces.function.Function")
201112-22:45:15,51 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.qc_motion_0.motion_plot".
201112-22:45:15,52 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.sinker_0_qc___movement_trans_plot" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_matching_run-3/sinker_0_qc___movement_trans_plot".
201112-22:45:15,61 nipype.workflow INFO:
[Node] Running "sinker_0_qc___movement_trans_plot" ("CPAC.utils.interfaces.datasink.DataSink")
201112-22:45:15,269 nipype.interface INFO:
sub: /outputs/output/pipeline_cpac_fmriprep-options/sub-018_ses-1/qc___movement_trans_plot/_scan_matching_run-3/motion_trans_plot.png -> /outputs/output/pipeline_cpac_fmriprep-options/sub-018_ses-1/qc/movement_trans_plot/_scan_matching_run-3/motion_trans_plot.png
201112-22:45:15,288 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.sinker_0_qc___movement_trans_plot".
201112-22:45:15,290 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.sinker_0_qc___movement_rot_plot" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_matching_run-3/sinker_0_qc___movement_rot_plot".
201112-22:45:15,299 nipype.workflow INFO:
[Node] Running "sinker_0_qc___movement_rot_plot" ("CPAC.utils.interfaces.datasink.DataSink")
201112-22:45:15,509 nipype.interface INFO:
sub: /outputs/output/pipeline_cpac_fmriprep-options/sub-018_ses-1/qc___movement_rot_plot/_scan_matching_run-3/motion_rot_plot.png -> /outputs/output/pipeline_cpac_fmriprep-options/sub-018_ses-1/qc/movement_rot_plot/_scan_matching_run-3/motion_rot_plot.png
201112-22:45:15,526 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.sinker_0_qc___movement_rot_plot".
201112-22:45:15,528 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.gen_motion_stats_before_stc_fsl_afni_mean_mcflirt_0.calc_motion_parameters" in "/outputs/tmp/resting_preproc_sub-018_ses-1/gen_motion_stats_before_stc_fsl_afni_mean_mcflirt_0/_scan_matching_run-3/calc_motion_parameters".
201112-22:45:15,536 nipype.workflow INFO:
[Node] Running "calc_motion_parameters" ("CPAC.utils.interfaces.function.Function")
201112-22:45:15,768 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.gen_motion_stats_before_stc_fsl_afni_mean_mcflirt_0.calc_motion_parameters".
201112-22:45:15,769 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.sinker_0_motion_params" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_matching_run-3/sinker_0_motion_params".
201112-22:45:15,777 nipype.workflow INFO:
[Node] Running "sinker_0_motion_params" ("CPAC.utils.interfaces.datasink.DataSink")
201112-22:45:16,6 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.sinker_0_motion_params".
201112-22:45:16,8 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.gen_motion_stats_before_stc_fsl_afni_mean_mcflirt_0.calculate_FD" in "/outputs/tmp/resting_preproc_sub-018_ses-1/gen_motion_stats_before_stc_fsl_afni_mean_mcflirt_0/_scan_matching_run-3/calculate_FD".
201112-22:45:16,14 nipype.workflow INFO:
[Node] Running "calculate_FD" ("CPAC.utils.interfaces.function.Function")
201112-22:45:16,246 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.gen_motion_stats_before_stc_fsl_afni_mean_mcflirt_0.calculate_FD".
201112-22:45:16,248 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.sinker_0_frame_wise_displacement_power" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_matching_run-3/sinker_0_frame_wise_displacement_power".
201112-22:45:16,257 nipype.workflow INFO:
[Node] Running "sinker_0_frame_wise_displacement_power" ("CPAC.utils.interfaces.datasink.DataSink")
201112-22:45:16,490 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.sinker_0_frame_wise_displacement_power".
201112-22:45:16,491 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.gen_motion_stats_before_stc_fsl_afni_mean_mcflirt_0.calc_power_parameters" in "/outputs/tmp/resting_preproc_sub-018_ses-1/gen_motion_stats_before_stc_fsl_afni_mean_mcflirt_0/_scan_matching_run-3/calc_power_parameters".
201112-22:45:16,499 nipype.workflow INFO:
[Node] Running "calc_power_parameters" ("CPAC.utils.interfaces.function.Function")
201112-22:45:16,730 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.gen_motion_stats_before_stc_fsl_afni_mean_mcflirt_0.calc_power_parameters".
201112-22:45:16,731 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.sinker_0_power_params" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_matching_run-3/sinker_0_power_params".
201112-22:45:16,740 nipype.workflow INFO:
[Node] Running "sinker_0_power_params" ("CPAC.utils.interfaces.datasink.DataSink")
201112-22:45:16,971 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.sinker_0_power_params".
201112-22:45:16,972 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.sinker_0_movement_parameters" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_matching_run-3/sinker_0_movement_parameters".
201112-22:45:16,982 nipype.workflow INFO:
[Node] Running "sinker_0_movement_parameters" ("CPAC.utils.interfaces.datasink.DataSink")
201112-22:45:17,217 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.sinker_0_movement_parameters".
201112-22:45:17,219 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.func_despiked_0" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_matching_run-3/func_despiked_0".
201112-22:45:17,228 nipype.workflow INFO:
[Node] Running "func_despiked_0" ("nipype.interfaces.afni.preprocess.Despike"), a CommandLine Interface with command:
3dDespike -prefix sub-018_ses-1_task-matching_run-3_bold_calc_despike.nii.gz /outputs/tmp/resting_preproc_sub-018_ses-1/_scan_matching_run-3/func_despiked_0/sub-018_ses-1_task-matching_run-3_bold_calc.nii.gz
201112-22:45:17,485 nipype.interface INFO:
stderr 2020-11-12T22:45:17.485053:++ 3dDespike: AFNI version=AFNI_20.2.19 (Sep 27 2020) [64-bit]
201112-22:45:17,485 nipype.interface INFO:
stderr 2020-11-12T22:45:17.485406:++ Authored by: RW Cox
201112-22:45:17,489 nipype.interface INFO:
stderr 2020-11-12T22:45:17.489246:[7m*+ WARNING:[0m If you are performing spatial transformations on an oblique dset,
201112-22:45:17,489 nipype.interface INFO:
stderr 2020-11-12T22:45:17.489246: such as /outputs/tmp/resting_preproc_sub-018_ses-1/_scan_matching_run-3/func_despiked_0/sub-018_ses-1_task-matching_run-3_bold_calc.nii.gz,
201112-22:45:17,489 nipype.interface INFO:
stderr 2020-11-12T22:45:17.489246: or viewing/combining it with volumes of differing obliquity,
201112-22:45:17,490 nipype.interface INFO:
stderr 2020-11-12T22:45:17.489246: you should consider running:
201112-22:45:17,490 nipype.interface INFO:
stderr 2020-11-12T22:45:17.489246: 3dWarp -deoblique
201112-22:45:17,490 nipype.interface INFO:
stderr 2020-11-12T22:45:17.489246: on this and other oblique datasets in the same session.
201112-22:45:17,490 nipype.interface INFO:
stderr 2020-11-12T22:45:17.489246: See 3dWarp -help for details.
201112-22:45:17,490 nipype.interface INFO:
stderr 2020-11-12T22:45:17.490793:++ Oblique dataset:/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_matching_run-3/func_despiked_0/sub-018_ses-1_task-matching_run-3_bold_calc.nii.gz is 17.792933 degrees from plumb.
201112-22:45:17,491 nipype.interface INFO:
stderr 2020-11-12T22:45:17.491074:++ Input dataset is in short format, but output will be in float format
201112-22:45:17,491 nipype.interface INFO:
stderr 2020-11-12T22:45:17.491331:++ ignoring first 0 time points, using last 99
201112-22:45:17,491 nipype.interface INFO:
stderr 2020-11-12T22:45:17.491599:++ using 99 time points => -corder 3
201112-22:45:17,491 nipype.interface INFO:
stderr 2020-11-12T22:45:17.491845:++ Loading dataset /outputs/tmp/resting_preproc_sub-018_ses-1/_scan_matching_run-3/func_despiked_0/sub-018_ses-1_task-matching_run-3_bold_calc.nii.gz
201112-22:45:17,837 nipype.interface INFO:
stderr 2020-11-12T22:45:17.837485:++ 32041 voxels in the automask [out of 139264 in dataset]
201112-22:45:17,843 nipype.interface INFO:
stderr 2020-11-12T22:45:17.843302:++ 55537 voxels in the dilated automask [out of 139264 in dataset]
201112-22:45:17,851 nipype.interface INFO:
stderr 2020-11-12T22:45:17.851962:++ Procesing time series with OLD model fit algorithm
201112-22:45:17,852 nipype.interface INFO:
stderr 2020-11-12T22:45:17.852141:++ smash edit thresholds: 3.1 .. 5.0 MADs
201112-22:45:17,852 nipype.interface INFO:
stderr 2020-11-12T22:45:17.852301: + [ 3.457% .. 0.072% of normal distribution]
201112-22:45:17,852 nipype.interface INFO:
stderr 2020-11-12T22:45:17.852450: + [ 8.839% .. 3.125% of Laplace distribution]
201112-22:45:17,852 nipype.interface INFO:
stderr 2020-11-12T22:45:17.852821:++ start OpenMP thread #0
201112-22:45:21,547 nipype.interface INFO:
stderr 2020-11-12T22:45:21.547028:........................
201112-22:45:21,547 nipype.interface INFO:
stderr 2020-11-12T22:45:21.547492:++ Elapsed despike time = 3s 694ms
201112-22:45:21,547 nipype.interface INFO:
stderr 2020-11-12T22:45:21.547641:
201112-22:45:21,548 nipype.interface INFO:
stderr 2020-11-12T22:45:21.548334:++ FINAL: 5498163 data points, 604689 edits [10.998%], 224984 big edits [4.092%]
201112-22:45:24,367 nipype.interface INFO:
stderr 2020-11-12T22:45:24.367508:++ Output dataset ./sub-018_ses-1_task-matching_run-3_bold_calc_despike.nii.gz
201112-22:45:24,556 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.func_despiked_0".
201112-22:45:24,557 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.func_slice_timing_correction_0.slice_timing" in "/outputs/tmp/resting_preproc_sub-018_ses-1/func_slice_timing_correction_0/_scan_matching_run-3/slice_timing".
201112-22:45:24,568 nipype.interface WARNING:
Passing a file prefixed by "@" will be deprecated; please use the `slice_timing` input
201112-22:45:24,569 nipype.workflow INFO:
[Node] Running "slice_timing" ("nipype.interfaces.afni.preprocess.TShift"), a CommandLine Interface with command:
3dTshift -prefix sub-018_ses-1_task-matching_run-3_bold_calc_despike_tshift.nii.gz -tpattern @/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_matching_run-3/scan_params_0/tpattern.txt -TR 2.0s /outputs/tmp/resting_preproc_sub-018_ses-1/func_slice_timing_correction_0/_scan_matching_run-3/slice_timing/sub-018_ses-1_task-matching_run-3_bold_calc_despike.nii.gz
201112-22:45:24,780 nipype.interface WARNING:
Passing a file prefixed by "@" will be deprecated; please use the `slice_timing` input
201112-22:45:24,830 nipype.interface INFO:
stderr 2020-11-12T22:45:24.830377:++ 3dTshift: AFNI version=AFNI_20.2.19 (Sep 27 2020) [64-bit]
201112-22:45:24,834 nipype.interface INFO:
stderr 2020-11-12T22:45:24.834883:[7m*+ WARNING:[0m If you are performing spatial transformations on an oblique dset,
201112-22:45:24,835 nipype.interface INFO:
stderr 2020-11-12T22:45:24.834883: such as /outputs/tmp/resting_preproc_sub-018_ses-1/func_slice_timing_correction_0/_scan_matching_run-3/slice_timing/sub-018_ses-1_task-matching_run-3_bold_calc_despike.nii.gz,
201112-22:45:24,835 nipype.interface INFO:
stderr 2020-11-12T22:45:24.834883: or viewing/combining it with volumes of differing obliquity,
201112-22:45:24,835 nipype.interface INFO:
stderr 2020-11-12T22:45:24.834883: you should consider running:
201112-22:45:24,835 nipype.interface INFO:
stderr 2020-11-12T22:45:24.834883: 3dWarp -deoblique
201112-22:45:24,835 nipype.interface INFO:
stderr 2020-11-12T22:45:24.834883: on this and other oblique datasets in the same session.
201112-22:45:24,835 nipype.interface INFO:
stderr 2020-11-12T22:45:24.834883: See 3dWarp -help for details.
201112-22:45:24,835 nipype.interface INFO:
stderr 2020-11-12T22:45:24.835771:++ Oblique dataset:/outputs/tmp/resting_preproc_sub-018_ses-1/func_slice_timing_correction_0/_scan_matching_run-3/slice_timing/sub-018_ses-1_task-matching_run-3_bold_calc_despike.nii.gz is 17.792933 degrees from plumb.
201112-22:45:28,452 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.func_slice_timing_correction_0.slice_timing".
201112-22:45:28,454 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.func_preproc_fsl_afni_mean_mcflirt_0.func_deoblique" in "/outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/_scan_matching_run-3/func_deoblique".
201112-22:45:28,501 nipype.workflow INFO:
[Node] Running "func_deoblique" ("nipype.interfaces.afni.utils.Refit"), a CommandLine Interface with command:
3drefit -deoblique /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/_scan_matching_run-3/func_deoblique/sub-018_ses-1_task-matching_run-3_bold_calc_despike_tshift.nii.gz
201112-22:45:28,748 nipype.interface INFO:
stderr 2020-11-12T22:45:28.748355:++ 3drefit: AFNI version=AFNI_20.2.19 (Sep 27 2020) [64-bit]
201112-22:45:28,748 nipype.interface INFO:
stderr 2020-11-12T22:45:28.748691:++ Authored by: RW Cox
201112-22:45:28,762 nipype.interface INFO:
stderr 2020-11-12T22:45:28.762540:++ Processing AFNI dataset /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/_scan_matching_run-3/func_deoblique/sub-018_ses-1_task-matching_run-3_bold_calc_despike_tshift.nii.gz
201112-22:45:28,763 nipype.interface INFO:
stderr 2020-11-12T22:45:28.763500: + deoblique
201112-22:45:28,763 nipype.interface INFO:
stderr 2020-11-12T22:45:28.763794: + loading and re-writing dataset /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/_scan_matching_run-3/func_deoblique/sub-018_ses-1_task-matching_run-3_bold_calc_despike_tshift.nii.gz (/outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/_scan_matching_run-3/func_deoblique/sub-018_ses-1_task-matching_run-3_bold_calc_despike_tshift.nii.gz in NIFTI storage)
201112-22:45:30,366 nipype.interface INFO:
stderr 2020-11-12T22:45:30.364430:++ 3drefit processed 1 datasets
201112-22:45:30,537 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.func_preproc_fsl_afni_mean_mcflirt_0.func_deoblique".
201112-22:45:30,539 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.func_preproc_fsl_afni_mean_mcflirt_0.func_reorient" in "/outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/_scan_matching_run-3/func_reorient".
201112-22:45:30,549 nipype.workflow INFO:
[Node] Running "func_reorient" ("nipype.interfaces.afni.utils.Resample"), a CommandLine Interface with command:
3dresample -orient RPI -prefix sub-018_ses-1_task-matching_run-3_bold_calc_despike_tshift_resample.nii.gz -inset /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/_scan_matching_run-3/func_reorient/sub-018_ses-1_task-matching_run-3_bold_calc_despike_tshift.nii.gz
201112-22:45:32,753 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.func_preproc_fsl_afni_mean_mcflirt_0.func_reorient".
201112-22:45:32,755 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.func_preproc_fsl_afni_mean_mcflirt_0.func_get_mean_RPI" in "/outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/_scan_matching_run-3/func_get_mean_RPI".
201112-22:45:32,764 nipype.workflow INFO:
[Node] Running "func_get_mean_RPI" ("nipype.interfaces.afni.utils.TStat"), a CommandLine Interface with command:
3dTstat -mean -prefix sub-018_ses-1_task-matching_run-3_bold_calc_despike_tshift_resample_tstat.nii.gz /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/_scan_matching_run-3/func_get_mean_RPI/sub-018_ses-1_task-matching_run-3_bold_calc_despike_tshift_resample.nii.gz
201112-22:45:33,8 nipype.interface INFO:
stderr 2020-11-12T22:45:33.008090:++ 3dTstat: AFNI version=AFNI_20.2.19 (Sep 27 2020) [64-bit]
201112-22:45:33,8 nipype.interface INFO:
stderr 2020-11-12T22:45:33.008393:++ Authored by: KR Hammett & RW Cox
201112-22:45:33,475 nipype.interface INFO:
stderr 2020-11-12T22:45:33.475673:++ Output dataset ./sub-018_ses-1_task-matching_run-3_bold_calc_despike_tshift_resample_tstat.nii.gz
201112-22:45:33,629 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.func_preproc_fsl_afni_mean_mcflirt_0.func_get_mean_RPI".
201112-22:45:33,630 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.func_preproc_fsl_afni_mean_mcflirt_0.func_generate_ref" in "/outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/_scan_matching_run-3/func_generate_ref".
201112-22:45:33,640 nipype.workflow INFO:
[Node] Running "func_generate_ref" ("nipype.interfaces.afni.preprocess.Volreg"), a CommandLine Interface with command:
3dvolreg -twopass -Fourier -1Dfile sub-018_ses-1_task-matching_run-3_bold_calc_despike_tshift_resample.1D -1Dmatrix_save sub-018_ses-1_task-matching_run-3_bold_calc_despike_tshift_resample.aff12.1D -prefix sub-018_ses-1_task-matching_run-3_bold_calc_despike_tshift_resample_volreg.nii.gz -base /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/_scan_matching_run-3/func_get_mean_RPI/sub-018_ses-1_task-matching_run-3_bold_calc_despike_tshift_resample_tstat.nii.gz -zpad 4 -maxdisp1D sub-018_ses-1_task-matching_run-3_bold_calc_despike_tshift_resample_md.1D /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/_scan_matching_run-3/func_generate_ref/sub-018_ses-1_task-matching_run-3_bold_calc_despike_tshift_resample.nii.gz
201112-22:45:33,880 nipype.interface INFO:
stderr 2020-11-12T22:45:33.880659:++ 3dvolreg: AFNI version=AFNI_20.2.19 (Sep 27 2020) [64-bit]
201112-22:45:33,880 nipype.interface INFO:
stderr 2020-11-12T22:45:33.880958:++ Authored by: RW Cox
201112-22:45:33,888 nipype.interface INFO:
stderr 2020-11-12T22:45:33.888221:++ Coarse del was 10, replaced with 3
201112-22:46:55,26 nipype.interface INFO:
stderr 2020-11-12T22:46:55.026292:++ Max displacement in automask = 3.70 (mm) at sub-brick 3
201112-22:46:55,26 nipype.interface INFO:
stderr 2020-11-12T22:46:55.026863:++ Max delta displ in automask = 2.17 (mm) at sub-brick 61
201112-22:46:58,748 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.func_preproc_fsl_afni_mean_mcflirt_0.func_generate_ref".
201112-22:46:58,750 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.func_preproc_fsl_afni_mean_mcflirt_0.func_get_mean_motion" in "/outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/_scan_matching_run-3/func_get_mean_motion".
201112-22:46:58,757 nipype.workflow INFO:
[Node] Running "func_get_mean_motion" ("nipype.interfaces.afni.utils.TStat"), a CommandLine Interface with command:
3dTstat -mean -prefix sub-018_ses-1_task-matching_run-3_bold_calc_despike_tshift_resample_volreg_tstat.nii.gz /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/_scan_matching_run-3/func_get_mean_motion/sub-018_ses-1_task-matching_run-3_bold_calc_despike_tshift_resample_volreg.nii.gz
201112-22:46:59,32 nipype.interface INFO:
stderr 2020-11-12T22:46:59.032356:++ 3dTstat: AFNI version=AFNI_20.2.19 (Sep 27 2020) [64-bit]
201112-22:46:59,32 nipype.interface INFO:
stderr 2020-11-12T22:46:59.032744:++ Authored by: KR Hammett & RW Cox
201112-22:46:59,642 nipype.interface INFO:
stderr 2020-11-12T22:46:59.642478:++ Output dataset ./sub-018_ses-1_task-matching_run-3_bold_calc_despike_tshift_resample_volreg_tstat.nii.gz
201112-22:46:59,795 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.func_preproc_fsl_afni_mean_mcflirt_0.func_get_mean_motion".
201112-22:46:59,797 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.func_preproc_fsl_afni_mean_mcflirt_0.func_motion_correct_mcflirt" in "/outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/_scan_matching_run-3/func_motion_correct_mcflirt".
201112-22:46:59,807 nipype.workflow INFO:
[Node] Running "func_motion_correct_mcflirt" ("nipype.interfaces.fsl.preprocess.MCFLIRT"), a CommandLine Interface with command:
mcflirt -in /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/_scan_matching_run-3/func_reorient/sub-018_ses-1_task-matching_run-3_bold_calc_despike_tshift_resample.nii.gz -out /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/_scan_matching_run-3/func_motion_correct_mcflirt/sub-018_ses-1_task-matching_run-3_bold_calc_despike_tshift_resample_mcf.nii.gz -reffile /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/_scan_matching_run-3/func_get_mean_motion/sub-018_ses-1_task-matching_run-3_bold_calc_despike_tshift_resample_volreg_tstat.nii.gz -mats -plots -rmsabs -rmsrel
201112-22:47:16,101 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.func_preproc_fsl_afni_mean_mcflirt_0.func_motion_correct_mcflirt".
201112-22:47:16,108 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.sinker_0_motion_correct" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_matching_run-3/sinker_0_motion_correct".
201112-22:47:16,118 nipype.workflow INFO:
[Node] Running "sinker_0_motion_correct" ("CPAC.utils.interfaces.datasink.DataSink")
201112-22:47:16,345 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.sinker_0_motion_correct".
201112-22:47:16,347 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.func_preproc_fsl_afni_mean_mcflirt_0.func_preproc_fsl_afni_mean_mcflirt_0_skullstrip.func_mean_skull" in "/outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/func_preproc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_matching_run-3/func_mean_skull".
201112-22:47:16,357 nipype.workflow INFO:
[Node] Running "func_mean_skull" ("nipype.interfaces.afni.utils.TStat"), a CommandLine Interface with command:
3dTstat -mean -prefix sub-018_ses-1_task-matching_run-3_bold_calc_despike_tshift_resample_mcf_tstat.nii.gz /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/func_preproc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_matching_run-3/func_mean_skull/sub-018_ses-1_task-matching_run-3_bold_calc_despike_tshift_resample_mcf.nii.gz
201112-22:47:16,607 nipype.interface INFO:
stderr 2020-11-12T22:47:16.607712:++ 3dTstat: AFNI version=AFNI_20.2.19 (Sep 27 2020) [64-bit]
201112-22:47:16,608 nipype.interface INFO:
stderr 2020-11-12T22:47:16.608219:++ Authored by: KR Hammett & RW Cox
201112-22:47:17,97 nipype.interface INFO:
stderr 2020-11-12T22:47:17.097901:++ Output dataset ./sub-018_ses-1_task-matching_run-3_bold_calc_despike_tshift_resample_mcf_tstat.nii.gz
201112-22:47:17,253 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.func_preproc_fsl_afni_mean_mcflirt_0.func_preproc_fsl_afni_mean_mcflirt_0_skullstrip.func_mean_skull".
201112-22:47:17,254 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.func_preproc_fsl_afni_mean_mcflirt_0.func_preproc_fsl_afni_mean_mcflirt_0_skullstrip.skullstrip_first_pass" in "/outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/func_preproc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_matching_run-3/skullstrip_first_pass".
201112-22:47:17,262 nipype.workflow INFO:
[Node] Running "skullstrip_first_pass" ("nipype.interfaces.fsl.preprocess.BET"), a CommandLine Interface with command:
bet /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/func_preproc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_matching_run-3/func_mean_skull/sub-018_ses-1_task-matching_run-3_bold_calc_despike_tshift_resample_mcf_tstat.nii.gz /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/func_preproc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_matching_run-3/skullstrip_first_pass/sub-018_ses-1_task-matching_run-3_bold_calc_despike_tshift_resample_mcf_tstat_brain.nii.gz -f 0.20 -m
201112-22:47:19,94 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.func_preproc_fsl_afni_mean_mcflirt_0.func_preproc_fsl_afni_mean_mcflirt_0_skullstrip.skullstrip_first_pass".
201112-22:47:19,96 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.func_preproc_fsl_afni_mean_mcflirt_0.func_preproc_fsl_afni_mean_mcflirt_0_skullstrip.skullstrip_first_dilate" in "/outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/func_preproc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_matching_run-3/skullstrip_first_dilate".
201112-22:47:19,104 nipype.workflow INFO:
[Node] Running "skullstrip_first_dilate" ("nipype.interfaces.fsl.maths.DilateImage"), a CommandLine Interface with command:
fslmaths -dt char /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/func_preproc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_matching_run-3/skullstrip_first_pass/sub-018_ses-1_task-matching_run-3_bold_calc_despike_tshift_resample_mcf_tstat_brain_mask.nii.gz -kernel sphere 6.0000 -dilF /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/func_preproc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_matching_run-3/skullstrip_first_dilate/sub-018_ses-1_task-matching_run-3_bold_calc_despike_tshift_resample_mcf_tstat_brain_mask_dil.nii.gz
201112-22:47:19,752 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.func_preproc_fsl_afni_mean_mcflirt_0.func_preproc_fsl_afni_mean_mcflirt_0_skullstrip.skullstrip_first_dilate".
201112-22:47:19,753 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.func_preproc_fsl_afni_mean_mcflirt_0.func_preproc_fsl_afni_mean_mcflirt_0_skullstrip.skullstrip_first_mask" in "/outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/func_preproc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_matching_run-3/skullstrip_first_mask".
201112-22:47:19,762 nipype.workflow INFO:
[Node] Running "skullstrip_first_mask" ("nipype.interfaces.fsl.maths.ApplyMask"), a CommandLine Interface with command:
fslmaths /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/func_preproc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_matching_run-3/skullstrip_first_pass/sub-018_ses-1_task-matching_run-3_bold_calc_despike_tshift_resample_mcf_tstat_brain.nii.gz -mas /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/func_preproc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_matching_run-3/skullstrip_first_dilate/sub-018_ses-1_task-matching_run-3_bold_calc_despike_tshift_resample_mcf_tstat_brain_mask_dil.nii.gz /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/func_preproc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_matching_run-3/skullstrip_first_mask/sub-018_ses-1_task-matching_run-3_bold_calc_despike_tshift_resample_mcf_tstat_brain_masked.nii.gz
201112-22:47:20,181 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.func_preproc_fsl_afni_mean_mcflirt_0.func_preproc_fsl_afni_mean_mcflirt_0_skullstrip.skullstrip_first_mask".
201112-22:47:20,182 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.func_preproc_fsl_afni_mean_mcflirt_0.func_preproc_fsl_afni_mean_mcflirt_0_skullstrip.unifize" in "/outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/func_preproc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_matching_run-3/unifize".
201112-22:47:20,191 nipype.workflow INFO:
[Node] Running "unifize" ("nipype.interfaces.afni.utils.Unifize"), a CommandLine Interface with command:
3dUnifize -clfrac 0.2 -rbt 18.3 65.0 90.0 -prefix uni.nii.gz -T2 -input /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/func_preproc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_matching_run-3/unifize/sub-018_ses-1_task-matching_run-3_bold_calc_despike_tshift_resample_mcf_tstat_brain_masked.nii.gz
201112-22:47:20,442 nipype.interface INFO:
stderr 2020-11-12T22:47:20.442422:++ 3dUnifize: AFNI version=AFNI_20.2.19 (Sep 27 2020) [64-bit]
201112-22:48:34,7 nipype.interface INFO:
stderr 2020-11-12T22:48:34.007874: + Pre-processing: IAV..UW[s4525]Im
201112-22:48:34,25 nipype.interface INFO:
stderr 2020-11-12T22:48:34.025114:++ Output dataset ./uni.nii.gz
201112-22:48:34,25 nipype.interface INFO:
stderr 2020-11-12T22:48:34.025330:++ ===== Elapsed = 73.6 sec
201112-22:48:34,199 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.func_preproc_fsl_afni_mean_mcflirt_0.func_preproc_fsl_afni_mean_mcflirt_0_skullstrip.unifize".
201112-22:48:34,201 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.func_preproc_fsl_afni_mean_mcflirt_0.func_preproc_fsl_afni_mean_mcflirt_0_skullstrip.skullstrip_second_pass" in "/outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/func_preproc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_matching_run-3/skullstrip_second_pass".
201112-22:48:34,210 nipype.workflow INFO:
[Node] Running "skullstrip_second_pass" ("nipype.interfaces.afni.preprocess.Automask"), a CommandLine Interface with command:
3dAutomask -apply_prefix uni_masked.nii.gz -dilate 1 -prefix uni_mask.nii.gz /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/func_preproc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_matching_run-3/skullstrip_second_pass/uni.nii.gz
201112-22:48:34,459 nipype.interface INFO:
stderr 2020-11-12T22:48:34.459344:++ 3dAutomask: AFNI version=AFNI_20.2.19 (Sep 27 2020) [64-bit]
201112-22:48:34,460 nipype.interface INFO:
stderr 2020-11-12T22:48:34.460107:++ Authored by: Emperor Zhark
201112-22:48:34,463 nipype.interface INFO:
stderr 2020-11-12T22:48:34.463102:++ Loading dataset /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/func_preproc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_matching_run-3/skullstrip_second_pass/uni.nii.gz
201112-22:48:34,468 nipype.interface INFO:
stderr 2020-11-12T22:48:34.468263:++ Forming automask
201112-22:48:34,470 nipype.interface INFO:
stderr 2020-11-12T22:48:34.470008: + Fixed clip level = 448.321899
201112-22:48:34,474 nipype.interface INFO:
stderr 2020-11-12T22:48:34.474212: + Used gradual clip level = 402.383606 .. 500.818604
201112-22:48:34,474 nipype.interface INFO:
stderr 2020-11-12T22:48:34.474662: + Number voxels above clip level = 28209
201112-22:48:34,474 nipype.interface INFO:
stderr 2020-11-12T22:48:34.474863: + Clustering voxels ...
201112-22:48:34,475 nipype.interface INFO:
stderr 2020-11-12T22:48:34.475965: + Largest cluster has 28199 voxels
201112-22:48:34,477 nipype.interface INFO:
stderr 2020-11-12T22:48:34.477248: + Clustering voxels ...
201112-22:48:34,478 nipype.interface INFO:
stderr 2020-11-12T22:48:34.478296: + Largest cluster has 27899 voxels
201112-22:48:34,481 nipype.interface INFO:
stderr 2020-11-12T22:48:34.481883: + Filled 436 voxels in small holes; now have 28335 voxels
201112-22:48:34,484 nipype.interface INFO:
stderr 2020-11-12T22:48:34.484086: + Filled 1 voxels in large holes; now have 28336 voxels
201112-22:48:34,485 nipype.interface INFO:
stderr 2020-11-12T22:48:34.485289: + Clustering voxels ...
201112-22:48:34,486 nipype.interface INFO:
stderr 2020-11-12T22:48:34.486320: + Largest cluster has 28336 voxels
201112-22:48:34,486 nipype.interface INFO:
stderr 2020-11-12T22:48:34.486548: + Clustering non-brain voxels ...
201112-22:48:34,486 nipype.interface INFO:
stderr 2020-11-12T22:48:34.486688: + Clustering voxels ...
201112-22:48:34,489 nipype.interface INFO:
stderr 2020-11-12T22:48:34.489547: + Largest cluster has 110878 voxels
201112-22:48:34,489 nipype.interface INFO:
stderr 2020-11-12T22:48:34.489873: + Mask now has 28386 voxels
201112-22:48:34,490 nipype.interface INFO:
stderr 2020-11-12T22:48:34.490020:++ Dilating automask
201112-22:48:34,500 nipype.interface INFO:
stderr 2020-11-12T22:48:34.500565: + Clustering voxels ...
201112-22:48:34,503 nipype.interface INFO:
stderr 2020-11-12T22:48:34.502999: + Largest cluster has 105272 voxels
201112-22:48:34,503 nipype.interface INFO:
stderr 2020-11-12T22:48:34.503327:++ 33992 voxels in the mask [out of 139264: 24.41%]
201112-22:48:34,503 nipype.interface INFO:
stderr 2020-11-12T22:48:34.503511:++ first 10 x-planes are zero [from R]
201112-22:48:34,503 nipype.interface INFO:
stderr 2020-11-12T22:48:34.503676:++ last 9 x-planes are zero [from L]
201112-22:48:34,503 nipype.interface INFO:
stderr 2020-11-12T22:48:34.503813:++ first 3 y-planes are zero [from P]
201112-22:48:34,503 nipype.interface INFO:
stderr 2020-11-12T22:48:34.503959:++ last 8 y-planes are zero [from A]
201112-22:48:34,504 nipype.interface INFO:
stderr 2020-11-12T22:48:34.504091:++ first 0 z-planes are zero [from I]
201112-22:48:34,504 nipype.interface INFO:
stderr 2020-11-12T22:48:34.504226:++ last 1 z-planes are zero [from S]
201112-22:48:34,508 nipype.interface INFO:
stderr 2020-11-12T22:48:34.508571:++ Output dataset ./uni_mask.nii.gz
201112-22:48:34,508 nipype.interface INFO:
stderr 2020-11-12T22:48:34.508747:++ applying mask to original data
201112-22:48:34,509 nipype.interface INFO:
stderr 2020-11-12T22:48:34.509411:++ Writing masked data
201112-22:48:34,523 nipype.interface INFO:
stderr 2020-11-12T22:48:34.523034:++ Output dataset ./uni_masked.nii.gz
201112-22:48:34,523 nipype.interface INFO:
stderr 2020-11-12T22:48:34.523371:++ CPU time = 0.000000 sec
201112-22:48:34,675 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.func_preproc_fsl_afni_mean_mcflirt_0.func_preproc_fsl_afni_mean_mcflirt_0_skullstrip.skullstrip_second_pass".
201112-22:48:34,677 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.func_preproc_fsl_afni_mean_mcflirt_0.func_preproc_fsl_afni_mean_mcflirt_0_skullstrip.combine_masks" in "/outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/func_preproc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_matching_run-3/combine_masks".
201112-22:48:34,685 nipype.workflow INFO:
[Node] Running "combine_masks" ("nipype.interfaces.fsl.maths.BinaryMaths"), a CommandLine Interface with command:
fslmaths /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/func_preproc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_matching_run-3/skullstrip_first_pass/sub-018_ses-1_task-matching_run-3_bold_calc_despike_tshift_resample_mcf_tstat_brain_mask.nii.gz -mul /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/func_preproc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_matching_run-3/skullstrip_second_pass/uni_mask.nii.gz /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/func_preproc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_matching_run-3/combine_masks/sub-018_ses-1_task-matching_run-3_bold_calc_despike_tshift_resample_mcf_tstat_brain_mask_maths.nii.gz
201112-22:48:35,88 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.func_preproc_fsl_afni_mean_mcflirt_0.func_preproc_fsl_afni_mean_mcflirt_0_skullstrip.combine_masks".
201112-22:48:35,90 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.nuisance_regressor_0_0.GlobalSignal_merge_masks" in "/outputs/tmp/resting_preproc_sub-018_ses-1/nuisance_regressor_0_0/_scan_matching_run-3/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/GlobalSignal_merge_masks".
201112-22:48:35,98 nipype.workflow INFO:
[Node] Running "GlobalSignal_merge_masks" ("nipype.interfaces.utility.base.Merge")
201112-22:48:35,326 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.nuisance_regressor_0_0.GlobalSignal_merge_masks".
201112-22:48:35,328 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.nuisance_regressor_0_0.GlobalSignal_union_masks" in "/outputs/tmp/resting_preproc_sub-018_ses-1/nuisance_regressor_0_0/_scan_matching_run-3/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/GlobalSignal_union_masks".
201112-22:48:35,337 nipype.workflow INFO:
[Node] Running "GlobalSignal_union_masks" ("CPAC.utils.interfaces.masktool.MaskTool"), a CommandLine Interface with command:
3dmask_tool -prefix sub-018_ses-1_task-matching_run-3_bold_calc_despike_tshift_resample_mcf_tstat_brain_mask_maths_mask.nii.gz -input /outputs/tmp/resting_preproc_sub-018_ses-1/nuisance_regressor_0_0/_scan_matching_run-3/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/GlobalSignal_union_masks/sub-018_ses-1_task-matching_run-3_bold_calc_despike_tshift_resample_mcf_tstat_brain_mask_maths.nii.gz
201112-22:48:35,579 nipype.interface INFO:
stderr 2020-11-12T22:48:35.579319:++ no -frac option: defaulting to -union
201112-22:48:35,579 nipype.interface INFO:
stderr 2020-11-12T22:48:35.579858:++ processing 1 input dataset(s), NN=2...
201112-22:48:35,580 nipype.interface INFO:
stderr 2020-11-12T22:48:35.580046:++ padding all datasets by 0 (for dilations)
201112-22:48:35,585 nipype.interface INFO:
stderr 2020-11-12T22:48:35.585153:++ frac 0 over 1 volumes gives min count 0
201112-22:48:35,585 nipype.interface INFO:
stderr 2020-11-12T22:48:35.585553:++ voxel limits: 0 clipped, 33930 survived, 105334 were zero
201112-22:48:35,585 nipype.interface INFO:
stderr 2020-11-12T22:48:35.585729:++ writing result sub-018_ses-1_task-matching_run-3_bold_calc_despike_tshift_resample_mcf_tstat_brain_mask_maths_mask.nii.gz...
201112-22:48:35,590 nipype.interface INFO:
stderr 2020-11-12T22:48:35.590328:++ Output dataset ./sub-018_ses-1_task-matching_run-3_bold_calc_despike_tshift_resample_mcf_tstat_brain_mask_maths_mask.nii.gz
201112-22:48:35,738 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.nuisance_regressor_0_0.GlobalSignal_union_masks".
201112-22:48:35,739 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.sinker_0_functional_brain_mask" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_matching_run-3/sinker_0_functional_brain_mask".
201112-22:48:35,749 nipype.workflow INFO:
[Node] Running "sinker_0_functional_brain_mask" ("CPAC.utils.interfaces.datasink.DataSink")
201112-22:48:35,976 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.sinker_0_functional_brain_mask".
201112-22:48:35,977 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.functional_brain_mask_derivative_0" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_matching_run-3/functional_brain_mask_derivative_0".
201112-22:48:35,983 nipype.workflow INFO:
[Node] Running "functional_brain_mask_derivative_0" ("CPAC.utils.interfaces.function.Function")
201112-22:48:36,196 nipype.workflow INFO:
[Node] Setting-up "functional_brain_mask_derivative" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_matching_run-3/functional_brain_mask_derivative_0/functional_brain_mask_derivative".
201112-22:48:36,204 nipype.workflow INFO:
[Node] Running "functional_brain_mask_derivative" ("nipype.interfaces.afni.utils.Resample"), a CommandLine Interface with command:
3dresample -prefix sub-018_ses-1_task-matching_run-3_bold_calc_despike_tshift_resample_mcf_tstat_brain_mask_maths_resample.nii.gz -rmode Cu -dxyz 2.000000 2.000000 2.000000 -inset /outputs/tmp/resting_preproc_sub-018_ses-1/_scan_matching_run-3/functional_brain_mask_derivative_0/functional_brain_mask_derivative/sub-018_ses-1_task-matching_run-3_bold_calc_despike_tshift_resample_mcf_tstat_brain_mask_maths.nii.gz
201112-22:48:36,697 nipype.workflow INFO:
[Node] Finished "functional_brain_mask_derivative".
201112-22:48:36,712 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.functional_brain_mask_derivative_0".
201112-22:48:36,714 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.func_preproc_fsl_afni_mean_mcflirt_0.func_preproc_fsl_afni_mean_mcflirt_0_skullstrip.func_extract_brain" in "/outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/func_preproc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_matching_run-3/func_extract_brain".
201112-22:48:36,722 nipype.workflow INFO:
[Node] Running "func_extract_brain" ("nipype.interfaces.afni.utils.Calc"), a CommandLine Interface with command:
3dcalc -a /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/_scan_matching_run-3/func_motion_correct_mcflirt/sub-018_ses-1_task-matching_run-3_bold_calc_despike_tshift_resample_mcf.nii.gz -b /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/func_preproc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_matching_run-3/combine_masks/sub-018_ses-1_task-matching_run-3_bold_calc_despike_tshift_resample_mcf_tstat_brain_mask_maths.nii.gz -expr "a*b" -prefix sub-018_ses-1_task-matching_run-3_bold_calc_despike_tshift_resample_mcf_calc.nii.gz
201112-22:48:36,967 nipype.interface INFO:
stderr 2020-11-12T22:48:36.967613:++ 3dcalc: AFNI version=AFNI_20.2.19 (Sep 27 2020) [64-bit]
201112-22:48:36,967 nipype.interface INFO:
stderr 2020-11-12T22:48:36.967934:++ Authored by: A cast of thousands
201112-22:48:39,276 nipype.interface INFO:
stderr 2020-11-12T22:48:39.276133:++ Output dataset ./sub-018_ses-1_task-matching_run-3_bold_calc_despike_tshift_resample_mcf_calc.nii.gz
201112-22:48:39,456 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.func_preproc_fsl_afni_mean_mcflirt_0.func_preproc_fsl_afni_mean_mcflirt_0_skullstrip.func_extract_brain".
201112-22:48:39,458 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.func_preproc_fsl_afni_mean_mcflirt_0.func_normalize" in "/outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/_scan_matching_run-3/func_normalize".
201112-22:48:39,466 nipype.workflow INFO:
[Node] Running "func_normalize" ("nipype.interfaces.fsl.utils.ImageMaths"), a CommandLine Interface with command:
fslmaths /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/func_preproc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_matching_run-3/func_extract_brain/sub-018_ses-1_task-matching_run-3_bold_calc_despike_tshift_resample_mcf_calc.nii.gz -ing 10000 /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/_scan_matching_run-3/func_normalize/sub-018_ses-1_task-matching_run-3_bold_calc_despike_tshift_resample_mcf_calc_maths.nii.gz -odt float
201112-22:48:41,231 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.func_preproc_fsl_afni_mean_mcflirt_0.func_normalize".
201112-22:48:41,232 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.nuisance_regressor_0_0.GlobalSignal_mean" in "/outputs/tmp/resting_preproc_sub-018_ses-1/nuisance_regressor_0_0/_scan_matching_run-3/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/GlobalSignal_mean".
201112-22:48:41,240 nipype.workflow INFO:
[Node] Running "GlobalSignal_mean" ("nipype.interfaces.afni.preprocess.ROIStats"), a CommandLine Interface with command:
3dROIstats -mask /outputs/tmp/resting_preproc_sub-018_ses-1/nuisance_regressor_0_0/_scan_matching_run-3/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/GlobalSignal_union_masks/sub-018_ses-1_task-matching_run-3_bold_calc_despike_tshift_resample_mcf_tstat_brain_mask_maths_mask.nii.gz -1Dformat /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/_scan_matching_run-3/func_normalize/sub-018_ses-1_task-matching_run-3_bold_calc_despike_tshift_resample_mcf_calc_maths.nii.gz
201112-22:48:41,989 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.nuisance_regressor_0_0.GlobalSignal_mean".
201112-22:48:41,991 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.nuisance_regressor_0_0.functional_mean" in "/outputs/tmp/resting_preproc_sub-018_ses-1/nuisance_regressor_0_0/_scan_matching_run-3/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/functional_mean".
201112-22:48:41,999 nipype.workflow INFO:
[Node] Running "functional_mean" ("nipype.interfaces.afni.utils.TStat"), a CommandLine Interface with command:
3dTstat -mean -prefix sub-018_ses-1_task-matching_run-3_bold_calc_despike_tshift_resample_mcf_calc_maths_tstat.nii.gz /outputs/tmp/resting_preproc_sub-018_ses-1/nuisance_regressor_0_0/_scan_matching_run-3/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/functional_mean/sub-018_ses-1_task-matching_run-3_bold_calc_despike_tshift_resample_mcf_calc_maths.nii.gz
201112-22:48:42,257 nipype.interface INFO:
stderr 2020-11-12T22:48:42.257871:++ 3dTstat: AFNI version=AFNI_20.2.19 (Sep 27 2020) [64-bit]
201112-22:48:42,258 nipype.interface INFO:
stderr 2020-11-12T22:48:42.258182:++ Authored by: KR Hammett & RW Cox
201112-22:48:42,689 nipype.interface INFO:
stderr 2020-11-12T22:48:42.689423:++ Output dataset ./sub-018_ses-1_task-matching_run-3_bold_calc_despike_tshift_resample_mcf_calc_maths_tstat.nii.gz
201112-22:48:42,845 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.nuisance_regressor_0_0.functional_mean".
201112-22:48:42,847 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.qc_snr_0.std_dev" in "/outputs/tmp/resting_preproc_sub-018_ses-1/qc_snr_0/_scan_matching_run-3/std_dev".
201112-22:48:42,856 nipype.workflow INFO:
[Node] Running "std_dev" ("nipype.interfaces.afni.utils.TStat"), a CommandLine Interface with command:
3dTstat -stdev -mask /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/func_preproc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_matching_run-3/combine_masks/sub-018_ses-1_task-matching_run-3_bold_calc_despike_tshift_resample_mcf_tstat_brain_mask_maths.nii.gz -prefix sub-018_ses-1_task-matching_run-3_bold_calc_despike_tshift_resample_mcf_calc_maths_tstat.nii.gz /outputs/tmp/resting_preproc_sub-018_ses-1/qc_snr_0/_scan_matching_run-3/std_dev/sub-018_ses-1_task-matching_run-3_bold_calc_despike_tshift_resample_mcf_calc_maths.nii.gz
201112-22:48:43,100 nipype.interface INFO:
stderr 2020-11-12T22:48:43.100237:++ 3dTstat: AFNI version=AFNI_20.2.19 (Sep 27 2020) [64-bit]
201112-22:48:43,100 nipype.interface INFO:
stderr 2020-11-12T22:48:43.100555:++ Authored by: KR Hammett & RW Cox
201112-22:48:43,496 nipype.interface INFO:
stderr 2020-11-12T22:48:43.496431:++ Output dataset ./sub-018_ses-1_task-matching_run-3_bold_calc_despike_tshift_resample_mcf_calc_maths_tstat.nii.gz
201112-22:48:43,651 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.qc_snr_0.std_dev".
201112-22:48:43,652 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.sinker_0_functional_preprocessed" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_matching_run-3/sinker_0_functional_preprocessed".
201112-22:48:43,661 nipype.workflow INFO:
[Node] Running "sinker_0_functional_preprocessed" ("CPAC.utils.interfaces.datasink.DataSink")
201112-22:48:43,888 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.sinker_0_functional_preprocessed".
201112-22:48:43,889 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.func_preproc_fsl_afni_mean_mcflirt_0.func_mask_normalize" in "/outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/_scan_matching_run-3/func_mask_normalize".
201112-22:48:43,896 nipype.workflow INFO:
[Node] Running "func_mask_normalize" ("nipype.interfaces.fsl.utils.ImageMaths"), a CommandLine Interface with command:
fslmaths /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/_scan_matching_run-3/func_normalize/sub-018_ses-1_task-matching_run-3_bold_calc_despike_tshift_resample_mcf_calc_maths.nii.gz -Tmin -bin /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/_scan_matching_run-3/func_mask_normalize/sub-018_ses-1_task-matching_run-3_bold_calc_despike_tshift_resample_mcf_calc_maths_maths.nii.gz -odt char
201112-22:48:44,761 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.func_preproc_fsl_afni_mean_mcflirt_0.func_mask_normalize".
201112-22:48:44,763 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.sinker_0_functional_preprocessed_mask" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_matching_run-3/sinker_0_functional_preprocessed_mask".
201112-22:48:44,772 nipype.workflow INFO:
[Node] Running "sinker_0_functional_preprocessed_mask" ("CPAC.utils.interfaces.datasink.DataSink")
201112-22:48:45,2 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.sinker_0_functional_preprocessed_mask".
201112-22:48:45,4 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.func_preproc_fsl_afni_mean_mcflirt_0.func_mean" in "/outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/_scan_matching_run-3/func_mean".
201112-22:48:45,12 nipype.workflow INFO:
[Node] Running "func_mean" ("nipype.interfaces.afni.utils.TStat"), a CommandLine Interface with command:
3dTstat -mean -prefix sub-018_ses-1_task-matching_run-3_bold_calc_despike_tshift_resample_mcf_calc_tstat.nii.gz /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/_scan_matching_run-3/func_mean/sub-018_ses-1_task-matching_run-3_bold_calc_despike_tshift_resample_mcf_calc.nii.gz
201112-22:48:45,257 nipype.interface INFO:
stderr 2020-11-12T22:48:45.257585:++ 3dTstat: AFNI version=AFNI_20.2.19 (Sep 27 2020) [64-bit]
201112-22:48:45,257 nipype.interface INFO:
stderr 2020-11-12T22:48:45.257911:++ Authored by: KR Hammett & RW Cox
201112-22:48:45,678 nipype.interface INFO:
stderr 2020-11-12T22:48:45.678269:++ Output dataset ./sub-018_ses-1_task-matching_run-3_bold_calc_despike_tshift_resample_mcf_calc_tstat.nii.gz
201112-22:48:45,833 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.func_preproc_fsl_afni_mean_mcflirt_0.func_mean".
201112-22:48:45,835 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.sinker_0_mean_functional" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_matching_run-3/sinker_0_mean_functional".
201112-22:48:45,845 nipype.workflow INFO:
[Node] Running "sinker_0_mean_functional" ("CPAC.utils.interfaces.datasink.DataSink")
201112-22:48:46,74 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.sinker_0_mean_functional".
201112-22:48:46,76 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.func_preproc_fsl_afni_mean_mcflirt_0.norm_motion_params" in "/outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/_scan_matching_run-3/norm_motion_params".
201112-22:48:46,84 nipype.workflow INFO:
[Node] Running "norm_motion_params" ("CPAC.utils.interfaces.function.Function")
201112-22:48:46,316 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.func_preproc_fsl_afni_mean_mcflirt_0.norm_motion_params".
201112-22:48:46,318 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.sinker_0_slice_time_corrected" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_matching_run-3/sinker_0_slice_time_corrected".
201112-22:48:46,328 nipype.workflow INFO:
[Node] Running "sinker_0_slice_time_corrected" ("CPAC.utils.interfaces.datasink.DataSink")
201112-22:48:46,561 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.sinker_0_slice_time_corrected".
201112-22:48:46,562 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.sinker_0_raw_functional" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_matching_run-3/sinker_0_raw_functional".
201112-22:48:46,571 nipype.workflow INFO:
[Node] Running "sinker_0_raw_functional" ("CPAC.utils.interfaces.datasink.DataSink")
201112-22:48:46,886 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.sinker_0_raw_functional".
201112-22:48:46,888 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.func_gather_0.check_func_scan" in "/outputs/tmp/resting_preproc_sub-018_ses-1/func_gather_0/_scan_matching_run-3/check_func_scan".
201112-22:48:46,921 nipype.workflow INFO:
[Node] Running "check_func_scan" ("CPAC.utils.interfaces.function.Function")
201112-22:48:47,158 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.func_gather_0.check_func_scan".
201112-22:48:47,169 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.func_gather_0.select_scan_params" in "/outputs/tmp/resting_preproc_sub-018_ses-1/func_gather_0/_scan_matching_run-2/select_scan_params".
201112-22:48:47,200 nipype.workflow INFO:
[Node] Running "select_scan_params" ("CPAC.utils.interfaces.function.Function")
201112-22:48:47,432 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.func_gather_0.select_scan_params".
201112-22:48:47,442 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.func_gather_0.s3_scan_params" in "/outputs/tmp/resting_preproc_sub-018_ses-1/func_gather_0/_scan_matching_run-2/s3_scan_params".
201112-22:48:47,452 nipype.workflow INFO:
[Node] Running "s3_scan_params" ("CPAC.utils.interfaces.function.Function")
201112-22:48:47,685 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.func_gather_0.s3_scan_params".
201112-22:48:47,688 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.scan_params_0" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_matching_run-2/scan_params_0".
201112-22:48:47,699 nipype.workflow INFO:
[Node] Running "scan_params_0" ("CPAC.utils.interfaces.function.Function")
201112-22:48:47,931 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.scan_params_0".
201112-22:48:47,933 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.func_gather_0.selectrest" in "/outputs/tmp/resting_preproc_sub-018_ses-1/func_gather_0/_scan_matching_run-2/selectrest".
201112-22:48:47,968 nipype.workflow INFO:
[Node] Running "selectrest" ("CPAC.utils.interfaces.function.Function")
201112-22:48:48,201 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.func_gather_0.selectrest".
201112-22:48:48,210 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.func_gather_0.check_for_s3" in "/outputs/tmp/resting_preproc_sub-018_ses-1/func_gather_0/_scan_matching_run-2/check_for_s3".
201112-22:48:48,218 nipype.workflow INFO:
[Node] Running "check_for_s3" ("CPAC.utils.interfaces.function.Function")
201112-22:48:48,550 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.func_gather_0.check_for_s3".
201112-22:48:48,551 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.edit_func_0.func_get_idx" in "/outputs/tmp/resting_preproc_sub-018_ses-1/edit_func_0/_scan_matching_run-2/func_get_idx".
201112-22:48:48,560 nipype.workflow INFO:
[Node] Running "func_get_idx" ("nipype.interfaces.utility.wrappers.Function")
201112-22:48:48,791 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.edit_func_0.func_get_idx".
201112-22:48:48,793 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.edit_func_0.func_drop_trs" in "/outputs/tmp/resting_preproc_sub-018_ses-1/edit_func_0/_scan_matching_run-2/func_drop_trs".
201112-22:48:48,802 nipype.workflow INFO:
[Node] Running "func_drop_trs" ("nipype.interfaces.afni.utils.Calc"), a CommandLine Interface with command:
3dcalc -a /bids_dataset/sub-018/ses-1/func/sub-018_ses-1_task-matching_run-2_bold.nii.gz[0..98] -expr "a" -prefix sub-018_ses-1_task-matching_run-2_bold_calc.nii.gz
201112-22:48:49,52 nipype.interface INFO:
stderr 2020-11-12T22:48:49.052729:++ 3dcalc: AFNI version=AFNI_20.2.19 (Sep 27 2020) [64-bit]
201112-22:48:49,53 nipype.interface INFO:
stderr 2020-11-12T22:48:49.053120:++ Authored by: A cast of thousands
201112-22:48:53,442 nipype.interface INFO:
stderr 2020-11-12T22:48:53.442082:++ Output dataset ./sub-018_ses-1_task-matching_run-2_bold_calc.nii.gz
201112-22:48:53,619 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.edit_func_0.func_drop_trs".
201112-22:48:53,621 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_deoblique" in "/outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/_scan_matching_run-2/func_deoblique".
201112-22:48:53,656 nipype.workflow INFO:
[Node] Running "func_deoblique" ("nipype.interfaces.afni.utils.Refit"), a CommandLine Interface with command:
3drefit -deoblique /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/_scan_matching_run-2/func_deoblique/sub-018_ses-1_task-matching_run-2_bold_calc.nii.gz
201112-22:48:53,902 nipype.interface INFO:
stderr 2020-11-12T22:48:53.902385:++ 3drefit: AFNI version=AFNI_20.2.19 (Sep 27 2020) [64-bit]
201112-22:48:53,902 nipype.interface INFO:
stderr 2020-11-12T22:48:53.902724:++ Authored by: RW Cox
201112-22:48:53,905 nipype.interface INFO:
stderr 2020-11-12T22:48:53.905261:++ Processing AFNI dataset /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/_scan_matching_run-2/func_deoblique/sub-018_ses-1_task-matching_run-2_bold_calc.nii.gz
201112-22:48:53,905 nipype.interface INFO:
stderr 2020-11-12T22:48:53.905874: + deoblique
201112-22:48:53,906 nipype.interface INFO:
stderr 2020-11-12T22:48:53.906056: + loading and re-writing dataset /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/_scan_matching_run-2/func_deoblique/sub-018_ses-1_task-matching_run-2_bold_calc.nii.gz (/outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/_scan_matching_run-2/func_deoblique/sub-018_ses-1_task-matching_run-2_bold_calc.nii.gz in NIFTI storage)
201112-22:48:56,878 nipype.interface INFO:
stderr 2020-11-12T22:48:56.878327:++ 3drefit processed 1 datasets
201112-22:48:57,51 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_deoblique".
201112-22:48:57,52 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_reorient" in "/outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/_scan_matching_run-2/func_reorient".
201112-22:48:57,62 nipype.workflow INFO:
[Node] Running "func_reorient" ("nipype.interfaces.afni.utils.Resample"), a CommandLine Interface with command:
3dresample -orient RPI -prefix sub-018_ses-1_task-matching_run-2_bold_calc_resample.nii.gz -inset /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/_scan_matching_run-2/func_reorient/sub-018_ses-1_task-matching_run-2_bold_calc.nii.gz
201112-22:49:00,623 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_reorient".
201112-22:49:00,625 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_get_mean_RPI" in "/outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/_scan_matching_run-2/func_get_mean_RPI".
201112-22:49:00,634 nipype.workflow INFO:
[Node] Running "func_get_mean_RPI" ("nipype.interfaces.afni.utils.TStat"), a CommandLine Interface with command:
3dTstat -mean -prefix sub-018_ses-1_task-matching_run-2_bold_calc_resample_tstat.nii.gz /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/_scan_matching_run-2/func_get_mean_RPI/sub-018_ses-1_task-matching_run-2_bold_calc_resample.nii.gz
201112-22:49:00,889 nipype.interface INFO:
stderr 2020-11-12T22:49:00.889009:++ 3dTstat: AFNI version=AFNI_20.2.19 (Sep 27 2020) [64-bit]
201112-22:49:00,889 nipype.interface INFO:
stderr 2020-11-12T22:49:00.889446:++ Authored by: KR Hammett & RW Cox
201112-22:49:01,249 nipype.interface INFO:
stderr 2020-11-12T22:49:01.249434:++ Output dataset ./sub-018_ses-1_task-matching_run-2_bold_calc_resample_tstat.nii.gz
201112-22:49:01,402 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_get_mean_RPI".
201112-22:49:01,403 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_generate_ref" in "/outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/_scan_matching_run-2/func_generate_ref".
201112-22:49:01,412 nipype.workflow INFO:
[Node] Running "func_generate_ref" ("nipype.interfaces.afni.preprocess.Volreg"), a CommandLine Interface with command:
3dvolreg -twopass -Fourier -1Dfile sub-018_ses-1_task-matching_run-2_bold_calc_resample.1D -1Dmatrix_save sub-018_ses-1_task-matching_run-2_bold_calc_resample.aff12.1D -prefix sub-018_ses-1_task-matching_run-2_bold_calc_resample_volreg.nii.gz -base /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/_scan_matching_run-2/func_get_mean_RPI/sub-018_ses-1_task-matching_run-2_bold_calc_resample_tstat.nii.gz -zpad 4 -maxdisp1D sub-018_ses-1_task-matching_run-2_bold_calc_resample_md.1D /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/_scan_matching_run-2/func_generate_ref/sub-018_ses-1_task-matching_run-2_bold_calc_resample.nii.gz
201112-22:49:01,657 nipype.interface INFO:
stderr 2020-11-12T22:49:01.657137:++ 3dvolreg: AFNI version=AFNI_20.2.19 (Sep 27 2020) [64-bit]
201112-22:49:01,657 nipype.interface INFO:
stderr 2020-11-12T22:49:01.657442:++ Authored by: RW Cox
201112-22:49:01,666 nipype.interface INFO:
stderr 2020-11-12T22:49:01.666704:++ Coarse del was 10, replaced with 3
201112-22:50:22,776 nipype.interface INFO:
stderr 2020-11-12T22:50:22.776589:++ Max displacement in automask = 1.94 (mm) at sub-brick 68
201112-22:50:22,777 nipype.interface INFO:
stderr 2020-11-12T22:50:22.777146:++ Max delta displ in automask = 1.65 (mm) at sub-brick 86
201112-22:50:25,751 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_generate_ref".
201112-22:50:25,753 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_get_mean_motion" in "/outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/_scan_matching_run-2/func_get_mean_motion".
201112-22:50:25,759 nipype.workflow INFO:
[Node] Running "func_get_mean_motion" ("nipype.interfaces.afni.utils.TStat"), a CommandLine Interface with command:
3dTstat -mean -prefix sub-018_ses-1_task-matching_run-2_bold_calc_resample_volreg_tstat.nii.gz /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/_scan_matching_run-2/func_get_mean_motion/sub-018_ses-1_task-matching_run-2_bold_calc_resample_volreg.nii.gz
201112-22:50:26,7 nipype.interface INFO:
stderr 2020-11-12T22:50:26.007761:++ 3dTstat: AFNI version=AFNI_20.2.19 (Sep 27 2020) [64-bit]
201112-22:50:26,8 nipype.interface INFO:
stderr 2020-11-12T22:50:26.008065:++ Authored by: KR Hammett & RW Cox
201112-22:50:26,364 nipype.interface INFO:
stderr 2020-11-12T22:50:26.364512:++ Output dataset ./sub-018_ses-1_task-matching_run-2_bold_calc_resample_volreg_tstat.nii.gz
201112-22:50:26,516 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_get_mean_motion".
201112-22:50:26,517 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_motion_correct_mcflirt" in "/outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/_scan_matching_run-2/func_motion_correct_mcflirt".
201112-22:50:26,526 nipype.workflow INFO:
[Node] Running "func_motion_correct_mcflirt" ("nipype.interfaces.fsl.preprocess.MCFLIRT"), a CommandLine Interface with command:
mcflirt -in /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/_scan_matching_run-2/func_reorient/sub-018_ses-1_task-matching_run-2_bold_calc_resample.nii.gz -out /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/_scan_matching_run-2/func_motion_correct_mcflirt/sub-018_ses-1_task-matching_run-2_bold_calc_resample_mcf.nii.gz -reffile /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/_scan_matching_run-2/func_get_mean_motion/sub-018_ses-1_task-matching_run-2_bold_calc_resample_volreg_tstat.nii.gz -mats -plots -rmsabs -rmsrel
201112-22:50:43,990 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_motion_correct_mcflirt".
201112-22:50:43,998 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.gen_motion_stats_before_stc_fsl_afni_mean_mcflirt_0.calculate_FDJ" in "/outputs/tmp/resting_preproc_sub-018_ses-1/gen_motion_stats_before_stc_fsl_afni_mean_mcflirt_0/_scan_matching_run-2/calculate_FDJ".
201112-22:50:44,5 nipype.workflow INFO:
[Node] Running "calculate_FDJ" ("CPAC.utils.interfaces.function.Function")
201112-22:50:44,236 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.gen_motion_stats_before_stc_fsl_afni_mean_mcflirt_0.calculate_FDJ".
201112-22:50:44,237 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.sinker_0_frame_wise_displacement_jenkinson" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_matching_run-2/sinker_0_frame_wise_displacement_jenkinson".
201112-22:50:44,247 nipype.workflow INFO:
[Node] Running "sinker_0_frame_wise_displacement_jenkinson" ("CPAC.utils.interfaces.datasink.DataSink")
201112-22:50:44,476 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.sinker_0_frame_wise_displacement_jenkinson".
201112-22:50:44,478 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.sinker_0_max_displacement" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_matching_run-2/sinker_0_max_displacement".
201112-22:50:44,488 nipype.workflow INFO:
[Node] Running "sinker_0_max_displacement" ("CPAC.utils.interfaces.datasink.DataSink")
201112-22:50:44,718 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.sinker_0_max_displacement".
201112-22:50:44,719 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.sinker_0_coordinate_transformation" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_matching_run-2/sinker_0_coordinate_transformation".
201112-22:50:44,737 nipype.workflow INFO:
[Node] Running "sinker_0_coordinate_transformation" ("CPAC.utils.interfaces.datasink.DataSink")
201112-22:50:44,993 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.sinker_0_coordinate_transformation".
201112-22:50:45,2 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip.func_mean_skull" in "/outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_matching_run-2/func_mean_skull".
201112-22:50:45,12 nipype.workflow INFO:
[Node] Running "func_mean_skull" ("nipype.interfaces.afni.utils.TStat"), a CommandLine Interface with command:
3dTstat -mean -prefix sub-018_ses-1_task-matching_run-2_bold_calc_resample_mcf_tstat.nii.gz /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_matching_run-2/func_mean_skull/sub-018_ses-1_task-matching_run-2_bold_calc_resample_mcf.nii.gz
201112-22:50:45,266 nipype.interface INFO:
stderr 2020-11-12T22:50:45.266867:++ 3dTstat: AFNI version=AFNI_20.2.19 (Sep 27 2020) [64-bit]
201112-22:50:45,267 nipype.interface INFO:
stderr 2020-11-12T22:50:45.267236:++ Authored by: KR Hammett & RW Cox
201112-22:50:45,652 nipype.interface INFO:
stderr 2020-11-12T22:50:45.652408:++ Output dataset ./sub-018_ses-1_task-matching_run-2_bold_calc_resample_mcf_tstat.nii.gz
201112-22:50:45,807 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip.func_mean_skull".
201112-22:50:45,808 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip.skullstrip_first_pass" in "/outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_matching_run-2/skullstrip_first_pass".
201112-22:50:45,817 nipype.workflow INFO:
[Node] Running "skullstrip_first_pass" ("nipype.interfaces.fsl.preprocess.BET"), a CommandLine Interface with command:
bet /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_matching_run-2/func_mean_skull/sub-018_ses-1_task-matching_run-2_bold_calc_resample_mcf_tstat.nii.gz /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_matching_run-2/skullstrip_first_pass/sub-018_ses-1_task-matching_run-2_bold_calc_resample_mcf_tstat_brain.nii.gz -f 0.20 -m
201112-22:50:47,645 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip.skullstrip_first_pass".
201112-22:50:47,647 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip.skullstrip_first_dilate" in "/outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_matching_run-2/skullstrip_first_dilate".
201112-22:50:47,655 nipype.workflow INFO:
[Node] Running "skullstrip_first_dilate" ("nipype.interfaces.fsl.maths.DilateImage"), a CommandLine Interface with command:
fslmaths -dt char /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_matching_run-2/skullstrip_first_pass/sub-018_ses-1_task-matching_run-2_bold_calc_resample_mcf_tstat_brain_mask.nii.gz -kernel sphere 6.0000 -dilF /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_matching_run-2/skullstrip_first_dilate/sub-018_ses-1_task-matching_run-2_bold_calc_resample_mcf_tstat_brain_mask_dil.nii.gz
201112-22:50:48,308 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip.skullstrip_first_dilate".
201112-22:50:48,309 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip.skullstrip_first_mask" in "/outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_matching_run-2/skullstrip_first_mask".
201112-22:50:48,318 nipype.workflow INFO:
[Node] Running "skullstrip_first_mask" ("nipype.interfaces.fsl.maths.ApplyMask"), a CommandLine Interface with command:
fslmaths /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_matching_run-2/skullstrip_first_pass/sub-018_ses-1_task-matching_run-2_bold_calc_resample_mcf_tstat_brain.nii.gz -mas /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_matching_run-2/skullstrip_first_dilate/sub-018_ses-1_task-matching_run-2_bold_calc_resample_mcf_tstat_brain_mask_dil.nii.gz /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_matching_run-2/skullstrip_first_mask/sub-018_ses-1_task-matching_run-2_bold_calc_resample_mcf_tstat_brain_masked.nii.gz
201112-22:50:48,733 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip.skullstrip_first_mask".
201112-22:50:48,734 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip.unifize" in "/outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_matching_run-2/unifize".
201112-22:50:48,743 nipype.workflow INFO:
[Node] Running "unifize" ("nipype.interfaces.afni.utils.Unifize"), a CommandLine Interface with command:
3dUnifize -clfrac 0.2 -rbt 18.3 65.0 90.0 -prefix uni.nii.gz -T2 -input /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_matching_run-2/unifize/sub-018_ses-1_task-matching_run-2_bold_calc_resample_mcf_tstat_brain_masked.nii.gz
201112-22:50:48,997 nipype.interface INFO:
stderr 2020-11-12T22:50:48.997837:++ 3dUnifize: AFNI version=AFNI_20.2.19 (Sep 27 2020) [64-bit]
201112-22:52:01,802 nipype.interface INFO:
stderr 2020-11-12T22:52:01.802025: + Pre-processing: IAV..UW[s4144]Im
201112-22:52:01,817 nipype.interface INFO:
stderr 2020-11-12T22:52:01.817547:++ Output dataset ./uni.nii.gz
201112-22:52:01,817 nipype.interface INFO:
stderr 2020-11-12T22:52:01.817765:++ ===== Elapsed = 72.8 sec
201112-22:52:01,998 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip.unifize".
201112-22:52:01,999 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip.skullstrip_second_pass" in "/outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_matching_run-2/skullstrip_second_pass".
201112-22:52:02,8 nipype.workflow INFO:
[Node] Running "skullstrip_second_pass" ("nipype.interfaces.afni.preprocess.Automask"), a CommandLine Interface with command:
3dAutomask -apply_prefix uni_masked.nii.gz -dilate 1 -prefix uni_mask.nii.gz /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_matching_run-2/skullstrip_second_pass/uni.nii.gz
201112-22:52:02,259 nipype.interface INFO:
stderr 2020-11-12T22:52:02.259863:++ 3dAutomask: AFNI version=AFNI_20.2.19 (Sep 27 2020) [64-bit]
201112-22:52:02,260 nipype.interface INFO:
stderr 2020-11-12T22:52:02.260228:++ Authored by: Emperor Zhark
201112-22:52:02,262 nipype.interface INFO:
stderr 2020-11-12T22:52:02.262777:++ Loading dataset /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_matching_run-2/skullstrip_second_pass/uni.nii.gz
201112-22:52:02,267 nipype.interface INFO:
stderr 2020-11-12T22:52:02.267944:++ Forming automask
201112-22:52:02,269 nipype.interface INFO:
stderr 2020-11-12T22:52:02.269680: + Fixed clip level = 435.806000
201112-22:52:02,274 nipype.interface INFO:
stderr 2020-11-12T22:52:02.274255: + Used gradual clip level = 392.303833 .. 491.743927
201112-22:52:02,274 nipype.interface INFO:
stderr 2020-11-12T22:52:02.274729: + Number voxels above clip level = 28111
201112-22:52:02,274 nipype.interface INFO:
stderr 2020-11-12T22:52:02.274910: + Clustering voxels ...
201112-22:52:02,276 nipype.interface INFO:
stderr 2020-11-12T22:52:02.275991: + Largest cluster has 28099 voxels
201112-22:52:02,277 nipype.interface INFO:
stderr 2020-11-12T22:52:02.277282: + Clustering voxels ...
201112-22:52:02,278 nipype.interface INFO:
stderr 2020-11-12T22:52:02.278355: + Largest cluster has 27699 voxels
201112-22:52:02,281 nipype.interface INFO:
stderr 2020-11-12T22:52:02.281713: + Filled 592 voxels in small holes; now have 28291 voxels
201112-22:52:02,284 nipype.interface INFO:
stderr 2020-11-12T22:52:02.284942: + Filled 4 voxels in large holes; now have 28295 voxels
201112-22:52:02,286 nipype.interface INFO:
stderr 2020-11-12T22:52:02.286140: + Clustering voxels ...
201112-22:52:02,287 nipype.interface INFO:
stderr 2020-11-12T22:52:02.287174: + Largest cluster has 28292 voxels
201112-22:52:02,287 nipype.interface INFO:
stderr 2020-11-12T22:52:02.287399: + Clustering non-brain voxels ...
201112-22:52:02,287 nipype.interface INFO:
stderr 2020-11-12T22:52:02.287550: + Clustering voxels ...
201112-22:52:02,290 nipype.interface INFO:
stderr 2020-11-12T22:52:02.290496: + Largest cluster has 110924 voxels
201112-22:52:02,290 nipype.interface INFO:
stderr 2020-11-12T22:52:02.290822: + Mask now has 28340 voxels
201112-22:52:02,290 nipype.interface INFO:
stderr 2020-11-12T22:52:02.290972:++ Dilating automask
201112-22:52:02,298 nipype.interface INFO:
stderr 2020-11-12T22:52:02.298424: + Clustering voxels ...
201112-22:52:02,300 nipype.interface INFO:
stderr 2020-11-12T22:52:02.300899: + Largest cluster has 105333 voxels
201112-22:52:02,301 nipype.interface INFO:
stderr 2020-11-12T22:52:02.301232:++ 33931 voxels in the mask [out of 139264: 24.36%]
201112-22:52:02,301 nipype.interface INFO:
stderr 2020-11-12T22:52:02.301405:++ first 10 x-planes are zero [from R]
201112-22:52:02,301 nipype.interface INFO:
stderr 2020-11-12T22:52:02.301581:++ last 9 x-planes are zero [from L]
201112-22:52:02,301 nipype.interface INFO:
stderr 2020-11-12T22:52:02.301721:++ first 3 y-planes are zero [from P]
201112-22:52:02,301 nipype.interface INFO:
stderr 2020-11-12T22:52:02.301866:++ last 7 y-planes are zero [from A]
201112-22:52:02,302 nipype.interface INFO:
stderr 2020-11-12T22:52:02.302000:++ first 0 z-planes are zero [from I]
201112-22:52:02,302 nipype.interface INFO:
stderr 2020-11-12T22:52:02.302134:++ last 1 z-planes are zero [from S]
201112-22:52:02,307 nipype.interface INFO:
stderr 2020-11-12T22:52:02.307046:++ Output dataset ./uni_mask.nii.gz
201112-22:52:02,307 nipype.interface INFO:
stderr 2020-11-12T22:52:02.307271:++ applying mask to original data
201112-22:52:02,308 nipype.interface INFO:
stderr 2020-11-12T22:52:02.308169:++ Writing masked data
201112-22:52:02,323 nipype.interface INFO:
stderr 2020-11-12T22:52:02.322976:++ Output dataset ./uni_masked.nii.gz
201112-22:52:02,323 nipype.interface INFO:
stderr 2020-11-12T22:52:02.323300:++ CPU time = 0.000000 sec
201112-22:52:02,474 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip.skullstrip_second_pass".
201112-22:52:02,476 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip.combine_masks" in "/outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_matching_run-2/combine_masks".
201112-22:52:02,484 nipype.workflow INFO:
[Node] Running "combine_masks" ("nipype.interfaces.fsl.maths.BinaryMaths"), a CommandLine Interface with command:
fslmaths /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_matching_run-2/skullstrip_first_pass/sub-018_ses-1_task-matching_run-2_bold_calc_resample_mcf_tstat_brain_mask.nii.gz -mul /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_matching_run-2/skullstrip_second_pass/uni_mask.nii.gz /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_matching_run-2/combine_masks/sub-018_ses-1_task-matching_run-2_bold_calc_resample_mcf_tstat_brain_mask_maths.nii.gz
201112-22:52:02,883 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip.combine_masks".
201112-22:52:02,884 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.gen_motion_stats_before_stc_fsl_afni_mean_mcflirt_0.cal_DVARS" in "/outputs/tmp/resting_preproc_sub-018_ses-1/gen_motion_stats_before_stc_fsl_afni_mean_mcflirt_0/_scan_matching_run-2/cal_DVARS".
201112-22:52:02,893 nipype.workflow INFO:
[Node] Running "cal_DVARS" ("CPAC.utils.interfaces.function.Function")
201112-22:52:03,462 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.gen_motion_stats_before_stc_fsl_afni_mean_mcflirt_0.cal_DVARS".
201112-22:52:03,464 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip.func_extract_brain" in "/outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_matching_run-2/func_extract_brain".
201112-22:52:03,474 nipype.workflow INFO:
[Node] Running "func_extract_brain" ("nipype.interfaces.afni.utils.Calc"), a CommandLine Interface with command:
3dcalc -a /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/_scan_matching_run-2/func_motion_correct_mcflirt/sub-018_ses-1_task-matching_run-2_bold_calc_resample_mcf.nii.gz -b /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_matching_run-2/combine_masks/sub-018_ses-1_task-matching_run-2_bold_calc_resample_mcf_tstat_brain_mask_maths.nii.gz -expr "a*b" -prefix sub-018_ses-1_task-matching_run-2_bold_calc_resample_mcf_calc.nii.gz
201112-22:52:03,718 nipype.interface INFO:
stderr 2020-11-12T22:52:03.718101:++ 3dcalc: AFNI version=AFNI_20.2.19 (Sep 27 2020) [64-bit]
201112-22:52:03,718 nipype.interface INFO:
stderr 2020-11-12T22:52:03.718413:++ Authored by: A cast of thousands
201112-22:52:05,814 nipype.interface INFO:
stderr 2020-11-12T22:52:05.813964:++ Output dataset ./sub-018_ses-1_task-matching_run-2_bold_calc_resample_mcf_calc.nii.gz
201112-22:52:05,992 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip.func_extract_brain".
201112-22:52:05,994 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_normalize" in "/outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/_scan_matching_run-2/func_normalize".
201112-22:52:06,1 nipype.workflow INFO:
[Node] Running "func_normalize" ("nipype.interfaces.fsl.utils.ImageMaths"), a CommandLine Interface with command:
fslmaths /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_matching_run-2/func_extract_brain/sub-018_ses-1_task-matching_run-2_bold_calc_resample_mcf_calc.nii.gz -ing 10000 /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/_scan_matching_run-2/func_normalize/sub-018_ses-1_task-matching_run-2_bold_calc_resample_mcf_calc_maths.nii.gz -odt float
201112-22:52:07,660 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_normalize".
201112-22:52:07,662 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_mask_normalize" in "/outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/_scan_matching_run-2/func_mask_normalize".
201112-22:52:07,670 nipype.workflow INFO:
[Node] Running "func_mask_normalize" ("nipype.interfaces.fsl.utils.ImageMaths"), a CommandLine Interface with command:
fslmaths /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/_scan_matching_run-2/func_normalize/sub-018_ses-1_task-matching_run-2_bold_calc_resample_mcf_calc_maths.nii.gz -Tmin -bin /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/_scan_matching_run-2/func_mask_normalize/sub-018_ses-1_task-matching_run-2_bold_calc_resample_mcf_calc_maths_maths.nii.gz -odt char
201112-22:52:08,518 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_mask_normalize".
201112-22:52:08,519 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_mean" in "/outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/_scan_matching_run-2/func_mean".
201112-22:52:08,528 nipype.workflow INFO:
[Node] Running "func_mean" ("nipype.interfaces.afni.utils.TStat"), a CommandLine Interface with command:
3dTstat -mean -prefix sub-018_ses-1_task-matching_run-2_bold_calc_resample_mcf_calc_tstat.nii.gz /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/_scan_matching_run-2/func_mean/sub-018_ses-1_task-matching_run-2_bold_calc_resample_mcf_calc.nii.gz
201112-22:52:08,770 nipype.interface INFO:
stderr 2020-11-12T22:52:08.770909:++ 3dTstat: AFNI version=AFNI_20.2.19 (Sep 27 2020) [64-bit]
201112-22:52:08,771 nipype.interface INFO:
stderr 2020-11-12T22:52:08.771217:++ Authored by: KR Hammett & RW Cox
201112-22:52:09,4 nipype.interface INFO:
stderr 2020-11-12T22:52:09.004697:++ Output dataset ./sub-018_ses-1_task-matching_run-2_bold_calc_resample_mcf_calc_tstat.nii.gz
201112-22:52:09,154 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_mean".
201112-22:52:09,156 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.norm_motion_params" in "/outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/_scan_matching_run-2/norm_motion_params".
201112-22:52:09,163 nipype.workflow INFO:
[Node] Running "norm_motion_params" ("CPAC.utils.interfaces.function.Function")
201112-22:52:09,396 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.norm_motion_params".
201112-22:52:09,397 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.qc_motion_0.motion_plot" in "/outputs/tmp/resting_preproc_sub-018_ses-1/qc_motion_0/_scan_matching_run-2/motion_plot".
201112-22:52:09,405 nipype.workflow INFO:
[Node] Running "motion_plot" ("CPAC.utils.interfaces.function.Function")
201112-22:52:09,842 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.qc_motion_0.motion_plot".
201112-22:52:09,843 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.sinker_0_qc___movement_trans_plot" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_matching_run-2/sinker_0_qc___movement_trans_plot".
201112-22:52:09,852 nipype.workflow INFO:
[Node] Running "sinker_0_qc___movement_trans_plot" ("CPAC.utils.interfaces.datasink.DataSink")
201112-22:52:10,66 nipype.interface INFO:
sub: /outputs/output/pipeline_cpac_fmriprep-options/sub-018_ses-1/qc___movement_trans_plot/_scan_matching_run-2/motion_trans_plot.png -> /outputs/output/pipeline_cpac_fmriprep-options/sub-018_ses-1/qc/movement_trans_plot/_scan_matching_run-2/motion_trans_plot.png
201112-22:52:10,84 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.sinker_0_qc___movement_trans_plot".
201112-22:52:10,86 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.sinker_0_qc___movement_rot_plot" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_matching_run-2/sinker_0_qc___movement_rot_plot".
201112-22:52:10,95 nipype.workflow INFO:
[Node] Running "sinker_0_qc___movement_rot_plot" ("CPAC.utils.interfaces.datasink.DataSink")
201112-22:52:10,307 nipype.interface INFO:
sub: /outputs/output/pipeline_cpac_fmriprep-options/sub-018_ses-1/qc___movement_rot_plot/_scan_matching_run-2/motion_rot_plot.png -> /outputs/output/pipeline_cpac_fmriprep-options/sub-018_ses-1/qc/movement_rot_plot/_scan_matching_run-2/motion_rot_plot.png
201112-22:52:10,324 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.sinker_0_qc___movement_rot_plot".
201112-22:52:10,326 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.gen_motion_stats_before_stc_fsl_afni_mean_mcflirt_0.calc_motion_parameters" in "/outputs/tmp/resting_preproc_sub-018_ses-1/gen_motion_stats_before_stc_fsl_afni_mean_mcflirt_0/_scan_matching_run-2/calc_motion_parameters".
201112-22:52:10,335 nipype.workflow INFO:
[Node] Running "calc_motion_parameters" ("CPAC.utils.interfaces.function.Function")
201112-22:52:10,568 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.gen_motion_stats_before_stc_fsl_afni_mean_mcflirt_0.calc_motion_parameters".
201112-22:52:10,570 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.sinker_0_motion_params" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_matching_run-2/sinker_0_motion_params".
201112-22:52:10,579 nipype.workflow INFO:
[Node] Running "sinker_0_motion_params" ("CPAC.utils.interfaces.datasink.DataSink")
201112-22:52:10,808 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.sinker_0_motion_params".
201112-22:52:10,809 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.gen_motion_stats_before_stc_fsl_afni_mean_mcflirt_0.calculate_FD" in "/outputs/tmp/resting_preproc_sub-018_ses-1/gen_motion_stats_before_stc_fsl_afni_mean_mcflirt_0/_scan_matching_run-2/calculate_FD".
201112-22:52:10,816 nipype.workflow INFO:
[Node] Running "calculate_FD" ("CPAC.utils.interfaces.function.Function")
201112-22:52:11,49 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.gen_motion_stats_before_stc_fsl_afni_mean_mcflirt_0.calculate_FD".
201112-22:52:11,50 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.sinker_0_frame_wise_displacement_power" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_matching_run-2/sinker_0_frame_wise_displacement_power".
201112-22:52:11,59 nipype.workflow INFO:
[Node] Running "sinker_0_frame_wise_displacement_power" ("CPAC.utils.interfaces.datasink.DataSink")
201112-22:52:11,290 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.sinker_0_frame_wise_displacement_power".
201112-22:52:11,292 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.gen_motion_stats_before_stc_fsl_afni_mean_mcflirt_0.calc_power_parameters" in "/outputs/tmp/resting_preproc_sub-018_ses-1/gen_motion_stats_before_stc_fsl_afni_mean_mcflirt_0/_scan_matching_run-2/calc_power_parameters".
201112-22:52:11,300 nipype.workflow INFO:
[Node] Running "calc_power_parameters" ("CPAC.utils.interfaces.function.Function")
201112-22:52:11,530 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.gen_motion_stats_before_stc_fsl_afni_mean_mcflirt_0.calc_power_parameters".
201112-22:52:11,532 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.sinker_0_power_params" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_matching_run-2/sinker_0_power_params".
201112-22:52:11,541 nipype.workflow INFO:
[Node] Running "sinker_0_power_params" ("CPAC.utils.interfaces.datasink.DataSink")
201112-22:52:11,781 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.sinker_0_power_params".
201112-22:52:11,783 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.sinker_0_movement_parameters" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_matching_run-2/sinker_0_movement_parameters".
201112-22:52:11,793 nipype.workflow INFO:
[Node] Running "sinker_0_movement_parameters" ("CPAC.utils.interfaces.datasink.DataSink")
201112-22:52:12,27 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.sinker_0_movement_parameters".
201112-22:52:12,28 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.func_despiked_0" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_matching_run-2/func_despiked_0".
201112-22:52:12,38 nipype.workflow INFO:
[Node] Running "func_despiked_0" ("nipype.interfaces.afni.preprocess.Despike"), a CommandLine Interface with command:
3dDespike -prefix sub-018_ses-1_task-matching_run-2_bold_calc_despike.nii.gz /outputs/tmp/resting_preproc_sub-018_ses-1/_scan_matching_run-2/func_despiked_0/sub-018_ses-1_task-matching_run-2_bold_calc.nii.gz
201112-22:52:12,285 nipype.interface INFO:
stderr 2020-11-12T22:52:12.285301:++ 3dDespike: AFNI version=AFNI_20.2.19 (Sep 27 2020) [64-bit]
201112-22:52:12,285 nipype.interface INFO:
stderr 2020-11-12T22:52:12.285663:++ Authored by: RW Cox
201112-22:52:12,287 nipype.interface INFO:
stderr 2020-11-12T22:52:12.287630:[7m*+ WARNING:[0m If you are performing spatial transformations on an oblique dset,
201112-22:52:12,287 nipype.interface INFO:
stderr 2020-11-12T22:52:12.287630: such as /outputs/tmp/resting_preproc_sub-018_ses-1/_scan_matching_run-2/func_despiked_0/sub-018_ses-1_task-matching_run-2_bold_calc.nii.gz,
201112-22:52:12,287 nipype.interface INFO:
stderr 2020-11-12T22:52:12.287630: or viewing/combining it with volumes of differing obliquity,
201112-22:52:12,288 nipype.interface INFO:
stderr 2020-11-12T22:52:12.287630: you should consider running:
201112-22:52:12,288 nipype.interface INFO:
stderr 2020-11-12T22:52:12.287630: 3dWarp -deoblique
201112-22:52:12,288 nipype.interface INFO:
stderr 2020-11-12T22:52:12.287630: on this and other oblique datasets in the same session.
201112-22:52:12,288 nipype.interface INFO:
stderr 2020-11-12T22:52:12.287630: See 3dWarp -help for details.
201112-22:52:12,288 nipype.interface INFO:
stderr 2020-11-12T22:52:12.288490:++ Oblique dataset:/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_matching_run-2/func_despiked_0/sub-018_ses-1_task-matching_run-2_bold_calc.nii.gz is 17.792933 degrees from plumb.
201112-22:52:12,288 nipype.interface INFO:
stderr 2020-11-12T22:52:12.288678:++ Input dataset is in short format, but output will be in float format
201112-22:52:12,288 nipype.interface INFO:
stderr 2020-11-12T22:52:12.288852:++ ignoring first 0 time points, using last 99
201112-22:52:12,289 nipype.interface INFO:
stderr 2020-11-12T22:52:12.289023:++ using 99 time points => -corder 3
201112-22:52:12,289 nipype.interface INFO:
stderr 2020-11-12T22:52:12.289190:++ Loading dataset /outputs/tmp/resting_preproc_sub-018_ses-1/_scan_matching_run-2/func_despiked_0/sub-018_ses-1_task-matching_run-2_bold_calc.nii.gz
201112-22:52:12,632 nipype.interface INFO:
stderr 2020-11-12T22:52:12.632357:++ 32137 voxels in the automask [out of 139264 in dataset]
201112-22:52:12,638 nipype.interface INFO:
stderr 2020-11-12T22:52:12.638025:++ 55766 voxels in the dilated automask [out of 139264 in dataset]
201112-22:52:12,646 nipype.interface INFO:
stderr 2020-11-12T22:52:12.646331:++ Procesing time series with OLD model fit algorithm
201112-22:52:12,646 nipype.interface INFO:
stderr 2020-11-12T22:52:12.646522:++ smash edit thresholds: 3.1 .. 5.0 MADs
201112-22:52:12,646 nipype.interface INFO:
stderr 2020-11-12T22:52:12.646685: + [ 3.457% .. 0.072% of normal distribution]
201112-22:52:12,646 nipype.interface INFO:
stderr 2020-11-12T22:52:12.646836: + [ 8.839% .. 3.125% of Laplace distribution]
201112-22:52:12,647 nipype.interface INFO:
stderr 2020-11-12T22:52:12.646991:++ start OpenMP thread #0
201112-22:52:15,897 nipype.interface INFO:
stderr 2020-11-12T22:52:15.897640:.........................
201112-22:52:15,898 nipype.interface INFO:
stderr 2020-11-12T22:52:15.898124:++ Elapsed despike time = 3s 251ms
201112-22:52:15,898 nipype.interface INFO:
stderr 2020-11-12T22:52:15.898273:
201112-22:52:15,898 nipype.interface INFO:
stderr 2020-11-12T22:52:15.898968:++ FINAL: 5520834 data points, 498328 edits [9.026%], 139906 big edits [2.534%]
201112-22:52:18,753 nipype.interface INFO:
stderr 2020-11-12T22:52:18.753620:++ Output dataset ./sub-018_ses-1_task-matching_run-2_bold_calc_despike.nii.gz
201112-22:52:18,939 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.func_despiked_0".
201112-22:52:18,940 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.func_slice_timing_correction_0.slice_timing" in "/outputs/tmp/resting_preproc_sub-018_ses-1/func_slice_timing_correction_0/_scan_matching_run-2/slice_timing".
201112-22:52:18,954 nipype.interface WARNING:
Passing a file prefixed by "@" will be deprecated; please use the `slice_timing` input
201112-22:52:18,955 nipype.workflow INFO:
[Node] Running "slice_timing" ("nipype.interfaces.afni.preprocess.TShift"), a CommandLine Interface with command:
3dTshift -prefix sub-018_ses-1_task-matching_run-2_bold_calc_despike_tshift.nii.gz -tpattern @/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_matching_run-2/scan_params_0/tpattern.txt -TR 2.0s /outputs/tmp/resting_preproc_sub-018_ses-1/func_slice_timing_correction_0/_scan_matching_run-2/slice_timing/sub-018_ses-1_task-matching_run-2_bold_calc_despike.nii.gz
201112-22:52:19,167 nipype.interface WARNING:
Passing a file prefixed by "@" will be deprecated; please use the `slice_timing` input
201112-22:52:19,209 nipype.interface INFO:
stderr 2020-11-12T22:52:19.209257:++ 3dTshift: AFNI version=AFNI_20.2.19 (Sep 27 2020) [64-bit]
201112-22:52:19,212 nipype.interface INFO:
stderr 2020-11-12T22:52:19.212872:[7m*+ WARNING:[0m If you are performing spatial transformations on an oblique dset,
201112-22:52:19,213 nipype.interface INFO:
stderr 2020-11-12T22:52:19.212872: such as /outputs/tmp/resting_preproc_sub-018_ses-1/func_slice_timing_correction_0/_scan_matching_run-2/slice_timing/sub-018_ses-1_task-matching_run-2_bold_calc_despike.nii.gz,
201112-22:52:19,213 nipype.interface INFO:
stderr 2020-11-12T22:52:19.212872: or viewing/combining it with volumes of differing obliquity,
201112-22:52:19,213 nipype.interface INFO:
stderr 2020-11-12T22:52:19.212872: you should consider running:
201112-22:52:19,213 nipype.interface INFO:
stderr 2020-11-12T22:52:19.212872: 3dWarp -deoblique
201112-22:52:19,213 nipype.interface INFO:
stderr 2020-11-12T22:52:19.212872: on this and other oblique datasets in the same session.
201112-22:52:19,213 nipype.interface INFO:
stderr 2020-11-12T22:52:19.212872: See 3dWarp -help for details.
201112-22:52:19,213 nipype.interface INFO:
stderr 2020-11-12T22:52:19.213953:++ Oblique dataset:/outputs/tmp/resting_preproc_sub-018_ses-1/func_slice_timing_correction_0/_scan_matching_run-2/slice_timing/sub-018_ses-1_task-matching_run-2_bold_calc_despike.nii.gz is 17.792933 degrees from plumb.
201112-22:52:22,828 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.func_slice_timing_correction_0.slice_timing".
201112-22:52:22,830 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.func_preproc_fsl_afni_mean_mcflirt_0.func_deoblique" in "/outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/_scan_matching_run-2/func_deoblique".
201112-22:52:22,879 nipype.workflow INFO:
[Node] Running "func_deoblique" ("nipype.interfaces.afni.utils.Refit"), a CommandLine Interface with command:
3drefit -deoblique /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/_scan_matching_run-2/func_deoblique/sub-018_ses-1_task-matching_run-2_bold_calc_despike_tshift.nii.gz
201112-22:52:23,122 nipype.interface INFO:
stderr 2020-11-12T22:52:23.122598:++ 3drefit: AFNI version=AFNI_20.2.19 (Sep 27 2020) [64-bit]
201112-22:52:23,122 nipype.interface INFO:
stderr 2020-11-12T22:52:23.122926:++ Authored by: RW Cox
201112-22:52:23,125 nipype.interface INFO:
stderr 2020-11-12T22:52:23.125216:++ Processing AFNI dataset /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/_scan_matching_run-2/func_deoblique/sub-018_ses-1_task-matching_run-2_bold_calc_despike_tshift.nii.gz
201112-22:52:23,125 nipype.interface INFO:
stderr 2020-11-12T22:52:23.125819: + deoblique
201112-22:52:23,126 nipype.interface INFO:
stderr 2020-11-12T22:52:23.126005: + loading and re-writing dataset /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/_scan_matching_run-2/func_deoblique/sub-018_ses-1_task-matching_run-2_bold_calc_despike_tshift.nii.gz (/outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/_scan_matching_run-2/func_deoblique/sub-018_ses-1_task-matching_run-2_bold_calc_despike_tshift.nii.gz in NIFTI storage)
201112-22:52:24,726 nipype.interface INFO:
stderr 2020-11-12T22:52:24.726506:++ 3drefit processed 1 datasets
201112-22:52:24,900 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.func_preproc_fsl_afni_mean_mcflirt_0.func_deoblique".
201112-22:52:24,901 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.func_preproc_fsl_afni_mean_mcflirt_0.func_reorient" in "/outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/_scan_matching_run-2/func_reorient".
201112-22:52:24,909 nipype.workflow INFO:
[Node] Running "func_reorient" ("nipype.interfaces.afni.utils.Resample"), a CommandLine Interface with command:
3dresample -orient RPI -prefix sub-018_ses-1_task-matching_run-2_bold_calc_despike_tshift_resample.nii.gz -inset /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/_scan_matching_run-2/func_reorient/sub-018_ses-1_task-matching_run-2_bold_calc_despike_tshift.nii.gz
201112-22:52:27,84 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.func_preproc_fsl_afni_mean_mcflirt_0.func_reorient".
201112-22:52:27,86 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.func_preproc_fsl_afni_mean_mcflirt_0.func_get_mean_RPI" in "/outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/_scan_matching_run-2/func_get_mean_RPI".
201112-22:52:27,95 nipype.workflow INFO:
[Node] Running "func_get_mean_RPI" ("nipype.interfaces.afni.utils.TStat"), a CommandLine Interface with command:
3dTstat -mean -prefix sub-018_ses-1_task-matching_run-2_bold_calc_despike_tshift_resample_tstat.nii.gz /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/_scan_matching_run-2/func_get_mean_RPI/sub-018_ses-1_task-matching_run-2_bold_calc_despike_tshift_resample.nii.gz
201112-22:52:27,339 nipype.interface INFO:
stderr 2020-11-12T22:52:27.339710:++ 3dTstat: AFNI version=AFNI_20.2.19 (Sep 27 2020) [64-bit]
201112-22:52:27,340 nipype.interface INFO:
stderr 2020-11-12T22:52:27.340011:++ Authored by: KR Hammett & RW Cox
201112-22:52:27,803 nipype.interface INFO:
stderr 2020-11-12T22:52:27.803880:++ Output dataset ./sub-018_ses-1_task-matching_run-2_bold_calc_despike_tshift_resample_tstat.nii.gz
201112-22:52:27,961 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.func_preproc_fsl_afni_mean_mcflirt_0.func_get_mean_RPI".
201112-22:52:27,962 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.func_preproc_fsl_afni_mean_mcflirt_0.func_generate_ref" in "/outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/_scan_matching_run-2/func_generate_ref".
201112-22:52:27,972 nipype.workflow INFO:
[Node] Running "func_generate_ref" ("nipype.interfaces.afni.preprocess.Volreg"), a CommandLine Interface with command:
3dvolreg -twopass -Fourier -1Dfile sub-018_ses-1_task-matching_run-2_bold_calc_despike_tshift_resample.1D -1Dmatrix_save sub-018_ses-1_task-matching_run-2_bold_calc_despike_tshift_resample.aff12.1D -prefix sub-018_ses-1_task-matching_run-2_bold_calc_despike_tshift_resample_volreg.nii.gz -base /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/_scan_matching_run-2/func_get_mean_RPI/sub-018_ses-1_task-matching_run-2_bold_calc_despike_tshift_resample_tstat.nii.gz -zpad 4 -maxdisp1D sub-018_ses-1_task-matching_run-2_bold_calc_despike_tshift_resample_md.1D /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/_scan_matching_run-2/func_generate_ref/sub-018_ses-1_task-matching_run-2_bold_calc_despike_tshift_resample.nii.gz
201112-22:52:28,217 nipype.interface INFO:
stderr 2020-11-12T22:52:28.217840:++ 3dvolreg: AFNI version=AFNI_20.2.19 (Sep 27 2020) [64-bit]
201112-22:52:28,218 nipype.interface INFO:
stderr 2020-11-12T22:52:28.218265:++ Authored by: RW Cox
201112-22:52:28,226 nipype.interface INFO:
stderr 2020-11-12T22:52:28.226109:++ Coarse del was 10, replaced with 3
201112-22:53:48,801 nipype.interface INFO:
stderr 2020-11-12T22:53:48.801409:++ Max displacement in automask = 1.22 (mm) at sub-brick 78
201112-22:53:48,802 nipype.interface INFO:
stderr 2020-11-12T22:53:48.802013:++ Max delta displ in automask = 1.11 (mm) at sub-brick 35
201112-22:53:52,443 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.func_preproc_fsl_afni_mean_mcflirt_0.func_generate_ref".
201112-22:53:52,445 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.func_preproc_fsl_afni_mean_mcflirt_0.func_get_mean_motion" in "/outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/_scan_matching_run-2/func_get_mean_motion".
201112-22:53:52,452 nipype.workflow INFO:
[Node] Running "func_get_mean_motion" ("nipype.interfaces.afni.utils.TStat"), a CommandLine Interface with command:
3dTstat -mean -prefix sub-018_ses-1_task-matching_run-2_bold_calc_despike_tshift_resample_volreg_tstat.nii.gz /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/_scan_matching_run-2/func_get_mean_motion/sub-018_ses-1_task-matching_run-2_bold_calc_despike_tshift_resample_volreg.nii.gz
201112-22:53:52,703 nipype.interface INFO:
stderr 2020-11-12T22:53:52.703104:++ 3dTstat: AFNI version=AFNI_20.2.19 (Sep 27 2020) [64-bit]
201112-22:53:52,703 nipype.interface INFO:
stderr 2020-11-12T22:53:52.703533:++ Authored by: KR Hammett & RW Cox
201112-22:53:53,316 nipype.interface INFO:
stderr 2020-11-12T22:53:53.315998:++ Output dataset ./sub-018_ses-1_task-matching_run-2_bold_calc_despike_tshift_resample_volreg_tstat.nii.gz
201112-22:53:53,470 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.func_preproc_fsl_afni_mean_mcflirt_0.func_get_mean_motion".
201112-22:53:53,471 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.func_preproc_fsl_afni_mean_mcflirt_0.func_motion_correct_mcflirt" in "/outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/_scan_matching_run-2/func_motion_correct_mcflirt".
201112-22:53:53,480 nipype.workflow INFO:
[Node] Running "func_motion_correct_mcflirt" ("nipype.interfaces.fsl.preprocess.MCFLIRT"), a CommandLine Interface with command:
mcflirt -in /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/_scan_matching_run-2/func_reorient/sub-018_ses-1_task-matching_run-2_bold_calc_despike_tshift_resample.nii.gz -out /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/_scan_matching_run-2/func_motion_correct_mcflirt/sub-018_ses-1_task-matching_run-2_bold_calc_despike_tshift_resample_mcf.nii.gz -reffile /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/_scan_matching_run-2/func_get_mean_motion/sub-018_ses-1_task-matching_run-2_bold_calc_despike_tshift_resample_volreg_tstat.nii.gz -mats -plots -rmsabs -rmsrel
201112-22:54:09,492 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.func_preproc_fsl_afni_mean_mcflirt_0.func_motion_correct_mcflirt".
201112-22:54:09,499 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.sinker_0_motion_correct" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_matching_run-2/sinker_0_motion_correct".
201112-22:54:09,511 nipype.workflow INFO:
[Node] Running "sinker_0_motion_correct" ("CPAC.utils.interfaces.datasink.DataSink")
201112-22:54:09,737 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.sinker_0_motion_correct".
201112-22:54:09,738 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.func_preproc_fsl_afni_mean_mcflirt_0.func_preproc_fsl_afni_mean_mcflirt_0_skullstrip.func_mean_skull" in "/outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/func_preproc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_matching_run-2/func_mean_skull".
201112-22:54:09,749 nipype.workflow INFO:
[Node] Running "func_mean_skull" ("nipype.interfaces.afni.utils.TStat"), a CommandLine Interface with command:
3dTstat -mean -prefix sub-018_ses-1_task-matching_run-2_bold_calc_despike_tshift_resample_mcf_tstat.nii.gz /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/func_preproc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_matching_run-2/func_mean_skull/sub-018_ses-1_task-matching_run-2_bold_calc_despike_tshift_resample_mcf.nii.gz
201112-22:54:09,999 nipype.interface INFO:
stderr 2020-11-12T22:54:09.999379:++ 3dTstat: AFNI version=AFNI_20.2.19 (Sep 27 2020) [64-bit]
201112-22:54:10,0 nipype.interface INFO:
stderr 2020-11-12T22:54:10.000138:++ Authored by: KR Hammett & RW Cox
201112-22:54:10,486 nipype.interface INFO:
stderr 2020-11-12T22:54:10.486212:++ Output dataset ./sub-018_ses-1_task-matching_run-2_bold_calc_despike_tshift_resample_mcf_tstat.nii.gz
201112-22:54:10,641 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.func_preproc_fsl_afni_mean_mcflirt_0.func_preproc_fsl_afni_mean_mcflirt_0_skullstrip.func_mean_skull".
201112-22:54:10,642 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.func_preproc_fsl_afni_mean_mcflirt_0.func_preproc_fsl_afni_mean_mcflirt_0_skullstrip.skullstrip_first_pass" in "/outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/func_preproc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_matching_run-2/skullstrip_first_pass".
201112-22:54:10,650 nipype.workflow INFO:
[Node] Running "skullstrip_first_pass" ("nipype.interfaces.fsl.preprocess.BET"), a CommandLine Interface with command:
bet /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/func_preproc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_matching_run-2/func_mean_skull/sub-018_ses-1_task-matching_run-2_bold_calc_despike_tshift_resample_mcf_tstat.nii.gz /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/func_preproc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_matching_run-2/skullstrip_first_pass/sub-018_ses-1_task-matching_run-2_bold_calc_despike_tshift_resample_mcf_tstat_brain.nii.gz -f 0.20 -m
201112-22:54:12,472 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.func_preproc_fsl_afni_mean_mcflirt_0.func_preproc_fsl_afni_mean_mcflirt_0_skullstrip.skullstrip_first_pass".
201112-22:54:12,473 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.func_preproc_fsl_afni_mean_mcflirt_0.func_preproc_fsl_afni_mean_mcflirt_0_skullstrip.skullstrip_first_dilate" in "/outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/func_preproc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_matching_run-2/skullstrip_first_dilate".
201112-22:54:12,482 nipype.workflow INFO:
[Node] Running "skullstrip_first_dilate" ("nipype.interfaces.fsl.maths.DilateImage"), a CommandLine Interface with command:
fslmaths -dt char /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/func_preproc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_matching_run-2/skullstrip_first_pass/sub-018_ses-1_task-matching_run-2_bold_calc_despike_tshift_resample_mcf_tstat_brain_mask.nii.gz -kernel sphere 6.0000 -dilF /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/func_preproc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_matching_run-2/skullstrip_first_dilate/sub-018_ses-1_task-matching_run-2_bold_calc_despike_tshift_resample_mcf_tstat_brain_mask_dil.nii.gz
201112-22:54:13,131 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.func_preproc_fsl_afni_mean_mcflirt_0.func_preproc_fsl_afni_mean_mcflirt_0_skullstrip.skullstrip_first_dilate".
201112-22:54:13,132 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.func_preproc_fsl_afni_mean_mcflirt_0.func_preproc_fsl_afni_mean_mcflirt_0_skullstrip.skullstrip_first_mask" in "/outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/func_preproc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_matching_run-2/skullstrip_first_mask".
201112-22:54:13,141 nipype.workflow INFO:
[Node] Running "skullstrip_first_mask" ("nipype.interfaces.fsl.maths.ApplyMask"), a CommandLine Interface with command:
fslmaths /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/func_preproc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_matching_run-2/skullstrip_first_pass/sub-018_ses-1_task-matching_run-2_bold_calc_despike_tshift_resample_mcf_tstat_brain.nii.gz -mas /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/func_preproc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_matching_run-2/skullstrip_first_dilate/sub-018_ses-1_task-matching_run-2_bold_calc_despike_tshift_resample_mcf_tstat_brain_mask_dil.nii.gz /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/func_preproc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_matching_run-2/skullstrip_first_mask/sub-018_ses-1_task-matching_run-2_bold_calc_despike_tshift_resample_mcf_tstat_brain_masked.nii.gz
201112-22:54:13,553 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.func_preproc_fsl_afni_mean_mcflirt_0.func_preproc_fsl_afni_mean_mcflirt_0_skullstrip.skullstrip_first_mask".
201112-22:54:13,555 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.func_preproc_fsl_afni_mean_mcflirt_0.func_preproc_fsl_afni_mean_mcflirt_0_skullstrip.unifize" in "/outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/func_preproc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_matching_run-2/unifize".
201112-22:54:13,564 nipype.workflow INFO:
[Node] Running "unifize" ("nipype.interfaces.afni.utils.Unifize"), a CommandLine Interface with command:
3dUnifize -clfrac 0.2 -rbt 18.3 65.0 90.0 -prefix uni.nii.gz -T2 -input /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/func_preproc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_matching_run-2/unifize/sub-018_ses-1_task-matching_run-2_bold_calc_despike_tshift_resample_mcf_tstat_brain_masked.nii.gz
201112-22:54:13,818 nipype.interface INFO:
stderr 2020-11-12T22:54:13.818710:++ 3dUnifize: AFNI version=AFNI_20.2.19 (Sep 27 2020) [64-bit]
201112-22:55:26,652 nipype.interface INFO:
stderr 2020-11-12T22:55:26.651987: + Pre-processing: IAV..UW[s4113]Im
201112-22:55:26,667 nipype.interface INFO:
stderr 2020-11-12T22:55:26.667957:++ Output dataset ./uni.nii.gz
201112-22:55:26,668 nipype.interface INFO:
stderr 2020-11-12T22:55:26.668214:++ ===== Elapsed = 72.8 sec
201112-22:55:26,849 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.func_preproc_fsl_afni_mean_mcflirt_0.func_preproc_fsl_afni_mean_mcflirt_0_skullstrip.unifize".
201112-22:55:26,851 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.func_preproc_fsl_afni_mean_mcflirt_0.func_preproc_fsl_afni_mean_mcflirt_0_skullstrip.skullstrip_second_pass" in "/outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/func_preproc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_matching_run-2/skullstrip_second_pass".
201112-22:55:26,860 nipype.workflow INFO:
[Node] Running "skullstrip_second_pass" ("nipype.interfaces.afni.preprocess.Automask"), a CommandLine Interface with command:
3dAutomask -apply_prefix uni_masked.nii.gz -dilate 1 -prefix uni_mask.nii.gz /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/func_preproc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_matching_run-2/skullstrip_second_pass/uni.nii.gz
201112-22:55:27,113 nipype.interface INFO:
stderr 2020-11-12T22:55:27.113603:++ 3dAutomask: AFNI version=AFNI_20.2.19 (Sep 27 2020) [64-bit]
201112-22:55:27,113 nipype.interface INFO:
stderr 2020-11-12T22:55:27.113906:++ Authored by: Emperor Zhark
201112-22:55:27,116 nipype.interface INFO:
stderr 2020-11-12T22:55:27.116628:++ Loading dataset /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/func_preproc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_matching_run-2/skullstrip_second_pass/uni.nii.gz
201112-22:55:27,123 nipype.interface INFO:
stderr 2020-11-12T22:55:27.123235:++ Forming automask
201112-22:55:27,125 nipype.interface INFO:
stderr 2020-11-12T22:55:27.125461: + Fixed clip level = 435.173004
201112-22:55:27,128 nipype.interface INFO:
stderr 2020-11-12T22:55:27.128739: + Used gradual clip level = 391.636841 .. 490.633514
201112-22:55:27,128 nipype.interface INFO:
stderr 2020-11-12T22:55:27.128941: + Number voxels above clip level = 28123
201112-22:55:27,129 nipype.interface INFO:
stderr 2020-11-12T22:55:27.129096: + Clustering voxels ...
201112-22:55:27,130 nipype.interface INFO:
stderr 2020-11-12T22:55:27.130164: + Largest cluster has 28112 voxels
201112-22:55:27,131 nipype.interface INFO:
stderr 2020-11-12T22:55:27.131500: + Clustering voxels ...
201112-22:55:27,132 nipype.interface INFO:
stderr 2020-11-12T22:55:27.132570: + Largest cluster has 27710 voxels
201112-22:55:27,136 nipype.interface INFO:
stderr 2020-11-12T22:55:27.136200: + Filled 600 voxels in small holes; now have 28310 voxels
201112-22:55:27,138 nipype.interface INFO:
stderr 2020-11-12T22:55:27.138426: + Filled 1 voxels in large holes; now have 28311 voxels
201112-22:55:27,139 nipype.interface INFO:
stderr 2020-11-12T22:55:27.139636: + Clustering voxels ...
201112-22:55:27,140 nipype.interface INFO:
stderr 2020-11-12T22:55:27.140672: + Largest cluster has 28308 voxels
201112-22:55:27,140 nipype.interface INFO:
stderr 2020-11-12T22:55:27.140898: + Clustering non-brain voxels ...
201112-22:55:27,141 nipype.interface INFO:
stderr 2020-11-12T22:55:27.141040: + Clustering voxels ...
201112-22:55:27,143 nipype.interface INFO:
stderr 2020-11-12T22:55:27.143904: + Largest cluster has 110908 voxels
201112-22:55:27,144 nipype.interface INFO:
stderr 2020-11-12T22:55:27.144232: + Mask now has 28356 voxels
201112-22:55:27,144 nipype.interface INFO:
stderr 2020-11-12T22:55:27.144382:++ Dilating automask
201112-22:55:27,151 nipype.interface INFO:
stderr 2020-11-12T22:55:27.151298: + Clustering voxels ...
201112-22:55:27,153 nipype.interface INFO:
stderr 2020-11-12T22:55:27.153735: + Largest cluster has 105297 voxels
201112-22:55:27,154 nipype.interface INFO:
stderr 2020-11-12T22:55:27.154067:++ 33967 voxels in the mask [out of 139264: 24.39%]
201112-22:55:27,154 nipype.interface INFO:
stderr 2020-11-12T22:55:27.154235:++ first 10 x-planes are zero [from R]
201112-22:55:27,154 nipype.interface INFO:
stderr 2020-11-12T22:55:27.154394:++ last 9 x-planes are zero [from L]
201112-22:55:27,154 nipype.interface INFO:
stderr 2020-11-12T22:55:27.154551:++ first 3 y-planes are zero [from P]
201112-22:55:27,154 nipype.interface INFO:
stderr 2020-11-12T22:55:27.154700:++ last 8 y-planes are zero [from A]
201112-22:55:27,154 nipype.interface INFO:
stderr 2020-11-12T22:55:27.154831:++ first 0 z-planes are zero [from I]
201112-22:55:27,154 nipype.interface INFO:
stderr 2020-11-12T22:55:27.154964:++ last 1 z-planes are zero [from S]
201112-22:55:27,159 nipype.interface INFO:
stderr 2020-11-12T22:55:27.159728:++ Output dataset ./uni_mask.nii.gz
201112-22:55:27,160 nipype.interface INFO:
stderr 2020-11-12T22:55:27.160085:++ applying mask to original data
201112-22:55:27,160 nipype.interface INFO:
stderr 2020-11-12T22:55:27.160789:++ Writing masked data
201112-22:55:27,175 nipype.interface INFO:
stderr 2020-11-12T22:55:27.175916:++ Output dataset ./uni_masked.nii.gz
201112-22:55:27,176 nipype.interface INFO:
stderr 2020-11-12T22:55:27.176197:++ CPU time = 0.000000 sec
201112-22:55:27,331 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.func_preproc_fsl_afni_mean_mcflirt_0.func_preproc_fsl_afni_mean_mcflirt_0_skullstrip.skullstrip_second_pass".
201112-22:55:27,332 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.func_preproc_fsl_afni_mean_mcflirt_0.func_preproc_fsl_afni_mean_mcflirt_0_skullstrip.combine_masks" in "/outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/func_preproc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_matching_run-2/combine_masks".
201112-22:55:27,340 nipype.workflow INFO:
[Node] Running "combine_masks" ("nipype.interfaces.fsl.maths.BinaryMaths"), a CommandLine Interface with command:
fslmaths /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/func_preproc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_matching_run-2/skullstrip_first_pass/sub-018_ses-1_task-matching_run-2_bold_calc_despike_tshift_resample_mcf_tstat_brain_mask.nii.gz -mul /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/func_preproc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_matching_run-2/skullstrip_second_pass/uni_mask.nii.gz /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/func_preproc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_matching_run-2/combine_masks/sub-018_ses-1_task-matching_run-2_bold_calc_despike_tshift_resample_mcf_tstat_brain_mask_maths.nii.gz
201112-22:55:27,748 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.func_preproc_fsl_afni_mean_mcflirt_0.func_preproc_fsl_afni_mean_mcflirt_0_skullstrip.combine_masks".
201112-22:55:27,750 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.nuisance_regressor_0_0.GlobalSignal_merge_masks" in "/outputs/tmp/resting_preproc_sub-018_ses-1/nuisance_regressor_0_0/_scan_matching_run-2/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/GlobalSignal_merge_masks".
201112-22:55:27,758 nipype.workflow INFO:
[Node] Running "GlobalSignal_merge_masks" ("nipype.interfaces.utility.base.Merge")
201112-22:55:27,986 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.nuisance_regressor_0_0.GlobalSignal_merge_masks".
201112-22:55:27,988 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.nuisance_regressor_0_0.GlobalSignal_union_masks" in "/outputs/tmp/resting_preproc_sub-018_ses-1/nuisance_regressor_0_0/_scan_matching_run-2/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/GlobalSignal_union_masks".
201112-22:55:27,998 nipype.workflow INFO:
[Node] Running "GlobalSignal_union_masks" ("CPAC.utils.interfaces.masktool.MaskTool"), a CommandLine Interface with command:
3dmask_tool -prefix sub-018_ses-1_task-matching_run-2_bold_calc_despike_tshift_resample_mcf_tstat_brain_mask_maths_mask.nii.gz -input /outputs/tmp/resting_preproc_sub-018_ses-1/nuisance_regressor_0_0/_scan_matching_run-2/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/GlobalSignal_union_masks/sub-018_ses-1_task-matching_run-2_bold_calc_despike_tshift_resample_mcf_tstat_brain_mask_maths.nii.gz
201112-22:55:28,241 nipype.interface INFO:
stderr 2020-11-12T22:55:28.241779:++ no -frac option: defaulting to -union
201112-22:55:28,242 nipype.interface INFO:
stderr 2020-11-12T22:55:28.242103:++ processing 1 input dataset(s), NN=2...
201112-22:55:28,242 nipype.interface INFO:
stderr 2020-11-12T22:55:28.242273:++ padding all datasets by 0 (for dilations)
201112-22:55:28,247 nipype.interface INFO:
stderr 2020-11-12T22:55:28.247566:++ frac 0 over 1 volumes gives min count 0
201112-22:55:28,247 nipype.interface INFO:
stderr 2020-11-12T22:55:28.247965:++ voxel limits: 0 clipped, 33891 survived, 105373 were zero
201112-22:55:28,248 nipype.interface INFO:
stderr 2020-11-12T22:55:28.248148:++ writing result sub-018_ses-1_task-matching_run-2_bold_calc_despike_tshift_resample_mcf_tstat_brain_mask_maths_mask.nii.gz...
201112-22:55:28,252 nipype.interface INFO:
stderr 2020-11-12T22:55:28.252363:++ Output dataset ./sub-018_ses-1_task-matching_run-2_bold_calc_despike_tshift_resample_mcf_tstat_brain_mask_maths_mask.nii.gz
201112-22:55:28,407 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.nuisance_regressor_0_0.GlobalSignal_union_masks".
201112-22:55:28,408 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.sinker_0_functional_brain_mask" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_matching_run-2/sinker_0_functional_brain_mask".
201112-22:55:28,417 nipype.workflow INFO:
[Node] Running "sinker_0_functional_brain_mask" ("CPAC.utils.interfaces.datasink.DataSink")
201112-22:55:28,645 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.sinker_0_functional_brain_mask".
201112-22:55:28,647 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.functional_brain_mask_derivative_0" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_matching_run-2/functional_brain_mask_derivative_0".
201112-22:55:28,653 nipype.workflow INFO:
[Node] Running "functional_brain_mask_derivative_0" ("CPAC.utils.interfaces.function.Function")
201112-22:55:28,866 nipype.workflow INFO:
[Node] Setting-up "functional_brain_mask_derivative" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_matching_run-2/functional_brain_mask_derivative_0/functional_brain_mask_derivative".
201112-22:55:28,873 nipype.workflow INFO:
[Node] Running "functional_brain_mask_derivative" ("nipype.interfaces.afni.utils.Resample"), a CommandLine Interface with command:
3dresample -prefix sub-018_ses-1_task-matching_run-2_bold_calc_despike_tshift_resample_mcf_tstat_brain_mask_maths_resample.nii.gz -rmode Cu -dxyz 2.000000 2.000000 2.000000 -inset /outputs/tmp/resting_preproc_sub-018_ses-1/_scan_matching_run-2/functional_brain_mask_derivative_0/functional_brain_mask_derivative/sub-018_ses-1_task-matching_run-2_bold_calc_despike_tshift_resample_mcf_tstat_brain_mask_maths.nii.gz
201112-22:55:29,355 nipype.workflow INFO:
[Node] Finished "functional_brain_mask_derivative".
201112-22:55:29,372 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.functional_brain_mask_derivative_0".
201112-22:55:29,373 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.func_preproc_fsl_afni_mean_mcflirt_0.func_preproc_fsl_afni_mean_mcflirt_0_skullstrip.func_extract_brain" in "/outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/func_preproc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_matching_run-2/func_extract_brain".
201112-22:55:29,381 nipype.workflow INFO:
[Node] Running "func_extract_brain" ("nipype.interfaces.afni.utils.Calc"), a CommandLine Interface with command:
3dcalc -a /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/_scan_matching_run-2/func_motion_correct_mcflirt/sub-018_ses-1_task-matching_run-2_bold_calc_despike_tshift_resample_mcf.nii.gz -b /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/func_preproc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_matching_run-2/combine_masks/sub-018_ses-1_task-matching_run-2_bold_calc_despike_tshift_resample_mcf_tstat_brain_mask_maths.nii.gz -expr "a*b" -prefix sub-018_ses-1_task-matching_run-2_bold_calc_despike_tshift_resample_mcf_calc.nii.gz
201112-22:55:29,626 nipype.interface INFO:
stderr 2020-11-12T22:55:29.626491:++ 3dcalc: AFNI version=AFNI_20.2.19 (Sep 27 2020) [64-bit]
201112-22:55:29,626 nipype.interface INFO:
stderr 2020-11-12T22:55:29.626823:++ Authored by: A cast of thousands
201112-22:55:31,927 nipype.interface INFO:
stderr 2020-11-12T22:55:31.927877:++ Output dataset ./sub-018_ses-1_task-matching_run-2_bold_calc_despike_tshift_resample_mcf_calc.nii.gz
201112-22:55:32,108 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.func_preproc_fsl_afni_mean_mcflirt_0.func_preproc_fsl_afni_mean_mcflirt_0_skullstrip.func_extract_brain".
201112-22:55:32,110 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.func_preproc_fsl_afni_mean_mcflirt_0.func_normalize" in "/outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/_scan_matching_run-2/func_normalize".
201112-22:55:32,118 nipype.workflow INFO:
[Node] Running "func_normalize" ("nipype.interfaces.fsl.utils.ImageMaths"), a CommandLine Interface with command:
fslmaths /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/func_preproc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_matching_run-2/func_extract_brain/sub-018_ses-1_task-matching_run-2_bold_calc_despike_tshift_resample_mcf_calc.nii.gz -ing 10000 /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/_scan_matching_run-2/func_normalize/sub-018_ses-1_task-matching_run-2_bold_calc_despike_tshift_resample_mcf_calc_maths.nii.gz -odt float
201112-22:55:33,864 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.func_preproc_fsl_afni_mean_mcflirt_0.func_normalize".
201112-22:55:33,866 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.nuisance_regressor_0_0.GlobalSignal_mean" in "/outputs/tmp/resting_preproc_sub-018_ses-1/nuisance_regressor_0_0/_scan_matching_run-2/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/GlobalSignal_mean".
201112-22:55:33,875 nipype.workflow INFO:
[Node] Running "GlobalSignal_mean" ("nipype.interfaces.afni.preprocess.ROIStats"), a CommandLine Interface with command:
3dROIstats -mask /outputs/tmp/resting_preproc_sub-018_ses-1/nuisance_regressor_0_0/_scan_matching_run-2/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/GlobalSignal_union_masks/sub-018_ses-1_task-matching_run-2_bold_calc_despike_tshift_resample_mcf_tstat_brain_mask_maths_mask.nii.gz -1Dformat /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/_scan_matching_run-2/func_normalize/sub-018_ses-1_task-matching_run-2_bold_calc_despike_tshift_resample_mcf_calc_maths.nii.gz
201112-22:55:34,643 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.nuisance_regressor_0_0.GlobalSignal_mean".
201112-22:55:34,645 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.nuisance_regressor_0_0.functional_mean" in "/outputs/tmp/resting_preproc_sub-018_ses-1/nuisance_regressor_0_0/_scan_matching_run-2/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/functional_mean".
201112-22:55:34,652 nipype.workflow INFO:
[Node] Running "functional_mean" ("nipype.interfaces.afni.utils.TStat"), a CommandLine Interface with command:
3dTstat -mean -prefix sub-018_ses-1_task-matching_run-2_bold_calc_despike_tshift_resample_mcf_calc_maths_tstat.nii.gz /outputs/tmp/resting_preproc_sub-018_ses-1/nuisance_regressor_0_0/_scan_matching_run-2/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/functional_mean/sub-018_ses-1_task-matching_run-2_bold_calc_despike_tshift_resample_mcf_calc_maths.nii.gz
201112-22:55:34,896 nipype.interface INFO:
stderr 2020-11-12T22:55:34.896153:++ 3dTstat: AFNI version=AFNI_20.2.19 (Sep 27 2020) [64-bit]
201112-22:55:34,896 nipype.interface INFO:
stderr 2020-11-12T22:55:34.896468:++ Authored by: KR Hammett & RW Cox
201112-22:55:35,328 nipype.interface INFO:
stderr 2020-11-12T22:55:35.328394:++ Output dataset ./sub-018_ses-1_task-matching_run-2_bold_calc_despike_tshift_resample_mcf_calc_maths_tstat.nii.gz
201112-22:55:35,483 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.nuisance_regressor_0_0.functional_mean".
201112-22:55:35,485 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.qc_snr_0.std_dev" in "/outputs/tmp/resting_preproc_sub-018_ses-1/qc_snr_0/_scan_matching_run-2/std_dev".
201112-22:55:35,495 nipype.workflow INFO:
[Node] Running "std_dev" ("nipype.interfaces.afni.utils.TStat"), a CommandLine Interface with command:
3dTstat -stdev -mask /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/func_preproc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_matching_run-2/combine_masks/sub-018_ses-1_task-matching_run-2_bold_calc_despike_tshift_resample_mcf_tstat_brain_mask_maths.nii.gz -prefix sub-018_ses-1_task-matching_run-2_bold_calc_despike_tshift_resample_mcf_calc_maths_tstat.nii.gz /outputs/tmp/resting_preproc_sub-018_ses-1/qc_snr_0/_scan_matching_run-2/std_dev/sub-018_ses-1_task-matching_run-2_bold_calc_despike_tshift_resample_mcf_calc_maths.nii.gz
201112-22:55:35,739 nipype.interface INFO:
stderr 2020-11-12T22:55:35.738958:++ 3dTstat: AFNI version=AFNI_20.2.19 (Sep 27 2020) [64-bit]
201112-22:55:35,739 nipype.interface INFO:
stderr 2020-11-12T22:55:35.739268:++ Authored by: KR Hammett & RW Cox
201112-22:55:36,142 nipype.interface INFO:
stderr 2020-11-12T22:55:36.142121:++ Output dataset ./sub-018_ses-1_task-matching_run-2_bold_calc_despike_tshift_resample_mcf_calc_maths_tstat.nii.gz
201112-22:55:36,299 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.qc_snr_0.std_dev".
201112-22:55:36,301 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.sinker_0_functional_preprocessed" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_matching_run-2/sinker_0_functional_preprocessed".
201112-22:55:36,310 nipype.workflow INFO:
[Node] Running "sinker_0_functional_preprocessed" ("CPAC.utils.interfaces.datasink.DataSink")
201112-22:55:36,536 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.sinker_0_functional_preprocessed".
201112-22:55:36,538 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.func_preproc_fsl_afni_mean_mcflirt_0.func_mask_normalize" in "/outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/_scan_matching_run-2/func_mask_normalize".
201112-22:55:36,545 nipype.workflow INFO:
[Node] Running "func_mask_normalize" ("nipype.interfaces.fsl.utils.ImageMaths"), a CommandLine Interface with command:
fslmaths /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/_scan_matching_run-2/func_normalize/sub-018_ses-1_task-matching_run-2_bold_calc_despike_tshift_resample_mcf_calc_maths.nii.gz -Tmin -bin /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/_scan_matching_run-2/func_mask_normalize/sub-018_ses-1_task-matching_run-2_bold_calc_despike_tshift_resample_mcf_calc_maths_maths.nii.gz -odt char
201112-22:55:37,416 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.func_preproc_fsl_afni_mean_mcflirt_0.func_mask_normalize".
201112-22:55:37,417 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.sinker_0_functional_preprocessed_mask" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_matching_run-2/sinker_0_functional_preprocessed_mask".
201112-22:55:37,427 nipype.workflow INFO:
[Node] Running "sinker_0_functional_preprocessed_mask" ("CPAC.utils.interfaces.datasink.DataSink")
201112-22:55:37,656 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.sinker_0_functional_preprocessed_mask".
201112-22:55:37,658 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.func_preproc_fsl_afni_mean_mcflirt_0.func_mean" in "/outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/_scan_matching_run-2/func_mean".
201112-22:55:37,665 nipype.workflow INFO:
[Node] Running "func_mean" ("nipype.interfaces.afni.utils.TStat"), a CommandLine Interface with command:
3dTstat -mean -prefix sub-018_ses-1_task-matching_run-2_bold_calc_despike_tshift_resample_mcf_calc_tstat.nii.gz /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/_scan_matching_run-2/func_mean/sub-018_ses-1_task-matching_run-2_bold_calc_despike_tshift_resample_mcf_calc.nii.gz
201112-22:55:37,920 nipype.interface INFO:
stderr 2020-11-12T22:55:37.920007:++ 3dTstat: AFNI version=AFNI_20.2.19 (Sep 27 2020) [64-bit]
201112-22:55:37,920 nipype.interface INFO:
stderr 2020-11-12T22:55:37.920329:++ Authored by: KR Hammett & RW Cox
201112-22:55:38,342 nipype.interface INFO:
stderr 2020-11-12T22:55:38.342241:++ Output dataset ./sub-018_ses-1_task-matching_run-2_bold_calc_despike_tshift_resample_mcf_calc_tstat.nii.gz
201112-22:55:38,499 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.func_preproc_fsl_afni_mean_mcflirt_0.func_mean".
201112-22:55:38,500 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.sinker_0_mean_functional" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_matching_run-2/sinker_0_mean_functional".
201112-22:55:38,508 nipype.workflow INFO:
[Node] Running "sinker_0_mean_functional" ("CPAC.utils.interfaces.datasink.DataSink")
201112-22:55:38,736 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.sinker_0_mean_functional".
201112-22:55:38,738 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.func_preproc_fsl_afni_mean_mcflirt_0.norm_motion_params" in "/outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/_scan_matching_run-2/norm_motion_params".
201112-22:55:38,747 nipype.workflow INFO:
[Node] Running "norm_motion_params" ("CPAC.utils.interfaces.function.Function")
201112-22:55:38,978 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.func_preproc_fsl_afni_mean_mcflirt_0.norm_motion_params".
201112-22:55:38,979 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.sinker_0_slice_time_corrected" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_matching_run-2/sinker_0_slice_time_corrected".
201112-22:55:38,988 nipype.workflow INFO:
[Node] Running "sinker_0_slice_time_corrected" ("CPAC.utils.interfaces.datasink.DataSink")
201112-22:55:39,220 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.sinker_0_slice_time_corrected".
201112-22:55:39,221 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.sinker_0_raw_functional" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_matching_run-2/sinker_0_raw_functional".
201112-22:55:39,230 nipype.workflow INFO:
[Node] Running "sinker_0_raw_functional" ("CPAC.utils.interfaces.datasink.DataSink")
201112-22:55:39,539 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.sinker_0_raw_functional".
201112-22:55:39,540 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.func_gather_0.check_func_scan" in "/outputs/tmp/resting_preproc_sub-018_ses-1/func_gather_0/_scan_matching_run-2/check_func_scan".
201112-22:55:39,575 nipype.workflow INFO:
[Node] Running "check_func_scan" ("CPAC.utils.interfaces.function.Function")
201112-22:55:39,809 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.func_gather_0.check_func_scan".
201112-22:55:39,820 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.func_gather_0.select_scan_params" in "/outputs/tmp/resting_preproc_sub-018_ses-1/func_gather_0/_scan_matching_run-1/select_scan_params".
201112-22:55:39,852 nipype.workflow INFO:
[Node] Running "select_scan_params" ("CPAC.utils.interfaces.function.Function")
201112-22:55:40,94 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.func_gather_0.select_scan_params".
201112-22:55:40,106 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.func_gather_0.s3_scan_params" in "/outputs/tmp/resting_preproc_sub-018_ses-1/func_gather_0/_scan_matching_run-1/s3_scan_params".
201112-22:55:40,115 nipype.workflow INFO:
[Node] Running "s3_scan_params" ("CPAC.utils.interfaces.function.Function")
201112-22:55:40,349 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.func_gather_0.s3_scan_params".
201112-22:55:40,352 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.scan_params_0" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_matching_run-1/scan_params_0".
201112-22:55:40,365 nipype.workflow INFO:
[Node] Running "scan_params_0" ("CPAC.utils.interfaces.function.Function")
201112-22:55:40,598 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.scan_params_0".
201112-22:55:40,601 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.func_gather_0.selectrest" in "/outputs/tmp/resting_preproc_sub-018_ses-1/func_gather_0/_scan_matching_run-1/selectrest".
201112-22:55:40,635 nipype.workflow INFO:
[Node] Running "selectrest" ("CPAC.utils.interfaces.function.Function")
201112-22:55:40,871 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.func_gather_0.selectrest".
201112-22:55:40,881 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.func_gather_0.check_for_s3" in "/outputs/tmp/resting_preproc_sub-018_ses-1/func_gather_0/_scan_matching_run-1/check_for_s3".
201112-22:55:40,888 nipype.workflow INFO:
[Node] Running "check_for_s3" ("CPAC.utils.interfaces.function.Function")
201112-22:55:41,205 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.func_gather_0.check_for_s3".
201112-22:55:41,207 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.edit_func_0.func_get_idx" in "/outputs/tmp/resting_preproc_sub-018_ses-1/edit_func_0/_scan_matching_run-1/func_get_idx".
201112-22:55:41,216 nipype.workflow INFO:
[Node] Running "func_get_idx" ("nipype.interfaces.utility.wrappers.Function")
201112-22:55:41,454 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.edit_func_0.func_get_idx".
201112-22:55:41,455 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.edit_func_0.func_drop_trs" in "/outputs/tmp/resting_preproc_sub-018_ses-1/edit_func_0/_scan_matching_run-1/func_drop_trs".
201112-22:55:41,465 nipype.workflow INFO:
[Node] Running "func_drop_trs" ("nipype.interfaces.afni.utils.Calc"), a CommandLine Interface with command:
3dcalc -a /bids_dataset/sub-018/ses-1/func/sub-018_ses-1_task-matching_run-1_bold.nii.gz[0..98] -expr "a" -prefix sub-018_ses-1_task-matching_run-1_bold_calc.nii.gz
201112-22:55:41,721 nipype.interface INFO:
stderr 2020-11-12T22:55:41.721622:++ 3dcalc: AFNI version=AFNI_20.2.19 (Sep 27 2020) [64-bit]
201112-22:55:41,722 nipype.interface INFO:
stderr 2020-11-12T22:55:41.722053:++ Authored by: A cast of thousands
201112-22:55:46,211 nipype.interface INFO:
stderr 2020-11-12T22:55:46.211029:++ Output dataset ./sub-018_ses-1_task-matching_run-1_bold_calc.nii.gz
201112-22:55:46,391 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.edit_func_0.func_drop_trs".
201112-22:55:46,392 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_deoblique" in "/outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/_scan_matching_run-1/func_deoblique".
201112-22:55:46,430 nipype.workflow INFO:
[Node] Running "func_deoblique" ("nipype.interfaces.afni.utils.Refit"), a CommandLine Interface with command:
3drefit -deoblique /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/_scan_matching_run-1/func_deoblique/sub-018_ses-1_task-matching_run-1_bold_calc.nii.gz
201112-22:55:46,672 nipype.interface INFO:
stderr 2020-11-12T22:55:46.672018:++ 3drefit: AFNI version=AFNI_20.2.19 (Sep 27 2020) [64-bit]
201112-22:55:46,672 nipype.interface INFO:
stderr 2020-11-12T22:55:46.672340:++ Authored by: RW Cox
201112-22:55:46,674 nipype.interface INFO:
stderr 2020-11-12T22:55:46.674884:++ Processing AFNI dataset /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/_scan_matching_run-1/func_deoblique/sub-018_ses-1_task-matching_run-1_bold_calc.nii.gz
201112-22:55:46,675 nipype.interface INFO:
stderr 2020-11-12T22:55:46.675487: + deoblique
201112-22:55:46,675 nipype.interface INFO:
stderr 2020-11-12T22:55:46.675670: + loading and re-writing dataset /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/_scan_matching_run-1/func_deoblique/sub-018_ses-1_task-matching_run-1_bold_calc.nii.gz (/outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/_scan_matching_run-1/func_deoblique/sub-018_ses-1_task-matching_run-1_bold_calc.nii.gz in NIFTI storage)
201112-22:55:49,633 nipype.interface INFO:
stderr 2020-11-12T22:55:49.633823:++ 3drefit processed 1 datasets
201112-22:55:49,817 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_deoblique".
201112-22:55:49,819 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_reorient" in "/outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/_scan_matching_run-1/func_reorient".
201112-22:55:49,828 nipype.workflow INFO:
[Node] Running "func_reorient" ("nipype.interfaces.afni.utils.Resample"), a CommandLine Interface with command:
3dresample -orient RPI -prefix sub-018_ses-1_task-matching_run-1_bold_calc_resample.nii.gz -inset /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/_scan_matching_run-1/func_reorient/sub-018_ses-1_task-matching_run-1_bold_calc.nii.gz
201112-22:55:53,368 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_reorient".
201112-22:55:53,369 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_get_mean_RPI" in "/outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/_scan_matching_run-1/func_get_mean_RPI".
201112-22:55:53,379 nipype.workflow INFO:
[Node] Running "func_get_mean_RPI" ("nipype.interfaces.afni.utils.TStat"), a CommandLine Interface with command:
3dTstat -mean -prefix sub-018_ses-1_task-matching_run-1_bold_calc_resample_tstat.nii.gz /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/_scan_matching_run-1/func_get_mean_RPI/sub-018_ses-1_task-matching_run-1_bold_calc_resample.nii.gz
201112-22:55:53,620 nipype.interface INFO:
stderr 2020-11-12T22:55:53.620603:++ 3dTstat: AFNI version=AFNI_20.2.19 (Sep 27 2020) [64-bit]
201112-22:55:53,620 nipype.interface INFO:
stderr 2020-11-12T22:55:53.620918:++ Authored by: KR Hammett & RW Cox
201112-22:55:53,972 nipype.interface INFO:
stderr 2020-11-12T22:55:53.972635:++ Output dataset ./sub-018_ses-1_task-matching_run-1_bold_calc_resample_tstat.nii.gz
201112-22:55:54,130 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_get_mean_RPI".
201112-22:55:54,131 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_generate_ref" in "/outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/_scan_matching_run-1/func_generate_ref".
201112-22:55:54,139 nipype.workflow INFO:
[Node] Running "func_generate_ref" ("nipype.interfaces.afni.preprocess.Volreg"), a CommandLine Interface with command:
3dvolreg -twopass -Fourier -1Dfile sub-018_ses-1_task-matching_run-1_bold_calc_resample.1D -1Dmatrix_save sub-018_ses-1_task-matching_run-1_bold_calc_resample.aff12.1D -prefix sub-018_ses-1_task-matching_run-1_bold_calc_resample_volreg.nii.gz -base /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/_scan_matching_run-1/func_get_mean_RPI/sub-018_ses-1_task-matching_run-1_bold_calc_resample_tstat.nii.gz -zpad 4 -maxdisp1D sub-018_ses-1_task-matching_run-1_bold_calc_resample_md.1D /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/_scan_matching_run-1/func_generate_ref/sub-018_ses-1_task-matching_run-1_bold_calc_resample.nii.gz
201112-22:55:54,380 nipype.interface INFO:
stderr 2020-11-12T22:55:54.380896:++ 3dvolreg: AFNI version=AFNI_20.2.19 (Sep 27 2020) [64-bit]
201112-22:55:54,381 nipype.interface INFO:
stderr 2020-11-12T22:55:54.381197:++ Authored by: RW Cox
201112-22:55:54,390 nipype.interface INFO:
stderr 2020-11-12T22:55:54.390618:++ Coarse del was 10, replaced with 3
201112-22:57:15,837 nipype.interface INFO:
stderr 2020-11-12T22:57:15.836977:++ Max displacement in automask = 3.80 (mm) at sub-brick 18
201112-22:57:15,837 nipype.interface INFO:
stderr 2020-11-12T22:57:15.837538:++ Max delta displ in automask = 2.83 (mm) at sub-brick 18
201112-22:57:18,774 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_generate_ref".
201112-22:57:18,776 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_get_mean_motion" in "/outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/_scan_matching_run-1/func_get_mean_motion".
201112-22:57:18,783 nipype.workflow INFO:
[Node] Running "func_get_mean_motion" ("nipype.interfaces.afni.utils.TStat"), a CommandLine Interface with command:
3dTstat -mean -prefix sub-018_ses-1_task-matching_run-1_bold_calc_resample_volreg_tstat.nii.gz /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/_scan_matching_run-1/func_get_mean_motion/sub-018_ses-1_task-matching_run-1_bold_calc_resample_volreg.nii.gz
201112-22:57:19,54 nipype.interface INFO:
stderr 2020-11-12T22:57:19.054402:++ 3dTstat: AFNI version=AFNI_20.2.19 (Sep 27 2020) [64-bit]
201112-22:57:19,54 nipype.interface INFO:
stderr 2020-11-12T22:57:19.054773:++ Authored by: KR Hammett & RW Cox
201112-22:57:19,411 nipype.interface INFO:
stderr 2020-11-12T22:57:19.411727:++ Output dataset ./sub-018_ses-1_task-matching_run-1_bold_calc_resample_volreg_tstat.nii.gz
201112-22:57:19,567 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_get_mean_motion".
201112-22:57:19,569 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_motion_correct_mcflirt" in "/outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/_scan_matching_run-1/func_motion_correct_mcflirt".
201112-22:57:19,579 nipype.workflow INFO:
[Node] Running "func_motion_correct_mcflirt" ("nipype.interfaces.fsl.preprocess.MCFLIRT"), a CommandLine Interface with command:
mcflirt -in /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/_scan_matching_run-1/func_reorient/sub-018_ses-1_task-matching_run-1_bold_calc_resample.nii.gz -out /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/_scan_matching_run-1/func_motion_correct_mcflirt/sub-018_ses-1_task-matching_run-1_bold_calc_resample_mcf.nii.gz -reffile /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/_scan_matching_run-1/func_get_mean_motion/sub-018_ses-1_task-matching_run-1_bold_calc_resample_volreg_tstat.nii.gz -mats -plots -rmsabs -rmsrel
201112-22:57:37,161 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_motion_correct_mcflirt".
201112-22:57:37,168 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.gen_motion_stats_before_stc_fsl_afni_mean_mcflirt_0.calculate_FDJ" in "/outputs/tmp/resting_preproc_sub-018_ses-1/gen_motion_stats_before_stc_fsl_afni_mean_mcflirt_0/_scan_matching_run-1/calculate_FDJ".
201112-22:57:37,176 nipype.workflow INFO:
[Node] Running "calculate_FDJ" ("CPAC.utils.interfaces.function.Function")
201112-22:57:37,405 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.gen_motion_stats_before_stc_fsl_afni_mean_mcflirt_0.calculate_FDJ".
201112-22:57:37,406 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.sinker_0_frame_wise_displacement_jenkinson" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_matching_run-1/sinker_0_frame_wise_displacement_jenkinson".
201112-22:57:37,416 nipype.workflow INFO:
[Node] Running "sinker_0_frame_wise_displacement_jenkinson" ("CPAC.utils.interfaces.datasink.DataSink")
201112-22:57:37,644 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.sinker_0_frame_wise_displacement_jenkinson".
201112-22:57:37,646 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.sinker_0_max_displacement" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_matching_run-1/sinker_0_max_displacement".
201112-22:57:37,657 nipype.workflow INFO:
[Node] Running "sinker_0_max_displacement" ("CPAC.utils.interfaces.datasink.DataSink")
201112-22:57:37,886 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.sinker_0_max_displacement".
201112-22:57:37,887 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.sinker_0_coordinate_transformation" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_matching_run-1/sinker_0_coordinate_transformation".
201112-22:57:37,906 nipype.workflow INFO:
[Node] Running "sinker_0_coordinate_transformation" ("CPAC.utils.interfaces.datasink.DataSink")
201112-22:57:38,162 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.sinker_0_coordinate_transformation".
201112-22:57:38,172 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip.func_mean_skull" in "/outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_matching_run-1/func_mean_skull".
201112-22:57:38,181 nipype.workflow INFO:
[Node] Running "func_mean_skull" ("nipype.interfaces.afni.utils.TStat"), a CommandLine Interface with command:
3dTstat -mean -prefix sub-018_ses-1_task-matching_run-1_bold_calc_resample_mcf_tstat.nii.gz /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_matching_run-1/func_mean_skull/sub-018_ses-1_task-matching_run-1_bold_calc_resample_mcf.nii.gz
201112-22:57:38,430 nipype.interface INFO:
stderr 2020-11-12T22:57:38.430338:++ 3dTstat: AFNI version=AFNI_20.2.19 (Sep 27 2020) [64-bit]
201112-22:57:38,431 nipype.interface INFO:
stderr 2020-11-12T22:57:38.430992:++ Authored by: KR Hammett & RW Cox
201112-22:57:38,812 nipype.interface INFO:
stderr 2020-11-12T22:57:38.811997:++ Output dataset ./sub-018_ses-1_task-matching_run-1_bold_calc_resample_mcf_tstat.nii.gz
201112-22:57:38,965 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip.func_mean_skull".
201112-22:57:38,966 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip.skullstrip_first_pass" in "/outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_matching_run-1/skullstrip_first_pass".
201112-22:57:38,975 nipype.workflow INFO:
[Node] Running "skullstrip_first_pass" ("nipype.interfaces.fsl.preprocess.BET"), a CommandLine Interface with command:
bet /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_matching_run-1/func_mean_skull/sub-018_ses-1_task-matching_run-1_bold_calc_resample_mcf_tstat.nii.gz /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_matching_run-1/skullstrip_first_pass/sub-018_ses-1_task-matching_run-1_bold_calc_resample_mcf_tstat_brain.nii.gz -f 0.20 -m
201112-22:57:40,824 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip.skullstrip_first_pass".
201112-22:57:40,826 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip.skullstrip_first_dilate" in "/outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_matching_run-1/skullstrip_first_dilate".
201112-22:57:40,835 nipype.workflow INFO:
[Node] Running "skullstrip_first_dilate" ("nipype.interfaces.fsl.maths.DilateImage"), a CommandLine Interface with command:
fslmaths -dt char /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_matching_run-1/skullstrip_first_pass/sub-018_ses-1_task-matching_run-1_bold_calc_resample_mcf_tstat_brain_mask.nii.gz -kernel sphere 6.0000 -dilF /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_matching_run-1/skullstrip_first_dilate/sub-018_ses-1_task-matching_run-1_bold_calc_resample_mcf_tstat_brain_mask_dil.nii.gz
201112-22:57:41,489 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip.skullstrip_first_dilate".
201112-22:57:41,490 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip.skullstrip_first_mask" in "/outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_matching_run-1/skullstrip_first_mask".
201112-22:57:41,500 nipype.workflow INFO:
[Node] Running "skullstrip_first_mask" ("nipype.interfaces.fsl.maths.ApplyMask"), a CommandLine Interface with command:
fslmaths /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_matching_run-1/skullstrip_first_pass/sub-018_ses-1_task-matching_run-1_bold_calc_resample_mcf_tstat_brain.nii.gz -mas /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_matching_run-1/skullstrip_first_dilate/sub-018_ses-1_task-matching_run-1_bold_calc_resample_mcf_tstat_brain_mask_dil.nii.gz /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_matching_run-1/skullstrip_first_mask/sub-018_ses-1_task-matching_run-1_bold_calc_resample_mcf_tstat_brain_masked.nii.gz
201112-22:57:41,915 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip.skullstrip_first_mask".
201112-22:57:41,916 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip.unifize" in "/outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_matching_run-1/unifize".
201112-22:57:41,925 nipype.workflow INFO:
[Node] Running "unifize" ("nipype.interfaces.afni.utils.Unifize"), a CommandLine Interface with command:
3dUnifize -clfrac 0.2 -rbt 18.3 65.0 90.0 -prefix uni.nii.gz -T2 -input /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_matching_run-1/unifize/sub-018_ses-1_task-matching_run-1_bold_calc_resample_mcf_tstat_brain_masked.nii.gz
201112-22:57:42,175 nipype.interface INFO:
stderr 2020-11-12T22:57:42.174936:++ 3dUnifize: AFNI version=AFNI_20.2.19 (Sep 27 2020) [64-bit]
201112-22:58:55,190 nipype.interface INFO:
stderr 2020-11-12T22:58:55.190662: + Pre-processing: IAV..UW[s4264]Im
201112-22:58:55,207 nipype.interface INFO:
stderr 2020-11-12T22:58:55.207118:++ Output dataset ./uni.nii.gz
201112-22:58:55,207 nipype.interface INFO:
stderr 2020-11-12T22:58:55.207387:++ ===== Elapsed = 73.0 sec
201112-22:58:55,384 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip.unifize".
201112-22:58:55,386 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip.skullstrip_second_pass" in "/outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_matching_run-1/skullstrip_second_pass".
201112-22:58:55,395 nipype.workflow INFO:
[Node] Running "skullstrip_second_pass" ("nipype.interfaces.afni.preprocess.Automask"), a CommandLine Interface with command:
3dAutomask -apply_prefix uni_masked.nii.gz -dilate 1 -prefix uni_mask.nii.gz /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_matching_run-1/skullstrip_second_pass/uni.nii.gz
201112-22:58:55,646 nipype.interface INFO:
stderr 2020-11-12T22:58:55.646316:++ 3dAutomask: AFNI version=AFNI_20.2.19 (Sep 27 2020) [64-bit]
201112-22:58:55,646 nipype.interface INFO:
stderr 2020-11-12T22:58:55.646890:++ Authored by: Emperor Zhark
201112-22:58:55,649 nipype.interface INFO:
stderr 2020-11-12T22:58:55.649935:++ Loading dataset /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_matching_run-1/skullstrip_second_pass/uni.nii.gz
201112-22:58:55,655 nipype.interface INFO:
stderr 2020-11-12T22:58:55.655602:++ Forming automask
201112-22:58:55,656 nipype.interface INFO:
stderr 2020-11-12T22:58:55.656976: + Fixed clip level = 439.922241
201112-22:58:55,660 nipype.interface INFO:
stderr 2020-11-12T22:58:55.660206: + Used gradual clip level = 396.237427 .. 497.068634
201112-22:58:55,660 nipype.interface INFO:
stderr 2020-11-12T22:58:55.660410: + Number voxels above clip level = 28142
201112-22:58:55,660 nipype.interface INFO:
stderr 2020-11-12T22:58:55.660574: + Clustering voxels ...
201112-22:58:55,661 nipype.interface INFO:
stderr 2020-11-12T22:58:55.661632: + Largest cluster has 28134 voxels
201112-22:58:55,662 nipype.interface INFO:
stderr 2020-11-12T22:58:55.662926: + Clustering voxels ...
201112-22:58:55,664 nipype.interface INFO:
stderr 2020-11-12T22:58:55.664235: + Largest cluster has 27735 voxels
201112-22:58:55,667 nipype.interface INFO:
stderr 2020-11-12T22:58:55.667857: + Filled 541 voxels in small holes; now have 28276 voxels
201112-22:58:55,671 nipype.interface INFO:
stderr 2020-11-12T22:58:55.671084: + Filled 3 voxels in large holes; now have 28279 voxels
201112-22:58:55,672 nipype.interface INFO:
stderr 2020-11-12T22:58:55.672283: + Clustering voxels ...
201112-22:58:55,673 nipype.interface INFO:
stderr 2020-11-12T22:58:55.673474: + Largest cluster has 28279 voxels
201112-22:58:55,673 nipype.interface INFO:
stderr 2020-11-12T22:58:55.673704: + Clustering non-brain voxels ...
201112-22:58:55,673 nipype.interface INFO:
stderr 2020-11-12T22:58:55.673847: + Clustering voxels ...
201112-22:58:55,676 nipype.interface INFO:
stderr 2020-11-12T22:58:55.676698: + Largest cluster has 110942 voxels
201112-22:58:55,677 nipype.interface INFO:
stderr 2020-11-12T22:58:55.677026: + Mask now has 28322 voxels
201112-22:58:55,677 nipype.interface INFO:
stderr 2020-11-12T22:58:55.677193:++ Dilating automask
201112-22:58:55,682 nipype.interface INFO:
stderr 2020-11-12T22:58:55.682671: + Clustering voxels ...
201112-22:58:55,685 nipype.interface INFO:
stderr 2020-11-12T22:58:55.685128: + Largest cluster has 105357 voxels
201112-22:58:55,685 nipype.interface INFO:
stderr 2020-11-12T22:58:55.685465:++ 33907 voxels in the mask [out of 139264: 24.35%]
201112-22:58:55,685 nipype.interface INFO:
stderr 2020-11-12T22:58:55.685634:++ first 10 x-planes are zero [from R]
201112-22:58:55,685 nipype.interface INFO:
stderr 2020-11-12T22:58:55.685792:++ last 9 x-planes are zero [from L]
201112-22:58:55,685 nipype.interface INFO:
stderr 2020-11-12T22:58:55.685930:++ first 3 y-planes are zero [from P]
201112-22:58:55,686 nipype.interface INFO:
stderr 2020-11-12T22:58:55.686075:++ last 8 y-planes are zero [from A]
201112-22:58:55,686 nipype.interface INFO:
stderr 2020-11-12T22:58:55.686206:++ first 0 z-planes are zero [from I]
201112-22:58:55,686 nipype.interface INFO:
stderr 2020-11-12T22:58:55.686337:++ last 1 z-planes are zero [from S]
201112-22:58:55,690 nipype.interface INFO:
stderr 2020-11-12T22:58:55.690865:++ Output dataset ./uni_mask.nii.gz
201112-22:58:55,691 nipype.interface INFO:
stderr 2020-11-12T22:58:55.691040:++ applying mask to original data
201112-22:58:55,691 nipype.interface INFO:
stderr 2020-11-12T22:58:55.691713:++ Writing masked data
201112-22:58:55,706 nipype.interface INFO:
stderr 2020-11-12T22:58:55.706302:++ Output dataset ./uni_masked.nii.gz
201112-22:58:55,706 nipype.interface INFO:
stderr 2020-11-12T22:58:55.706564:++ CPU time = 0.000000 sec
201112-22:58:55,859 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip.skullstrip_second_pass".
201112-22:58:55,861 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip.combine_masks" in "/outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_matching_run-1/combine_masks".
201112-22:58:55,869 nipype.workflow INFO:
[Node] Running "combine_masks" ("nipype.interfaces.fsl.maths.BinaryMaths"), a CommandLine Interface with command:
fslmaths /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_matching_run-1/skullstrip_first_pass/sub-018_ses-1_task-matching_run-1_bold_calc_resample_mcf_tstat_brain_mask.nii.gz -mul /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_matching_run-1/skullstrip_second_pass/uni_mask.nii.gz /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_matching_run-1/combine_masks/sub-018_ses-1_task-matching_run-1_bold_calc_resample_mcf_tstat_brain_mask_maths.nii.gz
201112-22:58:56,266 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip.combine_masks".
201112-22:58:56,267 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.gen_motion_stats_before_stc_fsl_afni_mean_mcflirt_0.cal_DVARS" in "/outputs/tmp/resting_preproc_sub-018_ses-1/gen_motion_stats_before_stc_fsl_afni_mean_mcflirt_0/_scan_matching_run-1/cal_DVARS".
201112-22:58:56,276 nipype.workflow INFO:
[Node] Running "cal_DVARS" ("CPAC.utils.interfaces.function.Function")
201112-22:58:56,841 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.gen_motion_stats_before_stc_fsl_afni_mean_mcflirt_0.cal_DVARS".
201112-22:58:56,843 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip.func_extract_brain" in "/outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_matching_run-1/func_extract_brain".
201112-22:58:56,856 nipype.workflow INFO:
[Node] Running "func_extract_brain" ("nipype.interfaces.afni.utils.Calc"), a CommandLine Interface with command:
3dcalc -a /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/_scan_matching_run-1/func_motion_correct_mcflirt/sub-018_ses-1_task-matching_run-1_bold_calc_resample_mcf.nii.gz -b /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_matching_run-1/combine_masks/sub-018_ses-1_task-matching_run-1_bold_calc_resample_mcf_tstat_brain_mask_maths.nii.gz -expr "a*b" -prefix sub-018_ses-1_task-matching_run-1_bold_calc_resample_mcf_calc.nii.gz
201112-22:58:57,100 nipype.interface INFO:
stderr 2020-11-12T22:58:57.100504:++ 3dcalc: AFNI version=AFNI_20.2.19 (Sep 27 2020) [64-bit]
201112-22:58:57,100 nipype.interface INFO:
stderr 2020-11-12T22:58:57.100817:++ Authored by: A cast of thousands
201112-22:58:59,182 nipype.interface INFO:
stderr 2020-11-12T22:58:59.182342:++ Output dataset ./sub-018_ses-1_task-matching_run-1_bold_calc_resample_mcf_calc.nii.gz
201112-22:58:59,359 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip.func_extract_brain".
201112-22:58:59,361 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_normalize" in "/outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/_scan_matching_run-1/func_normalize".
201112-22:58:59,368 nipype.workflow INFO:
[Node] Running "func_normalize" ("nipype.interfaces.fsl.utils.ImageMaths"), a CommandLine Interface with command:
fslmaths /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_matching_run-1/func_extract_brain/sub-018_ses-1_task-matching_run-1_bold_calc_resample_mcf_calc.nii.gz -ing 10000 /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/_scan_matching_run-1/func_normalize/sub-018_ses-1_task-matching_run-1_bold_calc_resample_mcf_calc_maths.nii.gz -odt float
201112-22:59:01,40 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_normalize".
201112-22:59:01,42 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_mask_normalize" in "/outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/_scan_matching_run-1/func_mask_normalize".
201112-22:59:01,51 nipype.workflow INFO:
[Node] Running "func_mask_normalize" ("nipype.interfaces.fsl.utils.ImageMaths"), a CommandLine Interface with command:
fslmaths /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/_scan_matching_run-1/func_normalize/sub-018_ses-1_task-matching_run-1_bold_calc_resample_mcf_calc_maths.nii.gz -Tmin -bin /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/_scan_matching_run-1/func_mask_normalize/sub-018_ses-1_task-matching_run-1_bold_calc_resample_mcf_calc_maths_maths.nii.gz -odt char
201112-22:59:01,900 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_mask_normalize".
201112-22:59:01,901 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_mean" in "/outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/_scan_matching_run-1/func_mean".
201112-22:59:01,909 nipype.workflow INFO:
[Node] Running "func_mean" ("nipype.interfaces.afni.utils.TStat"), a CommandLine Interface with command:
3dTstat -mean -prefix sub-018_ses-1_task-matching_run-1_bold_calc_resample_mcf_calc_tstat.nii.gz /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/_scan_matching_run-1/func_mean/sub-018_ses-1_task-matching_run-1_bold_calc_resample_mcf_calc.nii.gz
201112-22:59:02,149 nipype.interface INFO:
stderr 2020-11-12T22:59:02.149450:++ 3dTstat: AFNI version=AFNI_20.2.19 (Sep 27 2020) [64-bit]
201112-22:59:02,150 nipype.interface INFO:
stderr 2020-11-12T22:59:02.150000:++ Authored by: KR Hammett & RW Cox
201112-22:59:02,379 nipype.interface INFO:
stderr 2020-11-12T22:59:02.379063:++ Output dataset ./sub-018_ses-1_task-matching_run-1_bold_calc_resample_mcf_calc_tstat.nii.gz
201112-22:59:02,534 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_mean".
201112-22:59:02,536 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.norm_motion_params" in "/outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/_scan_matching_run-1/norm_motion_params".
201112-22:59:02,544 nipype.workflow INFO:
[Node] Running "norm_motion_params" ("CPAC.utils.interfaces.function.Function")
201112-22:59:02,777 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.norm_motion_params".
201112-22:59:02,778 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.qc_motion_0.motion_plot" in "/outputs/tmp/resting_preproc_sub-018_ses-1/qc_motion_0/_scan_matching_run-1/motion_plot".
201112-22:59:02,785 nipype.workflow INFO:
[Node] Running "motion_plot" ("CPAC.utils.interfaces.function.Function")
201112-22:59:03,222 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.qc_motion_0.motion_plot".
201112-22:59:03,223 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.sinker_0_qc___movement_trans_plot" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_matching_run-1/sinker_0_qc___movement_trans_plot".
201112-22:59:03,232 nipype.workflow INFO:
[Node] Running "sinker_0_qc___movement_trans_plot" ("CPAC.utils.interfaces.datasink.DataSink")
201112-22:59:03,446 nipype.interface INFO:
sub: /outputs/output/pipeline_cpac_fmriprep-options/sub-018_ses-1/qc___movement_trans_plot/_scan_matching_run-1/motion_trans_plot.png -> /outputs/output/pipeline_cpac_fmriprep-options/sub-018_ses-1/qc/movement_trans_plot/_scan_matching_run-1/motion_trans_plot.png
201112-22:59:03,464 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.sinker_0_qc___movement_trans_plot".
201112-22:59:03,466 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.sinker_0_qc___movement_rot_plot" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_matching_run-1/sinker_0_qc___movement_rot_plot".
201112-22:59:03,475 nipype.workflow INFO:
[Node] Running "sinker_0_qc___movement_rot_plot" ("CPAC.utils.interfaces.datasink.DataSink")
201112-22:59:03,687 nipype.interface INFO:
sub: /outputs/output/pipeline_cpac_fmriprep-options/sub-018_ses-1/qc___movement_rot_plot/_scan_matching_run-1/motion_rot_plot.png -> /outputs/output/pipeline_cpac_fmriprep-options/sub-018_ses-1/qc/movement_rot_plot/_scan_matching_run-1/motion_rot_plot.png
201112-22:59:03,704 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.sinker_0_qc___movement_rot_plot".
201112-22:59:03,706 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.gen_motion_stats_before_stc_fsl_afni_mean_mcflirt_0.calc_motion_parameters" in "/outputs/tmp/resting_preproc_sub-018_ses-1/gen_motion_stats_before_stc_fsl_afni_mean_mcflirt_0/_scan_matching_run-1/calc_motion_parameters".
201112-22:59:03,714 nipype.workflow INFO:
[Node] Running "calc_motion_parameters" ("CPAC.utils.interfaces.function.Function")
201112-22:59:03,948 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.gen_motion_stats_before_stc_fsl_afni_mean_mcflirt_0.calc_motion_parameters".
201112-22:59:03,949 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.sinker_0_motion_params" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_matching_run-1/sinker_0_motion_params".
201112-22:59:03,959 nipype.workflow INFO:
[Node] Running "sinker_0_motion_params" ("CPAC.utils.interfaces.datasink.DataSink")
201112-22:59:04,193 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.sinker_0_motion_params".
201112-22:59:04,195 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.gen_motion_stats_before_stc_fsl_afni_mean_mcflirt_0.calculate_FD" in "/outputs/tmp/resting_preproc_sub-018_ses-1/gen_motion_stats_before_stc_fsl_afni_mean_mcflirt_0/_scan_matching_run-1/calculate_FD".
201112-22:59:04,201 nipype.workflow INFO:
[Node] Running "calculate_FD" ("CPAC.utils.interfaces.function.Function")
201112-22:59:04,438 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.gen_motion_stats_before_stc_fsl_afni_mean_mcflirt_0.calculate_FD".
201112-22:59:04,440 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.sinker_0_frame_wise_displacement_power" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_matching_run-1/sinker_0_frame_wise_displacement_power".
201112-22:59:04,450 nipype.workflow INFO:
[Node] Running "sinker_0_frame_wise_displacement_power" ("CPAC.utils.interfaces.datasink.DataSink")
201112-22:59:04,679 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.sinker_0_frame_wise_displacement_power".
201112-22:59:04,680 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.gen_motion_stats_before_stc_fsl_afni_mean_mcflirt_0.calc_power_parameters" in "/outputs/tmp/resting_preproc_sub-018_ses-1/gen_motion_stats_before_stc_fsl_afni_mean_mcflirt_0/_scan_matching_run-1/calc_power_parameters".
201112-22:59:04,688 nipype.workflow INFO:
[Node] Running "calc_power_parameters" ("CPAC.utils.interfaces.function.Function")
201112-22:59:04,919 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.gen_motion_stats_before_stc_fsl_afni_mean_mcflirt_0.calc_power_parameters".
201112-22:59:04,920 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.sinker_0_power_params" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_matching_run-1/sinker_0_power_params".
201112-22:59:04,929 nipype.workflow INFO:
[Node] Running "sinker_0_power_params" ("CPAC.utils.interfaces.datasink.DataSink")
201112-22:59:05,162 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.sinker_0_power_params".
201112-22:59:05,163 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.sinker_0_movement_parameters" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_matching_run-1/sinker_0_movement_parameters".
201112-22:59:05,173 nipype.workflow INFO:
[Node] Running "sinker_0_movement_parameters" ("CPAC.utils.interfaces.datasink.DataSink")
201112-22:59:05,407 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.sinker_0_movement_parameters".
201112-22:59:05,409 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.func_despiked_0" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_matching_run-1/func_despiked_0".
201112-22:59:05,418 nipype.workflow INFO:
[Node] Running "func_despiked_0" ("nipype.interfaces.afni.preprocess.Despike"), a CommandLine Interface with command:
3dDespike -prefix sub-018_ses-1_task-matching_run-1_bold_calc_despike.nii.gz /outputs/tmp/resting_preproc_sub-018_ses-1/_scan_matching_run-1/func_despiked_0/sub-018_ses-1_task-matching_run-1_bold_calc.nii.gz
201112-22:59:05,679 nipype.interface INFO:
stderr 2020-11-12T22:59:05.679080:++ 3dDespike: AFNI version=AFNI_20.2.19 (Sep 27 2020) [64-bit]
201112-22:59:05,679 nipype.interface INFO:
stderr 2020-11-12T22:59:05.679438:++ Authored by: RW Cox
201112-22:59:05,683 nipype.interface INFO:
stderr 2020-11-12T22:59:05.683165:[7m*+ WARNING:[0m If you are performing spatial transformations on an oblique dset,
201112-22:59:05,683 nipype.interface INFO:
stderr 2020-11-12T22:59:05.683165: such as /outputs/tmp/resting_preproc_sub-018_ses-1/_scan_matching_run-1/func_despiked_0/sub-018_ses-1_task-matching_run-1_bold_calc.nii.gz,
201112-22:59:05,683 nipype.interface INFO:
stderr 2020-11-12T22:59:05.683165: or viewing/combining it with volumes of differing obliquity,
201112-22:59:05,683 nipype.interface INFO:
stderr 2020-11-12T22:59:05.683165: you should consider running:
201112-22:59:05,683 nipype.interface INFO:
stderr 2020-11-12T22:59:05.683165: 3dWarp -deoblique
201112-22:59:05,684 nipype.interface INFO:
stderr 2020-11-12T22:59:05.683165: on this and other oblique datasets in the same session.
201112-22:59:05,684 nipype.interface INFO:
stderr 2020-11-12T22:59:05.683165: See 3dWarp -help for details.
201112-22:59:05,684 nipype.interface INFO:
stderr 2020-11-12T22:59:05.684773:++ Oblique dataset:/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_matching_run-1/func_despiked_0/sub-018_ses-1_task-matching_run-1_bold_calc.nii.gz is 17.792933 degrees from plumb.
201112-22:59:05,685 nipype.interface INFO:
stderr 2020-11-12T22:59:05.685047:++ Input dataset is in short format, but output will be in float format
201112-22:59:05,685 nipype.interface INFO:
stderr 2020-11-12T22:59:05.685220:++ ignoring first 0 time points, using last 99
201112-22:59:05,685 nipype.interface INFO:
stderr 2020-11-12T22:59:05.685392:++ using 99 time points => -corder 3
201112-22:59:05,685 nipype.interface INFO:
stderr 2020-11-12T22:59:05.685569:++ Loading dataset /outputs/tmp/resting_preproc_sub-018_ses-1/_scan_matching_run-1/func_despiked_0/sub-018_ses-1_task-matching_run-1_bold_calc.nii.gz
201112-22:59:06,28 nipype.interface INFO:
stderr 2020-11-12T22:59:06.028638:++ 32065 voxels in the automask [out of 139264 in dataset]
201112-22:59:06,34 nipype.interface INFO:
stderr 2020-11-12T22:59:06.034206:++ 55669 voxels in the dilated automask [out of 139264 in dataset]
201112-22:59:06,42 nipype.interface INFO:
stderr 2020-11-12T22:59:06.042950:++ Procesing time series with OLD model fit algorithm
201112-22:59:06,43 nipype.interface INFO:
stderr 2020-11-12T22:59:06.043132:++ smash edit thresholds: 3.1 .. 5.0 MADs
201112-22:59:06,43 nipype.interface INFO:
stderr 2020-11-12T22:59:06.043292: + [ 3.457% .. 0.072% of normal distribution]
201112-22:59:06,43 nipype.interface INFO:
stderr 2020-11-12T22:59:06.043447: + [ 8.839% .. 3.125% of Laplace distribution]
201112-22:59:06,43 nipype.interface INFO:
stderr 2020-11-12T22:59:06.043614:++ start OpenMP thread #0
201112-22:59:09,498 nipype.interface INFO:
stderr 2020-11-12T22:59:09.498482:..........................
201112-22:59:09,499 nipype.interface INFO:
stderr 2020-11-12T22:59:09.498984:++ Elapsed despike time = 3s 455ms
201112-22:59:09,499 nipype.interface INFO:
stderr 2020-11-12T22:59:09.499134:
201112-22:59:09,499 nipype.interface INFO:
stderr 2020-11-12T22:59:09.499845:++ FINAL: 5511231 data points, 515150 edits [9.347%], 165477 big edits [3.003%]
201112-22:59:12,346 nipype.interface INFO:
stderr 2020-11-12T22:59:12.346454:++ Output dataset ./sub-018_ses-1_task-matching_run-1_bold_calc_despike.nii.gz
201112-22:59:12,535 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.func_despiked_0".
201112-22:59:12,537 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.func_slice_timing_correction_0.slice_timing" in "/outputs/tmp/resting_preproc_sub-018_ses-1/func_slice_timing_correction_0/_scan_matching_run-1/slice_timing".
201112-22:59:12,548 nipype.interface WARNING:
Passing a file prefixed by "@" will be deprecated; please use the `slice_timing` input
201112-22:59:12,549 nipype.workflow INFO:
[Node] Running "slice_timing" ("nipype.interfaces.afni.preprocess.TShift"), a CommandLine Interface with command:
3dTshift -prefix sub-018_ses-1_task-matching_run-1_bold_calc_despike_tshift.nii.gz -tpattern @/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_matching_run-1/scan_params_0/tpattern.txt -TR 2.0s /outputs/tmp/resting_preproc_sub-018_ses-1/func_slice_timing_correction_0/_scan_matching_run-1/slice_timing/sub-018_ses-1_task-matching_run-1_bold_calc_despike.nii.gz
201112-22:59:12,759 nipype.interface WARNING:
Passing a file prefixed by "@" will be deprecated; please use the `slice_timing` input
201112-22:59:12,798 nipype.interface INFO:
stderr 2020-11-12T22:59:12.798789:++ 3dTshift: AFNI version=AFNI_20.2.19 (Sep 27 2020) [64-bit]
201112-22:59:12,801 nipype.interface INFO:
stderr 2020-11-12T22:59:12.801833:[7m*+ WARNING:[0m If you are performing spatial transformations on an oblique dset,
201112-22:59:12,802 nipype.interface INFO:
stderr 2020-11-12T22:59:12.801833: such as /outputs/tmp/resting_preproc_sub-018_ses-1/func_slice_timing_correction_0/_scan_matching_run-1/slice_timing/sub-018_ses-1_task-matching_run-1_bold_calc_despike.nii.gz,
201112-22:59:12,802 nipype.interface INFO:
stderr 2020-11-12T22:59:12.801833: or viewing/combining it with volumes of differing obliquity,
201112-22:59:12,802 nipype.interface INFO:
stderr 2020-11-12T22:59:12.801833: you should consider running:
201112-22:59:12,802 nipype.interface INFO:
stderr 2020-11-12T22:59:12.801833: 3dWarp -deoblique
201112-22:59:12,802 nipype.interface INFO:
stderr 2020-11-12T22:59:12.801833: on this and other oblique datasets in the same session.
201112-22:59:12,802 nipype.interface INFO:
stderr 2020-11-12T22:59:12.801833: See 3dWarp -help for details.
201112-22:59:12,802 nipype.interface INFO:
stderr 2020-11-12T22:59:12.802918:++ Oblique dataset:/outputs/tmp/resting_preproc_sub-018_ses-1/func_slice_timing_correction_0/_scan_matching_run-1/slice_timing/sub-018_ses-1_task-matching_run-1_bold_calc_despike.nii.gz is 17.792933 degrees from plumb.
201112-22:59:16,423 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.func_slice_timing_correction_0.slice_timing".
201112-22:59:16,425 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.func_preproc_fsl_afni_mean_mcflirt_0.func_deoblique" in "/outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/_scan_matching_run-1/func_deoblique".
201112-22:59:16,475 nipype.workflow INFO:
[Node] Running "func_deoblique" ("nipype.interfaces.afni.utils.Refit"), a CommandLine Interface with command:
3drefit -deoblique /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/_scan_matching_run-1/func_deoblique/sub-018_ses-1_task-matching_run-1_bold_calc_despike_tshift.nii.gz
201112-22:59:16,721 nipype.interface INFO:
stderr 2020-11-12T22:59:16.721865:++ 3drefit: AFNI version=AFNI_20.2.19 (Sep 27 2020) [64-bit]
201112-22:59:16,722 nipype.interface INFO:
stderr 2020-11-12T22:59:16.722189:++ Authored by: RW Cox
201112-22:59:16,724 nipype.interface INFO:
stderr 2020-11-12T22:59:16.724370:++ Processing AFNI dataset /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/_scan_matching_run-1/func_deoblique/sub-018_ses-1_task-matching_run-1_bold_calc_despike_tshift.nii.gz
201112-22:59:16,725 nipype.interface INFO:
stderr 2020-11-12T22:59:16.724995: + deoblique
201112-22:59:16,725 nipype.interface INFO:
stderr 2020-11-12T22:59:16.725182: + loading and re-writing dataset /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/_scan_matching_run-1/func_deoblique/sub-018_ses-1_task-matching_run-1_bold_calc_despike_tshift.nii.gz (/outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/_scan_matching_run-1/func_deoblique/sub-018_ses-1_task-matching_run-1_bold_calc_despike_tshift.nii.gz in NIFTI storage)
201112-22:59:18,310 nipype.interface INFO:
stderr 2020-11-12T22:59:18.310014:++ 3drefit processed 1 datasets
201112-22:59:18,488 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.func_preproc_fsl_afni_mean_mcflirt_0.func_deoblique".
201112-22:59:18,489 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.func_preproc_fsl_afni_mean_mcflirt_0.func_reorient" in "/outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/_scan_matching_run-1/func_reorient".
201112-22:59:18,499 nipype.workflow INFO:
[Node] Running "func_reorient" ("nipype.interfaces.afni.utils.Resample"), a CommandLine Interface with command:
3dresample -orient RPI -prefix sub-018_ses-1_task-matching_run-1_bold_calc_despike_tshift_resample.nii.gz -inset /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/_scan_matching_run-1/func_reorient/sub-018_ses-1_task-matching_run-1_bold_calc_despike_tshift.nii.gz
201112-22:59:20,661 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.func_preproc_fsl_afni_mean_mcflirt_0.func_reorient".
201112-22:59:20,662 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.func_preproc_fsl_afni_mean_mcflirt_0.func_get_mean_RPI" in "/outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/_scan_matching_run-1/func_get_mean_RPI".
201112-22:59:20,671 nipype.workflow INFO:
[Node] Running "func_get_mean_RPI" ("nipype.interfaces.afni.utils.TStat"), a CommandLine Interface with command:
3dTstat -mean -prefix sub-018_ses-1_task-matching_run-1_bold_calc_despike_tshift_resample_tstat.nii.gz /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/_scan_matching_run-1/func_get_mean_RPI/sub-018_ses-1_task-matching_run-1_bold_calc_despike_tshift_resample.nii.gz
201112-22:59:20,915 nipype.interface INFO:
stderr 2020-11-12T22:59:20.915660:++ 3dTstat: AFNI version=AFNI_20.2.19 (Sep 27 2020) [64-bit]
201112-22:59:20,915 nipype.interface INFO:
stderr 2020-11-12T22:59:20.915965:++ Authored by: KR Hammett & RW Cox
201112-22:59:21,377 nipype.interface INFO:
stderr 2020-11-12T22:59:21.377071:++ Output dataset ./sub-018_ses-1_task-matching_run-1_bold_calc_despike_tshift_resample_tstat.nii.gz
201112-22:59:21,533 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.func_preproc_fsl_afni_mean_mcflirt_0.func_get_mean_RPI".
201112-22:59:21,534 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.func_preproc_fsl_afni_mean_mcflirt_0.func_generate_ref" in "/outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/_scan_matching_run-1/func_generate_ref".
201112-22:59:21,544 nipype.workflow INFO:
[Node] Running "func_generate_ref" ("nipype.interfaces.afni.preprocess.Volreg"), a CommandLine Interface with command:
3dvolreg -twopass -Fourier -1Dfile sub-018_ses-1_task-matching_run-1_bold_calc_despike_tshift_resample.1D -1Dmatrix_save sub-018_ses-1_task-matching_run-1_bold_calc_despike_tshift_resample.aff12.1D -prefix sub-018_ses-1_task-matching_run-1_bold_calc_despike_tshift_resample_volreg.nii.gz -base /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/_scan_matching_run-1/func_get_mean_RPI/sub-018_ses-1_task-matching_run-1_bold_calc_despike_tshift_resample_tstat.nii.gz -zpad 4 -maxdisp1D sub-018_ses-1_task-matching_run-1_bold_calc_despike_tshift_resample_md.1D /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/_scan_matching_run-1/func_generate_ref/sub-018_ses-1_task-matching_run-1_bold_calc_despike_tshift_resample.nii.gz
201112-22:59:21,792 nipype.interface INFO:
stderr 2020-11-12T22:59:21.792764:++ 3dvolreg: AFNI version=AFNI_20.2.19 (Sep 27 2020) [64-bit]
201112-22:59:21,793 nipype.interface INFO:
stderr 2020-11-12T22:59:21.793185:++ Authored by: RW Cox
201112-22:59:21,805 nipype.interface INFO:
stderr 2020-11-12T22:59:21.805038:++ Coarse del was 10, replaced with 3
201112-23:00:42,717 nipype.interface INFO:
stderr 2020-11-12T23:00:42.717535:++ Max displacement in automask = 1.77 (mm) at sub-brick 18
201112-23:00:42,718 nipype.interface INFO:
stderr 2020-11-12T23:00:42.718015:++ Max delta displ in automask = 1.42 (mm) at sub-brick 18
201112-23:00:46,365 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.func_preproc_fsl_afni_mean_mcflirt_0.func_generate_ref".
201112-23:00:46,367 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.func_preproc_fsl_afni_mean_mcflirt_0.func_get_mean_motion" in "/outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/_scan_matching_run-1/func_get_mean_motion".
201112-23:00:46,375 nipype.workflow INFO:
[Node] Running "func_get_mean_motion" ("nipype.interfaces.afni.utils.TStat"), a CommandLine Interface with command:
3dTstat -mean -prefix sub-018_ses-1_task-matching_run-1_bold_calc_despike_tshift_resample_volreg_tstat.nii.gz /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/_scan_matching_run-1/func_get_mean_motion/sub-018_ses-1_task-matching_run-1_bold_calc_despike_tshift_resample_volreg.nii.gz
201112-23:00:46,624 nipype.interface INFO:
stderr 2020-11-12T23:00:46.624104:++ 3dTstat: AFNI version=AFNI_20.2.19 (Sep 27 2020) [64-bit]
201112-23:00:46,624 nipype.interface INFO:
stderr 2020-11-12T23:00:46.624407:++ Authored by: KR Hammett & RW Cox
201112-23:00:47,237 nipype.interface INFO:
stderr 2020-11-12T23:00:47.237224:++ Output dataset ./sub-018_ses-1_task-matching_run-1_bold_calc_despike_tshift_resample_volreg_tstat.nii.gz
201112-23:00:47,391 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.func_preproc_fsl_afni_mean_mcflirt_0.func_get_mean_motion".
201112-23:00:47,392 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.func_preproc_fsl_afni_mean_mcflirt_0.func_motion_correct_mcflirt" in "/outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/_scan_matching_run-1/func_motion_correct_mcflirt".
201112-23:00:47,400 nipype.workflow INFO:
[Node] Running "func_motion_correct_mcflirt" ("nipype.interfaces.fsl.preprocess.MCFLIRT"), a CommandLine Interface with command:
mcflirt -in /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/_scan_matching_run-1/func_reorient/sub-018_ses-1_task-matching_run-1_bold_calc_despike_tshift_resample.nii.gz -out /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/_scan_matching_run-1/func_motion_correct_mcflirt/sub-018_ses-1_task-matching_run-1_bold_calc_despike_tshift_resample_mcf.nii.gz -reffile /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/_scan_matching_run-1/func_get_mean_motion/sub-018_ses-1_task-matching_run-1_bold_calc_despike_tshift_resample_volreg_tstat.nii.gz -mats -plots -rmsabs -rmsrel
201112-23:01:03,491 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.func_preproc_fsl_afni_mean_mcflirt_0.func_motion_correct_mcflirt".
201112-23:01:03,497 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.sinker_0_motion_correct" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_matching_run-1/sinker_0_motion_correct".
201112-23:01:03,507 nipype.workflow INFO:
[Node] Running "sinker_0_motion_correct" ("CPAC.utils.interfaces.datasink.DataSink")
201112-23:01:03,734 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.sinker_0_motion_correct".
201112-23:01:03,736 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.func_preproc_fsl_afni_mean_mcflirt_0.func_preproc_fsl_afni_mean_mcflirt_0_skullstrip.func_mean_skull" in "/outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/func_preproc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_matching_run-1/func_mean_skull".
201112-23:01:03,746 nipype.workflow INFO:
[Node] Running "func_mean_skull" ("nipype.interfaces.afni.utils.TStat"), a CommandLine Interface with command:
3dTstat -mean -prefix sub-018_ses-1_task-matching_run-1_bold_calc_despike_tshift_resample_mcf_tstat.nii.gz /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/func_preproc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_matching_run-1/func_mean_skull/sub-018_ses-1_task-matching_run-1_bold_calc_despike_tshift_resample_mcf.nii.gz
201112-23:01:03,996 nipype.interface INFO:
stderr 2020-11-12T23:01:03.996778:++ 3dTstat: AFNI version=AFNI_20.2.19 (Sep 27 2020) [64-bit]
201112-23:01:03,997 nipype.interface INFO:
stderr 2020-11-12T23:01:03.997171:++ Authored by: KR Hammett & RW Cox
201112-23:01:04,489 nipype.interface INFO:
stderr 2020-11-12T23:01:04.489717:++ Output dataset ./sub-018_ses-1_task-matching_run-1_bold_calc_despike_tshift_resample_mcf_tstat.nii.gz
201112-23:01:04,647 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.func_preproc_fsl_afni_mean_mcflirt_0.func_preproc_fsl_afni_mean_mcflirt_0_skullstrip.func_mean_skull".
201112-23:01:04,649 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.func_preproc_fsl_afni_mean_mcflirt_0.func_preproc_fsl_afni_mean_mcflirt_0_skullstrip.skullstrip_first_pass" in "/outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/func_preproc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_matching_run-1/skullstrip_first_pass".
201112-23:01:04,658 nipype.workflow INFO:
[Node] Running "skullstrip_first_pass" ("nipype.interfaces.fsl.preprocess.BET"), a CommandLine Interface with command:
bet /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/func_preproc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_matching_run-1/func_mean_skull/sub-018_ses-1_task-matching_run-1_bold_calc_despike_tshift_resample_mcf_tstat.nii.gz /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/func_preproc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_matching_run-1/skullstrip_first_pass/sub-018_ses-1_task-matching_run-1_bold_calc_despike_tshift_resample_mcf_tstat_brain.nii.gz -f 0.20 -m
201112-23:01:06,483 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.func_preproc_fsl_afni_mean_mcflirt_0.func_preproc_fsl_afni_mean_mcflirt_0_skullstrip.skullstrip_first_pass".
201112-23:01:06,485 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.func_preproc_fsl_afni_mean_mcflirt_0.func_preproc_fsl_afni_mean_mcflirt_0_skullstrip.skullstrip_first_dilate" in "/outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/func_preproc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_matching_run-1/skullstrip_first_dilate".
201112-23:01:06,493 nipype.workflow INFO:
[Node] Running "skullstrip_first_dilate" ("nipype.interfaces.fsl.maths.DilateImage"), a CommandLine Interface with command:
fslmaths -dt char /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/func_preproc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_matching_run-1/skullstrip_first_pass/sub-018_ses-1_task-matching_run-1_bold_calc_despike_tshift_resample_mcf_tstat_brain_mask.nii.gz -kernel sphere 6.0000 -dilF /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/func_preproc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_matching_run-1/skullstrip_first_dilate/sub-018_ses-1_task-matching_run-1_bold_calc_despike_tshift_resample_mcf_tstat_brain_mask_dil.nii.gz
201112-23:01:07,142 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.func_preproc_fsl_afni_mean_mcflirt_0.func_preproc_fsl_afni_mean_mcflirt_0_skullstrip.skullstrip_first_dilate".
201112-23:01:07,143 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.func_preproc_fsl_afni_mean_mcflirt_0.func_preproc_fsl_afni_mean_mcflirt_0_skullstrip.skullstrip_first_mask" in "/outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/func_preproc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_matching_run-1/skullstrip_first_mask".
201112-23:01:07,152 nipype.workflow INFO:
[Node] Running "skullstrip_first_mask" ("nipype.interfaces.fsl.maths.ApplyMask"), a CommandLine Interface with command:
fslmaths /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/func_preproc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_matching_run-1/skullstrip_first_pass/sub-018_ses-1_task-matching_run-1_bold_calc_despike_tshift_resample_mcf_tstat_brain.nii.gz -mas /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/func_preproc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_matching_run-1/skullstrip_first_dilate/sub-018_ses-1_task-matching_run-1_bold_calc_despike_tshift_resample_mcf_tstat_brain_mask_dil.nii.gz /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/func_preproc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_matching_run-1/skullstrip_first_mask/sub-018_ses-1_task-matching_run-1_bold_calc_despike_tshift_resample_mcf_tstat_brain_masked.nii.gz
201112-23:01:07,573 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.func_preproc_fsl_afni_mean_mcflirt_0.func_preproc_fsl_afni_mean_mcflirt_0_skullstrip.skullstrip_first_mask".
201112-23:01:07,575 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.func_preproc_fsl_afni_mean_mcflirt_0.func_preproc_fsl_afni_mean_mcflirt_0_skullstrip.unifize" in "/outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/func_preproc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_matching_run-1/unifize".
201112-23:01:07,584 nipype.workflow INFO:
[Node] Running "unifize" ("nipype.interfaces.afni.utils.Unifize"), a CommandLine Interface with command:
3dUnifize -clfrac 0.2 -rbt 18.3 65.0 90.0 -prefix uni.nii.gz -T2 -input /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/func_preproc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_matching_run-1/unifize/sub-018_ses-1_task-matching_run-1_bold_calc_despike_tshift_resample_mcf_tstat_brain_masked.nii.gz
201112-23:01:07,834 nipype.interface INFO:
stderr 2020-11-12T23:01:07.833999:++ 3dUnifize: AFNI version=AFNI_20.2.19 (Sep 27 2020) [64-bit]
201112-23:02:20,878 nipype.interface INFO:
stderr 2020-11-12T23:02:20.878421: + Pre-processing: IAV..UW[s4229]Im
201112-23:02:20,894 nipype.interface INFO:
stderr 2020-11-12T23:02:20.894303:++ Output dataset ./uni.nii.gz
201112-23:02:20,894 nipype.interface INFO:
stderr 2020-11-12T23:02:20.894815:++ ===== Elapsed = 73.1 sec
201112-23:02:21,71 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.func_preproc_fsl_afni_mean_mcflirt_0.func_preproc_fsl_afni_mean_mcflirt_0_skullstrip.unifize".
201112-23:02:21,72 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.func_preproc_fsl_afni_mean_mcflirt_0.func_preproc_fsl_afni_mean_mcflirt_0_skullstrip.skullstrip_second_pass" in "/outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/func_preproc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_matching_run-1/skullstrip_second_pass".
201112-23:02:21,80 nipype.workflow INFO:
[Node] Running "skullstrip_second_pass" ("nipype.interfaces.afni.preprocess.Automask"), a CommandLine Interface with command:
3dAutomask -apply_prefix uni_masked.nii.gz -dilate 1 -prefix uni_mask.nii.gz /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/func_preproc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_matching_run-1/skullstrip_second_pass/uni.nii.gz
201112-23:02:21,327 nipype.interface INFO:
stderr 2020-11-12T23:02:21.327029:++ 3dAutomask: AFNI version=AFNI_20.2.19 (Sep 27 2020) [64-bit]
201112-23:02:21,327 nipype.interface INFO:
stderr 2020-11-12T23:02:21.327452:++ Authored by: Emperor Zhark
201112-23:02:21,330 nipype.interface INFO:
stderr 2020-11-12T23:02:21.330221:++ Loading dataset /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/func_preproc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_matching_run-1/skullstrip_second_pass/uni.nii.gz
201112-23:02:21,335 nipype.interface INFO:
stderr 2020-11-12T23:02:21.335556:++ Forming automask
201112-23:02:21,336 nipype.interface INFO:
stderr 2020-11-12T23:02:21.336932: + Fixed clip level = 438.687286
201112-23:02:21,340 nipype.interface INFO:
stderr 2020-11-12T23:02:21.340197: + Used gradual clip level = 395.908905 .. 496.259399
201112-23:02:21,340 nipype.interface INFO:
stderr 2020-11-12T23:02:21.340399: + Number voxels above clip level = 28163
201112-23:02:21,340 nipype.interface INFO:
stderr 2020-11-12T23:02:21.340748: + Clustering voxels ...
201112-23:02:21,341 nipype.interface INFO:
stderr 2020-11-12T23:02:21.341865: + Largest cluster has 28155 voxels
201112-23:02:21,343 nipype.interface INFO:
stderr 2020-11-12T23:02:21.343143: + Clustering voxels ...
201112-23:02:21,344 nipype.interface INFO:
stderr 2020-11-12T23:02:21.344198: + Largest cluster has 27748 voxels
201112-23:02:21,347 nipype.interface INFO:
stderr 2020-11-12T23:02:21.347554: + Filled 541 voxels in small holes; now have 28289 voxels
201112-23:02:21,351 nipype.interface INFO:
stderr 2020-11-12T23:02:21.351025: + Filled 3 voxels in large holes; now have 28292 voxels
201112-23:02:21,352 nipype.interface INFO:
stderr 2020-11-12T23:02:21.352230: + Clustering voxels ...
201112-23:02:21,353 nipype.interface INFO:
stderr 2020-11-12T23:02:21.353262: + Largest cluster has 28292 voxels
201112-23:02:21,353 nipype.interface INFO:
stderr 2020-11-12T23:02:21.353492: + Clustering non-brain voxels ...
201112-23:02:21,353 nipype.interface INFO:
stderr 2020-11-12T23:02:21.353634: + Clustering voxels ...
201112-23:02:21,356 nipype.interface INFO:
stderr 2020-11-12T23:02:21.356505: + Largest cluster has 110929 voxels
201112-23:02:21,356 nipype.interface INFO:
stderr 2020-11-12T23:02:21.356830: + Mask now has 28335 voxels
201112-23:02:21,356 nipype.interface INFO:
stderr 2020-11-12T23:02:21.356979:++ Dilating automask
201112-23:02:21,362 nipype.interface INFO:
stderr 2020-11-12T23:02:21.362100: + Clustering voxels ...
201112-23:02:21,364 nipype.interface INFO:
stderr 2020-11-12T23:02:21.364718: + Largest cluster has 105350 voxels
201112-23:02:21,365 nipype.interface INFO:
stderr 2020-11-12T23:02:21.365099:++ 33914 voxels in the mask [out of 139264: 24.35%]
201112-23:02:21,365 nipype.interface INFO:
stderr 2020-11-12T23:02:21.365267:++ first 10 x-planes are zero [from R]
201112-23:02:21,365 nipype.interface INFO:
stderr 2020-11-12T23:02:21.365429:++ last 9 x-planes are zero [from L]
201112-23:02:21,365 nipype.interface INFO:
stderr 2020-11-12T23:02:21.365579:++ first 3 y-planes are zero [from P]
201112-23:02:21,365 nipype.interface INFO:
stderr 2020-11-12T23:02:21.365728:++ last 8 y-planes are zero [from A]
201112-23:02:21,365 nipype.interface INFO:
stderr 2020-11-12T23:02:21.365860:++ first 0 z-planes are zero [from I]
201112-23:02:21,366 nipype.interface INFO:
stderr 2020-11-12T23:02:21.365993:++ last 1 z-planes are zero [from S]
201112-23:02:21,370 nipype.interface INFO:
stderr 2020-11-12T23:02:21.370182:++ Output dataset ./uni_mask.nii.gz
201112-23:02:21,370 nipype.interface INFO:
stderr 2020-11-12T23:02:21.370355:++ applying mask to original data
201112-23:02:21,371 nipype.interface INFO:
stderr 2020-11-12T23:02:21.371027:++ Writing masked data
201112-23:02:21,385 nipype.interface INFO:
stderr 2020-11-12T23:02:21.385342:++ Output dataset ./uni_masked.nii.gz
201112-23:02:21,385 nipype.interface INFO:
stderr 2020-11-12T23:02:21.385636:++ CPU time = 0.000000 sec
201112-23:02:21,539 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.func_preproc_fsl_afni_mean_mcflirt_0.func_preproc_fsl_afni_mean_mcflirt_0_skullstrip.skullstrip_second_pass".
201112-23:02:21,541 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.func_preproc_fsl_afni_mean_mcflirt_0.func_preproc_fsl_afni_mean_mcflirt_0_skullstrip.combine_masks" in "/outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/func_preproc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_matching_run-1/combine_masks".
201112-23:02:21,549 nipype.workflow INFO:
[Node] Running "combine_masks" ("nipype.interfaces.fsl.maths.BinaryMaths"), a CommandLine Interface with command:
fslmaths /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/func_preproc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_matching_run-1/skullstrip_first_pass/sub-018_ses-1_task-matching_run-1_bold_calc_despike_tshift_resample_mcf_tstat_brain_mask.nii.gz -mul /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/func_preproc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_matching_run-1/skullstrip_second_pass/uni_mask.nii.gz /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/func_preproc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_matching_run-1/combine_masks/sub-018_ses-1_task-matching_run-1_bold_calc_despike_tshift_resample_mcf_tstat_brain_mask_maths.nii.gz
201112-23:02:21,950 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.func_preproc_fsl_afni_mean_mcflirt_0.func_preproc_fsl_afni_mean_mcflirt_0_skullstrip.combine_masks".
201112-23:02:21,951 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.nuisance_regressor_0_0.GlobalSignal_merge_masks" in "/outputs/tmp/resting_preproc_sub-018_ses-1/nuisance_regressor_0_0/_scan_matching_run-1/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/GlobalSignal_merge_masks".
201112-23:02:21,959 nipype.workflow INFO:
[Node] Running "GlobalSignal_merge_masks" ("nipype.interfaces.utility.base.Merge")
201112-23:02:22,187 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.nuisance_regressor_0_0.GlobalSignal_merge_masks".
201112-23:02:22,188 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.nuisance_regressor_0_0.GlobalSignal_union_masks" in "/outputs/tmp/resting_preproc_sub-018_ses-1/nuisance_regressor_0_0/_scan_matching_run-1/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/GlobalSignal_union_masks".
201112-23:02:22,198 nipype.workflow INFO:
[Node] Running "GlobalSignal_union_masks" ("CPAC.utils.interfaces.masktool.MaskTool"), a CommandLine Interface with command:
3dmask_tool -prefix sub-018_ses-1_task-matching_run-1_bold_calc_despike_tshift_resample_mcf_tstat_brain_mask_maths_mask.nii.gz -input /outputs/tmp/resting_preproc_sub-018_ses-1/nuisance_regressor_0_0/_scan_matching_run-1/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/GlobalSignal_union_masks/sub-018_ses-1_task-matching_run-1_bold_calc_despike_tshift_resample_mcf_tstat_brain_mask_maths.nii.gz
201112-23:02:22,439 nipype.interface INFO:
stderr 2020-11-12T23:02:22.439889:++ no -frac option: defaulting to -union
201112-23:02:22,440 nipype.interface INFO:
stderr 2020-11-12T23:02:22.440198:++ processing 1 input dataset(s), NN=2...
201112-23:02:22,440 nipype.interface INFO:
stderr 2020-11-12T23:02:22.440358:++ padding all datasets by 0 (for dilations)
201112-23:02:22,445 nipype.interface INFO:
stderr 2020-11-12T23:02:22.445093:++ frac 0 over 1 volumes gives min count 0
201112-23:02:22,445 nipype.interface INFO:
stderr 2020-11-12T23:02:22.445486:++ voxel limits: 0 clipped, 33830 survived, 105434 were zero
201112-23:02:22,445 nipype.interface INFO:
stderr 2020-11-12T23:02:22.445660:++ writing result sub-018_ses-1_task-matching_run-1_bold_calc_despike_tshift_resample_mcf_tstat_brain_mask_maths_mask.nii.gz...
201112-23:02:22,449 nipype.interface INFO:
stderr 2020-11-12T23:02:22.449944:++ Output dataset ./sub-018_ses-1_task-matching_run-1_bold_calc_despike_tshift_resample_mcf_tstat_brain_mask_maths_mask.nii.gz
201112-23:02:22,603 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.nuisance_regressor_0_0.GlobalSignal_union_masks".
201112-23:02:22,604 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.sinker_0_functional_brain_mask" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_matching_run-1/sinker_0_functional_brain_mask".
201112-23:02:22,613 nipype.workflow INFO:
[Node] Running "sinker_0_functional_brain_mask" ("CPAC.utils.interfaces.datasink.DataSink")
201112-23:02:22,844 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.sinker_0_functional_brain_mask".
201112-23:02:22,846 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.functional_brain_mask_derivative_0" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_matching_run-1/functional_brain_mask_derivative_0".
201112-23:02:22,852 nipype.workflow INFO:
[Node] Running "functional_brain_mask_derivative_0" ("CPAC.utils.interfaces.function.Function")
201112-23:02:23,66 nipype.workflow INFO:
[Node] Setting-up "functional_brain_mask_derivative" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_matching_run-1/functional_brain_mask_derivative_0/functional_brain_mask_derivative".
201112-23:02:23,74 nipype.workflow INFO:
[Node] Running "functional_brain_mask_derivative" ("nipype.interfaces.afni.utils.Resample"), a CommandLine Interface with command:
3dresample -prefix sub-018_ses-1_task-matching_run-1_bold_calc_despike_tshift_resample_mcf_tstat_brain_mask_maths_resample.nii.gz -rmode Cu -dxyz 2.000000 2.000000 2.000000 -inset /outputs/tmp/resting_preproc_sub-018_ses-1/_scan_matching_run-1/functional_brain_mask_derivative_0/functional_brain_mask_derivative/sub-018_ses-1_task-matching_run-1_bold_calc_despike_tshift_resample_mcf_tstat_brain_mask_maths.nii.gz
201112-23:02:23,553 nipype.workflow INFO:
[Node] Finished "functional_brain_mask_derivative".
201112-23:02:23,569 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.functional_brain_mask_derivative_0".
201112-23:02:23,571 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.func_preproc_fsl_afni_mean_mcflirt_0.func_preproc_fsl_afni_mean_mcflirt_0_skullstrip.func_extract_brain" in "/outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/func_preproc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_matching_run-1/func_extract_brain".
201112-23:02:23,578 nipype.workflow INFO:
[Node] Running "func_extract_brain" ("nipype.interfaces.afni.utils.Calc"), a CommandLine Interface with command:
3dcalc -a /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/_scan_matching_run-1/func_motion_correct_mcflirt/sub-018_ses-1_task-matching_run-1_bold_calc_despike_tshift_resample_mcf.nii.gz -b /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/func_preproc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_matching_run-1/combine_masks/sub-018_ses-1_task-matching_run-1_bold_calc_despike_tshift_resample_mcf_tstat_brain_mask_maths.nii.gz -expr "a*b" -prefix sub-018_ses-1_task-matching_run-1_bold_calc_despike_tshift_resample_mcf_calc.nii.gz
201112-23:02:23,818 nipype.interface INFO:
stderr 2020-11-12T23:02:23.818944:++ 3dcalc: AFNI version=AFNI_20.2.19 (Sep 27 2020) [64-bit]
201112-23:02:23,819 nipype.interface INFO:
stderr 2020-11-12T23:02:23.819248:++ Authored by: A cast of thousands
201112-23:02:26,121 nipype.interface INFO:
stderr 2020-11-12T23:02:26.121735:++ Output dataset ./sub-018_ses-1_task-matching_run-1_bold_calc_despike_tshift_resample_mcf_calc.nii.gz
201112-23:02:26,302 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.func_preproc_fsl_afni_mean_mcflirt_0.func_preproc_fsl_afni_mean_mcflirt_0_skullstrip.func_extract_brain".
201112-23:02:26,303 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.func_preproc_fsl_afni_mean_mcflirt_0.func_normalize" in "/outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/_scan_matching_run-1/func_normalize".
201112-23:02:26,312 nipype.workflow INFO:
[Node] Running "func_normalize" ("nipype.interfaces.fsl.utils.ImageMaths"), a CommandLine Interface with command:
fslmaths /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/func_preproc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_matching_run-1/func_extract_brain/sub-018_ses-1_task-matching_run-1_bold_calc_despike_tshift_resample_mcf_calc.nii.gz -ing 10000 /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/_scan_matching_run-1/func_normalize/sub-018_ses-1_task-matching_run-1_bold_calc_despike_tshift_resample_mcf_calc_maths.nii.gz -odt float
201112-23:02:28,70 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.func_preproc_fsl_afni_mean_mcflirt_0.func_normalize".
201112-23:02:28,71 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.nuisance_regressor_0_0.GlobalSignal_mean" in "/outputs/tmp/resting_preproc_sub-018_ses-1/nuisance_regressor_0_0/_scan_matching_run-1/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/GlobalSignal_mean".
201112-23:02:28,79 nipype.workflow INFO:
[Node] Running "GlobalSignal_mean" ("nipype.interfaces.afni.preprocess.ROIStats"), a CommandLine Interface with command:
3dROIstats -mask /outputs/tmp/resting_preproc_sub-018_ses-1/nuisance_regressor_0_0/_scan_matching_run-1/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/GlobalSignal_union_masks/sub-018_ses-1_task-matching_run-1_bold_calc_despike_tshift_resample_mcf_tstat_brain_mask_maths_mask.nii.gz -1Dformat /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/_scan_matching_run-1/func_normalize/sub-018_ses-1_task-matching_run-1_bold_calc_despike_tshift_resample_mcf_calc_maths.nii.gz
201112-23:02:28,833 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.nuisance_regressor_0_0.GlobalSignal_mean".
201112-23:02:28,835 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.nuisance_regressor_0_0.functional_mean" in "/outputs/tmp/resting_preproc_sub-018_ses-1/nuisance_regressor_0_0/_scan_matching_run-1/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/functional_mean".
201112-23:02:28,843 nipype.workflow INFO:
[Node] Running "functional_mean" ("nipype.interfaces.afni.utils.TStat"), a CommandLine Interface with command:
3dTstat -mean -prefix sub-018_ses-1_task-matching_run-1_bold_calc_despike_tshift_resample_mcf_calc_maths_tstat.nii.gz /outputs/tmp/resting_preproc_sub-018_ses-1/nuisance_regressor_0_0/_scan_matching_run-1/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/functional_mean/sub-018_ses-1_task-matching_run-1_bold_calc_despike_tshift_resample_mcf_calc_maths.nii.gz
201112-23:02:29,86 nipype.interface INFO:
stderr 2020-11-12T23:02:29.086805:++ 3dTstat: AFNI version=AFNI_20.2.19 (Sep 27 2020) [64-bit]
201112-23:02:29,87 nipype.interface INFO:
stderr 2020-11-12T23:02:29.087125:++ Authored by: KR Hammett & RW Cox
201112-23:02:29,521 nipype.interface INFO:
stderr 2020-11-12T23:02:29.520936:++ Output dataset ./sub-018_ses-1_task-matching_run-1_bold_calc_despike_tshift_resample_mcf_calc_maths_tstat.nii.gz
201112-23:02:29,678 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.nuisance_regressor_0_0.functional_mean".
201112-23:02:29,679 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.qc_snr_0.std_dev" in "/outputs/tmp/resting_preproc_sub-018_ses-1/qc_snr_0/_scan_matching_run-1/std_dev".
201112-23:02:29,689 nipype.workflow INFO:
[Node] Running "std_dev" ("nipype.interfaces.afni.utils.TStat"), a CommandLine Interface with command:
3dTstat -stdev -mask /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/func_preproc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_matching_run-1/combine_masks/sub-018_ses-1_task-matching_run-1_bold_calc_despike_tshift_resample_mcf_tstat_brain_mask_maths.nii.gz -prefix sub-018_ses-1_task-matching_run-1_bold_calc_despike_tshift_resample_mcf_calc_maths_tstat.nii.gz /outputs/tmp/resting_preproc_sub-018_ses-1/qc_snr_0/_scan_matching_run-1/std_dev/sub-018_ses-1_task-matching_run-1_bold_calc_despike_tshift_resample_mcf_calc_maths.nii.gz
201112-23:02:29,938 nipype.interface INFO:
stderr 2020-11-12T23:02:29.938139:++ 3dTstat: AFNI version=AFNI_20.2.19 (Sep 27 2020) [64-bit]
201112-23:02:29,938 nipype.interface INFO:
stderr 2020-11-12T23:02:29.938451:++ Authored by: KR Hammett & RW Cox
201112-23:02:30,337 nipype.interface INFO:
stderr 2020-11-12T23:02:30.337015:++ Output dataset ./sub-018_ses-1_task-matching_run-1_bold_calc_despike_tshift_resample_mcf_calc_maths_tstat.nii.gz
201112-23:02:30,491 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.qc_snr_0.std_dev".
201112-23:02:30,492 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.sinker_0_functional_preprocessed" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_matching_run-1/sinker_0_functional_preprocessed".
201112-23:02:30,501 nipype.workflow INFO:
[Node] Running "sinker_0_functional_preprocessed" ("CPAC.utils.interfaces.datasink.DataSink")
201112-23:02:30,727 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.sinker_0_functional_preprocessed".
201112-23:02:30,728 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.func_preproc_fsl_afni_mean_mcflirt_0.func_mask_normalize" in "/outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/_scan_matching_run-1/func_mask_normalize".
201112-23:02:30,737 nipype.workflow INFO:
[Node] Running "func_mask_normalize" ("nipype.interfaces.fsl.utils.ImageMaths"), a CommandLine Interface with command:
fslmaths /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/_scan_matching_run-1/func_normalize/sub-018_ses-1_task-matching_run-1_bold_calc_despike_tshift_resample_mcf_calc_maths.nii.gz -Tmin -bin /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/_scan_matching_run-1/func_mask_normalize/sub-018_ses-1_task-matching_run-1_bold_calc_despike_tshift_resample_mcf_calc_maths_maths.nii.gz -odt char
201112-23:02:31,608 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.func_preproc_fsl_afni_mean_mcflirt_0.func_mask_normalize".
201112-23:02:31,610 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.sinker_0_functional_preprocessed_mask" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_matching_run-1/sinker_0_functional_preprocessed_mask".
201112-23:02:31,619 nipype.workflow INFO:
[Node] Running "sinker_0_functional_preprocessed_mask" ("CPAC.utils.interfaces.datasink.DataSink")
201112-23:02:31,847 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.sinker_0_functional_preprocessed_mask".
201112-23:02:31,849 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.func_preproc_fsl_afni_mean_mcflirt_0.func_mean" in "/outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/_scan_matching_run-1/func_mean".
201112-23:02:31,857 nipype.workflow INFO:
[Node] Running "func_mean" ("nipype.interfaces.afni.utils.TStat"), a CommandLine Interface with command:
3dTstat -mean -prefix sub-018_ses-1_task-matching_run-1_bold_calc_despike_tshift_resample_mcf_calc_tstat.nii.gz /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/_scan_matching_run-1/func_mean/sub-018_ses-1_task-matching_run-1_bold_calc_despike_tshift_resample_mcf_calc.nii.gz
201112-23:02:32,102 nipype.interface INFO:
stderr 2020-11-12T23:02:32.102604:++ 3dTstat: AFNI version=AFNI_20.2.19 (Sep 27 2020) [64-bit]
201112-23:02:32,102 nipype.interface INFO:
stderr 2020-11-12T23:02:32.102925:++ Authored by: KR Hammett & RW Cox
201112-23:02:32,517 nipype.interface INFO:
stderr 2020-11-12T23:02:32.517354:++ Output dataset ./sub-018_ses-1_task-matching_run-1_bold_calc_despike_tshift_resample_mcf_calc_tstat.nii.gz
201112-23:02:32,673 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.func_preproc_fsl_afni_mean_mcflirt_0.func_mean".
201112-23:02:32,675 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.sinker_0_mean_functional" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_matching_run-1/sinker_0_mean_functional".
201112-23:02:32,684 nipype.workflow INFO:
[Node] Running "sinker_0_mean_functional" ("CPAC.utils.interfaces.datasink.DataSink")
201112-23:02:32,914 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.sinker_0_mean_functional".
201112-23:02:32,915 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.func_preproc_fsl_afni_mean_mcflirt_0.norm_motion_params" in "/outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/_scan_matching_run-1/norm_motion_params".
201112-23:02:32,923 nipype.workflow INFO:
[Node] Running "norm_motion_params" ("CPAC.utils.interfaces.function.Function")
201112-23:02:33,156 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.func_preproc_fsl_afni_mean_mcflirt_0.norm_motion_params".
201112-23:02:33,157 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.sinker_0_slice_time_corrected" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_matching_run-1/sinker_0_slice_time_corrected".
201112-23:02:33,167 nipype.workflow INFO:
[Node] Running "sinker_0_slice_time_corrected" ("CPAC.utils.interfaces.datasink.DataSink")
201112-23:02:33,399 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.sinker_0_slice_time_corrected".
201112-23:02:33,400 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.sinker_0_raw_functional" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_matching_run-1/sinker_0_raw_functional".
201112-23:02:33,415 nipype.workflow INFO:
[Node] Running "sinker_0_raw_functional" ("CPAC.utils.interfaces.datasink.DataSink")
201112-23:02:33,728 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.sinker_0_raw_functional".
201112-23:02:33,729 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.func_gather_0.check_func_scan" in "/outputs/tmp/resting_preproc_sub-018_ses-1/func_gather_0/_scan_matching_run-1/check_func_scan".
201112-23:02:33,767 nipype.workflow INFO:
[Node] Running "check_func_scan" ("CPAC.utils.interfaces.function.Function")
201112-23:02:34,2 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.func_gather_0.check_func_scan".
201112-23:02:34,12 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.func_gather_0.select_scan_params" in "/outputs/tmp/resting_preproc_sub-018_ses-1/func_gather_0/_scan_conditioning_run-1/select_scan_params".
201112-23:02:34,43 nipype.workflow INFO:
[Node] Running "select_scan_params" ("CPAC.utils.interfaces.function.Function")
201112-23:02:34,290 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.func_gather_0.select_scan_params".
201112-23:02:34,302 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.func_gather_0.s3_scan_params" in "/outputs/tmp/resting_preproc_sub-018_ses-1/func_gather_0/_scan_conditioning_run-1/s3_scan_params".
201112-23:02:34,312 nipype.workflow INFO:
[Node] Running "s3_scan_params" ("CPAC.utils.interfaces.function.Function")
201112-23:02:34,548 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.func_gather_0.s3_scan_params".
201112-23:02:34,551 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.scan_params_0" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_conditioning_run-1/scan_params_0".
201112-23:02:34,563 nipype.workflow INFO:
[Node] Running "scan_params_0" ("CPAC.utils.interfaces.function.Function")
201112-23:02:34,797 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.scan_params_0".
201112-23:02:34,799 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.func_gather_0.selectrest" in "/outputs/tmp/resting_preproc_sub-018_ses-1/func_gather_0/_scan_conditioning_run-1/selectrest".
201112-23:02:34,833 nipype.workflow INFO:
[Node] Running "selectrest" ("CPAC.utils.interfaces.function.Function")
201112-23:02:35,74 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.func_gather_0.selectrest".
201112-23:02:35,85 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.func_gather_0.check_for_s3" in "/outputs/tmp/resting_preproc_sub-018_ses-1/func_gather_0/_scan_conditioning_run-1/check_for_s3".
201112-23:02:35,92 nipype.workflow INFO:
[Node] Running "check_for_s3" ("CPAC.utils.interfaces.function.Function")
201112-23:02:35,409 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.func_gather_0.check_for_s3".
201112-23:02:35,411 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.edit_func_0.func_get_idx" in "/outputs/tmp/resting_preproc_sub-018_ses-1/edit_func_0/_scan_conditioning_run-1/func_get_idx".
201112-23:02:35,420 nipype.workflow INFO:
[Node] Running "func_get_idx" ("nipype.interfaces.utility.wrappers.Function")
201112-23:02:35,657 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.edit_func_0.func_get_idx".
201112-23:02:35,658 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.edit_func_0.func_drop_trs" in "/outputs/tmp/resting_preproc_sub-018_ses-1/edit_func_0/_scan_conditioning_run-1/func_drop_trs".
201112-23:02:35,667 nipype.workflow INFO:
[Node] Running "func_drop_trs" ("nipype.interfaces.afni.utils.Calc"), a CommandLine Interface with command:
3dcalc -a /bids_dataset/sub-018/ses-1/func/sub-018_ses-1_task-conditioning_run-1_bold.nii.gz[0..150] -expr "a" -prefix sub-018_ses-1_task-conditioning_run-1_bold_calc.nii.gz
201112-23:02:35,921 nipype.interface INFO:
stderr 2020-11-12T23:02:35.921587:++ 3dcalc: AFNI version=AFNI_20.2.19 (Sep 27 2020) [64-bit]
201112-23:02:35,922 nipype.interface INFO:
stderr 2020-11-12T23:02:35.922017:++ Authored by: A cast of thousands
201112-23:02:42,668 nipype.interface INFO:
stderr 2020-11-12T23:02:42.667966:++ Output dataset ./sub-018_ses-1_task-conditioning_run-1_bold_calc.nii.gz
201112-23:02:42,850 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.edit_func_0.func_drop_trs".
201112-23:02:42,851 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_deoblique" in "/outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/_scan_conditioning_run-1/func_deoblique".
201112-23:02:42,899 nipype.workflow INFO:
[Node] Running "func_deoblique" ("nipype.interfaces.afni.utils.Refit"), a CommandLine Interface with command:
3drefit -deoblique /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/_scan_conditioning_run-1/func_deoblique/sub-018_ses-1_task-conditioning_run-1_bold_calc.nii.gz
201112-23:02:43,144 nipype.interface INFO:
stderr 2020-11-12T23:02:43.143971:++ 3drefit: AFNI version=AFNI_20.2.19 (Sep 27 2020) [64-bit]
201112-23:02:43,144 nipype.interface INFO:
stderr 2020-11-12T23:02:43.144302:++ Authored by: RW Cox
201112-23:02:43,146 nipype.interface INFO:
stderr 2020-11-12T23:02:43.146821:++ Processing AFNI dataset /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/_scan_conditioning_run-1/func_deoblique/sub-018_ses-1_task-conditioning_run-1_bold_calc.nii.gz
201112-23:02:43,147 nipype.interface INFO:
stderr 2020-11-12T23:02:43.147429: + deoblique
201112-23:02:43,147 nipype.interface INFO:
stderr 2020-11-12T23:02:43.147628: + loading and re-writing dataset /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/_scan_conditioning_run-1/func_deoblique/sub-018_ses-1_task-conditioning_run-1_bold_calc.nii.gz (/outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/_scan_conditioning_run-1/func_deoblique/sub-018_ses-1_task-conditioning_run-1_bold_calc.nii.gz in NIFTI storage)
201112-23:02:47,632 nipype.interface INFO:
stderr 2020-11-12T23:02:47.632527:++ 3drefit processed 1 datasets
201112-23:02:47,811 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_deoblique".
201112-23:02:47,812 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_reorient" in "/outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/_scan_conditioning_run-1/func_reorient".
201112-23:02:47,821 nipype.workflow INFO:
[Node] Running "func_reorient" ("nipype.interfaces.afni.utils.Resample"), a CommandLine Interface with command:
3dresample -orient RPI -prefix sub-018_ses-1_task-conditioning_run-1_bold_calc_resample.nii.gz -inset /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/_scan_conditioning_run-1/func_reorient/sub-018_ses-1_task-conditioning_run-1_bold_calc.nii.gz
201112-23:02:53,109 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_reorient".
201112-23:02:53,110 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_get_mean_RPI" in "/outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/_scan_conditioning_run-1/func_get_mean_RPI".
201112-23:02:53,119 nipype.workflow INFO:
[Node] Running "func_get_mean_RPI" ("nipype.interfaces.afni.utils.TStat"), a CommandLine Interface with command:
3dTstat -mean -prefix sub-018_ses-1_task-conditioning_run-1_bold_calc_resample_tstat.nii.gz /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/_scan_conditioning_run-1/func_get_mean_RPI/sub-018_ses-1_task-conditioning_run-1_bold_calc_resample.nii.gz
201112-23:02:53,359 nipype.interface INFO:
stderr 2020-11-12T23:02:53.359349:++ 3dTstat: AFNI version=AFNI_20.2.19 (Sep 27 2020) [64-bit]
201112-23:02:53,359 nipype.interface INFO:
stderr 2020-11-12T23:02:53.359878:++ Authored by: KR Hammett & RW Cox
201112-23:02:53,869 nipype.interface INFO:
stderr 2020-11-12T23:02:53.869013:++ Output dataset ./sub-018_ses-1_task-conditioning_run-1_bold_calc_resample_tstat.nii.gz
201112-23:02:54,23 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_get_mean_RPI".
201112-23:02:54,25 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_generate_ref" in "/outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/_scan_conditioning_run-1/func_generate_ref".
201112-23:02:54,34 nipype.workflow INFO:
[Node] Running "func_generate_ref" ("nipype.interfaces.afni.preprocess.Volreg"), a CommandLine Interface with command:
3dvolreg -twopass -Fourier -1Dfile sub-018_ses-1_task-conditioning_run-1_bold_calc_resample.1D -1Dmatrix_save sub-018_ses-1_task-conditioning_run-1_bold_calc_resample.aff12.1D -prefix sub-018_ses-1_task-conditioning_run-1_bold_calc_resample_volreg.nii.gz -base /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/_scan_conditioning_run-1/func_get_mean_RPI/sub-018_ses-1_task-conditioning_run-1_bold_calc_resample_tstat.nii.gz -zpad 4 -maxdisp1D sub-018_ses-1_task-conditioning_run-1_bold_calc_resample_md.1D /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/_scan_conditioning_run-1/func_generate_ref/sub-018_ses-1_task-conditioning_run-1_bold_calc_resample.nii.gz
201112-23:02:54,279 nipype.interface INFO:
stderr 2020-11-12T23:02:54.279774:++ 3dvolreg: AFNI version=AFNI_20.2.19 (Sep 27 2020) [64-bit]
201112-23:02:54,280 nipype.interface INFO:
stderr 2020-11-12T23:02:54.280101:++ Authored by: RW Cox
201112-23:02:54,291 nipype.interface INFO:
stderr 2020-11-12T23:02:54.291505:++ Coarse del was 10, replaced with 3
201112-23:05:02,497 nipype.interface INFO:
stderr 2020-11-12T23:05:02.497229:++ Max displacement in automask = 11.13 (mm) at sub-brick 101
201112-23:05:02,497 nipype.interface INFO:
stderr 2020-11-12T23:05:02.497746:++ Max delta displ in automask = 7.95 (mm) at sub-brick 100
201112-23:05:06,905 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_generate_ref".
201112-23:05:06,907 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_get_mean_motion" in "/outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/_scan_conditioning_run-1/func_get_mean_motion".
201112-23:05:06,916 nipype.workflow INFO:
[Node] Running "func_get_mean_motion" ("nipype.interfaces.afni.utils.TStat"), a CommandLine Interface with command:
3dTstat -mean -prefix sub-018_ses-1_task-conditioning_run-1_bold_calc_resample_volreg_tstat.nii.gz /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/_scan_conditioning_run-1/func_get_mean_motion/sub-018_ses-1_task-conditioning_run-1_bold_calc_resample_volreg.nii.gz
201112-23:05:07,167 nipype.interface INFO:
stderr 2020-11-12T23:05:07.167752:++ 3dTstat: AFNI version=AFNI_20.2.19 (Sep 27 2020) [64-bit]
201112-23:05:07,168 nipype.interface INFO:
stderr 2020-11-12T23:05:07.168062:++ Authored by: KR Hammett & RW Cox
201112-23:05:07,688 nipype.interface INFO:
stderr 2020-11-12T23:05:07.688878:++ Output dataset ./sub-018_ses-1_task-conditioning_run-1_bold_calc_resample_volreg_tstat.nii.gz
201112-23:05:07,843 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_get_mean_motion".
201112-23:05:07,844 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_motion_correct_mcflirt" in "/outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/_scan_conditioning_run-1/func_motion_correct_mcflirt".
201112-23:05:07,853 nipype.workflow INFO:
[Node] Running "func_motion_correct_mcflirt" ("nipype.interfaces.fsl.preprocess.MCFLIRT"), a CommandLine Interface with command:
mcflirt -in /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/_scan_conditioning_run-1/func_reorient/sub-018_ses-1_task-conditioning_run-1_bold_calc_resample.nii.gz -out /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/_scan_conditioning_run-1/func_motion_correct_mcflirt/sub-018_ses-1_task-conditioning_run-1_bold_calc_resample_mcf.nii.gz -reffile /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/_scan_conditioning_run-1/func_get_mean_motion/sub-018_ses-1_task-conditioning_run-1_bold_calc_resample_volreg_tstat.nii.gz -mats -plots -rmsabs -rmsrel
201112-23:05:34,330 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_motion_correct_mcflirt".
201112-23:05:34,342 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.gen_motion_stats_before_stc_fsl_afni_mean_mcflirt_0.calculate_FDJ" in "/outputs/tmp/resting_preproc_sub-018_ses-1/gen_motion_stats_before_stc_fsl_afni_mean_mcflirt_0/_scan_conditioning_run-1/calculate_FDJ".
201112-23:05:34,349 nipype.workflow INFO:
[Node] Running "calculate_FDJ" ("CPAC.utils.interfaces.function.Function")
201112-23:05:34,578 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.gen_motion_stats_before_stc_fsl_afni_mean_mcflirt_0.calculate_FDJ".
201112-23:05:34,579 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.sinker_0_frame_wise_displacement_jenkinson" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_conditioning_run-1/sinker_0_frame_wise_displacement_jenkinson".
201112-23:05:34,588 nipype.workflow INFO:
[Node] Running "sinker_0_frame_wise_displacement_jenkinson" ("CPAC.utils.interfaces.datasink.DataSink")
201112-23:05:34,817 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.sinker_0_frame_wise_displacement_jenkinson".
201112-23:05:34,819 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.sinker_0_max_displacement" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_conditioning_run-1/sinker_0_max_displacement".
201112-23:05:34,830 nipype.workflow INFO:
[Node] Running "sinker_0_max_displacement" ("CPAC.utils.interfaces.datasink.DataSink")
201112-23:05:35,58 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.sinker_0_max_displacement".
201112-23:05:35,60 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.sinker_0_coordinate_transformation" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_conditioning_run-1/sinker_0_coordinate_transformation".
201112-23:05:35,82 nipype.workflow INFO:
[Node] Running "sinker_0_coordinate_transformation" ("CPAC.utils.interfaces.datasink.DataSink")
201112-23:05:35,357 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.sinker_0_coordinate_transformation".
201112-23:05:35,370 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip.func_mean_skull" in "/outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_conditioning_run-1/func_mean_skull".
201112-23:05:35,381 nipype.workflow INFO:
[Node] Running "func_mean_skull" ("nipype.interfaces.afni.utils.TStat"), a CommandLine Interface with command:
3dTstat -mean -prefix sub-018_ses-1_task-conditioning_run-1_bold_calc_resample_mcf_tstat.nii.gz /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_conditioning_run-1/func_mean_skull/sub-018_ses-1_task-conditioning_run-1_bold_calc_resample_mcf.nii.gz
201112-23:05:35,632 nipype.interface INFO:
stderr 2020-11-12T23:05:35.632148:++ 3dTstat: AFNI version=AFNI_20.2.19 (Sep 27 2020) [64-bit]
201112-23:05:35,632 nipype.interface INFO:
stderr 2020-11-12T23:05:35.632719:++ Authored by: KR Hammett & RW Cox
201112-23:05:36,181 nipype.interface INFO:
stderr 2020-11-12T23:05:36.181274:++ Output dataset ./sub-018_ses-1_task-conditioning_run-1_bold_calc_resample_mcf_tstat.nii.gz
201112-23:05:36,338 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip.func_mean_skull".
201112-23:05:36,339 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip.skullstrip_first_pass" in "/outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_conditioning_run-1/skullstrip_first_pass".
201112-23:05:36,348 nipype.workflow INFO:
[Node] Running "skullstrip_first_pass" ("nipype.interfaces.fsl.preprocess.BET"), a CommandLine Interface with command:
bet /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_conditioning_run-1/func_mean_skull/sub-018_ses-1_task-conditioning_run-1_bold_calc_resample_mcf_tstat.nii.gz /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_conditioning_run-1/skullstrip_first_pass/sub-018_ses-1_task-conditioning_run-1_bold_calc_resample_mcf_tstat_brain.nii.gz -f 0.20 -m
201112-23:05:38,170 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip.skullstrip_first_pass".
201112-23:05:38,172 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip.skullstrip_first_dilate" in "/outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_conditioning_run-1/skullstrip_first_dilate".
201112-23:05:38,180 nipype.workflow INFO:
[Node] Running "skullstrip_first_dilate" ("nipype.interfaces.fsl.maths.DilateImage"), a CommandLine Interface with command:
fslmaths -dt char /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_conditioning_run-1/skullstrip_first_pass/sub-018_ses-1_task-conditioning_run-1_bold_calc_resample_mcf_tstat_brain_mask.nii.gz -kernel sphere 6.0000 -dilF /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_conditioning_run-1/skullstrip_first_dilate/sub-018_ses-1_task-conditioning_run-1_bold_calc_resample_mcf_tstat_brain_mask_dil.nii.gz
201112-23:05:38,825 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip.skullstrip_first_dilate".
201112-23:05:38,827 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip.skullstrip_first_mask" in "/outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_conditioning_run-1/skullstrip_first_mask".
201112-23:05:38,836 nipype.workflow INFO:
[Node] Running "skullstrip_first_mask" ("nipype.interfaces.fsl.maths.ApplyMask"), a CommandLine Interface with command:
fslmaths /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_conditioning_run-1/skullstrip_first_pass/sub-018_ses-1_task-conditioning_run-1_bold_calc_resample_mcf_tstat_brain.nii.gz -mas /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_conditioning_run-1/skullstrip_first_dilate/sub-018_ses-1_task-conditioning_run-1_bold_calc_resample_mcf_tstat_brain_mask_dil.nii.gz /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_conditioning_run-1/skullstrip_first_mask/sub-018_ses-1_task-conditioning_run-1_bold_calc_resample_mcf_tstat_brain_masked.nii.gz
201112-23:05:39,250 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip.skullstrip_first_mask".
201112-23:05:39,251 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip.unifize" in "/outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_conditioning_run-1/unifize".
201112-23:05:39,260 nipype.workflow INFO:
[Node] Running "unifize" ("nipype.interfaces.afni.utils.Unifize"), a CommandLine Interface with command:
3dUnifize -clfrac 0.2 -rbt 18.3 65.0 90.0 -prefix uni.nii.gz -T2 -input /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_conditioning_run-1/unifize/sub-018_ses-1_task-conditioning_run-1_bold_calc_resample_mcf_tstat_brain_masked.nii.gz
201112-23:05:39,512 nipype.interface INFO:
stderr 2020-11-12T23:05:39.511997:++ 3dUnifize: AFNI version=AFNI_20.2.19 (Sep 27 2020) [64-bit]
201112-23:06:53,234 nipype.interface INFO:
stderr 2020-11-12T23:06:53.234764: + Pre-processing: IAV..UW[s4666]Im
201112-23:06:53,249 nipype.interface INFO:
stderr 2020-11-12T23:06:53.249207:++ Output dataset ./uni.nii.gz
201112-23:06:53,249 nipype.interface INFO:
stderr 2020-11-12T23:06:53.249508:++ ===== Elapsed = 73.7 sec
201112-23:06:53,423 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip.unifize".
201112-23:06:53,424 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip.skullstrip_second_pass" in "/outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_conditioning_run-1/skullstrip_second_pass".
201112-23:06:53,433 nipype.workflow INFO:
[Node] Running "skullstrip_second_pass" ("nipype.interfaces.afni.preprocess.Automask"), a CommandLine Interface with command:
3dAutomask -apply_prefix uni_masked.nii.gz -dilate 1 -prefix uni_mask.nii.gz /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_conditioning_run-1/skullstrip_second_pass/uni.nii.gz
201112-23:06:53,683 nipype.interface INFO:
stderr 2020-11-12T23:06:53.683838:++ 3dAutomask: AFNI version=AFNI_20.2.19 (Sep 27 2020) [64-bit]
201112-23:06:53,684 nipype.interface INFO:
stderr 2020-11-12T23:06:53.684249:++ Authored by: Emperor Zhark
201112-23:06:53,687 nipype.interface INFO:
stderr 2020-11-12T23:06:53.687090:++ Loading dataset /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_conditioning_run-1/skullstrip_second_pass/uni.nii.gz
201112-23:06:53,692 nipype.interface INFO:
stderr 2020-11-12T23:06:53.692932:++ Forming automask
201112-23:06:53,695 nipype.interface INFO:
stderr 2020-11-12T23:06:53.695174: + Fixed clip level = 444.249634
201112-23:06:53,698 nipype.interface INFO:
stderr 2020-11-12T23:06:53.698427: + Used gradual clip level = 401.533966 .. 506.097351
201112-23:06:53,698 nipype.interface INFO:
stderr 2020-11-12T23:06:53.698642: + Number voxels above clip level = 28287
201112-23:06:53,698 nipype.interface INFO:
stderr 2020-11-12T23:06:53.698801: + Clustering voxels ...
201112-23:06:53,699 nipype.interface INFO:
stderr 2020-11-12T23:06:53.699859: + Largest cluster has 28283 voxels
201112-23:06:53,701 nipype.interface INFO:
stderr 2020-11-12T23:06:53.701134: + Clustering voxels ...
201112-23:06:53,702 nipype.interface INFO:
stderr 2020-11-12T23:06:53.702441: + Largest cluster has 27980 voxels
201112-23:06:53,706 nipype.interface INFO:
stderr 2020-11-12T23:06:53.706047: + Filled 445 voxels in small holes; now have 28425 voxels
201112-23:06:53,709 nipype.interface INFO:
stderr 2020-11-12T23:06:53.709526: + Filled 4 voxels in large holes; now have 28429 voxels
201112-23:06:53,710 nipype.interface INFO:
stderr 2020-11-12T23:06:53.710745: + Clustering voxels ...
201112-23:06:53,711 nipype.interface INFO:
stderr 2020-11-12T23:06:53.711791: + Largest cluster has 28428 voxels
201112-23:06:53,712 nipype.interface INFO:
stderr 2020-11-12T23:06:53.712022: + Clustering non-brain voxels ...
201112-23:06:53,712 nipype.interface INFO:
stderr 2020-11-12T23:06:53.712167: + Clustering voxels ...
201112-23:06:53,715 nipype.interface INFO:
stderr 2020-11-12T23:06:53.715069: + Largest cluster has 110765 voxels
201112-23:06:53,715 nipype.interface INFO:
stderr 2020-11-12T23:06:53.715399: + Mask now has 28499 voxels
201112-23:06:53,715 nipype.interface INFO:
stderr 2020-11-12T23:06:53.715562:++ Dilating automask
201112-23:06:53,722 nipype.interface INFO:
stderr 2020-11-12T23:06:53.722879: + Clustering voxels ...
201112-23:06:53,725 nipype.interface INFO:
stderr 2020-11-12T23:06:53.725351: + Largest cluster has 105214 voxels
201112-23:06:53,725 nipype.interface INFO:
stderr 2020-11-12T23:06:53.725694:++ 34050 voxels in the mask [out of 139264: 24.45%]
201112-23:06:53,725 nipype.interface INFO:
stderr 2020-11-12T23:06:53.725863:++ first 10 x-planes are zero [from R]
201112-23:06:53,726 nipype.interface INFO:
stderr 2020-11-12T23:06:53.726024:++ last 9 x-planes are zero [from L]
201112-23:06:53,726 nipype.interface INFO:
stderr 2020-11-12T23:06:53.726163:++ first 3 y-planes are zero [from P]
201112-23:06:53,726 nipype.interface INFO:
stderr 2020-11-12T23:06:53.726310:++ last 8 y-planes are zero [from A]
201112-23:06:53,726 nipype.interface INFO:
stderr 2020-11-12T23:06:53.726446:++ first 0 z-planes are zero [from I]
201112-23:06:53,726 nipype.interface INFO:
stderr 2020-11-12T23:06:53.726591:++ last 2 z-planes are zero [from S]
201112-23:06:53,731 nipype.interface INFO:
stderr 2020-11-12T23:06:53.730998:++ Output dataset ./uni_mask.nii.gz
201112-23:06:53,731 nipype.interface INFO:
stderr 2020-11-12T23:06:53.731171:++ applying mask to original data
201112-23:06:53,731 nipype.interface INFO:
stderr 2020-11-12T23:06:53.731842:++ Writing masked data
201112-23:06:53,746 nipype.interface INFO:
stderr 2020-11-12T23:06:53.746238:++ Output dataset ./uni_masked.nii.gz
201112-23:06:53,746 nipype.interface INFO:
stderr 2020-11-12T23:06:53.746500:++ CPU time = 0.000000 sec
201112-23:06:53,897 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip.skullstrip_second_pass".
201112-23:06:53,898 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip.combine_masks" in "/outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_conditioning_run-1/combine_masks".
201112-23:06:53,906 nipype.workflow INFO:
[Node] Running "combine_masks" ("nipype.interfaces.fsl.maths.BinaryMaths"), a CommandLine Interface with command:
fslmaths /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_conditioning_run-1/skullstrip_first_pass/sub-018_ses-1_task-conditioning_run-1_bold_calc_resample_mcf_tstat_brain_mask.nii.gz -mul /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_conditioning_run-1/skullstrip_second_pass/uni_mask.nii.gz /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_conditioning_run-1/combine_masks/sub-018_ses-1_task-conditioning_run-1_bold_calc_resample_mcf_tstat_brain_mask_maths.nii.gz
201112-23:06:54,306 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip.combine_masks".
201112-23:06:54,307 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.gen_motion_stats_before_stc_fsl_afni_mean_mcflirt_0.cal_DVARS" in "/outputs/tmp/resting_preproc_sub-018_ses-1/gen_motion_stats_before_stc_fsl_afni_mean_mcflirt_0/_scan_conditioning_run-1/cal_DVARS".
201112-23:06:54,316 nipype.workflow INFO:
[Node] Running "cal_DVARS" ("CPAC.utils.interfaces.function.Function")
201112-23:06:55,53 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.gen_motion_stats_before_stc_fsl_afni_mean_mcflirt_0.cal_DVARS".
201112-23:06:55,55 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip.func_extract_brain" in "/outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_conditioning_run-1/func_extract_brain".
201112-23:06:55,66 nipype.workflow INFO:
[Node] Running "func_extract_brain" ("nipype.interfaces.afni.utils.Calc"), a CommandLine Interface with command:
3dcalc -a /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/_scan_conditioning_run-1/func_motion_correct_mcflirt/sub-018_ses-1_task-conditioning_run-1_bold_calc_resample_mcf.nii.gz -b /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_conditioning_run-1/combine_masks/sub-018_ses-1_task-conditioning_run-1_bold_calc_resample_mcf_tstat_brain_mask_maths.nii.gz -expr "a*b" -prefix sub-018_ses-1_task-conditioning_run-1_bold_calc_resample_mcf_calc.nii.gz
201112-23:06:55,310 nipype.interface INFO:
stderr 2020-11-12T23:06:55.310677:++ 3dcalc: AFNI version=AFNI_20.2.19 (Sep 27 2020) [64-bit]
201112-23:06:55,311 nipype.interface INFO:
stderr 2020-11-12T23:06:55.310992:++ Authored by: A cast of thousands
201112-23:06:58,484 nipype.interface INFO:
stderr 2020-11-12T23:06:58.483960:++ Output dataset ./sub-018_ses-1_task-conditioning_run-1_bold_calc_resample_mcf_calc.nii.gz
201112-23:06:58,661 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip.func_extract_brain".
201112-23:06:58,662 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_normalize" in "/outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/_scan_conditioning_run-1/func_normalize".
201112-23:06:58,671 nipype.workflow INFO:
[Node] Running "func_normalize" ("nipype.interfaces.fsl.utils.ImageMaths"), a CommandLine Interface with command:
fslmaths /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_conditioning_run-1/func_extract_brain/sub-018_ses-1_task-conditioning_run-1_bold_calc_resample_mcf_calc.nii.gz -ing 10000 /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/_scan_conditioning_run-1/func_normalize/sub-018_ses-1_task-conditioning_run-1_bold_calc_resample_mcf_calc_maths.nii.gz -odt float
201112-23:07:00,995 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_normalize".
201112-23:07:00,997 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_mask_normalize" in "/outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/_scan_conditioning_run-1/func_mask_normalize".
201112-23:07:01,5 nipype.workflow INFO:
[Node] Running "func_mask_normalize" ("nipype.interfaces.fsl.utils.ImageMaths"), a CommandLine Interface with command:
fslmaths /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/_scan_conditioning_run-1/func_normalize/sub-018_ses-1_task-conditioning_run-1_bold_calc_resample_mcf_calc_maths.nii.gz -Tmin -bin /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/_scan_conditioning_run-1/func_mask_normalize/sub-018_ses-1_task-conditioning_run-1_bold_calc_resample_mcf_calc_maths_maths.nii.gz -odt char
201112-23:07:02,113 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_mask_normalize".
201112-23:07:02,114 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_mean" in "/outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/_scan_conditioning_run-1/func_mean".
201112-23:07:02,123 nipype.workflow INFO:
[Node] Running "func_mean" ("nipype.interfaces.afni.utils.TStat"), a CommandLine Interface with command:
3dTstat -mean -prefix sub-018_ses-1_task-conditioning_run-1_bold_calc_resample_mcf_calc_tstat.nii.gz /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/_scan_conditioning_run-1/func_mean/sub-018_ses-1_task-conditioning_run-1_bold_calc_resample_mcf_calc.nii.gz
201112-23:07:02,365 nipype.interface INFO:
stderr 2020-11-12T23:07:02.365240:++ 3dTstat: AFNI version=AFNI_20.2.19 (Sep 27 2020) [64-bit]
201112-23:07:02,365 nipype.interface INFO:
stderr 2020-11-12T23:07:02.365653:++ Authored by: KR Hammett & RW Cox
201112-23:07:02,704 nipype.interface INFO:
stderr 2020-11-12T23:07:02.704120:++ Output dataset ./sub-018_ses-1_task-conditioning_run-1_bold_calc_resample_mcf_calc_tstat.nii.gz
201112-23:07:02,882 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_mean".
201112-23:07:02,883 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.norm_motion_params" in "/outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/_scan_conditioning_run-1/norm_motion_params".
201112-23:07:02,891 nipype.workflow INFO:
[Node] Running "norm_motion_params" ("CPAC.utils.interfaces.function.Function")
201112-23:07:03,121 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.norm_motion_params".
201112-23:07:03,123 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.qc_motion_0.motion_plot" in "/outputs/tmp/resting_preproc_sub-018_ses-1/qc_motion_0/_scan_conditioning_run-1/motion_plot".
201112-23:07:03,129 nipype.workflow INFO:
[Node] Running "motion_plot" ("CPAC.utils.interfaces.function.Function")
201112-23:07:03,576 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.qc_motion_0.motion_plot".
201112-23:07:03,578 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.sinker_0_qc___movement_trans_plot" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_conditioning_run-1/sinker_0_qc___movement_trans_plot".
201112-23:07:03,587 nipype.workflow INFO:
[Node] Running "sinker_0_qc___movement_trans_plot" ("CPAC.utils.interfaces.datasink.DataSink")
201112-23:07:03,799 nipype.interface INFO:
sub: /outputs/output/pipeline_cpac_fmriprep-options/sub-018_ses-1/qc___movement_trans_plot/_scan_conditioning_run-1/motion_trans_plot.png -> /outputs/output/pipeline_cpac_fmriprep-options/sub-018_ses-1/qc/movement_trans_plot/_scan_conditioning_run-1/motion_trans_plot.png
201112-23:07:03,817 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.sinker_0_qc___movement_trans_plot".
201112-23:07:03,818 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.sinker_0_qc___movement_rot_plot" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_conditioning_run-1/sinker_0_qc___movement_rot_plot".
201112-23:07:03,828 nipype.workflow INFO:
[Node] Running "sinker_0_qc___movement_rot_plot" ("CPAC.utils.interfaces.datasink.DataSink")
201112-23:07:04,39 nipype.interface INFO:
sub: /outputs/output/pipeline_cpac_fmriprep-options/sub-018_ses-1/qc___movement_rot_plot/_scan_conditioning_run-1/motion_rot_plot.png -> /outputs/output/pipeline_cpac_fmriprep-options/sub-018_ses-1/qc/movement_rot_plot/_scan_conditioning_run-1/motion_rot_plot.png
201112-23:07:04,57 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.sinker_0_qc___movement_rot_plot".
201112-23:07:04,59 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.gen_motion_stats_before_stc_fsl_afni_mean_mcflirt_0.calc_motion_parameters" in "/outputs/tmp/resting_preproc_sub-018_ses-1/gen_motion_stats_before_stc_fsl_afni_mean_mcflirt_0/_scan_conditioning_run-1/calc_motion_parameters".
201112-23:07:04,68 nipype.workflow INFO:
[Node] Running "calc_motion_parameters" ("CPAC.utils.interfaces.function.Function")
201112-23:07:04,301 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.gen_motion_stats_before_stc_fsl_afni_mean_mcflirt_0.calc_motion_parameters".
201112-23:07:04,303 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.sinker_0_motion_params" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_conditioning_run-1/sinker_0_motion_params".
201112-23:07:04,312 nipype.workflow INFO:
[Node] Running "sinker_0_motion_params" ("CPAC.utils.interfaces.datasink.DataSink")
201112-23:07:04,547 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.sinker_0_motion_params".
201112-23:07:04,549 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.gen_motion_stats_before_stc_fsl_afni_mean_mcflirt_0.calculate_FD" in "/outputs/tmp/resting_preproc_sub-018_ses-1/gen_motion_stats_before_stc_fsl_afni_mean_mcflirt_0/_scan_conditioning_run-1/calculate_FD".
201112-23:07:04,557 nipype.workflow INFO:
[Node] Running "calculate_FD" ("CPAC.utils.interfaces.function.Function")
201112-23:07:04,790 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.gen_motion_stats_before_stc_fsl_afni_mean_mcflirt_0.calculate_FD".
201112-23:07:04,791 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.sinker_0_frame_wise_displacement_power" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_conditioning_run-1/sinker_0_frame_wise_displacement_power".
201112-23:07:04,800 nipype.workflow INFO:
[Node] Running "sinker_0_frame_wise_displacement_power" ("CPAC.utils.interfaces.datasink.DataSink")
201112-23:07:05,29 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.sinker_0_frame_wise_displacement_power".
201112-23:07:05,30 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.gen_motion_stats_before_stc_fsl_afni_mean_mcflirt_0.calc_power_parameters" in "/outputs/tmp/resting_preproc_sub-018_ses-1/gen_motion_stats_before_stc_fsl_afni_mean_mcflirt_0/_scan_conditioning_run-1/calc_power_parameters".
201112-23:07:05,37 nipype.workflow INFO:
[Node] Running "calc_power_parameters" ("CPAC.utils.interfaces.function.Function")
201112-23:07:05,270 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.gen_motion_stats_before_stc_fsl_afni_mean_mcflirt_0.calc_power_parameters".
201112-23:07:05,271 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.sinker_0_power_params" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_conditioning_run-1/sinker_0_power_params".
201112-23:07:05,281 nipype.workflow INFO:
[Node] Running "sinker_0_power_params" ("CPAC.utils.interfaces.datasink.DataSink")
201112-23:07:05,516 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.sinker_0_power_params".
201112-23:07:05,518 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.sinker_0_movement_parameters" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_conditioning_run-1/sinker_0_movement_parameters".
201112-23:07:05,528 nipype.workflow INFO:
[Node] Running "sinker_0_movement_parameters" ("CPAC.utils.interfaces.datasink.DataSink")
201112-23:07:05,759 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.sinker_0_movement_parameters".
201112-23:07:05,761 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.func_despiked_0" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_conditioning_run-1/func_despiked_0".
201112-23:07:05,770 nipype.workflow INFO:
[Node] Running "func_despiked_0" ("nipype.interfaces.afni.preprocess.Despike"), a CommandLine Interface with command:
3dDespike -prefix sub-018_ses-1_task-conditioning_run-1_bold_calc_despike.nii.gz /outputs/tmp/resting_preproc_sub-018_ses-1/_scan_conditioning_run-1/func_despiked_0/sub-018_ses-1_task-conditioning_run-1_bold_calc.nii.gz
201112-23:07:06,23 nipype.interface INFO:
stderr 2020-11-12T23:07:06.023600:++ 3dDespike: AFNI version=AFNI_20.2.19 (Sep 27 2020) [64-bit]
201112-23:07:06,23 nipype.interface INFO:
stderr 2020-11-12T23:07:06.023952:++ Authored by: RW Cox
201112-23:07:06,28 nipype.interface INFO:
stderr 2020-11-12T23:07:06.027955:[7m*+ WARNING:[0m If you are performing spatial transformations on an oblique dset,
201112-23:07:06,28 nipype.interface INFO:
stderr 2020-11-12T23:07:06.027955: such as /outputs/tmp/resting_preproc_sub-018_ses-1/_scan_conditioning_run-1/func_despiked_0/sub-018_ses-1_task-conditioning_run-1_bold_calc.nii.gz,
201112-23:07:06,28 nipype.interface INFO:
stderr 2020-11-12T23:07:06.027955: or viewing/combining it with volumes of differing obliquity,
201112-23:07:06,28 nipype.interface INFO:
stderr 2020-11-12T23:07:06.027955: you should consider running:
201112-23:07:06,29 nipype.interface INFO:
stderr 2020-11-12T23:07:06.027955: 3dWarp -deoblique
201112-23:07:06,29 nipype.interface INFO:
stderr 2020-11-12T23:07:06.027955: on this and other oblique datasets in the same session.
201112-23:07:06,29 nipype.interface INFO:
stderr 2020-11-12T23:07:06.027955: See 3dWarp -help for details.
201112-23:07:06,29 nipype.interface INFO:
stderr 2020-11-12T23:07:06.029685:++ Oblique dataset:/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_conditioning_run-1/func_despiked_0/sub-018_ses-1_task-conditioning_run-1_bold_calc.nii.gz is 17.792933 degrees from plumb.
201112-23:07:06,30 nipype.interface INFO:
stderr 2020-11-12T23:07:06.029967:++ Input dataset is in short format, but output will be in float format
201112-23:07:06,30 nipype.interface INFO:
stderr 2020-11-12T23:07:06.030226:++ ignoring first 0 time points, using last 151
201112-23:07:06,30 nipype.interface INFO:
stderr 2020-11-12T23:07:06.030491:++ using 151 time points => -corder 5
201112-23:07:06,30 nipype.interface INFO:
stderr 2020-11-12T23:07:06.030744:++ Loading dataset /outputs/tmp/resting_preproc_sub-018_ses-1/_scan_conditioning_run-1/func_despiked_0/sub-018_ses-1_task-conditioning_run-1_bold_calc.nii.gz
201112-23:07:06,557 nipype.interface INFO:
stderr 2020-11-12T23:07:06.557675:++ 32125 voxels in the automask [out of 139264 in dataset]
201112-23:07:06,563 nipype.interface INFO:
stderr 2020-11-12T23:07:06.563258:++ 55581 voxels in the dilated automask [out of 139264 in dataset]
201112-23:07:06,575 nipype.interface INFO:
stderr 2020-11-12T23:07:06.575953:++ Procesing time series with OLD model fit algorithm
201112-23:07:06,576 nipype.interface INFO:
stderr 2020-11-12T23:07:06.576149:++ smash edit thresholds: 3.1 .. 5.0 MADs
201112-23:07:06,576 nipype.interface INFO:
stderr 2020-11-12T23:07:06.576312: + [ 3.457% .. 0.072% of normal distribution]
201112-23:07:06,576 nipype.interface INFO:
stderr 2020-11-12T23:07:06.576471: + [ 8.839% .. 3.125% of Laplace distribution]
201112-23:07:06,576 nipype.interface INFO:
stderr 2020-11-12T23:07:06.576631:++ start OpenMP thread #0
201112-23:07:15,140 nipype.interface INFO:
stderr 2020-11-12T23:07:15.140602:........................
201112-23:07:15,141 nipype.interface INFO:
stderr 2020-11-12T23:07:15.141071:++ Elapsed despike time = 8s 564ms
201112-23:07:15,141 nipype.interface INFO:
stderr 2020-11-12T23:07:15.141222:
201112-23:07:15,142 nipype.interface INFO:
stderr 2020-11-12T23:07:15.142199:++ FINAL: 8392731 data points, 1018150 edits [12.131%], 510348 big edits [6.081%]
201112-23:07:19,391 nipype.interface INFO:
stderr 2020-11-12T23:07:19.391507:++ Output dataset ./sub-018_ses-1_task-conditioning_run-1_bold_calc_despike.nii.gz
201112-23:07:19,581 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.func_despiked_0".
201112-23:07:19,582 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.func_slice_timing_correction_0.slice_timing" in "/outputs/tmp/resting_preproc_sub-018_ses-1/func_slice_timing_correction_0/_scan_conditioning_run-1/slice_timing".
201112-23:07:19,593 nipype.interface WARNING:
Passing a file prefixed by "@" will be deprecated; please use the `slice_timing` input
201112-23:07:19,594 nipype.workflow INFO:
[Node] Running "slice_timing" ("nipype.interfaces.afni.preprocess.TShift"), a CommandLine Interface with command:
3dTshift -prefix sub-018_ses-1_task-conditioning_run-1_bold_calc_despike_tshift.nii.gz -tpattern @/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_conditioning_run-1/scan_params_0/tpattern.txt -TR 2.0s /outputs/tmp/resting_preproc_sub-018_ses-1/func_slice_timing_correction_0/_scan_conditioning_run-1/slice_timing/sub-018_ses-1_task-conditioning_run-1_bold_calc_despike.nii.gz
201112-23:07:19,807 nipype.interface WARNING:
Passing a file prefixed by "@" will be deprecated; please use the `slice_timing` input
201112-23:07:19,845 nipype.interface INFO:
stderr 2020-11-12T23:07:19.845898:++ 3dTshift: AFNI version=AFNI_20.2.19 (Sep 27 2020) [64-bit]
201112-23:07:19,849 nipype.interface INFO:
stderr 2020-11-12T23:07:19.849352:[7m*+ WARNING:[0m If you are performing spatial transformations on an oblique dset,
201112-23:07:19,849 nipype.interface INFO:
stderr 2020-11-12T23:07:19.849352: such as /outputs/tmp/resting_preproc_sub-018_ses-1/func_slice_timing_correction_0/_scan_conditioning_run-1/slice_timing/sub-018_ses-1_task-conditioning_run-1_bold_calc_despike.nii.gz,
201112-23:07:19,849 nipype.interface INFO:
stderr 2020-11-12T23:07:19.849352: or viewing/combining it with volumes of differing obliquity,
201112-23:07:19,849 nipype.interface INFO:
stderr 2020-11-12T23:07:19.849352: you should consider running:
201112-23:07:19,850 nipype.interface INFO:
stderr 2020-11-12T23:07:19.849352: 3dWarp -deoblique
201112-23:07:19,850 nipype.interface INFO:
stderr 2020-11-12T23:07:19.849352: on this and other oblique datasets in the same session.
201112-23:07:19,850 nipype.interface INFO:
stderr 2020-11-12T23:07:19.849352: See 3dWarp -help for details.
201112-23:07:19,850 nipype.interface INFO:
stderr 2020-11-12T23:07:19.850493:++ Oblique dataset:/outputs/tmp/resting_preproc_sub-018_ses-1/func_slice_timing_correction_0/_scan_conditioning_run-1/slice_timing/sub-018_ses-1_task-conditioning_run-1_bold_calc_despike.nii.gz is 17.792933 degrees from plumb.
201112-23:07:24,568 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.func_slice_timing_correction_0.slice_timing".
201112-23:07:24,570 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.func_preproc_fsl_afni_mean_mcflirt_0.func_deoblique" in "/outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/_scan_conditioning_run-1/func_deoblique".
201112-23:07:24,639 nipype.workflow INFO:
[Node] Running "func_deoblique" ("nipype.interfaces.afni.utils.Refit"), a CommandLine Interface with command:
3drefit -deoblique /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/_scan_conditioning_run-1/func_deoblique/sub-018_ses-1_task-conditioning_run-1_bold_calc_despike_tshift.nii.gz
201112-23:07:24,888 nipype.interface INFO:
stderr 2020-11-12T23:07:24.888704:++ 3drefit: AFNI version=AFNI_20.2.19 (Sep 27 2020) [64-bit]
201112-23:07:24,889 nipype.interface INFO:
stderr 2020-11-12T23:07:24.889100:++ Authored by: RW Cox
201112-23:07:24,891 nipype.interface INFO:
stderr 2020-11-12T23:07:24.891711:++ Processing AFNI dataset /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/_scan_conditioning_run-1/func_deoblique/sub-018_ses-1_task-conditioning_run-1_bold_calc_despike_tshift.nii.gz
201112-23:07:24,892 nipype.interface INFO:
stderr 2020-11-12T23:07:24.892387: + deoblique
201112-23:07:24,892 nipype.interface INFO:
stderr 2020-11-12T23:07:24.892617: + loading and re-writing dataset /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/_scan_conditioning_run-1/func_deoblique/sub-018_ses-1_task-conditioning_run-1_bold_calc_despike_tshift.nii.gz (/outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/_scan_conditioning_run-1/func_deoblique/sub-018_ses-1_task-conditioning_run-1_bold_calc_despike_tshift.nii.gz in NIFTI storage)
201112-23:07:27,315 nipype.interface INFO:
stderr 2020-11-12T23:07:27.315262:++ 3drefit processed 1 datasets
201112-23:07:27,490 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.func_preproc_fsl_afni_mean_mcflirt_0.func_deoblique".
201112-23:07:27,491 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.func_preproc_fsl_afni_mean_mcflirt_0.func_reorient" in "/outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/_scan_conditioning_run-1/func_reorient".
201112-23:07:27,501 nipype.workflow INFO:
[Node] Running "func_reorient" ("nipype.interfaces.afni.utils.Resample"), a CommandLine Interface with command:
3dresample -orient RPI -prefix sub-018_ses-1_task-conditioning_run-1_bold_calc_despike_tshift_resample.nii.gz -inset /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/_scan_conditioning_run-1/func_reorient/sub-018_ses-1_task-conditioning_run-1_bold_calc_despike_tshift.nii.gz
201112-23:07:30,566 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.func_preproc_fsl_afni_mean_mcflirt_0.func_reorient".
201112-23:07:30,568 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.func_preproc_fsl_afni_mean_mcflirt_0.func_get_mean_RPI" in "/outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/_scan_conditioning_run-1/func_get_mean_RPI".
201112-23:07:30,578 nipype.workflow INFO:
[Node] Running "func_get_mean_RPI" ("nipype.interfaces.afni.utils.TStat"), a CommandLine Interface with command:
3dTstat -mean -prefix sub-018_ses-1_task-conditioning_run-1_bold_calc_despike_tshift_resample_tstat.nii.gz /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/_scan_conditioning_run-1/func_get_mean_RPI/sub-018_ses-1_task-conditioning_run-1_bold_calc_despike_tshift_resample.nii.gz
201112-23:07:30,823 nipype.interface INFO:
stderr 2020-11-12T23:07:30.823449:++ 3dTstat: AFNI version=AFNI_20.2.19 (Sep 27 2020) [64-bit]
201112-23:07:30,823 nipype.interface INFO:
stderr 2020-11-12T23:07:30.823795:++ Authored by: KR Hammett & RW Cox
201112-23:07:31,498 nipype.interface INFO:
stderr 2020-11-12T23:07:31.498923:++ Output dataset ./sub-018_ses-1_task-conditioning_run-1_bold_calc_despike_tshift_resample_tstat.nii.gz
201112-23:07:31,654 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.func_preproc_fsl_afni_mean_mcflirt_0.func_get_mean_RPI".
201112-23:07:31,656 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.func_preproc_fsl_afni_mean_mcflirt_0.func_generate_ref" in "/outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/_scan_conditioning_run-1/func_generate_ref".
201112-23:07:31,667 nipype.workflow INFO:
[Node] Running "func_generate_ref" ("nipype.interfaces.afni.preprocess.Volreg"), a CommandLine Interface with command:
3dvolreg -twopass -Fourier -1Dfile sub-018_ses-1_task-conditioning_run-1_bold_calc_despike_tshift_resample.1D -1Dmatrix_save sub-018_ses-1_task-conditioning_run-1_bold_calc_despike_tshift_resample.aff12.1D -prefix sub-018_ses-1_task-conditioning_run-1_bold_calc_despike_tshift_resample_volreg.nii.gz -base /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/_scan_conditioning_run-1/func_get_mean_RPI/sub-018_ses-1_task-conditioning_run-1_bold_calc_despike_tshift_resample_tstat.nii.gz -zpad 4 -maxdisp1D sub-018_ses-1_task-conditioning_run-1_bold_calc_despike_tshift_resample_md.1D /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/_scan_conditioning_run-1/func_generate_ref/sub-018_ses-1_task-conditioning_run-1_bold_calc_despike_tshift_resample.nii.gz
201112-23:07:31,908 nipype.interface INFO:
stderr 2020-11-12T23:07:31.908288:++ 3dvolreg: AFNI version=AFNI_20.2.19 (Sep 27 2020) [64-bit]
201112-23:07:31,908 nipype.interface INFO:
stderr 2020-11-12T23:07:31.908687:++ Authored by: RW Cox
201112-23:07:31,915 nipype.interface INFO:
stderr 2020-11-12T23:07:31.915848:++ Coarse del was 10, replaced with 3
201112-23:09:35,645 nipype.interface INFO:
stderr 2020-11-12T23:09:35.645741:++ Max displacement in automask = 3.28 (mm) at sub-brick 129
201112-23:09:35,646 nipype.interface INFO:
stderr 2020-11-12T23:09:35.646202:++ Max delta displ in automask = 1.86 (mm) at sub-brick 10
201112-23:09:41,90 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.func_preproc_fsl_afni_mean_mcflirt_0.func_generate_ref".
201112-23:09:41,92 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.func_preproc_fsl_afni_mean_mcflirt_0.func_get_mean_motion" in "/outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/_scan_conditioning_run-1/func_get_mean_motion".
201112-23:09:41,100 nipype.workflow INFO:
[Node] Running "func_get_mean_motion" ("nipype.interfaces.afni.utils.TStat"), a CommandLine Interface with command:
3dTstat -mean -prefix sub-018_ses-1_task-conditioning_run-1_bold_calc_despike_tshift_resample_volreg_tstat.nii.gz /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/_scan_conditioning_run-1/func_get_mean_motion/sub-018_ses-1_task-conditioning_run-1_bold_calc_despike_tshift_resample_volreg.nii.gz
201112-23:09:41,353 nipype.interface INFO:
stderr 2020-11-12T23:09:41.353181:++ 3dTstat: AFNI version=AFNI_20.2.19 (Sep 27 2020) [64-bit]
201112-23:09:41,353 nipype.interface INFO:
stderr 2020-11-12T23:09:41.353728:++ Authored by: KR Hammett & RW Cox
201112-23:09:42,253 nipype.interface INFO:
stderr 2020-11-12T23:09:42.253538:++ Output dataset ./sub-018_ses-1_task-conditioning_run-1_bold_calc_despike_tshift_resample_volreg_tstat.nii.gz
201112-23:09:42,447 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.func_preproc_fsl_afni_mean_mcflirt_0.func_get_mean_motion".
201112-23:09:42,449 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.func_preproc_fsl_afni_mean_mcflirt_0.func_motion_correct_mcflirt" in "/outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/_scan_conditioning_run-1/func_motion_correct_mcflirt".
201112-23:09:42,458 nipype.workflow INFO:
[Node] Running "func_motion_correct_mcflirt" ("nipype.interfaces.fsl.preprocess.MCFLIRT"), a CommandLine Interface with command:
mcflirt -in /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/_scan_conditioning_run-1/func_reorient/sub-018_ses-1_task-conditioning_run-1_bold_calc_despike_tshift_resample.nii.gz -out /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/_scan_conditioning_run-1/func_motion_correct_mcflirt/sub-018_ses-1_task-conditioning_run-1_bold_calc_despike_tshift_resample_mcf.nii.gz -reffile /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/_scan_conditioning_run-1/func_get_mean_motion/sub-018_ses-1_task-conditioning_run-1_bold_calc_despike_tshift_resample_volreg_tstat.nii.gz -mats -plots -rmsabs -rmsrel
201112-23:10:06,659 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.func_preproc_fsl_afni_mean_mcflirt_0.func_motion_correct_mcflirt".
201112-23:10:06,670 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.sinker_0_motion_correct" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_conditioning_run-1/sinker_0_motion_correct".
201112-23:10:06,681 nipype.workflow INFO:
[Node] Running "sinker_0_motion_correct" ("CPAC.utils.interfaces.datasink.DataSink")
201112-23:10:06,913 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.sinker_0_motion_correct".
201112-23:10:06,915 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.func_preproc_fsl_afni_mean_mcflirt_0.func_preproc_fsl_afni_mean_mcflirt_0_skullstrip.func_mean_skull" in "/outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/func_preproc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_conditioning_run-1/func_mean_skull".
201112-23:10:06,927 nipype.workflow INFO:
[Node] Running "func_mean_skull" ("nipype.interfaces.afni.utils.TStat"), a CommandLine Interface with command:
3dTstat -mean -prefix sub-018_ses-1_task-conditioning_run-1_bold_calc_despike_tshift_resample_mcf_tstat.nii.gz /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/func_preproc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_conditioning_run-1/func_mean_skull/sub-018_ses-1_task-conditioning_run-1_bold_calc_despike_tshift_resample_mcf.nii.gz
201112-23:10:07,172 nipype.interface INFO:
stderr 2020-11-12T23:10:07.172473:++ 3dTstat: AFNI version=AFNI_20.2.19 (Sep 27 2020) [64-bit]
201112-23:10:07,172 nipype.interface INFO:
stderr 2020-11-12T23:10:07.172818:++ Authored by: KR Hammett & RW Cox
201112-23:10:07,888 nipype.interface INFO:
stderr 2020-11-12T23:10:07.888793:++ Output dataset ./sub-018_ses-1_task-conditioning_run-1_bold_calc_despike_tshift_resample_mcf_tstat.nii.gz
201112-23:10:08,48 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.func_preproc_fsl_afni_mean_mcflirt_0.func_preproc_fsl_afni_mean_mcflirt_0_skullstrip.func_mean_skull".
201112-23:10:08,50 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.func_preproc_fsl_afni_mean_mcflirt_0.func_preproc_fsl_afni_mean_mcflirt_0_skullstrip.skullstrip_first_pass" in "/outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/func_preproc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_conditioning_run-1/skullstrip_first_pass".
201112-23:10:08,58 nipype.workflow INFO:
[Node] Running "skullstrip_first_pass" ("nipype.interfaces.fsl.preprocess.BET"), a CommandLine Interface with command:
bet /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/func_preproc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_conditioning_run-1/func_mean_skull/sub-018_ses-1_task-conditioning_run-1_bold_calc_despike_tshift_resample_mcf_tstat.nii.gz /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/func_preproc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_conditioning_run-1/skullstrip_first_pass/sub-018_ses-1_task-conditioning_run-1_bold_calc_despike_tshift_resample_mcf_tstat_brain.nii.gz -f 0.20 -m
201112-23:10:09,894 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.func_preproc_fsl_afni_mean_mcflirt_0.func_preproc_fsl_afni_mean_mcflirt_0_skullstrip.skullstrip_first_pass".
201112-23:10:09,896 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.func_preproc_fsl_afni_mean_mcflirt_0.func_preproc_fsl_afni_mean_mcflirt_0_skullstrip.skullstrip_first_dilate" in "/outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/func_preproc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_conditioning_run-1/skullstrip_first_dilate".
201112-23:10:09,904 nipype.workflow INFO:
[Node] Running "skullstrip_first_dilate" ("nipype.interfaces.fsl.maths.DilateImage"), a CommandLine Interface with command:
fslmaths -dt char /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/func_preproc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_conditioning_run-1/skullstrip_first_pass/sub-018_ses-1_task-conditioning_run-1_bold_calc_despike_tshift_resample_mcf_tstat_brain_mask.nii.gz -kernel sphere 6.0000 -dilF /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/func_preproc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_conditioning_run-1/skullstrip_first_dilate/sub-018_ses-1_task-conditioning_run-1_bold_calc_despike_tshift_resample_mcf_tstat_brain_mask_dil.nii.gz
201112-23:10:10,554 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.func_preproc_fsl_afni_mean_mcflirt_0.func_preproc_fsl_afni_mean_mcflirt_0_skullstrip.skullstrip_first_dilate".
201112-23:10:10,556 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.func_preproc_fsl_afni_mean_mcflirt_0.func_preproc_fsl_afni_mean_mcflirt_0_skullstrip.skullstrip_first_mask" in "/outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/func_preproc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_conditioning_run-1/skullstrip_first_mask".
201112-23:10:10,565 nipype.workflow INFO:
[Node] Running "skullstrip_first_mask" ("nipype.interfaces.fsl.maths.ApplyMask"), a CommandLine Interface with command:
fslmaths /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/func_preproc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_conditioning_run-1/skullstrip_first_pass/sub-018_ses-1_task-conditioning_run-1_bold_calc_despike_tshift_resample_mcf_tstat_brain.nii.gz -mas /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/func_preproc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_conditioning_run-1/skullstrip_first_dilate/sub-018_ses-1_task-conditioning_run-1_bold_calc_despike_tshift_resample_mcf_tstat_brain_mask_dil.nii.gz /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/func_preproc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_conditioning_run-1/skullstrip_first_mask/sub-018_ses-1_task-conditioning_run-1_bold_calc_despike_tshift_resample_mcf_tstat_brain_masked.nii.gz
201112-23:10:10,987 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.func_preproc_fsl_afni_mean_mcflirt_0.func_preproc_fsl_afni_mean_mcflirt_0_skullstrip.skullstrip_first_mask".
201112-23:10:10,988 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.func_preproc_fsl_afni_mean_mcflirt_0.func_preproc_fsl_afni_mean_mcflirt_0_skullstrip.unifize" in "/outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/func_preproc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_conditioning_run-1/unifize".
201112-23:10:10,998 nipype.workflow INFO:
[Node] Running "unifize" ("nipype.interfaces.afni.utils.Unifize"), a CommandLine Interface with command:
3dUnifize -clfrac 0.2 -rbt 18.3 65.0 90.0 -prefix uni.nii.gz -T2 -input /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/func_preproc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_conditioning_run-1/unifize/sub-018_ses-1_task-conditioning_run-1_bold_calc_despike_tshift_resample_mcf_tstat_brain_masked.nii.gz
201112-23:10:11,240 nipype.interface INFO:
stderr 2020-11-12T23:10:11.240076:++ 3dUnifize: AFNI version=AFNI_20.2.19 (Sep 27 2020) [64-bit]
201112-23:11:24,708 nipype.interface INFO:
stderr 2020-11-12T23:11:24.708600: + Pre-processing: IAV..UW[s4626]Im
201112-23:11:24,724 nipype.interface INFO:
stderr 2020-11-12T23:11:24.724260:++ Output dataset ./uni.nii.gz
201112-23:11:24,724 nipype.interface INFO:
stderr 2020-11-12T23:11:24.724767:++ ===== Elapsed = 73.5 sec
201112-23:11:24,900 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.func_preproc_fsl_afni_mean_mcflirt_0.func_preproc_fsl_afni_mean_mcflirt_0_skullstrip.unifize".
201112-23:11:24,901 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.func_preproc_fsl_afni_mean_mcflirt_0.func_preproc_fsl_afni_mean_mcflirt_0_skullstrip.skullstrip_second_pass" in "/outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/func_preproc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_conditioning_run-1/skullstrip_second_pass".
201112-23:11:24,909 nipype.workflow INFO:
[Node] Running "skullstrip_second_pass" ("nipype.interfaces.afni.preprocess.Automask"), a CommandLine Interface with command:
3dAutomask -apply_prefix uni_masked.nii.gz -dilate 1 -prefix uni_mask.nii.gz /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/func_preproc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_conditioning_run-1/skullstrip_second_pass/uni.nii.gz
201112-23:11:25,150 nipype.interface INFO:
stderr 2020-11-12T23:11:25.150155:++ 3dAutomask: AFNI version=AFNI_20.2.19 (Sep 27 2020) [64-bit]
201112-23:11:25,150 nipype.interface INFO:
stderr 2020-11-12T23:11:25.150460:++ Authored by: Emperor Zhark
201112-23:11:25,152 nipype.interface INFO:
stderr 2020-11-12T23:11:25.152190:++ Loading dataset /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/func_preproc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_conditioning_run-1/skullstrip_second_pass/uni.nii.gz
201112-23:11:25,155 nipype.interface INFO:
stderr 2020-11-12T23:11:25.155473:++ Forming automask
201112-23:11:25,156 nipype.interface INFO:
stderr 2020-11-12T23:11:25.156823: + Fixed clip level = 442.899109
201112-23:11:25,160 nipype.interface INFO:
stderr 2020-11-12T23:11:25.160058: + Used gradual clip level = 400.822083 .. 504.691986
201112-23:11:25,160 nipype.interface INFO:
stderr 2020-11-12T23:11:25.160257: + Number voxels above clip level = 28276
201112-23:11:25,160 nipype.interface INFO:
stderr 2020-11-12T23:11:25.160408: + Clustering voxels ...
201112-23:11:25,161 nipype.interface INFO:
stderr 2020-11-12T23:11:25.161460: + Largest cluster has 28271 voxels
201112-23:11:25,162 nipype.interface INFO:
stderr 2020-11-12T23:11:25.162736: + Clustering voxels ...
201112-23:11:25,163 nipype.interface INFO:
stderr 2020-11-12T23:11:25.163790: + Largest cluster has 27955 voxels
201112-23:11:25,167 nipype.interface INFO:
stderr 2020-11-12T23:11:25.167402: + Filled 469 voxels in small holes; now have 28424 voxels
201112-23:11:25,170 nipype.interface INFO:
stderr 2020-11-12T23:11:25.170631: + Filled 4 voxels in large holes; now have 28428 voxels
201112-23:11:25,171 nipype.interface INFO:
stderr 2020-11-12T23:11:25.171837: + Clustering voxels ...
201112-23:11:25,172 nipype.interface INFO:
stderr 2020-11-12T23:11:25.172873: + Largest cluster has 28427 voxels
201112-23:11:25,173 nipype.interface INFO:
stderr 2020-11-12T23:11:25.173100: + Clustering non-brain voxels ...
201112-23:11:25,173 nipype.interface INFO:
stderr 2020-11-12T23:11:25.173242: + Clustering voxels ...
201112-23:11:25,176 nipype.interface INFO:
stderr 2020-11-12T23:11:25.176145: + Largest cluster has 110762 voxels
201112-23:11:25,176 nipype.interface INFO:
stderr 2020-11-12T23:11:25.176478: + Mask now has 28502 voxels
201112-23:11:25,176 nipype.interface INFO:
stderr 2020-11-12T23:11:25.176632:++ Dilating automask
201112-23:11:25,181 nipype.interface INFO:
stderr 2020-11-12T23:11:25.181749: + Clustering voxels ...
201112-23:11:25,184 nipype.interface INFO:
stderr 2020-11-12T23:11:25.184184: + Largest cluster has 105221 voxels
201112-23:11:25,184 nipype.interface INFO:
stderr 2020-11-12T23:11:25.184523:++ 34043 voxels in the mask [out of 139264: 24.44%]
201112-23:11:25,184 nipype.interface INFO:
stderr 2020-11-12T23:11:25.184697:++ first 10 x-planes are zero [from R]
201112-23:11:25,184 nipype.interface INFO:
stderr 2020-11-12T23:11:25.184865:++ last 9 x-planes are zero [from L]
201112-23:11:25,185 nipype.interface INFO:
stderr 2020-11-12T23:11:25.185005:++ first 3 y-planes are zero [from P]
201112-23:11:25,185 nipype.interface INFO:
stderr 2020-11-12T23:11:25.185155:++ last 8 y-planes are zero [from A]
201112-23:11:25,185 nipype.interface INFO:
stderr 2020-11-12T23:11:25.185286:++ first 0 z-planes are zero [from I]
201112-23:11:25,185 nipype.interface INFO:
stderr 2020-11-12T23:11:25.185423:++ last 2 z-planes are zero [from S]
201112-23:11:25,189 nipype.interface INFO:
stderr 2020-11-12T23:11:25.189656:++ Output dataset ./uni_mask.nii.gz
201112-23:11:25,189 nipype.interface INFO:
stderr 2020-11-12T23:11:25.189830:++ applying mask to original data
201112-23:11:25,190 nipype.interface INFO:
stderr 2020-11-12T23:11:25.190497:++ Writing masked data
201112-23:11:25,205 nipype.interface INFO:
stderr 2020-11-12T23:11:25.205862:++ Output dataset ./uni_masked.nii.gz
201112-23:11:25,206 nipype.interface INFO:
stderr 2020-11-12T23:11:25.206116:++ CPU time = 0.000000 sec
201112-23:11:25,354 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.func_preproc_fsl_afni_mean_mcflirt_0.func_preproc_fsl_afni_mean_mcflirt_0_skullstrip.skullstrip_second_pass".
201112-23:11:25,356 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.func_preproc_fsl_afni_mean_mcflirt_0.func_preproc_fsl_afni_mean_mcflirt_0_skullstrip.combine_masks" in "/outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/func_preproc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_conditioning_run-1/combine_masks".
201112-23:11:25,364 nipype.workflow INFO:
[Node] Running "combine_masks" ("nipype.interfaces.fsl.maths.BinaryMaths"), a CommandLine Interface with command:
fslmaths /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/func_preproc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_conditioning_run-1/skullstrip_first_pass/sub-018_ses-1_task-conditioning_run-1_bold_calc_despike_tshift_resample_mcf_tstat_brain_mask.nii.gz -mul /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/func_preproc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_conditioning_run-1/skullstrip_second_pass/uni_mask.nii.gz /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/func_preproc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_conditioning_run-1/combine_masks/sub-018_ses-1_task-conditioning_run-1_bold_calc_despike_tshift_resample_mcf_tstat_brain_mask_maths.nii.gz
201112-23:11:25,763 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.func_preproc_fsl_afni_mean_mcflirt_0.func_preproc_fsl_afni_mean_mcflirt_0_skullstrip.combine_masks".
201112-23:11:25,764 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.nuisance_regressor_0_0.GlobalSignal_merge_masks" in "/outputs/tmp/resting_preproc_sub-018_ses-1/nuisance_regressor_0_0/_scan_conditioning_run-1/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/GlobalSignal_merge_masks".
201112-23:11:25,772 nipype.workflow INFO:
[Node] Running "GlobalSignal_merge_masks" ("nipype.interfaces.utility.base.Merge")
201112-23:11:26,3 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.nuisance_regressor_0_0.GlobalSignal_merge_masks".
201112-23:11:26,4 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.nuisance_regressor_0_0.GlobalSignal_union_masks" in "/outputs/tmp/resting_preproc_sub-018_ses-1/nuisance_regressor_0_0/_scan_conditioning_run-1/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/GlobalSignal_union_masks".
201112-23:11:26,13 nipype.workflow INFO:
[Node] Running "GlobalSignal_union_masks" ("CPAC.utils.interfaces.masktool.MaskTool"), a CommandLine Interface with command:
3dmask_tool -prefix sub-018_ses-1_task-conditioning_run-1_bold_calc_despike_tshift_resample_mcf_tstat_brain_mask_maths_mask.nii.gz -input /outputs/tmp/resting_preproc_sub-018_ses-1/nuisance_regressor_0_0/_scan_conditioning_run-1/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/GlobalSignal_union_masks/sub-018_ses-1_task-conditioning_run-1_bold_calc_despike_tshift_resample_mcf_tstat_brain_mask_maths.nii.gz
201112-23:11:26,257 nipype.interface INFO:
stderr 2020-11-12T23:11:26.257513:++ no -frac option: defaulting to -union
201112-23:11:26,257 nipype.interface INFO:
stderr 2020-11-12T23:11:26.257855:++ processing 1 input dataset(s), NN=2...
201112-23:11:26,258 nipype.interface INFO:
stderr 2020-11-12T23:11:26.258029:++ padding all datasets by 0 (for dilations)
201112-23:11:26,262 nipype.interface INFO:
stderr 2020-11-12T23:11:26.262832:++ frac 0 over 1 volumes gives min count 0
201112-23:11:26,263 nipype.interface INFO:
stderr 2020-11-12T23:11:26.263217:++ voxel limits: 0 clipped, 33989 survived, 105275 were zero
201112-23:11:26,263 nipype.interface INFO:
stderr 2020-11-12T23:11:26.263387:++ writing result sub-018_ses-1_task-conditioning_run-1_bold_calc_despike_tshift_resample_mcf_tstat_brain_mask_maths_mask.nii.gz...
201112-23:11:26,267 nipype.interface INFO:
stderr 2020-11-12T23:11:26.267821:++ Output dataset ./sub-018_ses-1_task-conditioning_run-1_bold_calc_despike_tshift_resample_mcf_tstat_brain_mask_maths_mask.nii.gz
201112-23:11:26,421 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.nuisance_regressor_0_0.GlobalSignal_union_masks".
201112-23:11:26,422 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.sinker_0_functional_brain_mask" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_conditioning_run-1/sinker_0_functional_brain_mask".
201112-23:11:26,431 nipype.workflow INFO:
[Node] Running "sinker_0_functional_brain_mask" ("CPAC.utils.interfaces.datasink.DataSink")
201112-23:11:26,661 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.sinker_0_functional_brain_mask".
201112-23:11:26,662 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.functional_brain_mask_derivative_0" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_conditioning_run-1/functional_brain_mask_derivative_0".
201112-23:11:26,669 nipype.workflow INFO:
[Node] Running "functional_brain_mask_derivative_0" ("CPAC.utils.interfaces.function.Function")
201112-23:11:26,879 nipype.workflow INFO:
[Node] Setting-up "functional_brain_mask_derivative" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_conditioning_run-1/functional_brain_mask_derivative_0/functional_brain_mask_derivative".
201112-23:11:26,886 nipype.workflow INFO:
[Node] Running "functional_brain_mask_derivative" ("nipype.interfaces.afni.utils.Resample"), a CommandLine Interface with command:
3dresample -prefix sub-018_ses-1_task-conditioning_run-1_bold_calc_despike_tshift_resample_mcf_tstat_brain_mask_maths_resample.nii.gz -rmode Cu -dxyz 2.000000 2.000000 2.000000 -inset /outputs/tmp/resting_preproc_sub-018_ses-1/_scan_conditioning_run-1/functional_brain_mask_derivative_0/functional_brain_mask_derivative/sub-018_ses-1_task-conditioning_run-1_bold_calc_despike_tshift_resample_mcf_tstat_brain_mask_maths.nii.gz
201112-23:11:27,363 nipype.workflow INFO:
[Node] Finished "functional_brain_mask_derivative".
201112-23:11:27,378 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.functional_brain_mask_derivative_0".
201112-23:11:27,380 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.func_preproc_fsl_afni_mean_mcflirt_0.func_preproc_fsl_afni_mean_mcflirt_0_skullstrip.func_extract_brain" in "/outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/func_preproc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_conditioning_run-1/func_extract_brain".
201112-23:11:27,387 nipype.workflow INFO:
[Node] Running "func_extract_brain" ("nipype.interfaces.afni.utils.Calc"), a CommandLine Interface with command:
3dcalc -a /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/_scan_conditioning_run-1/func_motion_correct_mcflirt/sub-018_ses-1_task-conditioning_run-1_bold_calc_despike_tshift_resample_mcf.nii.gz -b /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/func_preproc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_conditioning_run-1/combine_masks/sub-018_ses-1_task-conditioning_run-1_bold_calc_despike_tshift_resample_mcf_tstat_brain_mask_maths.nii.gz -expr "a*b" -prefix sub-018_ses-1_task-conditioning_run-1_bold_calc_despike_tshift_resample_mcf_calc.nii.gz
201112-23:11:27,635 nipype.interface INFO:
stderr 2020-11-12T23:11:27.635002:++ 3dcalc: AFNI version=AFNI_20.2.19 (Sep 27 2020) [64-bit]
201112-23:11:27,635 nipype.interface INFO:
stderr 2020-11-12T23:11:27.635365:++ Authored by: A cast of thousands
201112-23:11:31,151 nipype.interface INFO:
stderr 2020-11-12T23:11:31.151898:++ Output dataset ./sub-018_ses-1_task-conditioning_run-1_bold_calc_despike_tshift_resample_mcf_calc.nii.gz
201112-23:11:31,336 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.func_preproc_fsl_afni_mean_mcflirt_0.func_preproc_fsl_afni_mean_mcflirt_0_skullstrip.func_extract_brain".
201112-23:11:31,337 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.func_preproc_fsl_afni_mean_mcflirt_0.func_normalize" in "/outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/_scan_conditioning_run-1/func_normalize".
201112-23:11:31,347 nipype.workflow INFO:
[Node] Running "func_normalize" ("nipype.interfaces.fsl.utils.ImageMaths"), a CommandLine Interface with command:
fslmaths /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/func_preproc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_conditioning_run-1/func_extract_brain/sub-018_ses-1_task-conditioning_run-1_bold_calc_despike_tshift_resample_mcf_calc.nii.gz -ing 10000 /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/_scan_conditioning_run-1/func_normalize/sub-018_ses-1_task-conditioning_run-1_bold_calc_despike_tshift_resample_mcf_calc_maths.nii.gz -odt float
201112-23:11:33,826 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.func_preproc_fsl_afni_mean_mcflirt_0.func_normalize".
201112-23:11:33,828 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.nuisance_regressor_0_0.GlobalSignal_mean" in "/outputs/tmp/resting_preproc_sub-018_ses-1/nuisance_regressor_0_0/_scan_conditioning_run-1/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/GlobalSignal_mean".
201112-23:11:33,836 nipype.workflow INFO:
[Node] Running "GlobalSignal_mean" ("nipype.interfaces.afni.preprocess.ROIStats"), a CommandLine Interface with command:
3dROIstats -mask /outputs/tmp/resting_preproc_sub-018_ses-1/nuisance_regressor_0_0/_scan_conditioning_run-1/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/GlobalSignal_union_masks/sub-018_ses-1_task-conditioning_run-1_bold_calc_despike_tshift_resample_mcf_tstat_brain_mask_maths_mask.nii.gz -1Dformat /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/_scan_conditioning_run-1/func_normalize/sub-018_ses-1_task-conditioning_run-1_bold_calc_despike_tshift_resample_mcf_calc_maths.nii.gz
201112-23:11:34,783 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.nuisance_regressor_0_0.GlobalSignal_mean".
201112-23:11:34,784 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.nuisance_regressor_0_0.functional_mean" in "/outputs/tmp/resting_preproc_sub-018_ses-1/nuisance_regressor_0_0/_scan_conditioning_run-1/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/functional_mean".
201112-23:11:34,793 nipype.workflow INFO:
[Node] Running "functional_mean" ("nipype.interfaces.afni.utils.TStat"), a CommandLine Interface with command:
3dTstat -mean -prefix sub-018_ses-1_task-conditioning_run-1_bold_calc_despike_tshift_resample_mcf_calc_maths_tstat.nii.gz /outputs/tmp/resting_preproc_sub-018_ses-1/nuisance_regressor_0_0/_scan_conditioning_run-1/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/functional_mean/sub-018_ses-1_task-conditioning_run-1_bold_calc_despike_tshift_resample_mcf_calc_maths.nii.gz
201112-23:11:35,41 nipype.interface INFO:
stderr 2020-11-12T23:11:35.041765:++ 3dTstat: AFNI version=AFNI_20.2.19 (Sep 27 2020) [64-bit]
201112-23:11:35,42 nipype.interface INFO:
stderr 2020-11-12T23:11:35.042128:++ Authored by: KR Hammett & RW Cox
201112-23:11:35,688 nipype.interface INFO:
stderr 2020-11-12T23:11:35.688780:++ Output dataset ./sub-018_ses-1_task-conditioning_run-1_bold_calc_despike_tshift_resample_mcf_calc_maths_tstat.nii.gz
201112-23:11:35,849 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.nuisance_regressor_0_0.functional_mean".
201112-23:11:35,850 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.qc_snr_0.std_dev" in "/outputs/tmp/resting_preproc_sub-018_ses-1/qc_snr_0/_scan_conditioning_run-1/std_dev".
201112-23:11:35,860 nipype.workflow INFO:
[Node] Running "std_dev" ("nipype.interfaces.afni.utils.TStat"), a CommandLine Interface with command:
3dTstat -stdev -mask /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/func_preproc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_conditioning_run-1/combine_masks/sub-018_ses-1_task-conditioning_run-1_bold_calc_despike_tshift_resample_mcf_tstat_brain_mask_maths.nii.gz -prefix sub-018_ses-1_task-conditioning_run-1_bold_calc_despike_tshift_resample_mcf_calc_maths_tstat.nii.gz /outputs/tmp/resting_preproc_sub-018_ses-1/qc_snr_0/_scan_conditioning_run-1/std_dev/sub-018_ses-1_task-conditioning_run-1_bold_calc_despike_tshift_resample_mcf_calc_maths.nii.gz
201112-23:11:36,104 nipype.interface INFO:
stderr 2020-11-12T23:11:36.104110:++ 3dTstat: AFNI version=AFNI_20.2.19 (Sep 27 2020) [64-bit]
201112-23:11:36,104 nipype.interface INFO:
stderr 2020-11-12T23:11:36.104537:++ Authored by: KR Hammett & RW Cox
201112-23:11:36,694 nipype.interface INFO:
stderr 2020-11-12T23:11:36.694830:++ Output dataset ./sub-018_ses-1_task-conditioning_run-1_bold_calc_despike_tshift_resample_mcf_calc_maths_tstat.nii.gz
201112-23:11:36,878 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.qc_snr_0.std_dev".
201112-23:11:36,880 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.sinker_0_functional_preprocessed" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_conditioning_run-1/sinker_0_functional_preprocessed".
201112-23:11:36,889 nipype.workflow INFO:
[Node] Running "sinker_0_functional_preprocessed" ("CPAC.utils.interfaces.datasink.DataSink")
201112-23:11:37,119 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.sinker_0_functional_preprocessed".
201112-23:11:37,121 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.func_preproc_fsl_afni_mean_mcflirt_0.func_mask_normalize" in "/outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/_scan_conditioning_run-1/func_mask_normalize".
201112-23:11:37,130 nipype.workflow INFO:
[Node] Running "func_mask_normalize" ("nipype.interfaces.fsl.utils.ImageMaths"), a CommandLine Interface with command:
fslmaths /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/_scan_conditioning_run-1/func_normalize/sub-018_ses-1_task-conditioning_run-1_bold_calc_despike_tshift_resample_mcf_calc_maths.nii.gz -Tmin -bin /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/_scan_conditioning_run-1/func_mask_normalize/sub-018_ses-1_task-conditioning_run-1_bold_calc_despike_tshift_resample_mcf_calc_maths_maths.nii.gz -odt char
201112-23:11:38,279 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.func_preproc_fsl_afni_mean_mcflirt_0.func_mask_normalize".
201112-23:11:38,281 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.sinker_0_functional_preprocessed_mask" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_conditioning_run-1/sinker_0_functional_preprocessed_mask".
201112-23:11:38,290 nipype.workflow INFO:
[Node] Running "sinker_0_functional_preprocessed_mask" ("CPAC.utils.interfaces.datasink.DataSink")
201112-23:11:38,521 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.sinker_0_functional_preprocessed_mask".
201112-23:11:38,523 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.func_preproc_fsl_afni_mean_mcflirt_0.func_mean" in "/outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/_scan_conditioning_run-1/func_mean".
201112-23:11:38,531 nipype.workflow INFO:
[Node] Running "func_mean" ("nipype.interfaces.afni.utils.TStat"), a CommandLine Interface with command:
3dTstat -mean -prefix sub-018_ses-1_task-conditioning_run-1_bold_calc_despike_tshift_resample_mcf_calc_tstat.nii.gz /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/_scan_conditioning_run-1/func_mean/sub-018_ses-1_task-conditioning_run-1_bold_calc_despike_tshift_resample_mcf_calc.nii.gz
201112-23:11:38,773 nipype.interface INFO:
stderr 2020-11-12T23:11:38.773739:++ 3dTstat: AFNI version=AFNI_20.2.19 (Sep 27 2020) [64-bit]
201112-23:11:38,774 nipype.interface INFO:
stderr 2020-11-12T23:11:38.774061:++ Authored by: KR Hammett & RW Cox
201112-23:11:39,391 nipype.interface INFO:
stderr 2020-11-12T23:11:39.391524:++ Output dataset ./sub-018_ses-1_task-conditioning_run-1_bold_calc_despike_tshift_resample_mcf_calc_tstat.nii.gz
201112-23:11:39,579 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.func_preproc_fsl_afni_mean_mcflirt_0.func_mean".
201112-23:11:39,580 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.sinker_0_mean_functional" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_conditioning_run-1/sinker_0_mean_functional".
201112-23:11:39,588 nipype.workflow INFO:
[Node] Running "sinker_0_mean_functional" ("CPAC.utils.interfaces.datasink.DataSink")
201112-23:11:39,819 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.sinker_0_mean_functional".
201112-23:11:39,821 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.func_preproc_fsl_afni_mean_mcflirt_0.norm_motion_params" in "/outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/_scan_conditioning_run-1/norm_motion_params".
201112-23:11:39,830 nipype.workflow INFO:
[Node] Running "norm_motion_params" ("CPAC.utils.interfaces.function.Function")
201112-23:11:40,61 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.func_preproc_fsl_afni_mean_mcflirt_0.norm_motion_params".
201112-23:11:40,62 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.sinker_0_slice_time_corrected" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_conditioning_run-1/sinker_0_slice_time_corrected".
201112-23:11:40,72 nipype.workflow INFO:
[Node] Running "sinker_0_slice_time_corrected" ("CPAC.utils.interfaces.datasink.DataSink")
201112-23:11:40,303 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.sinker_0_slice_time_corrected".
201112-23:11:40,305 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.sinker_0_raw_functional" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_conditioning_run-1/sinker_0_raw_functional".
201112-23:11:40,314 nipype.workflow INFO:
[Node] Running "sinker_0_raw_functional" ("CPAC.utils.interfaces.datasink.DataSink")
201112-23:11:40,668 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.sinker_0_raw_functional".
201112-23:11:40,670 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.func_gather_0.check_func_scan" in "/outputs/tmp/resting_preproc_sub-018_ses-1/func_gather_0/_scan_conditioning_run-1/check_func_scan".
201112-23:11:40,703 nipype.workflow INFO:
[Node] Running "check_func_scan" ("CPAC.utils.interfaces.function.Function")
201112-23:11:40,939 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.func_gather_0.check_func_scan".
201112-23:11:40,949 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.roi_dataflow_0.check_for_s3" in "/outputs/tmp/resting_preproc_sub-018_ses-1/roi_dataflow_0/_mask_Yeo-7_space-MNI152NLin6_res-1x1x1_mask_file_..ndmg_atlases..label..Human..Yeo-7_space-MNI152NLin6_res-1x1x1.nii.gz/check_for_s3".
201112-23:11:40,956 nipype.workflow INFO:
[Node] Running "check_for_s3" ("CPAC.utils.interfaces.function.Function")
201112-23:11:41,204 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.roi_dataflow_0.check_for_s3".
201112-23:11:41,205 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.roi_dataflow_0.check_for_s3" in "/outputs/tmp/resting_preproc_sub-018_ses-1/roi_dataflow_0/_mask_Yeo-7-liberal_space-MNI152NLin6_res-1x1x1_mask_file_..ndmg_atlases..label..Human..Yeo-7-liberal_space-MNI152NLin6_res-1x1x1.nii.gz/check_for_s3".
201112-23:11:41,212 nipype.workflow INFO:
[Node] Running "check_for_s3" ("CPAC.utils.interfaces.function.Function")
201112-23:11:41,509 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.roi_dataflow_0.check_for_s3".
201112-23:11:41,510 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.anat_preproc_niworkflows_ants_0.anat_preproc_niworkflows_ants_0_skullstrip.anat_skullstrip_ants.lap_tmpl" in "/outputs/tmp/resting_preproc_sub-018_ses-1/anat_preproc_niworkflows_ants_0/anat_preproc_niworkflows_ants_0_skullstrip/anat_skullstrip_ants/lap_tmpl".
201112-23:11:41,520 nipype.workflow INFO:
[Node] Running "lap_tmpl" ("CPAC.utils.interfaces.ants.ImageMath"), a CommandLine Interface with command:
ImageMath 3 T_template0_maths.nii.gz Laplacian /ants_template/oasis/T_template0.nii.gz 1.5 1
201112-23:11:51,145 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.anat_preproc_niworkflows_ants_0.anat_preproc_niworkflows_ants_0_skullstrip.anat_skullstrip_ants.lap_tmpl".
201112-23:11:51,147 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.anat_preproc_niworkflows_ants_0.anat_preproc_niworkflows_ants_0_skullstrip.anat_skullstrip_ants.mrg_tmpl" in "/outputs/tmp/resting_preproc_sub-018_ses-1/anat_preproc_niworkflows_ants_0/anat_preproc_niworkflows_ants_0_skullstrip/anat_skullstrip_ants/mrg_tmpl".
201112-23:11:51,155 nipype.workflow INFO:
[Node] Running "mrg_tmpl" ("nipype.interfaces.utility.base.Merge")
201112-23:11:51,383 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.anat_preproc_niworkflows_ants_0.anat_preproc_niworkflows_ants_0_skullstrip.anat_skullstrip_ants.mrg_tmpl".
201112-23:11:51,384 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.anat_preproc_niworkflows_ants_0.anat_preproc_niworkflows_ants_0_skullstrip.anat_skullstrip_ants.res_tmpl" in "/outputs/tmp/resting_preproc_sub-018_ses-1/anat_preproc_niworkflows_ants_0/anat_preproc_niworkflows_ants_0_skullstrip/anat_skullstrip_ants/res_tmpl".
201112-23:11:51,391 nipype.workflow INFO:
[Node] Running "res_tmpl" ("CPAC.utils.interfaces.ants.ResampleImageBySpacing"), a CommandLine Interface with command:
ResampleImageBySpacing 3 /ants_template/oasis/T_template0.nii.gz T_template0_resampled.nii.gz 4 4 4 1
201112-23:11:52,47 nipype.interface INFO:
stdout 2020-11-12T23:11:52.047563: spacing [1, 1, 1] dim 3
201112-23:11:52,48 nipype.interface INFO:
stdout 2020-11-12T23:11:52.048074: spacing2 [4, 4, 4]
201112-23:11:52,48 nipype.interface INFO:
stdout 2020-11-12T23:11:52.048272: smoothing by : 3 dir 0
201112-23:11:52,386 nipype.interface INFO:
stdout 2020-11-12T23:11:52.385985: smoothing by : 3 dir 1
201112-23:11:52,803 nipype.interface INFO:
stdout 2020-11-12T23:11:52.803453: smoothing by : 3 dir 2
201112-23:11:53,588 nipype.interface INFO:
stdout 2020-11-12T23:11:53.588588: out space [4, 4, 4]
201112-23:11:53,588 nipype.interface INFO:
stdout 2020-11-12T23:11:53.588935: output size [54, 64, 72] spc [4, 4, 4]
201112-23:11:53,831 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.anat_preproc_niworkflows_ants_0.anat_preproc_niworkflows_ants_0_skullstrip.anat_skullstrip_ants.res_tmpl".
201112-23:11:53,833 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.anat_gather_0.check_for_s3" in "/outputs/tmp/resting_preproc_sub-018_ses-1/anat_gather_0/check_for_s3".
201112-23:11:53,841 nipype.workflow INFO:
[Node] Running "check_for_s3" ("CPAC.utils.interfaces.function.Function")
201112-23:11:54,121 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.anat_gather_0.check_for_s3".
201112-23:11:54,122 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.anat_preproc_niworkflows_ants_0.anat_deoblique" in "/outputs/tmp/resting_preproc_sub-018_ses-1/anat_preproc_niworkflows_ants_0/anat_deoblique".
201112-23:11:54,283 nipype.workflow INFO:
[Node] Running "anat_deoblique" ("nipype.interfaces.afni.utils.Refit"), a CommandLine Interface with command:
3drefit -deoblique /outputs/tmp/resting_preproc_sub-018_ses-1/anat_preproc_niworkflows_ants_0/anat_deoblique/sub-018_ses-1_T1w.nii.gz
201112-23:11:54,536 nipype.interface INFO:
stderr 2020-11-12T23:11:54.536821:++ 3drefit: AFNI version=AFNI_20.2.19 (Sep 27 2020) [64-bit]
201112-23:11:54,537 nipype.interface INFO:
stderr 2020-11-12T23:11:54.537201:++ Authored by: RW Cox
201112-23:11:54,538 nipype.interface INFO:
stderr 2020-11-12T23:11:54.538414:** AFNI converts NIFTI_datatype=4 (INT16) in file /outputs/tmp/resting_preproc_sub-018_ses-1/anat_preproc_niworkflows_ants_0/anat_deoblique/sub-018_ses-1_T1w.nii.gz to FLOAT32
201112-23:11:54,538 nipype.interface INFO:
stderr 2020-11-12T23:11:54.538650: Warnings of this type will be muted for this session.
201112-23:11:54,538 nipype.interface INFO:
stderr 2020-11-12T23:11:54.538650: Set AFNI_NIFTI_TYPE_WARN to YES to see them all, NO to see none.
201112-23:11:54,539 nipype.interface INFO:
stderr 2020-11-12T23:11:54.539595:++ Processing AFNI dataset /outputs/tmp/resting_preproc_sub-018_ses-1/anat_preproc_niworkflows_ants_0/anat_deoblique/sub-018_ses-1_T1w.nii.gz
201112-23:11:54,540 nipype.interface INFO:
stderr 2020-11-12T23:11:54.540238: + deoblique
201112-23:11:54,540 nipype.interface INFO:
stderr 2020-11-12T23:11:54.540441: + loading and re-writing dataset /outputs/tmp/resting_preproc_sub-018_ses-1/anat_preproc_niworkflows_ants_0/anat_deoblique/sub-018_ses-1_T1w.nii.gz (/outputs/tmp/resting_preproc_sub-018_ses-1/anat_preproc_niworkflows_ants_0/anat_deoblique/sub-018_ses-1_T1w.nii.gz in NIFTI storage)
201112-23:11:56,914 nipype.interface INFO:
stderr 2020-11-12T23:11:56.914436:++ 3drefit processed 1 datasets
201112-23:11:57,93 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.anat_preproc_niworkflows_ants_0.anat_deoblique".
201112-23:11:57,94 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.anat_preproc_niworkflows_ants_0.anat_reorient" in "/outputs/tmp/resting_preproc_sub-018_ses-1/anat_preproc_niworkflows_ants_0/anat_reorient".
201112-23:11:57,104 nipype.workflow INFO:
[Node] Running "anat_reorient" ("nipype.interfaces.afni.utils.Resample"), a CommandLine Interface with command:
3dresample -orient RPI -prefix sub-018_ses-1_T1w_resample.nii.gz -inset /outputs/tmp/resting_preproc_sub-018_ses-1/anat_preproc_niworkflows_ants_0/anat_reorient/sub-018_ses-1_T1w.nii.gz
201112-23:12:00,14 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.anat_preproc_niworkflows_ants_0.anat_reorient".
201112-23:12:00,16 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.qc_skullstrip_0.skull_edge" in "/outputs/tmp/resting_preproc_sub-018_ses-1/qc_skullstrip_0/skull_edge".
201112-23:12:00,23 nipype.workflow INFO:
[Node] Running "skull_edge" ("CPAC.utils.interfaces.function.Function")
201112-23:12:03,908 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.qc_skullstrip_0.skull_edge".
201112-23:12:03,910 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.qc_skullstrip_0.montage_skull.resample_o" in "/outputs/tmp/resting_preproc_sub-018_ses-1/qc_skullstrip_0/montage_skull/resample_o".
201112-23:12:03,917 nipype.workflow INFO:
[Node] Running "resample_o" ("CPAC.utils.interfaces.function.Function")
201112-23:12:05,407 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.qc_skullstrip_0.montage_skull.resample_o".
201112-23:12:05,408 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.anat_preproc_niworkflows_ants_0.anat_preproc_niworkflows_ants_0_skullstrip.anat_skullstrip_ants.truncate_images" in "/outputs/tmp/resting_preproc_sub-018_ses-1/anat_preproc_niworkflows_ants_0/anat_preproc_niworkflows_ants_0_skullstrip/anat_skullstrip_ants/truncate_images".
201112-23:12:05,418 nipype.workflow INFO:
[Node] Setting-up "_truncate_images0" in "/outputs/tmp/resting_preproc_sub-018_ses-1/anat_preproc_niworkflows_ants_0/anat_preproc_niworkflows_ants_0_skullstrip/anat_skullstrip_ants/truncate_images/mapflow/_truncate_images0".
201112-23:12:05,426 nipype.workflow INFO:
[Node] Running "_truncate_images0" ("CPAC.utils.interfaces.ants.ImageMath"), a CommandLine Interface with command:
ImageMath 3 sub-018_ses-1_T1w_resample_maths.nii.gz TruncateImageIntensity /outputs/tmp/resting_preproc_sub-018_ses-1/anat_preproc_niworkflows_ants_0/anat_reorient/sub-018_ses-1_T1w_resample.nii.gz 0.01 0.999 256
201112-23:12:08,949 nipype.workflow INFO:
[Node] Finished "_truncate_images0".
201112-23:12:08,954 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.anat_preproc_niworkflows_ants_0.anat_preproc_niworkflows_ants_0_skullstrip.anat_skullstrip_ants.truncate_images".
201112-23:12:08,954 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.anat_preproc_niworkflows_ants_0.anat_preproc_niworkflows_ants_0_skullstrip.anat_skullstrip_ants.inu_n4" in "/outputs/tmp/resting_preproc_sub-018_ses-1/anat_preproc_niworkflows_ants_0/anat_preproc_niworkflows_ants_0_skullstrip/anat_skullstrip_ants/inu_n4".
201112-23:12:08,965 nipype.workflow INFO:
[Node] Setting-up "_inu_n40" in "/outputs/tmp/resting_preproc_sub-018_ses-1/anat_preproc_niworkflows_ants_0/anat_preproc_niworkflows_ants_0_skullstrip/anat_skullstrip_ants/inu_n4/mapflow/_inu_n40".
201112-23:12:08,974 nipype.workflow INFO:
[Node] Running "_inu_n40" ("nipype.interfaces.ants.segmentation.N4BiasFieldCorrection"), a CommandLine Interface with command:
N4BiasFieldCorrection --bspline-fitting [ 200 ] -d 3 --input-image /outputs/tmp/resting_preproc_sub-018_ses-1/anat_preproc_niworkflows_ants_0/anat_preproc_niworkflows_ants_0_skullstrip/anat_skullstrip_ants/truncate_images/mapflow/_truncate_images0/sub-018_ses-1_T1w_resample_maths.nii.gz --convergence [ 50x50x50x50, 1e-07 ] --output sub-018_ses-1_T1w_resample_maths_corrected.nii.gz --shrink-factor 4
201112-23:15:34,535 nipype.workflow INFO:
[Node] Finished "_inu_n40".
201112-23:15:34,540 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.anat_preproc_niworkflows_ants_0.anat_preproc_niworkflows_ants_0_skullstrip.anat_skullstrip_ants.inu_n4".
201112-23:15:34,541 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.anat_preproc_niworkflows_ants_0.anat_preproc_niworkflows_ants_0_skullstrip.anat_skullstrip_ants.lap_target" in "/outputs/tmp/resting_preproc_sub-018_ses-1/anat_preproc_niworkflows_ants_0/anat_preproc_niworkflows_ants_0_skullstrip/anat_skullstrip_ants/lap_target".
201112-23:15:34,550 nipype.workflow INFO:
[Node] Running "lap_target" ("CPAC.utils.interfaces.ants.ImageMath"), a CommandLine Interface with command:
ImageMath 3 sub-018_ses-1_T1w_resample_maths_corrected_maths.nii.gz Laplacian /outputs/tmp/resting_preproc_sub-018_ses-1/anat_preproc_niworkflows_ants_0/anat_preproc_niworkflows_ants_0_skullstrip/anat_skullstrip_ants/inu_n4/mapflow/_inu_n40/sub-018_ses-1_T1w_resample_maths_corrected.nii.gz 1.5 1
201112-23:15:42,819 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.anat_preproc_niworkflows_ants_0.anat_preproc_niworkflows_ants_0_skullstrip.anat_skullstrip_ants.lap_target".
201112-23:15:42,820 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.anat_preproc_niworkflows_ants_0.anat_preproc_niworkflows_ants_0_skullstrip.anat_skullstrip_ants.mrg_target" in "/outputs/tmp/resting_preproc_sub-018_ses-1/anat_preproc_niworkflows_ants_0/anat_preproc_niworkflows_ants_0_skullstrip/anat_skullstrip_ants/mrg_target".
201112-23:15:42,829 nipype.workflow INFO:
[Node] Running "mrg_target" ("nipype.interfaces.utility.base.Merge")
201112-23:15:43,56 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.anat_preproc_niworkflows_ants_0.anat_preproc_niworkflows_ants_0_skullstrip.anat_skullstrip_ants.mrg_target".
201112-23:15:43,57 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.anat_preproc_niworkflows_ants_0.anat_preproc_niworkflows_ants_0_skullstrip.anat_skullstrip_ants.res_target" in "/outputs/tmp/resting_preproc_sub-018_ses-1/anat_preproc_niworkflows_ants_0/anat_preproc_niworkflows_ants_0_skullstrip/anat_skullstrip_ants/res_target".
201112-23:15:43,66 nipype.workflow INFO:
[Node] Running "res_target" ("CPAC.utils.interfaces.ants.ResampleImageBySpacing"), a CommandLine Interface with command:
ResampleImageBySpacing 3 /outputs/tmp/resting_preproc_sub-018_ses-1/anat_preproc_niworkflows_ants_0/anat_preproc_niworkflows_ants_0_skullstrip/anat_skullstrip_ants/inu_n4/mapflow/_inu_n40/sub-018_ses-1_T1w_resample_maths_corrected.nii.gz sub-018_ses-1_T1w_resample_maths_corrected_resampled.nii.gz 4 4 4 1
201112-23:15:43,757 nipype.interface INFO:
stdout 2020-11-12T23:15:43.757759: spacing [0.999997, 1, 1] dim 3
201112-23:15:43,758 nipype.interface INFO:
stdout 2020-11-12T23:15:43.758239: spacing2 [4, 4, 4]
201112-23:15:43,758 nipype.interface INFO:
stdout 2020-11-12T23:15:43.758439: smoothing by : 3.00001 dir 0
201112-23:15:44,22 nipype.interface INFO:
stdout 2020-11-12T23:15:44.022733: smoothing by : 3 dir 1
201112-23:15:44,362 nipype.interface INFO:
stdout 2020-11-12T23:15:44.362313: smoothing by : 3 dir 2
201112-23:15:44,992 nipype.interface INFO:
stdout 2020-11-12T23:15:44.992600: out space [4, 4, 4]
201112-23:15:44,993 nipype.interface INFO:
stdout 2020-11-12T23:15:44.993049: output size [47, 64, 64] spc [4, 4, 4]
201112-23:15:45,229 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.anat_preproc_niworkflows_ants_0.anat_preproc_niworkflows_ants_0_skullstrip.anat_skullstrip_ants.res_target".
201112-23:15:45,231 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.anat_preproc_niworkflows_ants_0.anat_preproc_niworkflows_ants_0_skullstrip.anat_skullstrip_ants.init_aff" in "/outputs/tmp/resting_preproc_sub-018_ses-1/anat_preproc_niworkflows_ants_0/anat_preproc_niworkflows_ants_0_skullstrip/anat_skullstrip_ants/init_aff".
201112-23:15:45,241 nipype.workflow INFO:
[Node] Running "init_aff" ("CPAC.utils.interfaces.ants.AI"), a CommandLine Interface with command:
antsAI -c [10,0.000001,10] -d 3 -x /ants_template/oasis/T_template0_BrainCerebellumRegistrationMask.nii.gz -m Mattes[/outputs/tmp/resting_preproc_sub-018_ses-1/anat_preproc_niworkflows_ants_0/anat_preproc_niworkflows_ants_0_skullstrip/anat_skullstrip_ants/res_tmpl/T_template0_resampled.nii.gz,/outputs/tmp/resting_preproc_sub-018_ses-1/anat_preproc_niworkflows_ants_0/anat_preproc_niworkflows_ants_0_skullstrip/anat_skullstrip_ants/res_target/sub-018_ses-1_T1w_resample_maths_corrected_resampled.nii.gz,32,Regular,0.250000] -o initialization.mat -p 0 -s [15.000000,0.100000] -t Affine[0.100000] -v 1
201112-23:15:45,774 nipype.interface INFO:
stdout 2020-11-12T23:15:45.774491:Using the Mattes MI metric (number of bins = 32)
201112-23:15:51,568 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.anat_preproc_niworkflows_ants_0.anat_preproc_niworkflows_ants_0_skullstrip.anat_skullstrip_ants.init_aff".
201112-23:15:51,570 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.anat_preproc_niworkflows_ants_0.anat_preproc_niworkflows_ants_0_skullstrip.anat_skullstrip_ants.norm" in "/outputs/tmp/resting_preproc_sub-018_ses-1/anat_preproc_niworkflows_ants_0/anat_preproc_niworkflows_ants_0_skullstrip/anat_skullstrip_ants/norm".
201112-23:15:51,587 nipype.workflow INFO:
[Node] Running "norm" ("CPAC.utils.interfaces.fixes.FixHeaderRegistration"), a CommandLine Interface with command:
antsRegistration --collapse-output-transforms 1 --dimensionality 3 --masks /ants_template/oasis/T_template0_BrainCerebellumRegistrationMask.nii.gz --float 1 --initial-moving-transform [ /outputs/tmp/resting_preproc_sub-018_ses-1/anat_preproc_niworkflows_ants_0/anat_preproc_niworkflows_ants_0_skullstrip/anat_skullstrip_ants/init_aff/initialization.mat, 0 ] --initialize-transforms-per-stage 0 --interpolation LanczosWindowedSinc --output [ anat_to_template, anat_to_template_Warped.nii.gz ] --transform Rigid[ 0.1 ] --metric MI[ /ants_template/oasis/T_template0.nii.gz, /outputs/tmp/resting_preproc_sub-018_ses-1/anat_preproc_niworkflows_ants_0/anat_preproc_niworkflows_ants_0_skullstrip/anat_skullstrip_ants/inu_n4/mapflow/_inu_n40/sub-018_ses-1_T1w_resample_maths_corrected.nii.gz, 1, 32, Regular, 0.25 ] --convergence [ 1000x500x250x100, 1e-08, 10 ] --smoothing-sigmas 4.0x2.0x1.0x0.0vox --shrink-factors 8x4x2x1 --use-histogram-matching 1 --transform Affine[ 0.1 ] --metric MI[ /ants_template/oasis/T_template0.nii.gz, /outputs/tmp/resting_preproc_sub-018_ses-1/anat_preproc_niworkflows_ants_0/anat_preproc_niworkflows_ants_0_skullstrip/anat_skullstrip_ants/inu_n4/mapflow/_inu_n40/sub-018_ses-1_T1w_resample_maths_corrected.nii.gz, 1, 32, Regular, 0.25 ] --convergence [ 1000x500x250x100, 1e-08, 10 ] --smoothing-sigmas 4.0x2.0x1.0x0.0vox --shrink-factors 8x4x2x1 --use-histogram-matching 1 --transform SyN[ 0.1, 3.0, 0.0 ] --metric CC[ /ants_template/oasis/T_template0.nii.gz, /outputs/tmp/resting_preproc_sub-018_ses-1/anat_preproc_niworkflows_ants_0/anat_preproc_niworkflows_ants_0_skullstrip/anat_skullstrip_ants/inu_n4/mapflow/_inu_n40/sub-018_ses-1_T1w_resample_maths_corrected.nii.gz, 0.5, 4, None, 1 ] --metric CC[ /outputs/tmp/resting_preproc_sub-018_ses-1/anat_preproc_niworkflows_ants_0/anat_preproc_niworkflows_ants_0_skullstrip/anat_skullstrip_ants/lap_tmpl/T_template0_maths.nii.gz, /outputs/tmp/resting_preproc_sub-018_ses-1/anat_preproc_niworkflows_ants_0/anat_preproc_niworkflows_ants_0_skullstrip/anat_skullstrip_ants/lap_target/sub-018_ses-1_T1w_resample_maths_corrected_maths.nii.gz, 0.5, 4, None, 1 ] --convergence [ 50x10x0, 1e-09, 15 ] --smoothing-sigmas 2.0x1.0x0.0vox --shrink-factors 4x2x1 --use-histogram-matching 1 -v --winsorize-image-intensities [ 0.025, 0.975 ] --write-composite-transform 0
201112-23:15:51,865 nipype.interface INFO:
stdout 2020-11-12T23:15:51.865467:All_Command_lines_OK
201112-23:15:51,865 nipype.interface INFO:
stdout 2020-11-12T23:15:51.865896:Using single precision for computations.
201112-23:15:51,982 nipype.interface INFO:
stdout 2020-11-12T23:15:51.982491:=============================================================================
201112-23:15:51,982 nipype.interface INFO:
stdout 2020-11-12T23:15:51.982673:The composite transform comprises the following transforms (in order):
201112-23:15:51,982 nipype.interface INFO:
stdout 2020-11-12T23:15:51.982824: 1. /outputs/tmp/resting_preproc_sub-018_ses-1/anat_preproc_niworkflows_ants_0/anat_preproc_niworkflows_ants_0_skullstrip/anat_skullstrip_ants/init_aff/initialization.mat (type = AffineTransform)
201112-23:15:51,982 nipype.interface INFO:
stdout 2020-11-12T23:15:51.982968:=============================================================================
201112-23:15:51,983 nipype.interface INFO:
stdout 2020-11-12T23:15:51.983125: Reading mask(s).
201112-23:15:51,983 nipype.interface INFO:
stdout 2020-11-12T23:15:51.983265: Registration stage 0
201112-23:15:52,127 nipype.interface INFO:
stdout 2020-11-12T23:15:52.127305: Fixed mask = /ants_template/oasis/T_template0_BrainCerebellumRegistrationMask.nii.gz
201112-23:15:52,127 nipype.interface INFO:
stdout 2020-11-12T23:15:52.127725: number of levels = 4
201112-23:15:52,127 nipype.interface INFO:
stdout 2020-11-12T23:15:52.127909: number of levels = 4
201112-23:15:52,128 nipype.interface INFO:
stdout 2020-11-12T23:15:52.128077: number of levels = 3
201112-23:15:52,128 nipype.interface INFO:
stdout 2020-11-12T23:15:52.128249: fixed image: /ants_template/oasis/T_template0.nii.gz
201112-23:15:52,128 nipype.interface INFO:
stdout 2020-11-12T23:15:52.128389: moving image: /outputs/tmp/resting_preproc_sub-018_ses-1/anat_preproc_niworkflows_ants_0/anat_preproc_niworkflows_ants_0_skullstrip/anat_skullstrip_ants/inu_n4/mapflow/_inu_n40/sub-018_ses-1_T1w_resample_maths_corrected.nii.gz
201112-23:15:52,893 nipype.interface INFO:
stdout 2020-11-12T23:15:52.893545: fixed image: /ants_template/oasis/T_template0.nii.gz
201112-23:15:52,893 nipype.interface INFO:
stdout 2020-11-12T23:15:52.893857: moving image: /outputs/tmp/resting_preproc_sub-018_ses-1/anat_preproc_niworkflows_ants_0/anat_preproc_niworkflows_ants_0_skullstrip/anat_skullstrip_ants/inu_n4/mapflow/_inu_n40/sub-018_ses-1_T1w_resample_maths_corrected.nii.gz
201112-23:15:53,639 nipype.interface INFO:
stdout 2020-11-12T23:15:53.639153: fixed image: /ants_template/oasis/T_template0.nii.gz
201112-23:15:53,641 nipype.interface INFO:
stdout 2020-11-12T23:15:53.641596: moving image: /outputs/tmp/resting_preproc_sub-018_ses-1/anat_preproc_niworkflows_ants_0/anat_preproc_niworkflows_ants_0_skullstrip/anat_skullstrip_ants/inu_n4/mapflow/_inu_n40/sub-018_ses-1_T1w_resample_maths_corrected.nii.gz
201112-23:15:54,396 nipype.interface INFO:
stdout 2020-11-12T23:15:54.396415: fixed image: /outputs/tmp/resting_preproc_sub-018_ses-1/anat_preproc_niworkflows_ants_0/anat_preproc_niworkflows_ants_0_skullstrip/anat_skullstrip_ants/lap_tmpl/T_template0_maths.nii.gz
201112-23:15:54,396 nipype.interface INFO:
stdout 2020-11-12T23:15:54.396746: moving image: /outputs/tmp/resting_preproc_sub-018_ses-1/anat_preproc_niworkflows_ants_0/anat_preproc_niworkflows_ants_0_skullstrip/anat_skullstrip_ants/lap_target/sub-018_ses-1_T1w_resample_maths_corrected_maths.nii.gz
201112-23:15:55,155 nipype.interface INFO:
stdout 2020-11-12T23:15:55.155214:Dimension = 3
201112-23:15:55,155 nipype.interface INFO:
stdout 2020-11-12T23:15:55.155563:Number of stages = 3
201112-23:15:55,155 nipype.interface INFO:
stdout 2020-11-12T23:15:55.155710:Use Histogram Matching true
201112-23:15:55,155 nipype.interface INFO:
stdout 2020-11-12T23:15:55.155848:Winsorize image intensities true
201112-23:15:55,156 nipype.interface INFO:
stdout 2020-11-12T23:15:55.155994:Lower quantile = 0.025
201112-23:15:55,156 nipype.interface INFO:
stdout 2020-11-12T23:15:55.156130:Upper quantile = 0.975
201112-23:15:55,156 nipype.interface INFO:
stdout 2020-11-12T23:15:55.156266:Stage 1 State
201112-23:15:55,156 nipype.interface INFO:
stdout 2020-11-12T23:15:55.156398: Image metric = Mattes
201112-23:15:55,156 nipype.interface INFO:
stdout 2020-11-12T23:15:55.156567: Fixed image = Image (0x555555c46520)
201112-23:15:55,156 nipype.interface INFO:
stdout 2020-11-12T23:15:55.156567: RTTI typeinfo: itk::Image<float, 3u>
201112-23:15:55,156 nipype.interface INFO:
stdout 2020-11-12T23:15:55.156790: Reference Count: 2
201112-23:15:55,156 nipype.interface INFO:
stdout 2020-11-12T23:15:55.156921: Modified Time: 1602
201112-23:15:55,157 nipype.interface INFO:
stdout 2020-11-12T23:15:55.157050: Debug: Off
201112-23:15:55,157 nipype.interface INFO:
stdout 2020-11-12T23:15:55.157050: Object Name:
201112-23:15:55,157 nipype.interface INFO:
stdout 2020-11-12T23:15:55.157264: Observers:
201112-23:15:55,157 nipype.interface INFO:
stdout 2020-11-12T23:15:55.157264: none
201112-23:15:55,157 nipype.interface INFO:
stdout 2020-11-12T23:15:55.157264: Source: (none)
201112-23:15:55,157 nipype.interface INFO:
stdout 2020-11-12T23:15:55.157264: Source output name: (none)
201112-23:15:55,157 nipype.interface INFO:
stdout 2020-11-12T23:15:55.157264: Release Data: Off
201112-23:15:55,157 nipype.interface INFO:
stdout 2020-11-12T23:15:55.157264: Data Released: False
201112-23:15:55,157 nipype.interface INFO:
stdout 2020-11-12T23:15:55.157264: Global Release Data: Off
201112-23:15:55,157 nipype.interface INFO:
stdout 2020-11-12T23:15:55.157264: PipelineMTime: 0
201112-23:15:55,157 nipype.interface INFO:
stdout 2020-11-12T23:15:55.157972: UpdateMTime: 1435
201112-23:15:55,158 nipype.interface INFO:
stdout 2020-11-12T23:15:55.158104: RealTimeStamp: 0 seconds
201112-23:15:55,158 nipype.interface INFO:
stdout 2020-11-12T23:15:55.158238: LargestPossibleRegion:
201112-23:15:55,158 nipype.interface INFO:
stdout 2020-11-12T23:15:55.158374: Dimension: 3
201112-23:15:55,158 nipype.interface INFO:
stdout 2020-11-12T23:15:55.158519: Index: [0, 0, 0]
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stdout 2020-11-12T23:15:55.158849: Size: [216, 256, 291]
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stdout 2020-11-12T23:15:55.159001: BufferedRegion:
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stdout 2020-11-12T23:15:55.159283: Index: [0, 0, 0]
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stdout 2020-11-12T23:15:55.159415: Size: [216, 256, 291]
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stdout 2020-11-12T23:15:55.159550: RequestedRegion:
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stdout 2020-11-12T23:15:55.159814: Index: [0, 0, 0]
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stdout 2020-11-12T23:15:55.159941: Size: [216, 256, 291]
201112-23:15:55,160 nipype.interface INFO:
stdout 2020-11-12T23:15:55.160074: Spacing: [1, 1, 1]
201112-23:15:55,160 nipype.interface INFO:
stdout 2020-11-12T23:15:55.160213: Origin: [0, 293, 0]
201112-23:15:55,160 nipype.interface INFO:
stdout 2020-11-12T23:15:55.160341: Direction:
201112-23:15:55,160 nipype.interface INFO:
stdout 2020-11-12T23:15:55.160484:1 0 0
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stdout 2020-11-12T23:15:55.160484:
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stdout 2020-11-12T23:15:55.160864: IndexToPointMatrix:
201112-23:15:55,161 nipype.interface INFO:
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stdout 2020-11-12T23:15:55.161376: PointToIndexMatrix:
201112-23:15:55,161 nipype.interface INFO:
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stdout 2020-11-12T23:15:55.161521:
201112-23:15:55,161 nipype.interface INFO:
stdout 2020-11-12T23:15:55.161892: Inverse Direction:
201112-23:15:55,162 nipype.interface INFO:
stdout 2020-11-12T23:15:55.162027:1 0 0
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stdout 2020-11-12T23:15:55.162027:
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stdout 2020-11-12T23:15:55.163131: PixelContainer:
201112-23:15:55,163 nipype.interface INFO:
stdout 2020-11-12T23:15:55.163277: ImportImageContainer (0x555555c355d0)
201112-23:15:55,163 nipype.interface INFO:
stdout 2020-11-12T23:15:55.163277: RTTI typeinfo: itk::ImportImageContainer<unsigned long, float>
201112-23:15:55,163 nipype.interface INFO:
stdout 2020-11-12T23:15:55.163503: Reference Count: 1
201112-23:15:55,163 nipype.interface INFO:
stdout 2020-11-12T23:15:55.163636: Modified Time: 1432
201112-23:15:55,163 nipype.interface INFO:
stdout 2020-11-12T23:15:55.163774: Debug: Off
201112-23:15:55,163 nipype.interface INFO:
stdout 2020-11-12T23:15:55.163774: Object Name:
201112-23:15:55,164 nipype.interface INFO:
stdout 2020-11-12T23:15:55.163990: Observers:
201112-23:15:55,164 nipype.interface INFO:
stdout 2020-11-12T23:15:55.163990: none
201112-23:15:55,164 nipype.interface INFO:
stdout 2020-11-12T23:15:55.163990: Pointer: 0x2aaab48b5010
201112-23:15:55,164 nipype.interface INFO:
stdout 2020-11-12T23:15:55.164283: Container manages memory: true
201112-23:15:55,164 nipype.interface INFO:
stdout 2020-11-12T23:15:55.164415: Size: 16091136
201112-23:15:55,166 nipype.interface INFO:
stdout 2020-11-12T23:15:55.165846: Capacity: 16091136
201112-23:15:55,166 nipype.interface INFO:
stdout 2020-11-12T23:15:55.165846:
201112-23:15:55,166 nipype.interface INFO:
stdout 2020-11-12T23:15:55.165846: Moving image = Image (0x555555c43360)
201112-23:15:55,166 nipype.interface INFO:
stdout 2020-11-12T23:15:55.165846: RTTI typeinfo: itk::Image<float, 3u>
201112-23:15:55,166 nipype.interface INFO:
stdout 2020-11-12T23:15:55.165846: Reference Count: 2
201112-23:15:55,166 nipype.interface INFO:
stdout 2020-11-12T23:15:55.165846: Modified Time: 1603
201112-23:15:55,166 nipype.interface INFO:
stdout 2020-11-12T23:15:55.165846: Debug: Off
201112-23:15:55,166 nipype.interface INFO:
stdout 2020-11-12T23:15:55.165846: Object Name:
201112-23:15:55,166 nipype.interface INFO:
stdout 2020-11-12T23:15:55.165846: Observers:
201112-23:15:55,167 nipype.interface INFO:
stdout 2020-11-12T23:15:55.165846: none
201112-23:15:55,167 nipype.interface INFO:
stdout 2020-11-12T23:15:55.165846: Source: (none)
201112-23:15:55,167 nipype.interface INFO:
stdout 2020-11-12T23:15:55.165846: Source output name: (none)
201112-23:15:55,167 nipype.interface INFO:
stdout 2020-11-12T23:15:55.165846: Release Data: Off
201112-23:15:55,167 nipype.interface INFO:
stdout 2020-11-12T23:15:55.165846: Data Released: False
201112-23:15:55,167 nipype.interface INFO:
stdout 2020-11-12T23:15:55.165846: Global Release Data: Off
201112-23:15:55,167 nipype.interface INFO:
stdout 2020-11-12T23:15:55.165846: PipelineMTime: 0
201112-23:15:55,167 nipype.interface INFO:
stdout 2020-11-12T23:15:55.165846: UpdateMTime: 1600
201112-23:15:55,167 nipype.interface INFO:
stdout 2020-11-12T23:15:55.165846: RealTimeStamp: 0 seconds
201112-23:15:55,167 nipype.interface INFO:
stdout 2020-11-12T23:15:55.165846: LargestPossibleRegion:
201112-23:15:55,167 nipype.interface INFO:
stdout 2020-11-12T23:15:55.165846: Dimension: 3
201112-23:15:55,167 nipype.interface INFO:
stdout 2020-11-12T23:15:55.165846: Index: [0, 0, 0]
201112-23:15:55,168 nipype.interface INFO:
stdout 2020-11-12T23:15:55.165846: Size: [192, 256, 256]
201112-23:15:55,168 nipype.interface INFO:
stdout 2020-11-12T23:15:55.165846: BufferedRegion:
201112-23:15:55,168 nipype.interface INFO:
stdout 2020-11-12T23:15:55.165846: Dimension: 3
201112-23:15:55,168 nipype.interface INFO:
stdout 2020-11-12T23:15:55.165846: Index: [0, 0, 0]
201112-23:15:55,168 nipype.interface INFO:
stdout 2020-11-12T23:15:55.165846: Size: [192, 256, 256]
201112-23:15:55,168 nipype.interface INFO:
stdout 2020-11-12T23:15:55.165846: RequestedRegion:
201112-23:15:55,168 nipype.interface INFO:
stdout 2020-11-12T23:15:55.165846: Dimension: 3
201112-23:15:55,168 nipype.interface INFO:
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201112-23:15:55,168 nipype.interface INFO:
stdout 2020-11-12T23:15:55.165846: Size: [192, 256, 256]
201112-23:15:55,168 nipype.interface INFO:
stdout 2020-11-12T23:15:55.165846: Spacing: [0.999997, 1, 1]
201112-23:15:55,168 nipype.interface INFO:
stdout 2020-11-12T23:15:55.165846: Origin: [-84.1806, 104.241, -146.274]
201112-23:15:55,168 nipype.interface INFO:
stdout 2020-11-12T23:15:55.165846: Direction:
201112-23:15:55,169 nipype.interface INFO:
stdout 2020-11-12T23:15:55.165846:1 0 0
201112-23:15:55,169 nipype.interface INFO:
stdout 2020-11-12T23:15:55.165846:0 -1 0
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201112-23:15:55,169 nipype.interface INFO:
stdout 2020-11-12T23:15:55.165846:
201112-23:15:55,169 nipype.interface INFO:
stdout 2020-11-12T23:15:55.165846: IndexToPointMatrix:
201112-23:15:55,169 nipype.interface INFO:
stdout 2020-11-12T23:15:55.165846:0.999997 0 0
201112-23:15:55,169 nipype.interface INFO:
stdout 2020-11-12T23:15:55.165846:0 -1 0
201112-23:15:55,169 nipype.interface INFO:
stdout 2020-11-12T23:15:55.165846:0 0 1
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stdout 2020-11-12T23:15:55.165846:
201112-23:15:55,169 nipype.interface INFO:
stdout 2020-11-12T23:15:55.165846: PointToIndexMatrix:
201112-23:15:55,169 nipype.interface INFO:
stdout 2020-11-12T23:15:55.165846:1 0 0
201112-23:15:55,169 nipype.interface INFO:
stdout 2020-11-12T23:15:55.165846:0 -1 0
201112-23:15:55,169 nipype.interface INFO:
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201112-23:15:55,170 nipype.interface INFO:
stdout 2020-11-12T23:15:55.165846:
201112-23:15:55,170 nipype.interface INFO:
stdout 2020-11-12T23:15:55.165846: Inverse Direction:
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201112-23:15:55,170 nipype.interface INFO:
stdout 2020-11-12T23:15:55.165846:0 -1 0
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stdout 2020-11-12T23:15:55.165846:
201112-23:15:55,170 nipype.interface INFO:
stdout 2020-11-12T23:15:55.165846: PixelContainer:
201112-23:15:55,170 nipype.interface INFO:
stdout 2020-11-12T23:15:55.165846: ImportImageContainer (0x555555c36680)
201112-23:15:55,170 nipype.interface INFO:
stdout 2020-11-12T23:15:55.165846: RTTI typeinfo: itk::ImportImageContainer<unsigned long, float>
201112-23:15:55,170 nipype.interface INFO:
stdout 2020-11-12T23:15:55.165846: Reference Count: 1
201112-23:15:55,170 nipype.interface INFO:
stdout 2020-11-12T23:15:55.165846: Modified Time: 1597
201112-23:15:55,170 nipype.interface INFO:
stdout 2020-11-12T23:15:55.165846: Debug: Off
201112-23:15:55,170 nipype.interface INFO:
stdout 2020-11-12T23:15:55.165846: Object Name:
201112-23:15:55,171 nipype.interface INFO:
stdout 2020-11-12T23:15:55.165846: Observers:
201112-23:15:55,171 nipype.interface INFO:
stdout 2020-11-12T23:15:55.165846: none
201112-23:15:55,171 nipype.interface INFO:
stdout 2020-11-12T23:15:55.165846: Pointer: 0x2aaab8618010
201112-23:15:55,171 nipype.interface INFO:
stdout 2020-11-12T23:15:55.165846: Container manages memory: true
201112-23:15:55,171 nipype.interface INFO:
stdout 2020-11-12T23:15:55.165846: Size: 12582912
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stdout 2020-11-12T23:15:55.165846: Capacity: 12582912
201112-23:15:55,171 nipype.interface INFO:
stdout 2020-11-12T23:15:55.165846:
201112-23:15:55,171 nipype.interface INFO:
stdout 2020-11-12T23:15:55.165846: Weighting = 1
201112-23:15:55,171 nipype.interface INFO:
stdout 2020-11-12T23:15:55.165846: Sampling strategy = regular
201112-23:15:55,171 nipype.interface INFO:
stdout 2020-11-12T23:15:55.165846: Number of bins = 32
201112-23:15:55,171 nipype.interface INFO:
stdout 2020-11-12T23:15:55.165846: Radius = 4
201112-23:15:55,171 nipype.interface INFO:
stdout 2020-11-12T23:15:55.165846: Sampling percentage = 0.25
201112-23:15:55,172 nipype.interface INFO:
stdout 2020-11-12T23:15:55.165846: Transform = Rigid
201112-23:15:55,172 nipype.interface INFO:
stdout 2020-11-12T23:15:55.165846: Gradient step = 0.1
201112-23:15:55,172 nipype.interface INFO:
stdout 2020-11-12T23:15:55.165846: Update field sigma (voxel space) = 0
201112-23:15:55,172 nipype.interface INFO:
stdout 2020-11-12T23:15:55.165846: Total field sigma (voxel space) = 0
201112-23:15:55,172 nipype.interface INFO:
stdout 2020-11-12T23:15:55.165846: Update field time sigma = 0
201112-23:15:55,172 nipype.interface INFO:
stdout 2020-11-12T23:15:55.165846: Total field time sigma = 0
201112-23:15:55,172 nipype.interface INFO:
stdout 2020-11-12T23:15:55.165846: Number of time indices = 0
201112-23:15:55,172 nipype.interface INFO:
stdout 2020-11-12T23:15:55.165846: Number of time point samples = 0
201112-23:15:55,172 nipype.interface INFO:
stdout 2020-11-12T23:15:55.165846:Stage 2 State
201112-23:15:55,172 nipype.interface INFO:
stdout 2020-11-12T23:15:55.165846: Image metric = Mattes
201112-23:15:55,172 nipype.interface INFO:
stdout 2020-11-12T23:15:55.165846: Fixed image = Image (0x555555c45e20)
201112-23:15:55,172 nipype.interface INFO:
stdout 2020-11-12T23:15:55.165846: RTTI typeinfo: itk::Image<float, 3u>
201112-23:15:55,172 nipype.interface INFO:
stdout 2020-11-12T23:15:55.165846: Reference Count: 2
201112-23:15:55,173 nipype.interface INFO:
stdout 2020-11-12T23:15:55.165846: Modified Time: 1932
201112-23:15:55,173 nipype.interface INFO:
stdout 2020-11-12T23:15:55.165846: Debug: Off
201112-23:15:55,173 nipype.interface INFO:
stdout 2020-11-12T23:15:55.165846: Object Name:
201112-23:15:55,173 nipype.interface INFO:
stdout 2020-11-12T23:15:55.165846: Observers:
201112-23:15:55,173 nipype.interface INFO:
stdout 2020-11-12T23:15:55.165846: none
201112-23:15:55,173 nipype.interface INFO:
stdout 2020-11-12T23:15:55.165846: Source: (none)
201112-23:15:55,173 nipype.interface INFO:
stdout 2020-11-12T23:15:55.165846: Source output name: (none)
201112-23:15:55,173 nipype.interface INFO:
stdout 2020-11-12T23:15:55.165846: Release Data: Off
201112-23:15:55,173 nipype.interface INFO:
stdout 2020-11-12T23:15:55.165846: Data Released: False
201112-23:15:55,173 nipype.interface INFO:
stdout 2020-11-12T23:15:55.165846: Global Release Data: Off
201112-23:15:55,173 nipype.interface INFO:
stdout 2020-11-12T23:15:55.165846: PipelineMTime: 0
201112-23:15:55,173 nipype.interface INFO:
stdout 2020-11-12T23:15:55.165846: UpdateMTime: 1765
201112-23:15:55,174 nipype.interface INFO:
stdout 2020-11-12T23:15:55.165846: RealTimeStamp: 0 seconds
201112-23:15:55,174 nipype.interface INFO:
stdout 2020-11-12T23:15:55.165846: LargestPossibleRegion:
201112-23:15:55,174 nipype.interface INFO:
stdout 2020-11-12T23:15:55.165846: Dimension: 3
201112-23:15:55,174 nipype.interface INFO:
stdout 2020-11-12T23:15:55.165846: Index: [0, 0, 0]
201112-23:15:55,174 nipype.interface INFO:
stdout 2020-11-12T23:15:55.165846: Size: [216, 256, 291]
201112-23:15:55,174 nipype.interface INFO:
stdout 2020-11-12T23:15:55.165846: BufferedRegion:
201112-23:15:55,175 nipype.interface INFO:
stdout 2020-11-12T23:15:55.165846: Dimension: 3
201112-23:15:55,175 nipype.interface INFO:
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201112-23:15:55,175 nipype.interface INFO:
stdout 2020-11-12T23:15:55.165846: Size: [216, 256, 291]
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stdout 2020-11-12T23:15:55.165846: RequestedRegion:
201112-23:15:55,176 nipype.interface INFO:
stdout 2020-11-12T23:15:55.165846: Dimension: 3
201112-23:15:55,176 nipype.interface INFO:
stdout 2020-11-12T23:15:55.165846: Index: [0, 0, 0]
201112-23:15:55,176 nipype.interface INFO:
stdout 2020-11-12T23:15:55.165846: Size: [216, 256, 291]
201112-23:15:55,176 nipype.interface INFO:
stdout 2020-11-12T23:15:55.165846: Spacing: [1, 1, 1]
201112-23:15:55,176 nipype.interface INFO:
stdout 2020-11-12T23:15:55.165846: Origin: [0, 293, 0]
201112-23:15:55,176 nipype.interface INFO:
stdout 2020-11-12T23:15:55.165846: Direction:
201112-23:15:55,176 nipype.interface INFO:
stdout 2020-11-12T23:15:55.165846:1 0 0
201112-23:15:55,176 nipype.interface INFO:
stdout 2020-11-12T23:15:55.165846:0 -0 -1
201112-23:15:55,176 nipype.interface INFO:
stdout 2020-11-12T23:15:55.165846:0 -1 -0
201112-23:15:55,176 nipype.interface INFO:
stdout 2020-11-12T23:15:55.165846:
201112-23:15:55,176 nipype.interface INFO:
stdout 2020-11-12T23:15:55.165846: IndexToPointMatrix:
201112-23:15:55,176 nipype.interface INFO:
stdout 2020-11-12T23:15:55.165846:1 0 0
201112-23:15:55,176 nipype.interface INFO:
stdout 2020-11-12T23:15:55.165846:0 0 -1
201112-23:15:55,177 nipype.interface INFO:
stdout 2020-11-12T23:15:55.165846:0 -1 0
201112-23:15:55,177 nipype.interface INFO:
stdout 2020-11-12T23:15:55.165846:
201112-23:15:55,177 nipype.interface INFO:
stdout 2020-11-12T23:15:55.165846: PointToIndexMatrix:
201112-23:15:55,177 nipype.interface INFO:
stdout 2020-11-12T23:15:55.165846:1 0 0
201112-23:15:55,177 nipype.interface INFO:
stdout 2020-11-12T23:15:55.165846:0 0 -1
201112-23:15:55,177 nipype.interface INFO:
stdout 2020-11-12T23:15:55.165846:0 -1 0
201112-23:15:55,177 nipype.interface INFO:
stdout 2020-11-12T23:15:55.165846:
201112-23:15:55,177 nipype.interface INFO:
stdout 2020-11-12T23:15:55.165846: Inverse Direction:
201112-23:15:55,177 nipype.interface INFO:
stdout 2020-11-12T23:15:55.165846:1 0 0
201112-23:15:55,177 nipype.interface INFO:
stdout 2020-11-12T23:15:55.165846:0 0 -1
201112-23:15:55,177 nipype.interface INFO:
stdout 2020-11-12T23:15:55.165846:0 -1 0
201112-23:15:55,177 nipype.interface INFO:
stdout 2020-11-12T23:15:55.165846:
201112-23:15:55,178 nipype.interface INFO:
stdout 2020-11-12T23:15:55.165846: PixelContainer:
201112-23:15:55,178 nipype.interface INFO:
stdout 2020-11-12T23:15:55.165846: ImportImageContainer (0x555555c36800)
201112-23:15:55,178 nipype.interface INFO:
stdout 2020-11-12T23:15:55.165846: RTTI typeinfo: itk::ImportImageContainer<unsigned long, float>
201112-23:15:55,178 nipype.interface INFO:
stdout 2020-11-12T23:15:55.165846: Reference Count: 1
201112-23:15:55,178 nipype.interface INFO:
stdout 2020-11-12T23:15:55.165846: Modified Time: 1762
201112-23:15:55,178 nipype.interface INFO:
stdout 2020-11-12T23:15:55.165846: Debug: Off
201112-23:15:55,178 nipype.interface INFO:
stdout 2020-11-12T23:15:55.165846: Object Name:
201112-23:15:55,178 nipype.interface INFO:
stdout 2020-11-12T23:15:55.165846: Observers:
201112-23:15:55,178 nipype.interface INFO:
stdout 2020-11-12T23:15:55.165846: none
201112-23:15:55,178 nipype.interface INFO:
stdout 2020-11-12T23:15:55.165846: Pointer: 0x2aaabb619010
201112-23:15:55,178 nipype.interface INFO:
stdout 2020-11-12T23:15:55.165846: Container manages memory: true
201112-23:15:55,178 nipype.interface INFO:
stdout 2020-11-12T23:15:55.165846: Size: 16091136
201112-23:15:55,178 nipype.interface INFO:
stdout 2020-11-12T23:15:55.165846: Capacity: 16091136
201112-23:15:55,179 nipype.interface INFO:
stdout 2020-11-12T23:15:55.165846:
201112-23:15:55,179 nipype.interface INFO:
stdout 2020-11-12T23:15:55.165846: Moving image = Image (0x555555c44e80)
201112-23:15:55,179 nipype.interface INFO:
stdout 2020-11-12T23:15:55.165846: RTTI typeinfo: itk::Image<float, 3u>
201112-23:15:55,179 nipype.interface INFO:
stdout 2020-11-12T23:15:55.165846: Reference Count: 2
201112-23:15:55,179 nipype.interface INFO:
stdout 2020-11-12T23:15:55.165846: Modified Time: 1933
201112-23:15:55,179 nipype.interface INFO:
stdout 2020-11-12T23:15:55.165846: Debug: Off
201112-23:15:55,179 nipype.interface INFO:
stdout 2020-11-12T23:15:55.165846: Object Name:
201112-23:15:55,179 nipype.interface INFO:
stdout 2020-11-12T23:15:55.165846: Observers:
201112-23:15:55,179 nipype.interface INFO:
stdout 2020-11-12T23:15:55.165846: none
201112-23:15:55,179 nipype.interface INFO:
stdout 2020-11-12T23:15:55.165846: Source: (none)
201112-23:15:55,179 nipype.interface INFO:
stdout 2020-11-12T23:15:55.165846: Source output name: (none)
201112-23:15:55,179 nipype.interface INFO:
stdout 2020-11-12T23:15:55.165846: Release Data: Off
201112-23:15:55,180 nipype.interface INFO:
stdout 2020-11-12T23:15:55.165846: Data Released: False
201112-23:15:55,180 nipype.interface INFO:
stdout 2020-11-12T23:15:55.165846: Global Release Data: Off
201112-23:15:55,180 nipype.interface INFO:
stdout 2020-11-12T23:15:55.165846: PipelineMTime: 0
201112-23:15:55,180 nipype.interface INFO:
stdout 2020-11-12T23:15:55.165846: UpdateMTime: 1930
201112-23:15:55,180 nipype.interface INFO:
stdout 2020-11-12T23:15:55.165846: RealTimeStamp: 0 seconds
201112-23:15:55,180 nipype.interface INFO:
stdout 2020-11-12T23:15:55.165846: LargestPossibleRegion:
201112-23:15:55,180 nipype.interface INFO:
stdout 2020-11-12T23:15:55.165846: Dimension: 3
201112-23:15:55,180 nipype.interface INFO:
stdout 2020-11-12T23:15:55.165846: Index: [0, 0, 0]
201112-23:15:55,180 nipype.interface INFO:
stdout 2020-11-12T23:15:55.165846: Size: [192, 256, 256]
201112-23:15:55,180 nipype.interface INFO:
stdout 2020-11-12T23:15:55.165846: BufferedRegion:
201112-23:15:55,180 nipype.interface INFO:
stdout 2020-11-12T23:15:55.165846: Dimension: 3
201112-23:15:55,180 nipype.interface INFO:
stdout 2020-11-12T23:15:55.165846: Index: [0, 0, 0]
201112-23:15:55,180 nipype.interface INFO:
stdout 2020-11-12T23:15:55.165846: Size: [192, 256, 256]
201112-23:15:55,181 nipype.interface INFO:
stdout 2020-11-12T23:15:55.165846: RequestedRegion:
201112-23:15:55,181 nipype.interface INFO:
stdout 2020-11-12T23:15:55.165846: Dimension: 3
201112-23:15:55,181 nipype.interface INFO:
stdout 2020-11-12T23:15:55.165846: Index: [0, 0, 0]
201112-23:15:55,181 nipype.interface INFO:
stdout 2020-11-12T23:15:55.165846: Size: [192, 256, 256]
201112-23:15:55,181 nipype.interface INFO:
stdout 2020-11-12T23:15:55.165846: Spacing: [0.999997, 1, 1]
201112-23:15:55,181 nipype.interface INFO:
stdout 2020-11-12T23:15:55.165846: Origin: [-84.1806, 104.241, -146.274]
201112-23:15:55,181 nipype.interface INFO:
stdout 2020-11-12T23:15:55.165846: Direction:
201112-23:15:55,181 nipype.interface INFO:
stdout 2020-11-12T23:15:55.165846:1 0 0
201112-23:15:55,181 nipype.interface INFO:
stdout 2020-11-12T23:15:55.165846:0 -1 0
201112-23:15:55,181 nipype.interface INFO:
stdout 2020-11-12T23:15:55.165846:0 0 1
201112-23:15:55,181 nipype.interface INFO:
stdout 2020-11-12T23:15:55.165846:
201112-23:15:55,181 nipype.interface INFO:
stdout 2020-11-12T23:15:55.165846: IndexToPointMatrix:
201112-23:15:55,182 nipype.interface INFO:
stdout 2020-11-12T23:15:55.165846:0.999997 0 0
201112-23:15:55,182 nipype.interface INFO:
stdout 2020-11-12T23:15:55.165846:0 -1 0
201112-23:15:55,182 nipype.interface INFO:
stdout 2020-11-12T23:15:55.165846:0 0 1
201112-23:15:55,182 nipype.interface INFO:
stdout 2020-11-12T23:15:55.165846:
201112-23:15:55,182 nipype.interface INFO:
stdout 2020-11-12T23:15:55.165846: PointToIndexMatrix:
201112-23:15:55,182 nipype.interface INFO:
stdout 2020-11-12T23:15:55.165846:1 0 0
201112-23:15:55,182 nipype.interface INFO:
stdout 2020-11-12T23:15:55.165846:0 -1 0
201112-23:15:55,182 nipype.interface INFO:
stdout 2020-11-12T23:15:55.165846:0 0 1
201112-23:15:55,182 nipype.interface INFO:
stdout 2020-11-12T23:15:55.165846:
201112-23:15:55,182 nipype.interface INFO:
stdout 2020-11-12T23:15:55.165846: Inverse Direction:
201112-23:15:55,182 nipype.interface INFO:
stdout 2020-11-12T23:15:55.165846:1 0 0
201112-23:15:55,182 nipype.interface INFO:
stdout 2020-11-12T23:15:55.165846:0 -1 0
201112-23:15:55,182 nipype.interface INFO:
stdout 2020-11-12T23:15:55.165846:0 0 1
201112-23:15:55,183 nipype.interface INFO:
stdout 2020-11-12T23:15:55.165846:
201112-23:15:55,183 nipype.interface INFO:
stdout 2020-11-12T23:15:55.165846: PixelContainer:
201112-23:15:55,183 nipype.interface INFO:
stdout 2020-11-12T23:15:55.165846: ImportImageContainer (0x555555c30560)
201112-23:15:55,183 nipype.interface INFO:
stdout 2020-11-12T23:15:55.165846: RTTI typeinfo: itk::ImportImageContainer<unsigned long, float>
201112-23:15:55,183 nipype.interface INFO:
stdout 2020-11-12T23:15:55.165846: Reference Count: 1
201112-23:15:55,183 nipype.interface INFO:
stdout 2020-11-12T23:15:55.165846: Modified Time: 1927
201112-23:15:55,183 nipype.interface INFO:
stdout 2020-11-12T23:15:55.165846: Debug: Off
201112-23:15:55,183 nipype.interface INFO:
stdout 2020-11-12T23:15:55.165846: Object Name:
201112-23:15:55,183 nipype.interface INFO:
stdout 2020-11-12T23:15:55.165846: Observers:
201112-23:15:55,183 nipype.interface INFO:
stdout 2020-11-12T23:15:55.165846: none
201112-23:15:55,183 nipype.interface INFO:
stdout 2020-11-12T23:15:55.165846: Pointer: 0x2aaabf37c010
201112-23:15:55,183 nipype.interface INFO:
stdout 2020-11-12T23:15:55.165846: Container manages memory: true
201112-23:15:55,183 nipype.interface INFO:
stdout 2020-11-12T23:15:55.165846: Size: 12582912
201112-23:15:55,184 nipype.interface INFO:
stdout 2020-11-12T23:15:55.165846: Capacity: 12582912
201112-23:15:55,184 nipype.interface INFO:
stdout 2020-11-12T23:15:55.165846:
201112-23:15:55,184 nipype.interface INFO:
stdout 2020-11-12T23:15:55.184256: Weighting = 1
201112-23:15:55,185 nipype.interface INFO:
stdout 2020-11-12T23:15:55.184256: Sampling strategy = regular
201112-23:15:55,204 nipype.interface INFO:
stdout 2020-11-12T23:15:55.184256: Number of bins = 32
201112-23:15:55,204 nipype.interface INFO:
stdout 2020-11-12T23:15:55.184256: Radius = 4
201112-23:15:55,204 nipype.interface INFO:
stdout 2020-11-12T23:15:55.184256: Sampling percentage = 0.25
201112-23:15:55,204 nipype.interface INFO:
stdout 2020-11-12T23:15:55.184256: Transform = Affine
201112-23:15:55,204 nipype.interface INFO:
stdout 2020-11-12T23:15:55.184256: Gradient step = 0.1
201112-23:15:55,205 nipype.interface INFO:
stdout 2020-11-12T23:15:55.184256: Update field sigma (voxel space) = 0
201112-23:15:55,205 nipype.interface INFO:
stdout 2020-11-12T23:15:55.184256: Total field sigma (voxel space) = 0
201112-23:15:55,205 nipype.interface INFO:
stdout 2020-11-12T23:15:55.184256: Update field time sigma = 0
201112-23:15:55,205 nipype.interface INFO:
stdout 2020-11-12T23:15:55.184256: Total field time sigma = 0
201112-23:15:55,205 nipype.interface INFO:
stdout 2020-11-12T23:15:55.184256: Number of time indices = 0
201112-23:15:55,205 nipype.interface INFO:
stdout 2020-11-12T23:15:55.184256: Number of time point samples = 0
201112-23:15:55,205 nipype.interface INFO:
stdout 2020-11-12T23:15:55.184256:Stage 3 State
201112-23:15:55,205 nipype.interface INFO:
stdout 2020-11-12T23:15:55.184256: Image metric = CC
201112-23:15:55,205 nipype.interface INFO:
stdout 2020-11-12T23:15:55.184256: Fixed image = Image (0x555555c3f520)
201112-23:15:55,205 nipype.interface INFO:
stdout 2020-11-12T23:15:55.184256: RTTI typeinfo: itk::Image<float, 3u>
201112-23:15:55,205 nipype.interface INFO:
stdout 2020-11-12T23:15:55.184256: Reference Count: 2
201112-23:15:55,205 nipype.interface INFO:
stdout 2020-11-12T23:15:55.184256: Modified Time: 2262
201112-23:15:55,205 nipype.interface INFO:
stdout 2020-11-12T23:15:55.184256: Debug: Off
201112-23:15:55,206 nipype.interface INFO:
stdout 2020-11-12T23:15:55.184256: Object Name:
201112-23:15:55,206 nipype.interface INFO:
stdout 2020-11-12T23:15:55.184256: Observers:
201112-23:15:55,206 nipype.interface INFO:
stdout 2020-11-12T23:15:55.184256: none
201112-23:15:55,206 nipype.interface INFO:
stdout 2020-11-12T23:15:55.184256: Source: (none)
201112-23:15:55,206 nipype.interface INFO:
stdout 2020-11-12T23:15:55.184256: Source output name: (none)
201112-23:15:55,206 nipype.interface INFO:
stdout 2020-11-12T23:15:55.184256: Release Data: Off
201112-23:15:55,206 nipype.interface INFO:
stdout 2020-11-12T23:15:55.184256: Data Released: False
201112-23:15:55,206 nipype.interface INFO:
stdout 2020-11-12T23:15:55.184256: Global Release Data: Off
201112-23:15:55,206 nipype.interface INFO:
stdout 2020-11-12T23:15:55.184256: PipelineMTime: 0
201112-23:15:55,206 nipype.interface INFO:
stdout 2020-11-12T23:15:55.184256: UpdateMTime: 2095
201112-23:15:55,206 nipype.interface INFO:
stdout 2020-11-12T23:15:55.184256: RealTimeStamp: 0 seconds
201112-23:15:55,206 nipype.interface INFO:
stdout 2020-11-12T23:15:55.184256: LargestPossibleRegion:
201112-23:15:55,206 nipype.interface INFO:
stdout 2020-11-12T23:15:55.184256: Dimension: 3
201112-23:15:55,207 nipype.interface INFO:
stdout 2020-11-12T23:15:55.184256: Index: [0, 0, 0]
201112-23:15:55,207 nipype.interface INFO:
stdout 2020-11-12T23:15:55.184256: Size: [216, 256, 291]
201112-23:15:55,207 nipype.interface INFO:
stdout 2020-11-12T23:15:55.184256: BufferedRegion:
201112-23:15:55,207 nipype.interface INFO:
stdout 2020-11-12T23:15:55.184256: Dimension: 3
201112-23:15:55,207 nipype.interface INFO:
stdout 2020-11-12T23:15:55.184256: Index: [0, 0, 0]
201112-23:15:55,207 nipype.interface INFO:
stdout 2020-11-12T23:15:55.184256: Size: [216, 256, 291]
201112-23:15:55,207 nipype.interface INFO:
stdout 2020-11-12T23:15:55.184256: RequestedRegion:
201112-23:15:55,207 nipype.interface INFO:
stdout 2020-11-12T23:15:55.184256: Dimension: 3
201112-23:15:55,207 nipype.interface INFO:
stdout 2020-11-12T23:15:55.184256: Index: [0, 0, 0]
201112-23:15:55,207 nipype.interface INFO:
stdout 2020-11-12T23:15:55.184256: Size: [216, 256, 291]
201112-23:15:55,207 nipype.interface INFO:
stdout 2020-11-12T23:15:55.184256: Spacing: [1, 1, 1]
201112-23:15:55,207 nipype.interface INFO:
stdout 2020-11-12T23:15:55.184256: Origin: [0, 293, 0]
201112-23:15:55,208 nipype.interface INFO:
stdout 2020-11-12T23:15:55.184256: Direction:
201112-23:15:55,208 nipype.interface INFO:
stdout 2020-11-12T23:15:55.184256:1 0 0
201112-23:15:55,208 nipype.interface INFO:
stdout 2020-11-12T23:15:55.184256:0 -0 -1
201112-23:15:55,208 nipype.interface INFO:
stdout 2020-11-12T23:15:55.184256:0 -1 -0
201112-23:15:55,208 nipype.interface INFO:
stdout 2020-11-12T23:15:55.184256:
201112-23:15:55,208 nipype.interface INFO:
stdout 2020-11-12T23:15:55.184256: IndexToPointMatrix:
201112-23:15:55,208 nipype.interface INFO:
stdout 2020-11-12T23:15:55.184256:1 0 0
201112-23:15:55,208 nipype.interface INFO:
stdout 2020-11-12T23:15:55.184256:0 0 -1
201112-23:15:55,208 nipype.interface INFO:
stdout 2020-11-12T23:15:55.184256:0 -1 0
201112-23:15:55,208 nipype.interface INFO:
stdout 2020-11-12T23:15:55.184256:
201112-23:15:55,208 nipype.interface INFO:
stdout 2020-11-12T23:15:55.184256: PointToIndexMatrix:
201112-23:15:55,208 nipype.interface INFO:
stdout 2020-11-12T23:15:55.184256:1 0 0
201112-23:15:55,208 nipype.interface INFO:
stdout 2020-11-12T23:15:55.184256:0 0 -1
201112-23:15:55,209 nipype.interface INFO:
stdout 2020-11-12T23:15:55.184256:0 -1 0
201112-23:15:55,209 nipype.interface INFO:
stdout 2020-11-12T23:15:55.184256:
201112-23:15:55,209 nipype.interface INFO:
stdout 2020-11-12T23:15:55.184256: Inverse Direction:
201112-23:15:55,209 nipype.interface INFO:
stdout 2020-11-12T23:15:55.184256:1 0 0
201112-23:15:55,209 nipype.interface INFO:
stdout 2020-11-12T23:15:55.184256:0 0 -1
201112-23:15:55,209 nipype.interface INFO:
stdout 2020-11-12T23:15:55.184256:0 -1 0
201112-23:15:55,209 nipype.interface INFO:
stdout 2020-11-12T23:15:55.184256:
201112-23:15:55,209 nipype.interface INFO:
stdout 2020-11-12T23:15:55.184256: PixelContainer:
201112-23:15:55,209 nipype.interface INFO:
stdout 2020-11-12T23:15:55.184256: ImportImageContainer (0x555555c45d80)
201112-23:15:55,209 nipype.interface INFO:
stdout 2020-11-12T23:15:55.184256: RTTI typeinfo: itk::ImportImageContainer<unsigned long, float>
201112-23:15:55,209 nipype.interface INFO:
stdout 2020-11-12T23:15:55.184256: Reference Count: 1
201112-23:15:55,209 nipype.interface INFO:
stdout 2020-11-12T23:15:55.184256: Modified Time: 2092
201112-23:15:55,209 nipype.interface INFO:
stdout 2020-11-12T23:15:55.184256: Debug: Off
201112-23:15:55,210 nipype.interface INFO:
stdout 2020-11-12T23:15:55.184256: Object Name:
201112-23:15:55,210 nipype.interface INFO:
stdout 2020-11-12T23:15:55.184256: Observers:
201112-23:15:55,210 nipype.interface INFO:
stdout 2020-11-12T23:15:55.184256: none
201112-23:15:55,210 nipype.interface INFO:
stdout 2020-11-12T23:15:55.184256: Pointer: 0x2aaac237d010
201112-23:15:55,210 nipype.interface INFO:
stdout 2020-11-12T23:15:55.184256: Container manages memory: true
201112-23:15:55,210 nipype.interface INFO:
stdout 2020-11-12T23:15:55.184256: Size: 16091136
201112-23:15:55,210 nipype.interface INFO:
stdout 2020-11-12T23:15:55.184256: Capacity: 16091136
201112-23:15:55,210 nipype.interface INFO:
stdout 2020-11-12T23:15:55.184256:
201112-23:15:55,210 nipype.interface INFO:
stdout 2020-11-12T23:15:55.184256: Moving image = Image (0x555555c3f8d0)
201112-23:15:55,210 nipype.interface INFO:
stdout 2020-11-12T23:15:55.184256: RTTI typeinfo: itk::Image<float, 3u>
201112-23:15:55,210 nipype.interface INFO:
stdout 2020-11-12T23:15:55.184256: Reference Count: 2
201112-23:15:55,210 nipype.interface INFO:
stdout 2020-11-12T23:15:55.184256: Modified Time: 2263
201112-23:15:55,211 nipype.interface INFO:
stdout 2020-11-12T23:15:55.184256: Debug: Off
201112-23:15:55,211 nipype.interface INFO:
stdout 2020-11-12T23:15:55.184256: Object Name:
201112-23:15:55,211 nipype.interface INFO:
stdout 2020-11-12T23:15:55.184256: Observers:
201112-23:15:55,211 nipype.interface INFO:
stdout 2020-11-12T23:15:55.184256: none
201112-23:15:55,211 nipype.interface INFO:
stdout 2020-11-12T23:15:55.184256: Source: (none)
201112-23:15:55,211 nipype.interface INFO:
stdout 2020-11-12T23:15:55.184256: Source output name: (none)
201112-23:15:55,211 nipype.interface INFO:
stdout 2020-11-12T23:15:55.184256: Release Data: Off
201112-23:15:55,211 nipype.interface INFO:
stdout 2020-11-12T23:15:55.184256: Data Released: False
201112-23:15:55,211 nipype.interface INFO:
stdout 2020-11-12T23:15:55.184256: Global Release Data: Off
201112-23:15:55,211 nipype.interface INFO:
stdout 2020-11-12T23:15:55.184256: PipelineMTime: 0
201112-23:15:55,211 nipype.interface INFO:
stdout 2020-11-12T23:15:55.184256: UpdateMTime: 2260
201112-23:15:55,211 nipype.interface INFO:
stdout 2020-11-12T23:15:55.184256: RealTimeStamp: 0 seconds
201112-23:15:55,211 nipype.interface INFO:
stdout 2020-11-12T23:15:55.184256: LargestPossibleRegion:
201112-23:15:55,212 nipype.interface INFO:
stdout 2020-11-12T23:15:55.184256: Dimension: 3
201112-23:15:55,212 nipype.interface INFO:
stdout 2020-11-12T23:15:55.184256: Index: [0, 0, 0]
201112-23:15:55,212 nipype.interface INFO:
stdout 2020-11-12T23:15:55.184256: Size: [192, 256, 256]
201112-23:15:55,212 nipype.interface INFO:
stdout 2020-11-12T23:15:55.184256: BufferedRegion:
201112-23:15:55,212 nipype.interface INFO:
stdout 2020-11-12T23:15:55.184256: Dimension: 3
201112-23:15:55,212 nipype.interface INFO:
stdout 2020-11-12T23:15:55.184256: Index: [0, 0, 0]
201112-23:15:55,212 nipype.interface INFO:
stdout 2020-11-12T23:15:55.184256: Size: [192, 256, 256]
201112-23:15:55,212 nipype.interface INFO:
stdout 2020-11-12T23:15:55.184256: RequestedRegion:
201112-23:15:55,212 nipype.interface INFO:
stdout 2020-11-12T23:15:55.184256: Dimension: 3
201112-23:15:55,212 nipype.interface INFO:
stdout 2020-11-12T23:15:55.184256: Index: [0, 0, 0]
201112-23:15:55,212 nipype.interface INFO:
stdout 2020-11-12T23:15:55.184256: Size: [192, 256, 256]
201112-23:15:55,212 nipype.interface INFO:
stdout 2020-11-12T23:15:55.184256: Spacing: [0.999997, 1, 1]
201112-23:15:55,213 nipype.interface INFO:
stdout 2020-11-12T23:15:55.184256: Origin: [-84.1806, 104.241, -146.274]
201112-23:15:55,213 nipype.interface INFO:
stdout 2020-11-12T23:15:55.184256: Direction:
201112-23:15:55,213 nipype.interface INFO:
stdout 2020-11-12T23:15:55.184256:1 0 0
201112-23:15:55,213 nipype.interface INFO:
stdout 2020-11-12T23:15:55.184256:0 -1 0
201112-23:15:55,213 nipype.interface INFO:
stdout 2020-11-12T23:15:55.184256:0 0 1
201112-23:15:55,213 nipype.interface INFO:
stdout 2020-11-12T23:15:55.184256:
201112-23:15:55,213 nipype.interface INFO:
stdout 2020-11-12T23:15:55.184256: IndexToPointMatrix:
201112-23:15:55,213 nipype.interface INFO:
stdout 2020-11-12T23:15:55.184256:0.999997 0 0
201112-23:15:55,213 nipype.interface INFO:
stdout 2020-11-12T23:15:55.184256:0 -1 0
201112-23:15:55,213 nipype.interface INFO:
stdout 2020-11-12T23:15:55.184256:0 0 1
201112-23:15:55,213 nipype.interface INFO:
stdout 2020-11-12T23:15:55.184256:
201112-23:15:55,213 nipype.interface INFO:
stdout 2020-11-12T23:15:55.184256: PointToIndexMatrix:
201112-23:15:55,213 nipype.interface INFO:
stdout 2020-11-12T23:15:55.184256:1 0 0
201112-23:15:55,214 nipype.interface INFO:
stdout 2020-11-12T23:15:55.184256:0 -1 0
201112-23:15:55,214 nipype.interface INFO:
stdout 2020-11-12T23:15:55.184256:0 0 1
201112-23:15:55,214 nipype.interface INFO:
stdout 2020-11-12T23:15:55.184256:
201112-23:15:55,214 nipype.interface INFO:
stdout 2020-11-12T23:15:55.184256: Inverse Direction:
201112-23:15:55,214 nipype.interface INFO:
stdout 2020-11-12T23:15:55.184256:1 0 0
201112-23:15:55,214 nipype.interface INFO:
stdout 2020-11-12T23:15:55.184256:0 -1 0
201112-23:15:55,224 nipype.interface INFO:
stdout 2020-11-12T23:15:55.184256:0 0 1
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stdout 2020-11-12T23:15:55.184256:
201112-23:15:55,224 nipype.interface INFO:
stdout 2020-11-12T23:15:55.184256: PixelContainer:
201112-23:15:55,224 nipype.interface INFO:
stdout 2020-11-12T23:15:55.184256: ImportImageContainer (0x555555c0f6f0)
201112-23:15:55,224 nipype.interface INFO:
stdout 2020-11-12T23:15:55.184256: RTTI typeinfo: itk::ImportImageContainer<unsigned long, float>
201112-23:15:55,224 nipype.interface INFO:
stdout 2020-11-12T23:15:55.184256: Reference Count: 1
201112-23:15:55,225 nipype.interface INFO:
stdout 2020-11-12T23:15:55.184256: Modified Time: 2257
201112-23:15:55,225 nipype.interface INFO:
stdout 2020-11-12T23:15:55.184256: Debug: Off
201112-23:15:55,225 nipype.interface INFO:
stdout 2020-11-12T23:15:55.184256: Object Name:
201112-23:15:55,225 nipype.interface INFO:
stdout 2020-11-12T23:15:55.184256: Observers:
201112-23:15:55,225 nipype.interface INFO:
stdout 2020-11-12T23:15:55.184256: none
201112-23:15:55,225 nipype.interface INFO:
stdout 2020-11-12T23:15:55.184256: Pointer: 0x2aaac60e0010
201112-23:15:55,225 nipype.interface INFO:
stdout 2020-11-12T23:15:55.184256: Container manages memory: true
201112-23:15:55,225 nipype.interface INFO:
stdout 2020-11-12T23:15:55.184256: Size: 12582912
201112-23:15:55,225 nipype.interface INFO:
stdout 2020-11-12T23:15:55.184256: Capacity: 12582912
201112-23:15:55,225 nipype.interface INFO:
stdout 2020-11-12T23:15:55.184256:
201112-23:15:55,225 nipype.interface INFO:
stdout 2020-11-12T23:15:55.184256: Weighting = 0.5
201112-23:15:55,225 nipype.interface INFO:
stdout 2020-11-12T23:15:55.184256: Sampling strategy = none
201112-23:15:55,225 nipype.interface INFO:
stdout 2020-11-12T23:15:55.184256: Number of bins = 32
201112-23:15:55,226 nipype.interface INFO:
stdout 2020-11-12T23:15:55.184256: Radius = 4
201112-23:15:55,226 nipype.interface INFO:
stdout 2020-11-12T23:15:55.184256: Sampling percentage = 1
201112-23:15:55,226 nipype.interface INFO:
stdout 2020-11-12T23:15:55.184256: Transform = SyN
201112-23:15:55,226 nipype.interface INFO:
stdout 2020-11-12T23:15:55.184256: Gradient step = 0.1
201112-23:15:55,226 nipype.interface INFO:
stdout 2020-11-12T23:15:55.184256: Update field sigma (voxel space) = 3
201112-23:15:55,226 nipype.interface INFO:
stdout 2020-11-12T23:15:55.184256: Total field sigma (voxel space) = 0
201112-23:15:55,226 nipype.interface INFO:
stdout 2020-11-12T23:15:55.184256: Update field time sigma = 0
201112-23:15:55,226 nipype.interface INFO:
stdout 2020-11-12T23:15:55.184256: Total field time sigma = 0
201112-23:15:55,226 nipype.interface INFO:
stdout 2020-11-12T23:15:55.184256: Number of time indices = 0
201112-23:15:55,226 nipype.interface INFO:
stdout 2020-11-12T23:15:55.184256: Number of time point samples = 0
201112-23:15:55,226 nipype.interface INFO:
stdout 2020-11-12T23:15:55.184256:Registration using 3 total stages.
201112-23:15:55,226 nipype.interface INFO:
stdout 2020-11-12T23:15:55.184256:
201112-23:15:55,227 nipype.interface INFO:
stdout 2020-11-12T23:15:55.184256:Stage 0
201112-23:15:55,227 nipype.interface INFO:
stdout 2020-11-12T23:15:55.184256: iterations = 1000x500x250x100
201112-23:15:55,227 nipype.interface INFO:
stdout 2020-11-12T23:15:55.184256: convergence threshold = 1e-08
201112-23:15:55,227 nipype.interface INFO:
stdout 2020-11-12T23:15:55.184256: convergence window size = 10
201112-23:15:55,227 nipype.interface INFO:
stdout 2020-11-12T23:15:55.184256: number of levels = 4
201112-23:15:55,227 nipype.interface INFO:
stdout 2020-11-12T23:15:55.227420: using the Mattes MI metric (number of bins = 32, weight = 1)
201112-23:15:57,758 nipype.interface INFO:
stdout 2020-11-12T23:15:57.758091: preprocessing: winsorizing the image intensities
201112-23:15:57,758 nipype.interface INFO:
stdout 2020-11-12T23:15:57.758091: preprocessing: histogram matching the images
201112-23:15:57,758 nipype.interface INFO:
stdout 2020-11-12T23:15:57.758554: Shrink factors (level 1 out of 4): [8, 8, 8]
201112-23:15:57,758 nipype.interface INFO:
stdout 2020-11-12T23:15:57.758702: Shrink factors (level 2 out of 4): [4, 4, 4]
201112-23:15:57,758 nipype.interface INFO:
stdout 2020-11-12T23:15:57.758838: Shrink factors (level 3 out of 4): [2, 2, 2]
201112-23:15:57,758 nipype.interface INFO:
stdout 2020-11-12T23:15:57.758971: Shrink factors (level 4 out of 4): [1, 1, 1]
201112-23:15:57,759 nipype.interface INFO:
stdout 2020-11-12T23:15:57.759154: smoothing sigmas per level: [4, 2, 1, 0]
201112-23:15:57,759 nipype.interface INFO:
stdout 2020-11-12T23:15:57.759297: regular sampling (percentage = 0.25)
201112-23:15:57,765 nipype.interface INFO:
stdout 2020-11-12T23:15:57.765807:
201112-23:15:57,765 nipype.interface INFO:
stdout 2020-11-12T23:15:57.765979:*** Running Euler3DTransform registration ***
201112-23:15:57,766 nipype.interface INFO:
stdout 2020-11-12T23:15:57.766122:
201112-23:16:09,853 nipype.interface INFO:
stdout 2020-11-12T23:16:09.853356:DIAGNOSTIC,Iteration,metricValue,convergenceValue,ITERATION_TIME_INDEX,SINCE_LAST
201112-23:16:09,853 nipype.interface INFO:
stdout 2020-11-12T23:16:09.853729: 2DIAGNOSTIC, 1, -9.302949905396e-01, inf, 1.2090e+01, 1.2090e+01,
201112-23:16:09,862 nipype.interface INFO:
stdout 2020-11-12T23:16:09.862242: 2DIAGNOSTIC, 2, -9.314259886742e-01, inf, 1.2098e+01, 8.3320e-03,
201112-23:16:09,870 nipype.interface INFO:
stdout 2020-11-12T23:16:09.870753: 2DIAGNOSTIC, 3, -9.324697256088e-01, inf, 1.2107e+01, 8.3220e-03,
201112-23:16:09,879 nipype.interface INFO:
stdout 2020-11-12T23:16:09.879259: 2DIAGNOSTIC, 4, -9.331905245781e-01, inf, 1.2115e+01, 8.3210e-03,
201112-23:16:09,887 nipype.interface INFO:
stdout 2020-11-12T23:16:09.887762: 2DIAGNOSTIC, 5, -9.337145090103e-01, inf, 1.2123e+01, 8.3208e-03,
201112-23:16:09,896 nipype.interface INFO:
stdout 2020-11-12T23:16:09.896252: 2DIAGNOSTIC, 6, -9.343846440315e-01, inf, 1.2132e+01, 8.3101e-03,
201112-23:16:09,904 nipype.interface INFO:
stdout 2020-11-12T23:16:09.904750: 2DIAGNOSTIC, 7, -9.355329275131e-01, inf, 1.2140e+01, 8.3182e-03,
201112-23:16:09,920 nipype.interface INFO:
stdout 2020-11-12T23:16:09.920174: 2DIAGNOSTIC, 8, -9.388533234596e-01, inf, 1.2155e+01, 1.5246e-02,
201112-23:16:09,928 nipype.interface INFO:
stdout 2020-11-12T23:16:09.928662: 2DIAGNOSTIC, 9, -9.391670227051e-01, inf, 1.2164e+01, 8.3020e-03,
201112-23:16:09,940 nipype.interface INFO:
stdout 2020-11-12T23:16:09.940719: 2DIAGNOSTIC, 10, -9.395986199379e-01, 6.644931272604e-04, 1.2175e+01, 1.1876e-02,
201112-23:16:09,949 nipype.interface INFO:
stdout 2020-11-12T23:16:09.949383: 2DIAGNOSTIC, 11, -9.402052760124e-01, 6.048543727957e-04, 1.2184e+01, 8.4682e-03,
201112-23:16:09,958 nipype.interface INFO:
stdout 2020-11-12T23:16:09.958045: 2DIAGNOSTIC, 12, -9.404839277267e-01, 5.355478497222e-04, 1.2192e+01, 8.4591e-03,
201112-23:16:09,970 nipype.interface INFO:
stdout 2020-11-12T23:16:09.970005: 2DIAGNOSTIC, 13, -9.408413171768e-01, 4.601976543199e-04, 1.2204e+01, 1.1768e-02,
201112-23:16:09,980 nipype.interface INFO:
stdout 2020-11-12T23:16:09.980320: 2DIAGNOSTIC, 14, -9.410573840141e-01, 3.743033739738e-04, 1.2214e+01, 1.0122e-02,
201112-23:16:09,989 nipype.interface INFO:
stdout 2020-11-12T23:16:09.989048: 2DIAGNOSTIC, 15, -9.412474036217e-01, 2.812213497236e-04, 1.2223e+01, 8.5289e-03,
201112-23:16:10,2 nipype.interface INFO:
stdout 2020-11-12T23:16:10.002880: 2DIAGNOSTIC, 16, -9.441989660263e-01, 2.428843436064e-04, 1.2236e+01, 1.3639e-02,
201112-23:16:10,11 nipype.interface INFO:
stdout 2020-11-12T23:16:10.011567: 2DIAGNOSTIC, 17, -9.467030763626e-01, 2.489452308509e-04, 1.2245e+01, 8.4910e-03,
201112-23:16:10,21 nipype.interface INFO:
stdout 2020-11-12T23:16:10.021890: 2DIAGNOSTIC, 18, -9.469050168991e-01, 2.901971456595e-04, 1.2255e+01, 1.0133e-02,
201112-23:16:10,32 nipype.interface INFO:
stdout 2020-11-12T23:16:10.032201: 2DIAGNOSTIC, 19, -9.469973444939e-01, 3.078790905420e-04, 1.2265e+01, 1.0120e-02,
201112-23:16:10,41 nipype.interface INFO:
stdout 2020-11-12T23:16:10.041150: 2DIAGNOSTIC, 20, -9.470701217651e-01, 3.032290842384e-04, 1.2274e+01, 8.7559e-03,
201112-23:16:10,51 nipype.interface INFO:
stdout 2020-11-12T23:16:10.051462: 2DIAGNOSTIC, 21, -9.470996260643e-01, 2.792688028421e-04, 1.2284e+01, 1.0115e-02,
201112-23:16:10,63 nipype.interface INFO:
stdout 2020-11-12T23:16:10.063441: 2DIAGNOSTIC, 22, -9.471337199211e-01, 2.350935246795e-04, 1.2296e+01, 1.1785e-02,
201112-23:16:10,73 nipype.interface INFO:
stdout 2020-11-12T23:16:10.073749: 2DIAGNOSTIC, 23, -9.471596479416e-01, 1.783885236364e-04, 1.2306e+01, 1.0115e-02,
201112-23:16:10,84 nipype.interface INFO:
stdout 2020-11-12T23:16:10.084053: 2DIAGNOSTIC, 24, -9.471758008003e-01, 1.136425926234e-04, 1.2316e+01, 1.0113e-02,
201112-23:16:10,94 nipype.interface INFO:
stdout 2020-11-12T23:16:10.094354: 2DIAGNOSTIC, 25, -9.471798539162e-01, 4.527979399427e-05, 1.2326e+01, 1.0114e-02,
201112-23:16:10,103 nipype.interface INFO:
stdout 2020-11-12T23:16:10.103005: 2DIAGNOSTIC, 26, -9.471858739853e-01, 1.163480374089e-05, 1.2335e+01, 8.4431e-03,
201112-23:16:10,114 nipype.interface INFO:
stdout 2020-11-12T23:16:10.114967: 2DIAGNOSTIC, 27, -9.471895694733e-01, 7.516604455304e-06, 1.2346e+01, 1.1773e-02,
201112-23:16:10,125 nipype.interface INFO:
stdout 2020-11-12T23:16:10.125263: 2DIAGNOSTIC, 28, -9.471902251244e-01, 5.261254955258e-06, 1.2357e+01, 1.0107e-02,
201112-23:16:10,135 nipype.interface INFO:
stdout 2020-11-12T23:16:10.135562: 2DIAGNOSTIC, 29, -9.471927285194e-01, 3.745472895389e-06, 1.2367e+01, 1.0113e-02,
201112-23:16:10,145 nipype.interface INFO:
stdout 2020-11-12T23:16:10.145866: 2DIAGNOSTIC, 30, -9.471938610077e-01, 2.823262775564e-06, 1.2377e+01, 1.0113e-02,
201112-23:16:10,154 nipype.interface INFO:
stdout 2020-11-12T23:16:10.154507: 2DIAGNOSTIC, 31, -9.471966028214e-01, 2.103318138325e-06, 1.2385e+01, 8.4410e-03,
201112-23:16:10,165 nipype.interface INFO:
stdout 2020-11-12T23:16:10.165084: 2DIAGNOSTIC, 32, -9.471989274025e-01, 1.664778437771e-06, 1.2396e+01, 1.0386e-02,
201112-23:16:10,175 nipype.interface INFO:
stdout 2020-11-12T23:16:10.175388: 2DIAGNOSTIC, 33, -9.472001791000e-01, 1.434906948816e-06, 1.2406e+01, 1.0111e-02,
201112-23:16:10,184 nipype.interface INFO:
stdout 2020-11-12T23:16:10.184032: 2DIAGNOSTIC, 34, -9.472012519836e-01, 1.327206746282e-06, 1.2414e+01, 8.4410e-03,
201112-23:16:10,197 nipype.interface INFO:
stdout 2020-11-12T23:16:10.197619: 2DIAGNOSTIC, 35, -9.472035169601e-01, 1.242200028173e-06, 1.2428e+01, 1.3398e-02,
201112-23:16:10,207 nipype.interface INFO:
stdout 2020-11-12T23:16:10.207922: 2DIAGNOSTIC, 36, -9.472033381462e-01, 1.178337356578e-06, 1.2438e+01, 1.0116e-02,
201112-23:16:10,218 nipype.interface INFO:
stdout 2020-11-12T23:16:10.218217: 2DIAGNOSTIC, 37, -9.472054243088e-01, 1.137601429946e-06, 1.2448e+01, 1.0110e-02,
201112-23:16:10,228 nipype.interface INFO:
stdout 2020-11-12T23:16:10.228519: 2DIAGNOSTIC, 38, -9.472056627274e-01, 1.079451408259e-06, 1.2458e+01, 1.0115e-02,
201112-23:16:10,238 nipype.interface INFO:
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201112-23:16:10,249 nipype.interface INFO:
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201112-23:16:10,259 nipype.interface INFO:
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201112-23:16:10,269 nipype.interface INFO:
stdout 2020-11-12T23:16:10.269707: 2DIAGNOSTIC, 42, -9.472066164017e-01, 8.637209134577e-07, 1.2498e+01, 1.0109e-02,
201112-23:16:10,280 nipype.interface INFO:
stdout 2020-11-12T23:16:10.280010: 2DIAGNOSTIC, 43, -9.472068548203e-01, 8.207215387301e-07, 1.2508e+01, 1.0116e-02,
201112-23:16:10,290 nipype.interface INFO:
stdout 2020-11-12T23:16:10.290604: 2DIAGNOSTIC, 44, -9.472063183784e-01, 7.756351010357e-07, 1.2519e+01, 1.0404e-02,
201112-23:16:10,300 nipype.interface INFO:
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201112-23:16:10,312 nipype.interface INFO:
stdout 2020-11-12T23:16:10.312842: 2DIAGNOSTIC, 46, -9.472060203552e-01, 7.071561753946e-07, 1.2541e+01, 1.1751e-02,
201112-23:16:10,324 nipype.interface INFO:
stdout 2020-11-12T23:16:10.324781: 2DIAGNOSTIC, 47, -9.472071528435e-01, 6.901694860062e-07, 1.2552e+01, 1.1754e-02,
201112-23:16:10,335 nipype.interface INFO:
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201112-23:16:10,345 nipype.interface INFO:
stdout 2020-11-12T23:16:10.345380: 2DIAGNOSTIC, 49, -9.472059607506e-01, 6.505105716315e-07, 1.2573e+01, 1.0110e-02,
201112-23:16:10,355 nipype.interface INFO:
stdout 2020-11-12T23:16:10.355680: 2DIAGNOSTIC, 50, -9.472062587738e-01, 6.334305453493e-07, 1.2583e+01, 1.0106e-02,
201112-23:16:10,366 nipype.interface INFO:
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201112-23:16:10,376 nipype.interface INFO:
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201112-23:19:49,510 nipype.interface INFO:
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201112-23:19:50,182 nipype.interface INFO:
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201112-23:19:50,850 nipype.interface INFO:
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201112-23:19:51,512 nipype.interface INFO:
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201112-23:19:52,180 nipype.interface INFO:
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201112-23:19:52,849 nipype.interface INFO:
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201112-23:19:53,510 nipype.interface INFO:
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201112-23:19:54,178 nipype.interface INFO:
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201112-23:19:54,847 nipype.interface INFO:
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201112-23:19:55,508 nipype.interface INFO:
stdout 2020-11-12T23:19:55.508745: 2DIAGNOSTIC, 250, -5.831491947174e-01, 1.272413499009e-07, 2.3734e+02, 6.6087e-01,
201112-23:20:02,665 nipype.interface INFO:
stdout 2020-11-12T23:20:02.665375:DIAGNOSTIC,Iteration,metricValue,convergenceValue,ITERATION_TIME_INDEX,SINCE_LAST
201112-23:20:02,665 nipype.interface INFO:
stdout 2020-11-12T23:20:02.665935: 2DIAGNOSTIC, 1, -4.938548803329e-01, inf, 2.4450e+02, 7.1568e+00,
201112-23:20:07,930 nipype.interface INFO:
stdout 2020-11-12T23:20:07.930423: 2DIAGNOSTIC, 2, -4.940180182457e-01, inf, 2.4976e+02, 5.2643e+00,
201112-23:20:14,624 nipype.interface INFO:
stdout 2020-11-12T23:20:14.624427: 2DIAGNOSTIC, 3, -4.940288960934e-01, inf, 2.5646e+02, 6.6937e+00,
201112-23:20:19,151 nipype.interface INFO:
stdout 2020-11-12T23:20:19.151060: 2DIAGNOSTIC, 4, -4.940291643143e-01, inf, 2.6098e+02, 4.5260e+00,
201112-23:20:23,668 nipype.interface INFO:
stdout 2020-11-12T23:20:23.668151: 2DIAGNOSTIC, 5, -4.940284490585e-01, inf, 2.6550e+02, 4.5167e+00,
201112-23:20:28,921 nipype.interface INFO:
stdout 2020-11-12T23:20:28.921695: 2DIAGNOSTIC, 6, -4.940283298492e-01, inf, 2.7075e+02, 5.2532e+00,
201112-23:20:33,439 nipype.interface INFO:
stdout 2020-11-12T23:20:33.439840: 2DIAGNOSTIC, 7, -4.940278828144e-01, inf, 2.7527e+02, 4.5178e+00,
201112-23:20:37,967 nipype.interface INFO:
stdout 2020-11-12T23:20:37.966954: 2DIAGNOSTIC, 8, -4.940277636051e-01, inf, 2.7980e+02, 4.5267e+00,
201112-23:20:42,485 nipype.interface INFO:
stdout 2020-11-12T23:20:42.484954: 2DIAGNOSTIC, 9, -4.940279126167e-01, inf, 2.8432e+02, 4.5174e+00,
201112-23:20:47,9 nipype.interface INFO:
stdout 2020-11-12T23:20:47.009921: 2DIAGNOSTIC, 10, -4.940275847912e-01, 1.353296283924e-05, 2.8884e+02, 4.5246e+00,
201112-23:20:52,248 nipype.interface INFO:
stdout 2020-11-12T23:20:52.248833: 2DIAGNOSTIC, 11, -4.940265119076e-01, 3.209659098502e-06, 2.9408e+02, 5.2385e+00,
201112-23:20:56,767 nipype.interface INFO:
stdout 2020-11-12T23:20:56.767848: 2DIAGNOSTIC, 12, -4.940268099308e-01, 2.400433686489e-06, 2.9860e+02, 4.5186e+00,
201112-23:21:02,27 nipype.interface INFO:
stdout 2020-11-12T23:21:02.027203: 2DIAGNOSTIC, 13, -4.940265119076e-01, 2.204673819506e-06, 3.0386e+02, 5.2590e+00,
201112-23:21:07,269 nipype.interface INFO:
stdout 2020-11-12T23:21:07.269417: 2DIAGNOSTIC, 14, -4.940258860588e-01, 2.044423126790e-06, 3.0910e+02, 5.2418e+00,
201112-23:21:11,790 nipype.interface INFO:
stdout 2020-11-12T23:21:11.790412: 2DIAGNOSTIC, 15, -4.940258264542e-01, 1.897545189422e-06, 3.1362e+02, 4.5204e+00,
201112-23:21:16,319 nipype.interface INFO:
stdout 2020-11-12T23:21:16.319673: 2DIAGNOSTIC, 16, -4.940260350704e-01, 1.793473074940e-06, 3.1815e+02, 4.5289e+00,
201112-23:21:20,124 nipype.interface INFO:
stdout 2020-11-12T23:21:20.124416: 2DIAGNOSTIC, 17, -4.940256476402e-01, 1.690757812867e-06, 3.2195e+02, 3.8043e+00,
201112-23:21:24,644 nipype.interface INFO:
stdout 2020-11-12T23:21:24.644089: 2DIAGNOSTIC, 18, -4.940258860588e-01, 1.619716613277e-06, 3.2647e+02, 4.5193e+00,
201112-23:21:28,458 nipype.interface INFO:
stdout 2020-11-12T23:21:28.458110: 2DIAGNOSTIC, 19, -4.940260052681e-01, 1.578102001076e-06, 3.3028e+02, 3.8136e+00,
201112-23:21:32,986 nipype.interface INFO:
stdout 2020-11-12T23:21:32.986287: 2DIAGNOSTIC, 20, -4.940259158611e-01, 1.538305923532e-06, 3.3481e+02, 4.5278e+00,
201112-23:21:38,953 nipype.interface INFO:
stdout 2020-11-12T23:21:38.953606: 2DIAGNOSTIC, 21, -4.940256178379e-01, 1.469161475143e-06, 3.4078e+02, 5.9670e+00,
201112-23:21:43,477 nipype.interface INFO:
stdout 2020-11-12T23:21:43.477642: 2DIAGNOSTIC, 22, -4.940256476402e-01, 1.419508180334e-06, 3.4530e+02, 4.5236e+00,
201112-23:21:48,7 nipype.interface INFO:
stdout 2020-11-12T23:21:48.007109: 2DIAGNOSTIC, 23, -4.940256178379e-01, 1.368737571283e-06, 3.4983e+02, 4.5288e+00,
201112-23:21:52,535 nipype.interface INFO:
stdout 2020-11-12T23:21:52.535732: 2DIAGNOSTIC, 24, -4.940253496170e-01, 1.301909833273e-06, 3.5436e+02, 4.5282e+00,
201112-23:21:57,66 nipype.interface INFO:
stdout 2020-11-12T23:21:57.066097: 2DIAGNOSTIC, 25, -4.940253496170e-01, 1.241339305125e-06, 3.5889e+02, 4.5300e+00,
201112-23:22:01,601 nipype.interface INFO:
stdout 2020-11-12T23:22:01.601889: 2DIAGNOSTIC, 26, -4.940253794193e-01, 1.194012497763e-06, 3.6343e+02, 4.5354e+00,
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201112-23:22:09,948 nipype.interface INFO:
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201112-23:22:15,193 nipype.interface INFO:
stdout 2020-11-12T23:22:15.192913: 2DIAGNOSTIC, 29, -4.940256178379e-01, 1.082253675122e-06, 3.7702e+02, 5.2440e+00,
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stdout 2020-11-12T23:22:19.717232: 2DIAGNOSTIC, 30, -4.940254986286e-01, 1.055913116943e-06, 3.8154e+02, 4.5237e+00,
201112-23:22:24,244 nipype.interface INFO:
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stdout 2020-11-12T23:22:28.771878: 2DIAGNOSTIC, 32, -4.940254688263e-01, 1.000661200123e-06, 3.9059e+02, 4.5274e+00,
201112-23:22:33,299 nipype.interface INFO:
stdout 2020-11-12T23:22:33.299487: 2DIAGNOSTIC, 33, -4.940255880356e-01, 9.751565812621e-07, 3.9512e+02, 4.5270e+00,
201112-23:22:37,822 nipype.interface INFO:
stdout 2020-11-12T23:22:37.822500: 2DIAGNOSTIC, 34, -4.940256476402e-01, 9.464532695347e-07, 3.9964e+02, 4.5226e+00,
201112-23:22:42,343 nipype.interface INFO:
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stdout 2020-11-12T23:22:46.872126: 2DIAGNOSTIC, 36, -4.940256774426e-01, 8.924168355406e-07, 4.0869e+02, 4.5283e+00,
201112-23:22:51,391 nipype.interface INFO:
stdout 2020-11-12T23:22:51.391140: 2DIAGNOSTIC, 37, -4.940255582333e-01, 8.632669619146e-07, 4.1321e+02, 4.5185e+00,
201112-23:22:55,920 nipype.interface INFO:
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201112-23:23:04,971 nipype.interface INFO:
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201112-23:23:09,490 nipype.interface INFO:
stdout 2020-11-12T23:23:09.490448: 2DIAGNOSTIC, 41, -4.940252006054e-01, 7.697908017690e-07, 4.3131e+02, 4.5186e+00,
201112-23:23:14,15 nipype.interface INFO:
stdout 2020-11-12T23:23:14.015677: 2DIAGNOSTIC, 42, -4.940252900124e-01, 7.460448614438e-07, 4.3583e+02, 4.5248e+00,
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201112-23:23:23,61 nipype.interface INFO:
stdout 2020-11-12T23:23:23.061582: 2DIAGNOSTIC, 44, -4.940253496170e-01, 7.096012382135e-07, 4.4488e+02, 4.5248e+00,
201112-23:23:27,587 nipype.interface INFO:
stdout 2020-11-12T23:23:27.587841: 2DIAGNOSTIC, 45, -4.940253496170e-01, 6.956066727071e-07, 4.4940e+02, 4.5259e+00,
201112-23:23:32,116 nipype.interface INFO:
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201112-23:23:36,637 nipype.interface INFO:
stdout 2020-11-12T23:23:36.637663: 2DIAGNOSTIC, 47, -4.940254092216e-01, 6.727702839271e-07, 4.5845e+02, 4.5205e+00,
201112-23:23:41,165 nipype.interface INFO:
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201112-23:23:50,210 nipype.interface INFO:
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201112-23:23:54,737 nipype.interface INFO:
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201112-23:23:58,550 nipype.interface INFO:
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201112-23:24:03,89 nipype.interface INFO:
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201112-23:24:12,868 nipype.interface INFO:
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201112-23:24:26,436 nipype.interface INFO:
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201112-23:24:30,968 nipype.interface INFO:
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201112-23:24:49,54 nipype.interface INFO:
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201112-23:24:53,571 nipype.interface INFO:
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201112-23:24:58,106 nipype.interface INFO:
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201112-23:25:02,632 nipype.interface INFO:
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201112-23:25:16,205 nipype.interface INFO:
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201112-23:25:29,775 nipype.interface INFO:
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201112-23:25:38,828 nipype.interface INFO:
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201112-23:25:47,876 nipype.interface INFO:
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stdout 2020-11-12T23:26:28.630949: 2DIAGNOSTIC, 85, -4.940255284309e-01, 3.747830987777e-07, 6.3043e+02, 4.5269e+00,
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stdout 2020-11-12T23:26:33.160751: 2DIAGNOSTIC, 86, -4.940255284309e-01, 3.701451873894e-07, 6.3496e+02, 4.5294e+00,
201112-23:26:37,677 nipype.interface INFO:
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stdout 2020-11-12T23:26:42.208400: 2DIAGNOSTIC, 88, -4.940254688263e-01, 3.611869203723e-07, 6.4400e+02, 4.5302e+00,
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stdout 2020-11-12T23:26:46.725484: 2DIAGNOSTIC, 89, -4.940254390240e-01, 3.571202000785e-07, 6.4852e+02, 4.5167e+00,
201112-23:26:51,251 nipype.interface INFO:
stdout 2020-11-12T23:26:51.251722: 2DIAGNOSTIC, 90, -4.940254390240e-01, 3.523495593072e-07, 6.5305e+02, 4.5258e+00,
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stdout 2020-11-12T23:26:55.776004: 2DIAGNOSTIC, 91, -4.940254986286e-01, 3.492987730169e-07, 6.5757e+02, 4.5239e+00,
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stdout 2020-11-12T23:27:00.311109: 2DIAGNOSTIC, 92, -4.940254390240e-01, 3.456195827312e-07, 6.6211e+02, 4.5347e+00,
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stdout 2020-11-12T23:27:04.838439: 2DIAGNOSTIC, 93, -4.940254092216e-01, 3.411298621359e-07, 6.6663e+02, 4.5269e+00,
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stdout 2020-11-12T23:27:09.358277: 2DIAGNOSTIC, 94, -4.940254688263e-01, 3.373594381628e-07, 6.7115e+02, 4.5193e+00,
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201112-23:27:18,407 nipype.interface INFO:
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201112-23:27:27,451 nipype.interface INFO:
stdout 2020-11-12T23:27:27.451912: 2DIAGNOSTIC, 98, -4.940254986286e-01, 3.250896440932e-07, 6.8924e+02, 4.5191e+00,
201112-23:27:31,982 nipype.interface INFO:
stdout 2020-11-12T23:27:31.982168: 2DIAGNOSTIC, 99, -4.940254688263e-01, 3.218227959678e-07, 6.9377e+02, 4.5299e+00,
201112-23:27:36,504 nipype.interface INFO:
stdout 2020-11-12T23:27:36.504012: 2DIAGNOSTIC, 100, -4.940253198147e-01, 3.177142104960e-07, 6.9830e+02, 4.5214e+00,
201112-23:27:36,504 nipype.interface INFO:
stdout 2020-11-12T23:27:36.504734: Elapsed time (stage 0): 7.0134e+02
201112-23:27:36,504 nipype.interface INFO:
stdout 2020-11-12T23:27:36.504901:
201112-23:27:36,510 nipype.interface INFO:
stdout 2020-11-12T23:27:36.510781:
201112-23:27:36,510 nipype.interface INFO:
stdout 2020-11-12T23:27:36.510947:Stage 1
201112-23:27:36,511 nipype.interface INFO:
stdout 2020-11-12T23:27:36.511090: iterations = 1000x500x250x100
201112-23:27:36,511 nipype.interface INFO:
stdout 2020-11-12T23:27:36.511229: convergence threshold = 1.0000e-08
201112-23:27:36,511 nipype.interface INFO:
stdout 2020-11-12T23:27:36.511361: convergence window size = 10
201112-23:27:36,511 nipype.interface INFO:
stdout 2020-11-12T23:27:36.511500: number of levels = 4
201112-23:27:36,511 nipype.interface INFO:
stdout 2020-11-12T23:27:36.511663: using the Mattes MI metric (number of bins = 32, weight = 1.0000e+00)
201112-23:27:39,117 nipype.interface INFO:
stdout 2020-11-12T23:27:39.117761: preprocessing: winsorizing the image intensities
201112-23:27:39,118 nipype.interface INFO:
stdout 2020-11-12T23:27:39.117761: preprocessing: histogram matching the images
201112-23:27:39,118 nipype.interface INFO:
stdout 2020-11-12T23:27:39.118208: Shrink factors (level 1 out of 4): [8, 8, 8]
201112-23:27:39,118 nipype.interface INFO:
stdout 2020-11-12T23:27:39.118352: Shrink factors (level 2 out of 4): [4, 4, 4]
201112-23:27:39,118 nipype.interface INFO:
stdout 2020-11-12T23:27:39.118495: Shrink factors (level 3 out of 4): [2, 2, 2]
201112-23:27:39,118 nipype.interface INFO:
stdout 2020-11-12T23:27:39.118628: Shrink factors (level 4 out of 4): [1, 1, 1]
201112-23:27:39,118 nipype.interface INFO:
stdout 2020-11-12T23:27:39.118768: smoothing sigmas per level: [4, 2, 1, 0]
201112-23:27:39,118 nipype.interface INFO:
stdout 2020-11-12T23:27:39.118909: regular sampling (percentage = 2.5000e-01)
201112-23:27:39,123 nipype.interface INFO:
stdout 2020-11-12T23:27:39.123633:
201112-23:27:39,123 nipype.interface INFO:
stdout 2020-11-12T23:27:39.123800:*** Running AffineTransform registration ***
201112-23:27:39,123 nipype.interface INFO:
stdout 2020-11-12T23:27:39.123940:
201112-23:27:51,218 nipype.interface INFO:
stdout 2020-11-12T23:27:51.218406:DIAGNOSTIC,Iteration,metricValue,convergenceValue,ITERATION_TIME_INDEX,SINCE_LAST
201112-23:27:51,218 nipype.interface INFO:
stdout 2020-11-12T23:27:51.218772: 2DIAGNOSTIC, 1, -9.329679012299e-01, inf, 1.2097e+01, 1.2097e+01,
201112-23:27:51,228 nipype.interface INFO:
stdout 2020-11-12T23:27:51.228706: 2DIAGNOSTIC, 2, -9.359807372093e-01, inf, 1.2107e+01, 9.7609e-03,
201112-23:27:51,238 nipype.interface INFO:
stdout 2020-11-12T23:27:51.238650: 2DIAGNOSTIC, 3, -9.403715133667e-01, inf, 1.2117e+01, 9.7680e-03,
201112-23:27:51,248 nipype.interface INFO:
stdout 2020-11-12T23:27:51.248604: 2DIAGNOSTIC, 4, -9.458397626877e-01, inf, 1.2127e+01, 9.7802e-03,
201112-23:27:51,258 nipype.interface INFO:
stdout 2020-11-12T23:27:51.258568: 2DIAGNOSTIC, 5, -9.512743353844e-01, inf, 1.2136e+01, 9.7921e-03,
201112-23:27:51,268 nipype.interface INFO:
stdout 2020-11-12T23:27:51.268818: 2DIAGNOSTIC, 6, -9.565517902374e-01, inf, 1.2146e+01, 1.0081e-02,
201112-23:27:51,278 nipype.interface INFO:
stdout 2020-11-12T23:27:51.278780: 2DIAGNOSTIC, 7, -9.629280567169e-01, inf, 1.2156e+01, 9.7849e-03,
201112-23:27:51,290 nipype.interface INFO:
stdout 2020-11-12T23:27:51.290550: 2DIAGNOSTIC, 8, -9.709925055504e-01, inf, 1.2168e+01, 1.1598e-02,
201112-23:27:51,312 nipype.interface INFO:
stdout 2020-11-12T23:27:51.312683: 2DIAGNOSTIC, 9, -9.828751683235e-01, inf, 1.2190e+01, 2.1962e-02,
201112-23:27:51,322 nipype.interface INFO:
stdout 2020-11-12T23:27:51.322824: 2DIAGNOSTIC, 10, -9.830767512321e-01, 3.611946711317e-03, 1.2200e+01, 9.9621e-03,
201112-23:27:51,332 nipype.interface INFO:
stdout 2020-11-12T23:27:51.332897: 2DIAGNOSTIC, 11, -9.833685159683e-01, 3.262607846409e-03, 1.2210e+01, 9.8870e-03,
201112-23:27:51,342 nipype.interface INFO:
stdout 2020-11-12T23:27:51.342971: 2DIAGNOSTIC, 12, -9.837772846222e-01, 2.766902092844e-03, 1.2219e+01, 9.8870e-03,
201112-23:27:51,353 nipype.interface INFO:
stdout 2020-11-12T23:27:51.353043: 2DIAGNOSTIC, 13, -9.842413663864e-01, 2.205313416198e-03, 1.2229e+01, 9.8851e-03,
201112-23:27:51,363 nipype.interface INFO:
stdout 2020-11-12T23:27:51.363130: 2DIAGNOSTIC, 14, -9.846549034119e-01, 1.644951989874e-03, 1.2239e+01, 9.8832e-03,
201112-23:27:51,373 nipype.interface INFO:
stdout 2020-11-12T23:27:51.373225: 2DIAGNOSTIC, 15, -9.850180745125e-01, 1.124934526160e-03, 1.2249e+01, 9.9061e-03,
201112-23:27:51,383 nipype.interface INFO:
stdout 2020-11-12T23:27:51.383294: 2DIAGNOSTIC, 16, -9.853488802910e-01, 6.732331239618e-04, 1.2259e+01, 9.8798e-03,
201112-23:27:51,400 nipype.interface INFO:
stdout 2020-11-12T23:27:51.400441: 2DIAGNOSTIC, 17, -9.855554103851e-01, 3.260007069912e-04, 1.2276e+01, 1.6961e-02,
201112-23:27:51,412 nipype.interface INFO:
stdout 2020-11-12T23:27:51.412267: 2DIAGNOSTIC, 18, -9.856137633324e-01, 1.149227100541e-04, 1.2288e+01, 1.1636e-02,
201112-23:27:51,422 nipype.interface INFO:
stdout 2020-11-12T23:27:51.422343: 2DIAGNOSTIC, 19, -9.856407642365e-01, 9.965967183234e-05, 1.2298e+01, 9.8889e-03,
201112-23:27:51,432 nipype.interface INFO:
stdout 2020-11-12T23:27:51.432411: 2DIAGNOSTIC, 20, -9.856840372086e-01, 8.041415276239e-05, 1.2307e+01, 9.8739e-03,
201112-23:27:51,442 nipype.interface INFO:
stdout 2020-11-12T23:27:51.442482: 2DIAGNOSTIC, 21, -9.857212305069e-01, 6.017838313710e-05, 1.2317e+01, 9.8739e-03,
201112-23:27:51,454 nipype.interface INFO:
stdout 2020-11-12T23:27:51.454251: 2DIAGNOSTIC, 22, -9.857340455055e-01, 4.184103818261e-05, 1.2329e+01, 1.1587e-02,
201112-23:27:51,467 nipype.interface INFO:
stdout 2020-11-12T23:27:51.467740: 2DIAGNOSTIC, 23, -9.857398867607e-01, 2.727507853706e-05, 1.2342e+01, 1.3307e-02,
201112-23:27:51,479 nipype.interface INFO:
stdout 2020-11-12T23:27:51.479505: 2DIAGNOSTIC, 24, -9.857438206673e-01, 1.655485175434e-05, 1.2354e+01, 1.1584e-02,
201112-23:27:51,489 nipype.interface INFO:
stdout 2020-11-12T23:27:51.489556: 2DIAGNOSTIC, 25, -9.857441186905e-01, 9.439245332032e-06, 1.2364e+01, 9.8660e-03,
201112-23:27:51,503 nipype.interface INFO:
stdout 2020-11-12T23:27:51.503010: 2DIAGNOSTIC, 26, -9.857482910156e-01, 5.808871719637e-06, 1.2377e+01, 1.3272e-02,
201112-23:27:51,515 nipype.interface INFO:
stdout 2020-11-12T23:27:51.515025: 2DIAGNOSTIC, 27, -9.857493042946e-01, 4.250391612004e-06, 1.2389e+01, 1.1833e-02,
201112-23:27:51,526 nipype.interface INFO:
stdout 2020-11-12T23:27:51.526788: 2DIAGNOSTIC, 28, -9.857501983643e-01, 3.135215365546e-06, 1.2400e+01, 1.1580e-02,
201112-23:27:51,538 nipype.interface INFO:
stdout 2020-11-12T23:27:51.538566: 2DIAGNOSTIC, 29, -9.857513904572e-01, 2.187319751101e-06, 1.2412e+01, 1.1591e-02,
201112-23:27:51,548 nipype.interface INFO:
stdout 2020-11-12T23:27:51.548617: 2DIAGNOSTIC, 30, -9.857521057129e-01, 1.620107468625e-06, 1.2422e+01, 9.8660e-03,
201112-23:27:51,560 nipype.interface INFO:
stdout 2020-11-12T23:27:51.560377: 2DIAGNOSTIC, 31, -9.857539534569e-01, 1.401854774485e-06, 1.2433e+01, 1.1572e-02,
201112-23:27:51,572 nipype.interface INFO:
stdout 2020-11-12T23:27:51.572193: 2DIAGNOSTIC, 32, -9.857549667358e-01, 1.286956376134e-06, 1.2445e+01, 1.1628e-02,
201112-23:27:51,589 nipype.interface INFO:
stdout 2020-11-12T23:27:51.589065: 2DIAGNOSTIC, 33, -9.857577681541e-01, 1.227923462466e-06, 1.2462e+01, 1.6690e-02,
201112-23:27:51,599 nipype.interface INFO:
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201112-23:27:51,610 nipype.interface INFO:
stdout 2020-11-12T23:27:51.610876: 2DIAGNOSTIC, 35, -9.857589602470e-01, 1.131084673034e-06, 1.2483e+01, 1.1578e-02,
201112-23:27:51,622 nipype.interface INFO:
stdout 2020-11-12T23:27:51.622650: 2DIAGNOSTIC, 36, -9.857602715492e-01, 1.103233216782e-06, 1.2495e+01, 1.1593e-02,
201112-23:27:51,632 nipype.interface INFO:
stdout 2020-11-12T23:27:51.632723: 2DIAGNOSTIC, 37, -9.857614636421e-01, 1.073622570402e-06, 1.2505e+01, 9.8760e-03,
201112-23:27:51,644 nipype.interface INFO:
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201112-23:27:51,656 nipype.interface INFO:
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201112-23:27:51,668 nipype.interface INFO:
stdout 2020-11-12T23:27:51.668316: 2DIAGNOSTIC, 40, -9.857633113861e-01, 9.520172739030e-07, 1.2540e+01, 1.1595e-02,
201112-23:27:51,680 nipype.interface INFO:
stdout 2020-11-12T23:27:51.680085: 2DIAGNOSTIC, 41, -9.857642054558e-01, 9.149911193163e-07, 1.2551e+01, 1.1582e-02,
201112-23:27:51,691 nipype.interface INFO:
stdout 2020-11-12T23:27:51.691876: 2DIAGNOSTIC, 42, -9.857645630836e-01, 8.758948979448e-07, 1.2563e+01, 1.1607e-02,
201112-23:27:51,705 nipype.interface INFO:
stdout 2020-11-12T23:27:51.705337: 2DIAGNOSTIC, 43, -9.857650399208e-01, 8.500576313963e-07, 1.2576e+01, 1.3279e-02,
201112-23:27:51,717 nipype.interface INFO:
stdout 2020-11-12T23:27:51.717116: 2DIAGNOSTIC, 44, -9.857652783394e-01, 8.200594265872e-07, 1.2588e+01, 1.1588e-02,
201112-23:27:51,728 nipype.interface INFO:
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201112-23:27:51,740 nipype.interface INFO:
stdout 2020-11-12T23:27:51.740661: 2DIAGNOSTIC, 46, -9.857662320137e-01, 7.706194082857e-07, 1.2611e+01, 1.1594e-02,
201112-23:27:51,752 nipype.interface INFO:
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201112-23:27:51,764 nipype.interface INFO:
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201112-23:27:51,776 nipype.interface INFO:
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201112-23:27:51,788 nipype.interface INFO:
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201112-23:27:51,807 nipype.interface INFO:
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201112-23:27:51,818 nipype.interface INFO:
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201112-23:27:51,830 nipype.interface INFO:
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201112-23:27:51,842 nipype.interface INFO:
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201112-23:27:51,854 nipype.interface INFO:
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201112-23:27:51,869 nipype.interface INFO:
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201112-23:27:51,910 nipype.interface INFO:
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201112-23:27:51,955 nipype.interface INFO:
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201112-23:27:51,967 nipype.interface INFO:
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201112-23:27:52,4 nipype.interface INFO:
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stdout 2020-11-12T23:28:00.001775: 2DIAGNOSTIC, 738, -9.857689738274e-01, 4.307724665864e-08, 2.0743e+01, 1.1835e-02,
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stdout 2020-11-12T23:28:00.120028: 2DIAGNOSTIC, 748, -9.857688546181e-01, 4.249820406699e-08, 2.0860e+01, 1.1819e-02,
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stdout 2020-11-12T23:28:00.273581: 2DIAGNOSTIC, 761, -9.857688546181e-01, 4.177192280963e-08, 2.1011e+01, 1.1847e-02,
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201112-23:28:57,934 nipype.interface INFO:
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201112-23:28:57,934 nipype.interface INFO:
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201112-23:32:58,589 nipype.interface INFO:
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201112-23:33:19,462 nipype.interface INFO:
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201112-23:33:24,880 nipype.interface INFO:
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201112-23:33:29,517 nipype.interface INFO:
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201112-23:33:34,931 nipype.interface INFO:
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201112-23:33:40,336 nipype.interface INFO:
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201112-23:33:45,746 nipype.interface INFO:
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201112-23:33:51,943 nipype.interface INFO:
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201112-23:34:01,229 nipype.interface INFO:
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201112-23:35:40,280 nipype.interface INFO:
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201112-23:35:51,888 nipype.interface INFO:
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201112-23:35:57,306 nipype.interface INFO:
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201112-23:36:02,740 nipype.interface INFO:
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201112-23:36:24,412 nipype.interface INFO:
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201112-23:36:51,490 nipype.interface INFO:
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201112-23:37:02,322 nipype.interface INFO:
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201112-23:37:30,956 nipype.interface INFO:
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201112-23:38:04,234 nipype.interface INFO:
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201112-23:39:03,42 nipype.interface INFO:
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201112-23:39:41,721 nipype.interface INFO:
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201112-23:41:14,595 nipype.interface INFO:
stdout 2020-11-12T23:41:14.595850:
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stdout 2020-11-12T23:41:14.601874:
201112-23:41:14,602 nipype.interface INFO:
stdout 2020-11-12T23:41:14.602040:Stage 2
201112-23:41:14,602 nipype.interface INFO:
stdout 2020-11-12T23:41:14.602188: iterations = 50x10x0
201112-23:41:14,602 nipype.interface INFO:
stdout 2020-11-12T23:41:14.602330: convergence threshold = 1.0000e-09
201112-23:41:14,602 nipype.interface INFO:
stdout 2020-11-12T23:41:14.602468: convergence window size = 15
201112-23:41:14,602 nipype.interface INFO:
stdout 2020-11-12T23:41:14.602600: number of levels = 3
201112-23:41:14,602 nipype.interface INFO:
stdout 2020-11-12T23:41:14.602766: using the CC metric (radius = 4, weight = 5.0000e-01)
201112-23:41:17,176 nipype.interface INFO:
stdout 2020-11-12T23:41:17.176904: preprocessing: winsorizing the image intensities
201112-23:41:17,177 nipype.interface INFO:
stdout 2020-11-12T23:41:17.176904: preprocessing: histogram matching the images
201112-23:41:17,177 nipype.interface INFO:
stdout 2020-11-12T23:41:17.177389: using the CC metric (radius = 4, weight = 5.0000e-01)
201112-23:41:19,837 nipype.interface INFO:
stdout 2020-11-12T23:41:19.836977: preprocessing: winsorizing the image intensities
201112-23:41:19,837 nipype.interface INFO:
stdout 2020-11-12T23:41:19.836977: preprocessing: histogram matching the images
201112-23:41:19,837 nipype.interface INFO:
stdout 2020-11-12T23:41:19.837388: Shrink factors (level 1 out of 3): [4, 4, 4]
201112-23:41:19,837 nipype.interface INFO:
stdout 2020-11-12T23:41:19.837547: Shrink factors (level 2 out of 3): [2, 2, 2]
201112-23:41:19,837 nipype.interface INFO:
stdout 2020-11-12T23:41:19.837685: Shrink factors (level 3 out of 3): [1, 1, 1]
201112-23:41:19,837 nipype.interface INFO:
stdout 2020-11-12T23:41:19.837825: smoothing sigmas per level: [2, 1, 0]
201112-23:41:19,837 nipype.interface INFO:
stdout 2020-11-12T23:41:19.837956: Using default NONE metricSamplingStrategy
201112-23:41:19,971 nipype.interface INFO:
stdout 2020-11-12T23:41:19.971639:
201112-23:41:19,971 nipype.interface INFO:
stdout 2020-11-12T23:41:19.971975:*** Running SyN registration (varianceForUpdateField = 3.0000e+00, varianceForTotalField = 0.0000e+00) ***
201112-23:41:19,972 nipype.interface INFO:
stdout 2020-11-12T23:41:19.972119:
201112-23:41:47,338 nipype.interface INFO:
stdout 2020-11-12T23:41:47.338011:XXDIAGNOSTIC,Iteration,metricValue,convergenceValue,ITERATION_TIME_INDEX,SINCE_LAST
201112-23:41:47,338 nipype.interface INFO:
stdout 2020-11-12T23:41:47.338352: 1DIAGNOSTIC, 1, -4.308632016182e-01, inf, 2.7367e+01, 2.7367e+01,
201112-23:42:05,884 nipype.interface INFO:
stdout 2020-11-12T23:42:05.884708: 1DIAGNOSTIC, 2, -4.387815594673e-01, inf, 4.5911e+01, 1.8544e+01,
201112-23:42:24,432 nipype.interface INFO:
stdout 2020-11-12T23:42:24.432833: 1DIAGNOSTIC, 3, -4.494206309319e-01, inf, 6.4459e+01, 1.8548e+01,
201112-23:42:42,926 nipype.interface INFO:
stdout 2020-11-12T23:42:42.926068: 1DIAGNOSTIC, 4, -4.575911164284e-01, inf, 8.2951e+01, 1.8493e+01,
201112-23:43:01,146 nipype.interface INFO:
stdout 2020-11-12T23:43:01.146832: 1DIAGNOSTIC, 5, -4.658152461052e-01, inf, 1.0117e+02, 1.8220e+01,
201112-23:43:19,554 nipype.interface INFO:
stdout 2020-11-12T23:43:19.554499: 1DIAGNOSTIC, 6, -4.728555083275e-01, inf, 1.1958e+02, 1.8407e+01,
201112-23:43:37,933 nipype.interface INFO:
stdout 2020-11-12T23:43:37.932954: 1DIAGNOSTIC, 7, -4.804609417915e-01, inf, 1.3796e+02, 1.8378e+01,
201112-23:43:56,311 nipype.interface INFO:
stdout 2020-11-12T23:43:56.311534: 1DIAGNOSTIC, 8, -4.876075088978e-01, inf, 1.5634e+02, 1.8378e+01,
201112-23:44:14,614 nipype.interface INFO:
stdout 2020-11-12T23:44:14.614335: 1DIAGNOSTIC, 9, -4.947205483913e-01, inf, 1.7464e+02, 1.8302e+01,
201112-23:44:32,834 nipype.interface INFO:
stdout 2020-11-12T23:44:32.834314: 1DIAGNOSTIC, 10, -5.019903182983e-01, inf, 1.9286e+02, 1.8219e+01,
201112-23:44:51,8 nipype.interface INFO:
stdout 2020-11-12T23:44:51.008540: 1DIAGNOSTIC, 11, -5.089237689972e-01, inf, 2.1103e+02, 1.8174e+01,
201112-23:45:09,388 nipype.interface INFO:
stdout 2020-11-12T23:45:09.388513: 1DIAGNOSTIC, 12, -5.157533884048e-01, inf, 2.2941e+02, 1.8380e+01,
201112-23:45:27,646 nipype.interface INFO:
stdout 2020-11-12T23:45:27.645950: 1DIAGNOSTIC, 13, -5.223283767700e-01, inf, 2.4767e+02, 1.8257e+01,
201112-23:45:46,39 nipype.interface INFO:
stdout 2020-11-12T23:45:46.039722: 1DIAGNOSTIC, 14, -5.287880897522e-01, inf, 2.6606e+02, 1.8393e+01,
201112-23:46:04,317 nipype.interface INFO:
stdout 2020-11-12T23:46:04.317477: 1DIAGNOSTIC, 15, -5.348426103592e-01, 8.713841438293e-03, 2.8434e+02, 1.8277e+01,
201112-23:46:22,641 nipype.interface INFO:
stdout 2020-11-12T23:46:22.641206: 1DIAGNOSTIC, 16, -5.406090021133e-01, 7.881717756391e-03, 3.0266e+02, 1.8323e+01,
201112-23:46:41,3 nipype.interface INFO:
stdout 2020-11-12T23:46:41.003769: 1DIAGNOSTIC, 17, -5.461419820786e-01, 7.130445912480e-03, 3.2102e+02, 1.8362e+01,
201112-23:46:59,272 nipype.interface INFO:
stdout 2020-11-12T23:46:59.272800: 1DIAGNOSTIC, 18, -5.513364076614e-01, 6.509895436466e-03, 3.3929e+02, 1.8269e+01,
201112-23:47:17,675 nipype.interface INFO:
stdout 2020-11-12T23:47:17.675166: 1DIAGNOSTIC, 19, -5.560004115105e-01, 5.945310927927e-03, 3.5769e+02, 1.8402e+01,
201112-23:47:36,39 nipype.interface INFO:
stdout 2020-11-12T23:47:36.039846: 1DIAGNOSTIC, 20, -5.601726770401e-01, 5.428516305983e-03, 3.7606e+02, 1.8364e+01,
201112-23:47:54,316 nipype.interface INFO:
stdout 2020-11-12T23:47:54.316033: 1DIAGNOSTIC, 21, -5.639762878418e-01, 4.932153038681e-03, 3.9433e+02, 1.8276e+01,
201112-23:48:12,618 nipype.interface INFO:
stdout 2020-11-12T23:48:12.618637: 1DIAGNOSTIC, 22, -5.676417350769e-01, 4.470103420317e-03, 4.1264e+02, 1.8302e+01,
201112-23:48:31,40 nipype.interface INFO:
stdout 2020-11-12T23:48:31.040426: 1DIAGNOSTIC, 23, -5.708720684052e-01, 4.032010212541e-03, 4.3106e+02, 1.8421e+01,
201112-23:48:49,345 nipype.interface INFO:
stdout 2020-11-12T23:48:49.345846: 1DIAGNOSTIC, 24, -5.743986368179e-01, 3.628145437688e-03, 4.4936e+02, 1.8305e+01,
201112-23:49:07,689 nipype.interface INFO:
stdout 2020-11-12T23:49:07.689827: 1DIAGNOSTIC, 25, -5.776093006134e-01, 3.260922851041e-03, 4.6771e+02, 1.8344e+01,
201112-23:49:26,18 nipype.interface INFO:
stdout 2020-11-12T23:49:26.018883: 1DIAGNOSTIC, 26, -5.804140567780e-01, 2.924003405496e-03, 4.8603e+02, 1.8329e+01,
201112-23:49:44,346 nipype.interface INFO:
stdout 2020-11-12T23:49:44.346879: 1DIAGNOSTIC, 27, -5.830613374710e-01, 2.618819708005e-03, 5.0436e+02, 1.8328e+01,
201112-23:50:02,729 nipype.interface INFO:
stdout 2020-11-12T23:50:02.729153: 1DIAGNOSTIC, 28, -5.855728387833e-01, 2.344527980313e-03, 5.2274e+02, 1.8382e+01,
201112-23:50:21,144 nipype.interface INFO:
stdout 2020-11-12T23:50:21.144190: 1DIAGNOSTIC, 29, -5.879508256912e-01, 2.101861871779e-03, 5.4116e+02, 1.8414e+01,
201112-23:50:39,480 nipype.interface INFO:
stdout 2020-11-12T23:50:39.480123: 1DIAGNOSTIC, 30, -5.902029871941e-01, 1.887365477160e-03, 5.5949e+02, 1.8336e+01,
201112-23:50:57,902 nipype.interface INFO:
stdout 2020-11-12T23:50:57.902343: 1DIAGNOSTIC, 31, -5.923261642456e-01, 1.698930631392e-03, 5.7791e+02, 1.8422e+01,
201112-23:51:16,168 nipype.interface INFO:
stdout 2020-11-12T23:51:16.168681: 1DIAGNOSTIC, 32, -5.943253040314e-01, 1.535050920211e-03, 5.9618e+02, 1.8266e+01,
201112-23:51:34,595 nipype.interface INFO:
stdout 2020-11-12T23:51:34.595072: 1DIAGNOSTIC, 33, -5.961698889732e-01, 1.392555423081e-03, 6.1461e+02, 1.8426e+01,
201112-23:51:52,901 nipype.interface INFO:
stdout 2020-11-12T23:51:52.901351: 1DIAGNOSTIC, 34, -5.985978841782e-01, 1.273984787986e-03, 6.3291e+02, 1.8305e+01,
201112-23:52:11,176 nipype.interface INFO:
stdout 2020-11-12T23:52:11.176097: 1DIAGNOSTIC, 35, -6.002042889595e-01, 1.166676636785e-03, 6.5119e+02, 1.8274e+01,
201112-23:52:29,512 nipype.interface INFO:
stdout 2020-11-12T23:52:29.512157: 1DIAGNOSTIC, 36, -6.021654605865e-01, 1.072527724318e-03, 6.6952e+02, 1.8335e+01,
201112-23:52:47,829 nipype.interface INFO:
stdout 2020-11-12T23:52:47.829782: 1DIAGNOSTIC, 37, -6.038780212402e-01, 9.891414083540e-04, 6.8784e+02, 1.8317e+01,
201112-23:53:06,136 nipype.interface INFO:
stdout 2020-11-12T23:53:06.136181: 1DIAGNOSTIC, 38, -6.049351692200e-01, 9.075250127353e-04, 7.0614e+02, 1.8306e+01,
201112-23:53:24,452 nipype.interface INFO:
stdout 2020-11-12T23:53:24.452657: 1DIAGNOSTIC, 39, -6.059670448303e-01, 8.325484232046e-04, 7.2446e+02, 1.8314e+01,
201112-23:53:42,714 nipype.interface INFO:
stdout 2020-11-12T23:53:42.714493: 1DIAGNOSTIC, 40, -6.070924997330e-01, 7.639262476005e-04, 7.4272e+02, 1.8261e+01,
201112-23:54:01,116 nipype.interface INFO:
stdout 2020-11-12T23:54:01.116220: 1DIAGNOSTIC, 41, -6.082533001900e-01, 6.998391472735e-04, 7.6112e+02, 1.8401e+01,
201112-23:54:19,442 nipype.interface INFO:
stdout 2020-11-12T23:54:19.441943: 1DIAGNOSTIC, 42, -6.097448468208e-01, 6.431633955799e-04, 7.7945e+02, 1.8325e+01,
201112-23:54:37,755 nipype.interface INFO:
stdout 2020-11-12T23:54:37.755197: 1DIAGNOSTIC, 43, -6.108130812645e-01, 5.903230630793e-04, 7.9776e+02, 1.8313e+01,
201112-23:54:56,29 nipype.interface INFO:
stdout 2020-11-12T23:54:56.029277: 1DIAGNOSTIC, 44, -6.117733120918e-01, 5.408211727627e-04, 8.1603e+02, 1.8274e+01,
201112-23:55:14,285 nipype.interface INFO:
stdout 2020-11-12T23:55:14.285231: 1DIAGNOSTIC, 45, -6.127041578293e-01, 4.948604619130e-04, 8.3429e+02, 1.8255e+01,
201112-23:55:32,577 nipype.interface INFO:
stdout 2020-11-12T23:55:32.577384: 1DIAGNOSTIC, 46, -6.135405302048e-01, 4.519762878772e-04, 8.5258e+02, 1.8292e+01,
201112-23:55:50,896 nipype.interface INFO:
stdout 2020-11-12T23:55:50.896355: 1DIAGNOSTIC, 47, -6.147954463959e-01, 4.154292400926e-04, 8.7090e+02, 1.8318e+01,
201112-23:56:09,219 nipype.interface INFO:
stdout 2020-11-12T23:56:09.219528: 1DIAGNOSTIC, 48, -6.154296398163e-01, 3.800339763984e-04, 8.8922e+02, 1.8321e+01,
201112-23:56:27,532 nipype.interface INFO:
stdout 2020-11-12T23:56:27.532653: 1DIAGNOSTIC, 49, -6.160721778870e-01, 3.511964168865e-04, 9.0753e+02, 1.8313e+01,
201112-23:56:46,60 nipype.interface INFO:
stdout 2020-11-12T23:56:46.060473: 1DIAGNOSTIC, 50, -6.167148947716e-01, 3.236344491597e-04, 9.2606e+02, 1.8527e+01,
201112-23:59:14,590 nipype.interface INFO:
stdout 2020-11-12T23:59:14.590463:XXDIAGNOSTIC,Iteration,metricValue,convergenceValue,ITERATION_TIME_INDEX,SINCE_LAST
201112-23:59:14,591 nipype.interface INFO:
stdout 2020-11-12T23:59:14.591001: 1DIAGNOSTIC, 1, -5.112447738647e-01, inf, 1.0746e+03, 1.4853e+02,
201113-00:01:37,87 nipype.interface INFO:
stdout 2020-11-13T00:01:37.087310: 1DIAGNOSTIC, 2, -5.131239891052e-01, inf, 1.2171e+03, 1.4250e+02,
201113-00:03:59,217 nipype.interface INFO:
stdout 2020-11-13T00:03:59.216944: 1DIAGNOSTIC, 3, -5.167586803436e-01, inf, 1.3592e+03, 1.4213e+02,
201113-00:06:22,212 nipype.interface INFO:
stdout 2020-11-13T00:06:22.212548: 1DIAGNOSTIC, 4, -5.202782154083e-01, inf, 1.5022e+03, 1.4300e+02,
201113-00:08:44,352 nipype.interface INFO:
stdout 2020-11-13T00:08:44.352089: 1DIAGNOSTIC, 5, -5.235526561737e-01, inf, 1.6443e+03, 1.4214e+02,
201113-00:11:06,570 nipype.interface INFO:
stdout 2020-11-13T00:11:06.570138: 1DIAGNOSTIC, 6, -5.262285470963e-01, inf, 1.7866e+03, 1.4222e+02,
201113-00:13:28,760 nipype.interface INFO:
stdout 2020-11-13T00:13:28.760384: 1DIAGNOSTIC, 7, -5.287971496582e-01, inf, 1.9288e+03, 1.4219e+02,
201113-00:15:52,187 nipype.interface INFO:
stdout 2020-11-13T00:15:52.187620: 1DIAGNOSTIC, 8, -5.311577916145e-01, inf, 2.0722e+03, 1.4343e+02,
201113-00:18:14,829 nipype.interface INFO:
stdout 2020-11-13T00:18:14.829387: 1DIAGNOSTIC, 9, -5.332680940628e-01, inf, 2.2148e+03, 1.4264e+02,
201113-00:20:39,300 nipype.interface INFO:
stdout 2020-11-13T00:20:39.300556: 1DIAGNOSTIC, 10, -5.349868535995e-01, inf, 2.3593e+03, 1.4447e+02,
201113-00:21:00,81 nipype.interface INFO:
stdout 2020-11-13T00:21:00.081554: Elapsed time (stage 2): 2385
201113-00:21:00,82 nipype.interface INFO:
stdout 2020-11-13T00:21:00.082061:
201113-00:21:00,87 nipype.interface INFO:
stdout 2020-11-13T00:21:00.087250:
201113-00:21:00,87 nipype.interface INFO:
stdout 2020-11-13T00:21:00.087414:Total elapsed time: 3905
201113-00:22:50,611 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.anat_preproc_niworkflows_ants_0.anat_preproc_niworkflows_ants_0_skullstrip.anat_skullstrip_ants.norm".
201113-00:22:50,621 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.anat_preproc_niworkflows_ants_0.anat_preproc_niworkflows_ants_0_skullstrip.anat_skullstrip_ants.map_brainmask" in "/outputs/tmp/resting_preproc_sub-018_ses-1/anat_preproc_niworkflows_ants_0/anat_preproc_niworkflows_ants_0_skullstrip/anat_skullstrip_ants/map_brainmask".
201113-00:22:50,641 nipype.workflow INFO:
[Node] Running "map_brainmask" ("CPAC.utils.interfaces.fixes.FixHeaderApplyTransforms"), a CommandLine Interface with command:
antsApplyTransforms --default-value 0 --float 1 --input /ants_template/oasis/T_template0_BrainCerebellumProbabilityMask.nii.gz --interpolation Gaussian --output T_template0_BrainCerebellumProbabilityMask_trans.nii.gz --reference-image /outputs/tmp/resting_preproc_sub-018_ses-1/anat_preproc_niworkflows_ants_0/anat_reorient/sub-018_ses-1_T1w_resample.nii.gz --transform [ /outputs/tmp/resting_preproc_sub-018_ses-1/anat_preproc_niworkflows_ants_0/anat_preproc_niworkflows_ants_0_skullstrip/anat_skullstrip_ants/norm/anat_to_template0GenericAffine.mat, 1 ] --transform [ /outputs/tmp/resting_preproc_sub-018_ses-1/anat_preproc_niworkflows_ants_0/anat_preproc_niworkflows_ants_0_skullstrip/anat_skullstrip_ants/norm/anat_to_template1InverseWarp.nii.gz, 0 ]
201113-00:23:21,971 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.anat_preproc_niworkflows_ants_0.anat_preproc_niworkflows_ants_0_skullstrip.anat_skullstrip_ants.map_brainmask".
201113-00:23:21,973 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.anat_preproc_niworkflows_ants_0.anat_preproc_niworkflows_ants_0_skullstrip.anat_skullstrip_ants.thr_brainmask" in "/outputs/tmp/resting_preproc_sub-018_ses-1/anat_preproc_niworkflows_ants_0/anat_preproc_niworkflows_ants_0_skullstrip/anat_skullstrip_ants/thr_brainmask".
201113-00:23:21,981 nipype.workflow INFO:
[Node] Running "thr_brainmask" ("CPAC.utils.interfaces.ants.ThresholdImage"), a CommandLine Interface with command:
ThresholdImage 3 /outputs/tmp/resting_preproc_sub-018_ses-1/anat_preproc_niworkflows_ants_0/anat_preproc_niworkflows_ants_0_skullstrip/anat_skullstrip_ants/map_brainmask/T_template0_BrainCerebellumProbabilityMask_trans.nii.gz T_template0_BrainCerebellumProbabilityMask_trans_resampled.nii.gz 0.500000 1.000000 1.000000 0.000000
201113-00:23:22,437 nipype.interface INFO:
stderr 2020-11-13T00:23:22.436993: file 1.000000 does not exist .
201113-00:23:22,932 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.anat_preproc_niworkflows_ants_0.anat_preproc_niworkflows_ants_0_skullstrip.anat_skullstrip_ants.thr_brainmask".
201113-00:23:22,934 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.anat_preproc_niworkflows_ants_0.anat_preproc_niworkflows_ants_0_skullstrip.anat_skullstrip_ants.atropos_wf.03_pad_mask" in "/outputs/tmp/resting_preproc_sub-018_ses-1/anat_preproc_niworkflows_ants_0/anat_preproc_niworkflows_ants_0_skullstrip/anat_skullstrip_ants/atropos_wf/03_pad_mask".
201113-00:23:22,943 nipype.workflow INFO:
[Node] Running "03_pad_mask" ("CPAC.utils.interfaces.ants.ImageMath"), a CommandLine Interface with command:
ImageMath 3 T_template0_BrainCerebellumProbabilityMask_trans_resampled_maths.nii.gz PadImage /outputs/tmp/resting_preproc_sub-018_ses-1/anat_preproc_niworkflows_ants_0/anat_preproc_niworkflows_ants_0_skullstrip/anat_skullstrip_ants/thr_brainmask/T_template0_BrainCerebellumProbabilityMask_trans_resampled.nii.gz 10
201113-00:23:24,270 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.anat_preproc_niworkflows_ants_0.anat_preproc_niworkflows_ants_0_skullstrip.anat_skullstrip_ants.atropos_wf.03_pad_mask".
201113-00:23:24,272 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.anat_preproc_niworkflows_ants_0.anat_preproc_niworkflows_ants_0_skullstrip.anat_skullstrip_ants.dil_brainmask" in "/outputs/tmp/resting_preproc_sub-018_ses-1/anat_preproc_niworkflows_ants_0/anat_preproc_niworkflows_ants_0_skullstrip/anat_skullstrip_ants/dil_brainmask".
201113-00:23:24,279 nipype.workflow INFO:
[Node] Running "dil_brainmask" ("CPAC.utils.interfaces.ants.ImageMath"), a CommandLine Interface with command:
ImageMath 3 T_template0_BrainCerebellumProbabilityMask_trans_resampled_maths.nii.gz MD /outputs/tmp/resting_preproc_sub-018_ses-1/anat_preproc_niworkflows_ants_0/anat_preproc_niworkflows_ants_0_skullstrip/anat_skullstrip_ants/thr_brainmask/T_template0_BrainCerebellumProbabilityMask_trans_resampled.nii.gz 2
201113-00:23:25,953 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.anat_preproc_niworkflows_ants_0.anat_preproc_niworkflows_ants_0_skullstrip.anat_skullstrip_ants.dil_brainmask".
201113-00:23:25,954 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.anat_preproc_niworkflows_ants_0.anat_preproc_niworkflows_ants_0_skullstrip.anat_skullstrip_ants.get_brainmask" in "/outputs/tmp/resting_preproc_sub-018_ses-1/anat_preproc_niworkflows_ants_0/anat_preproc_niworkflows_ants_0_skullstrip/anat_skullstrip_ants/get_brainmask".
201113-00:23:25,962 nipype.workflow INFO:
[Node] Running "get_brainmask" ("CPAC.utils.interfaces.ants.ImageMath"), a CommandLine Interface with command:
ImageMath 3 T_template0_BrainCerebellumProbabilityMask_trans_resampled_maths_maths.nii.gz GetLargestComponent /outputs/tmp/resting_preproc_sub-018_ses-1/anat_preproc_niworkflows_ants_0/anat_preproc_niworkflows_ants_0_skullstrip/anat_skullstrip_ants/dil_brainmask/T_template0_BrainCerebellumProbabilityMask_trans_resampled_maths.nii.gz
201113-00:23:27,496 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.anat_preproc_niworkflows_ants_0.anat_preproc_niworkflows_ants_0_skullstrip.anat_skullstrip_ants.get_brainmask".
201113-00:23:27,497 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.anat_preproc_niworkflows_ants_0.anat_preproc_niworkflows_ants_0_skullstrip.anat_skullstrip_ants.atropos_wf.01_atropos" in "/outputs/tmp/resting_preproc_sub-018_ses-1/anat_preproc_niworkflows_ants_0/anat_preproc_niworkflows_ants_0_skullstrip/anat_skullstrip_ants/atropos_wf/01_atropos".
201113-00:23:27,508 nipype.workflow INFO:
[Node] Running "01_atropos" ("nipype.interfaces.ants.segmentation.Atropos"), a CommandLine Interface with command:
Atropos --image-dimensionality 3 --initialization KMeans[3] --intensity-image /outputs/tmp/resting_preproc_sub-018_ses-1/anat_preproc_niworkflows_ants_0/anat_preproc_niworkflows_ants_0_skullstrip/anat_skullstrip_ants/inu_n4/mapflow/_inu_n40/sub-018_ses-1_T1w_resample_maths_corrected.nii.gz --likelihood-model Gaussian --mask-image /outputs/tmp/resting_preproc_sub-018_ses-1/anat_preproc_niworkflows_ants_0/anat_preproc_niworkflows_ants_0_skullstrip/anat_skullstrip_ants/get_brainmask/T_template0_BrainCerebellumProbabilityMask_trans_resampled_maths_maths.nii.gz --mrf [0.1,1x1x1] --convergence [3,0] --output [sub-018_ses-1_T1w_resample_maths_corrected_labeled.nii.gz] --use-random-seed 1
201113-00:24:10,853 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.anat_preproc_niworkflows_ants_0.anat_preproc_niworkflows_ants_0_skullstrip.anat_skullstrip_ants.atropos_wf.01_atropos".
201113-00:24:10,855 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.anat_preproc_niworkflows_ants_0.anat_preproc_niworkflows_ants_0_skullstrip.anat_skullstrip_ants.atropos_wf.02_pad_segm" in "/outputs/tmp/resting_preproc_sub-018_ses-1/anat_preproc_niworkflows_ants_0/anat_preproc_niworkflows_ants_0_skullstrip/anat_skullstrip_ants/atropos_wf/02_pad_segm".
201113-00:24:10,863 nipype.workflow INFO:
[Node] Running "02_pad_segm" ("CPAC.utils.interfaces.ants.ImageMath"), a CommandLine Interface with command:
ImageMath 3 sub-018_ses-1_T1w_resample_maths_corrected_labeled_maths.nii.gz PadImage /outputs/tmp/resting_preproc_sub-018_ses-1/anat_preproc_niworkflows_ants_0/anat_preproc_niworkflows_ants_0_skullstrip/anat_skullstrip_ants/atropos_wf/01_atropos/sub-018_ses-1_T1w_resample_maths_corrected_labeled.nii.gz 10
201113-00:24:12,297 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.anat_preproc_niworkflows_ants_0.anat_preproc_niworkflows_ants_0_skullstrip.anat_skullstrip_ants.atropos_wf.02_pad_segm".
201113-00:24:12,299 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.anat_preproc_niworkflows_ants_0.anat_preproc_niworkflows_ants_0_skullstrip.anat_skullstrip_ants.atropos_wf.04_sel_labels" in "/outputs/tmp/resting_preproc_sub-018_ses-1/anat_preproc_niworkflows_ants_0/anat_preproc_niworkflows_ants_0_skullstrip/anat_skullstrip_ants/atropos_wf/04_sel_labels".
201113-00:24:12,306 nipype.workflow INFO:
[Node] Running "04_sel_labels" ("nipype.interfaces.utility.wrappers.Function")
201113-00:24:12,992 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.anat_preproc_niworkflows_ants_0.anat_preproc_niworkflows_ants_0_skullstrip.anat_skullstrip_ants.atropos_wf.04_sel_labels".
201113-00:24:12,993 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.anat_preproc_niworkflows_ants_0.anat_preproc_niworkflows_ants_0_skullstrip.anat_skullstrip_ants.atropos_wf.27_depad_csf" in "/outputs/tmp/resting_preproc_sub-018_ses-1/anat_preproc_niworkflows_ants_0/anat_preproc_niworkflows_ants_0_skullstrip/anat_skullstrip_ants/atropos_wf/27_depad_csf".
201113-00:24:13,1 nipype.workflow INFO:
[Node] Running "27_depad_csf" ("CPAC.utils.interfaces.ants.ImageMath"), a CommandLine Interface with command:
ImageMath 3 sub-018_ses-1_T1w_resample_maths_corrected_labeled_maths_class-01_maths.nii.gz PadImage /outputs/tmp/resting_preproc_sub-018_ses-1/anat_preproc_niworkflows_ants_0/anat_preproc_niworkflows_ants_0_skullstrip/anat_skullstrip_ants/atropos_wf/04_sel_labels/sub-018_ses-1_T1w_resample_maths_corrected_labeled_maths_class-01.nii.gz -10
201113-00:24:14,176 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.anat_preproc_niworkflows_ants_0.anat_preproc_niworkflows_ants_0_skullstrip.anat_skullstrip_ants.atropos_wf.27_depad_csf".
201113-00:24:14,178 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.anat_preproc_niworkflows_ants_0.anat_preproc_niworkflows_ants_0_skullstrip.anat_skullstrip_ants.atropos_wf.10_me_csf" in "/outputs/tmp/resting_preproc_sub-018_ses-1/anat_preproc_niworkflows_ants_0/anat_preproc_niworkflows_ants_0_skullstrip/anat_skullstrip_ants/atropos_wf/10_me_csf".
201113-00:24:14,186 nipype.workflow INFO:
[Node] Running "10_me_csf" ("CPAC.utils.interfaces.ants.ImageMath"), a CommandLine Interface with command:
ImageMath 3 sub-018_ses-1_T1w_resample_maths_corrected_labeled_maths_class-01_maths.nii.gz ME /outputs/tmp/resting_preproc_sub-018_ses-1/anat_preproc_niworkflows_ants_0/anat_preproc_niworkflows_ants_0_skullstrip/anat_skullstrip_ants/atropos_wf/04_sel_labels/sub-018_ses-1_T1w_resample_maths_corrected_labeled_maths_class-01.nii.gz 10
201113-00:24:19,449 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.anat_preproc_niworkflows_ants_0.anat_preproc_niworkflows_ants_0_skullstrip.anat_skullstrip_ants.atropos_wf.10_me_csf".
201113-00:24:19,451 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.anat_preproc_niworkflows_ants_0.anat_preproc_niworkflows_ants_0_skullstrip.anat_skullstrip_ants.atropos_wf.06_get_gm" in "/outputs/tmp/resting_preproc_sub-018_ses-1/anat_preproc_niworkflows_ants_0/anat_preproc_niworkflows_ants_0_skullstrip/anat_skullstrip_ants/atropos_wf/06_get_gm".
201113-00:24:19,457 nipype.workflow INFO:
[Node] Running "06_get_gm" ("CPAC.utils.interfaces.ants.ImageMath"), a CommandLine Interface with command:
ImageMath 3 sub-018_ses-1_T1w_resample_maths_corrected_labeled_maths_class-02_maths.nii.gz GetLargestComponent /outputs/tmp/resting_preproc_sub-018_ses-1/anat_preproc_niworkflows_ants_0/anat_preproc_niworkflows_ants_0_skullstrip/anat_skullstrip_ants/atropos_wf/04_sel_labels/sub-018_ses-1_T1w_resample_maths_corrected_labeled_maths_class-02.nii.gz
201113-00:24:21,229 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.anat_preproc_niworkflows_ants_0.anat_preproc_niworkflows_ants_0_skullstrip.anat_skullstrip_ants.atropos_wf.06_get_gm".
201113-00:24:21,230 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.anat_preproc_niworkflows_ants_0.anat_preproc_niworkflows_ants_0_skullstrip.anat_skullstrip_ants.atropos_wf.07_fill_gm" in "/outputs/tmp/resting_preproc_sub-018_ses-1/anat_preproc_niworkflows_ants_0/anat_preproc_niworkflows_ants_0_skullstrip/anat_skullstrip_ants/atropos_wf/07_fill_gm".
201113-00:24:21,237 nipype.workflow INFO:
[Node] Running "07_fill_gm" ("CPAC.utils.interfaces.ants.ImageMath"), a CommandLine Interface with command:
ImageMath 3 sub-018_ses-1_T1w_resample_maths_corrected_labeled_maths_class-02_maths_maths.nii.gz FillHoles /outputs/tmp/resting_preproc_sub-018_ses-1/anat_preproc_niworkflows_ants_0/anat_preproc_niworkflows_ants_0_skullstrip/anat_skullstrip_ants/atropos_wf/06_get_gm/sub-018_ses-1_T1w_resample_maths_corrected_labeled_maths_class-02_maths.nii.gz 2
201113-00:24:31,428 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.anat_preproc_niworkflows_ants_0.anat_preproc_niworkflows_ants_0_skullstrip.anat_skullstrip_ants.atropos_wf.07_fill_gm".
201113-00:24:31,429 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.anat_preproc_niworkflows_ants_0.anat_preproc_niworkflows_ants_0_skullstrip.anat_skullstrip_ants.atropos_wf.08_mult_gm" in "/outputs/tmp/resting_preproc_sub-018_ses-1/anat_preproc_niworkflows_ants_0/anat_preproc_niworkflows_ants_0_skullstrip/anat_skullstrip_ants/atropos_wf/08_mult_gm".
201113-00:24:31,441 nipype.workflow INFO:
[Node] Running "08_mult_gm" ("nipype.interfaces.ants.utils.MultiplyImages"), a CommandLine Interface with command:
MultiplyImages 3 /outputs/tmp/resting_preproc_sub-018_ses-1/anat_preproc_niworkflows_ants_0/anat_preproc_niworkflows_ants_0_skullstrip/anat_skullstrip_ants/atropos_wf/06_get_gm/sub-018_ses-1_T1w_resample_maths_corrected_labeled_maths_class-02_maths.nii.gz /outputs/tmp/resting_preproc_sub-018_ses-1/anat_preproc_niworkflows_ants_0/anat_preproc_niworkflows_ants_0_skullstrip/anat_skullstrip_ants/atropos_wf/07_fill_gm/sub-018_ses-1_T1w_resample_maths_corrected_labeled_maths_class-02_maths_maths.nii.gz 08_mult_gm.nii.gz
201113-00:24:32,908 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.anat_preproc_niworkflows_ants_0.anat_preproc_niworkflows_ants_0_skullstrip.anat_skullstrip_ants.atropos_wf.08_mult_gm".
201113-00:24:32,910 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.anat_preproc_niworkflows_ants_0.anat_preproc_niworkflows_ants_0_skullstrip.anat_skullstrip_ants.atropos_wf.11_add_gm" in "/outputs/tmp/resting_preproc_sub-018_ses-1/anat_preproc_niworkflows_ants_0/anat_preproc_niworkflows_ants_0_skullstrip/anat_skullstrip_ants/atropos_wf/11_add_gm".
201113-00:24:32,920 nipype.workflow INFO:
[Node] Running "11_add_gm" ("CPAC.utils.interfaces.ants.ImageMath"), a CommandLine Interface with command:
ImageMath 3 08_mult_gm_maths.nii.gz addtozero /outputs/tmp/resting_preproc_sub-018_ses-1/anat_preproc_niworkflows_ants_0/anat_preproc_niworkflows_ants_0_skullstrip/anat_skullstrip_ants/atropos_wf/08_mult_gm/08_mult_gm.nii.gz /outputs/tmp/resting_preproc_sub-018_ses-1/anat_preproc_niworkflows_ants_0/anat_preproc_niworkflows_ants_0_skullstrip/anat_skullstrip_ants/atropos_wf/10_me_csf/sub-018_ses-1_T1w_resample_maths_corrected_labeled_maths_class-01_maths.nii.gz
201113-00:24:37,109 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.anat_preproc_niworkflows_ants_0.anat_preproc_niworkflows_ants_0_skullstrip.anat_skullstrip_ants.atropos_wf.11_add_gm".
201113-00:24:37,110 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.anat_preproc_niworkflows_ants_0.anat_preproc_niworkflows_ants_0_skullstrip.anat_skullstrip_ants.atropos_wf.12_relabel_gm" in "/outputs/tmp/resting_preproc_sub-018_ses-1/anat_preproc_niworkflows_ants_0/anat_preproc_niworkflows_ants_0_skullstrip/anat_skullstrip_ants/atropos_wf/12_relabel_gm".
201113-00:24:37,119 nipype.workflow INFO:
[Node] Running "12_relabel_gm" ("nipype.interfaces.ants.utils.MultiplyImages"), a CommandLine Interface with command:
MultiplyImages 3 /outputs/tmp/resting_preproc_sub-018_ses-1/anat_preproc_niworkflows_ants_0/anat_preproc_niworkflows_ants_0_skullstrip/anat_skullstrip_ants/atropos_wf/11_add_gm/08_mult_gm_maths.nii.gz 2.0 12_relabel_gm.nii.gz
201113-00:24:38,274 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.anat_preproc_niworkflows_ants_0.anat_preproc_niworkflows_ants_0_skullstrip.anat_skullstrip_ants.atropos_wf.12_relabel_gm".
201113-00:24:38,275 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.anat_preproc_niworkflows_ants_0.anat_preproc_niworkflows_ants_0_skullstrip.anat_skullstrip_ants.atropos_wf.25_depad_gm" in "/outputs/tmp/resting_preproc_sub-018_ses-1/anat_preproc_niworkflows_ants_0/anat_preproc_niworkflows_ants_0_skullstrip/anat_skullstrip_ants/atropos_wf/25_depad_gm".
201113-00:24:38,283 nipype.workflow INFO:
[Node] Running "25_depad_gm" ("CPAC.utils.interfaces.ants.ImageMath"), a CommandLine Interface with command:
ImageMath 3 12_relabel_gm_maths.nii.gz PadImage /outputs/tmp/resting_preproc_sub-018_ses-1/anat_preproc_niworkflows_ants_0/anat_preproc_niworkflows_ants_0_skullstrip/anat_skullstrip_ants/atropos_wf/12_relabel_gm/12_relabel_gm.nii.gz -10
201113-00:24:39,707 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.anat_preproc_niworkflows_ants_0.anat_preproc_niworkflows_ants_0_skullstrip.anat_skullstrip_ants.atropos_wf.25_depad_gm".
201113-00:24:39,708 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.anat_preproc_niworkflows_ants_0.anat_preproc_niworkflows_ants_0_skullstrip.anat_skullstrip_ants.atropos_wf.05_get_wm" in "/outputs/tmp/resting_preproc_sub-018_ses-1/anat_preproc_niworkflows_ants_0/anat_preproc_niworkflows_ants_0_skullstrip/anat_skullstrip_ants/atropos_wf/05_get_wm".
201113-00:24:39,716 nipype.workflow INFO:
[Node] Running "05_get_wm" ("CPAC.utils.interfaces.ants.ImageMath"), a CommandLine Interface with command:
ImageMath 3 sub-018_ses-1_T1w_resample_maths_corrected_labeled_maths_class-03_maths.nii.gz GetLargestComponent /outputs/tmp/resting_preproc_sub-018_ses-1/anat_preproc_niworkflows_ants_0/anat_preproc_niworkflows_ants_0_skullstrip/anat_skullstrip_ants/atropos_wf/04_sel_labels/sub-018_ses-1_T1w_resample_maths_corrected_labeled_maths_class-03.nii.gz
201113-00:24:41,430 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.anat_preproc_niworkflows_ants_0.anat_preproc_niworkflows_ants_0_skullstrip.anat_skullstrip_ants.atropos_wf.05_get_wm".
201113-00:24:41,432 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.anat_preproc_niworkflows_ants_0.anat_preproc_niworkflows_ants_0_skullstrip.anat_skullstrip_ants.atropos_wf.09_relabel_wm" in "/outputs/tmp/resting_preproc_sub-018_ses-1/anat_preproc_niworkflows_ants_0/anat_preproc_niworkflows_ants_0_skullstrip/anat_skullstrip_ants/atropos_wf/09_relabel_wm".
201113-00:24:41,441 nipype.workflow INFO:
[Node] Running "09_relabel_wm" ("nipype.interfaces.ants.utils.MultiplyImages"), a CommandLine Interface with command:
MultiplyImages 3 /outputs/tmp/resting_preproc_sub-018_ses-1/anat_preproc_niworkflows_ants_0/anat_preproc_niworkflows_ants_0_skullstrip/anat_skullstrip_ants/atropos_wf/05_get_wm/sub-018_ses-1_T1w_resample_maths_corrected_labeled_maths_class-03_maths.nii.gz 3.0 09_relabel_wm.nii.gz
201113-00:24:42,558 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.anat_preproc_niworkflows_ants_0.anat_preproc_niworkflows_ants_0_skullstrip.anat_skullstrip_ants.atropos_wf.09_relabel_wm".
201113-00:24:42,559 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.anat_preproc_niworkflows_ants_0.anat_preproc_niworkflows_ants_0_skullstrip.anat_skullstrip_ants.atropos_wf.26_depad_wm" in "/outputs/tmp/resting_preproc_sub-018_ses-1/anat_preproc_niworkflows_ants_0/anat_preproc_niworkflows_ants_0_skullstrip/anat_skullstrip_ants/atropos_wf/26_depad_wm".
201113-00:24:42,567 nipype.workflow INFO:
[Node] Running "26_depad_wm" ("CPAC.utils.interfaces.ants.ImageMath"), a CommandLine Interface with command:
ImageMath 3 09_relabel_wm_maths.nii.gz PadImage /outputs/tmp/resting_preproc_sub-018_ses-1/anat_preproc_niworkflows_ants_0/anat_preproc_niworkflows_ants_0_skullstrip/anat_skullstrip_ants/atropos_wf/09_relabel_wm/09_relabel_wm.nii.gz -10
201113-00:24:43,951 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.anat_preproc_niworkflows_ants_0.anat_preproc_niworkflows_ants_0_skullstrip.anat_skullstrip_ants.atropos_wf.26_depad_wm".
201113-00:24:43,952 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.anat_preproc_niworkflows_ants_0.anat_preproc_niworkflows_ants_0_skullstrip.anat_skullstrip_ants.atropos_wf.merge_tpms" in "/outputs/tmp/resting_preproc_sub-018_ses-1/anat_preproc_niworkflows_ants_0/anat_preproc_niworkflows_ants_0_skullstrip/anat_skullstrip_ants/atropos_wf/merge_tpms".
201113-00:24:43,961 nipype.workflow INFO:
[Node] Running "merge_tpms" ("nipype.interfaces.utility.base.Merge")
201113-00:24:44,187 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.anat_preproc_niworkflows_ants_0.anat_preproc_niworkflows_ants_0_skullstrip.anat_skullstrip_ants.atropos_wf.merge_tpms".
201113-00:24:44,189 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.anat_preproc_niworkflows_ants_0.anat_preproc_niworkflows_ants_0_skullstrip.anat_skullstrip_ants.atropos_wf.13_add_gm_wm" in "/outputs/tmp/resting_preproc_sub-018_ses-1/anat_preproc_niworkflows_ants_0/anat_preproc_niworkflows_ants_0_skullstrip/anat_skullstrip_ants/atropos_wf/13_add_gm_wm".
201113-00:24:44,197 nipype.workflow INFO:
[Node] Running "13_add_gm_wm" ("CPAC.utils.interfaces.ants.ImageMath"), a CommandLine Interface with command:
ImageMath 3 09_relabel_wm_maths.nii.gz addtozero /outputs/tmp/resting_preproc_sub-018_ses-1/anat_preproc_niworkflows_ants_0/anat_preproc_niworkflows_ants_0_skullstrip/anat_skullstrip_ants/atropos_wf/09_relabel_wm/09_relabel_wm.nii.gz /outputs/tmp/resting_preproc_sub-018_ses-1/anat_preproc_niworkflows_ants_0/anat_preproc_niworkflows_ants_0_skullstrip/anat_skullstrip_ants/atropos_wf/12_relabel_gm/12_relabel_gm.nii.gz
201113-00:24:48,402 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.anat_preproc_niworkflows_ants_0.anat_preproc_niworkflows_ants_0_skullstrip.anat_skullstrip_ants.atropos_wf.13_add_gm_wm".
201113-00:24:48,403 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.anat_preproc_niworkflows_ants_0.anat_preproc_niworkflows_ants_0_skullstrip.anat_skullstrip_ants.atropos_wf.24_depad_segm" in "/outputs/tmp/resting_preproc_sub-018_ses-1/anat_preproc_niworkflows_ants_0/anat_preproc_niworkflows_ants_0_skullstrip/anat_skullstrip_ants/atropos_wf/24_depad_segm".
201113-00:24:48,411 nipype.workflow INFO:
[Node] Running "24_depad_segm" ("CPAC.utils.interfaces.ants.ImageMath"), a CommandLine Interface with command:
ImageMath 3 09_relabel_wm_maths_maths.nii.gz PadImage /outputs/tmp/resting_preproc_sub-018_ses-1/anat_preproc_niworkflows_ants_0/anat_preproc_niworkflows_ants_0_skullstrip/anat_skullstrip_ants/atropos_wf/13_add_gm_wm/09_relabel_wm_maths.nii.gz -10
201113-00:24:49,841 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.anat_preproc_niworkflows_ants_0.anat_preproc_niworkflows_ants_0_skullstrip.anat_skullstrip_ants.atropos_wf.24_depad_segm".
201113-00:24:49,843 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.anat_preproc_niworkflows_ants_0.anat_preproc_niworkflows_ants_0_skullstrip.anat_skullstrip_ants.atropos_wf.14_sel_labels2" in "/outputs/tmp/resting_preproc_sub-018_ses-1/anat_preproc_niworkflows_ants_0/anat_preproc_niworkflows_ants_0_skullstrip/anat_skullstrip_ants/atropos_wf/14_sel_labels2".
201113-00:24:49,850 nipype.workflow INFO:
[Node] Running "14_sel_labels2" ("nipype.interfaces.utility.wrappers.Function")
201113-00:24:50,470 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.anat_preproc_niworkflows_ants_0.anat_preproc_niworkflows_ants_0_skullstrip.anat_skullstrip_ants.atropos_wf.14_sel_labels2".
201113-00:24:50,471 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.anat_preproc_niworkflows_ants_0.anat_preproc_niworkflows_ants_0_skullstrip.anat_skullstrip_ants.atropos_wf.15_add_7" in "/outputs/tmp/resting_preproc_sub-018_ses-1/anat_preproc_niworkflows_ants_0/anat_preproc_niworkflows_ants_0_skullstrip/anat_skullstrip_ants/atropos_wf/15_add_7".
201113-00:24:50,479 nipype.workflow INFO:
[Node] Running "15_add_7" ("CPAC.utils.interfaces.ants.ImageMath"), a CommandLine Interface with command:
ImageMath 3 09_relabel_wm_maths_class-03_maths.nii.gz addtozero /outputs/tmp/resting_preproc_sub-018_ses-1/anat_preproc_niworkflows_ants_0/anat_preproc_niworkflows_ants_0_skullstrip/anat_skullstrip_ants/atropos_wf/14_sel_labels2/09_relabel_wm_maths_class-03.nii.gz /outputs/tmp/resting_preproc_sub-018_ses-1/anat_preproc_niworkflows_ants_0/anat_preproc_niworkflows_ants_0_skullstrip/anat_skullstrip_ants/atropos_wf/14_sel_labels2/09_relabel_wm_maths_class-02.nii.gz
201113-00:24:54,329 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.anat_preproc_niworkflows_ants_0.anat_preproc_niworkflows_ants_0_skullstrip.anat_skullstrip_ants.atropos_wf.15_add_7".
201113-00:24:54,331 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.anat_preproc_niworkflows_ants_0.anat_preproc_niworkflows_ants_0_skullstrip.anat_skullstrip_ants.atropos_wf.16_me_7" in "/outputs/tmp/resting_preproc_sub-018_ses-1/anat_preproc_niworkflows_ants_0/anat_preproc_niworkflows_ants_0_skullstrip/anat_skullstrip_ants/atropos_wf/16_me_7".
201113-00:24:54,338 nipype.workflow INFO:
[Node] Running "16_me_7" ("CPAC.utils.interfaces.ants.ImageMath"), a CommandLine Interface with command:
ImageMath 3 09_relabel_wm_maths_class-03_maths_maths.nii.gz ME /outputs/tmp/resting_preproc_sub-018_ses-1/anat_preproc_niworkflows_ants_0/anat_preproc_niworkflows_ants_0_skullstrip/anat_skullstrip_ants/atropos_wf/15_add_7/09_relabel_wm_maths_class-03_maths.nii.gz 2
201113-00:24:57,892 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.anat_preproc_niworkflows_ants_0.anat_preproc_niworkflows_ants_0_skullstrip.anat_skullstrip_ants.atropos_wf.16_me_7".
201113-00:24:57,894 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.anat_preproc_niworkflows_ants_0.anat_preproc_niworkflows_ants_0_skullstrip.anat_skullstrip_ants.atropos_wf.17_comp_7" in "/outputs/tmp/resting_preproc_sub-018_ses-1/anat_preproc_niworkflows_ants_0/anat_preproc_niworkflows_ants_0_skullstrip/anat_skullstrip_ants/atropos_wf/17_comp_7".
201113-00:24:57,902 nipype.workflow INFO:
[Node] Running "17_comp_7" ("CPAC.utils.interfaces.ants.ImageMath"), a CommandLine Interface with command:
ImageMath 3 09_relabel_wm_maths_class-03_maths_maths_maths.nii.gz GetLargestComponent /outputs/tmp/resting_preproc_sub-018_ses-1/anat_preproc_niworkflows_ants_0/anat_preproc_niworkflows_ants_0_skullstrip/anat_skullstrip_ants/atropos_wf/16_me_7/09_relabel_wm_maths_class-03_maths_maths.nii.gz
201113-00:24:59,762 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.anat_preproc_niworkflows_ants_0.anat_preproc_niworkflows_ants_0_skullstrip.anat_skullstrip_ants.atropos_wf.17_comp_7".
201113-00:24:59,764 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.anat_preproc_niworkflows_ants_0.anat_preproc_niworkflows_ants_0_skullstrip.anat_skullstrip_ants.atropos_wf.18_md_7" in "/outputs/tmp/resting_preproc_sub-018_ses-1/anat_preproc_niworkflows_ants_0/anat_preproc_niworkflows_ants_0_skullstrip/anat_skullstrip_ants/atropos_wf/18_md_7".
201113-00:24:59,772 nipype.workflow INFO:
[Node] Running "18_md_7" ("CPAC.utils.interfaces.ants.ImageMath"), a CommandLine Interface with command:
ImageMath 3 09_relabel_wm_maths_class-03_maths_maths_maths_maths.nii.gz MD /outputs/tmp/resting_preproc_sub-018_ses-1/anat_preproc_niworkflows_ants_0/anat_preproc_niworkflows_ants_0_skullstrip/anat_skullstrip_ants/atropos_wf/17_comp_7/09_relabel_wm_maths_class-03_maths_maths_maths.nii.gz 4
201113-00:25:01,879 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.anat_preproc_niworkflows_ants_0.anat_preproc_niworkflows_ants_0_skullstrip.anat_skullstrip_ants.atropos_wf.18_md_7".
201113-00:25:01,881 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.anat_preproc_niworkflows_ants_0.anat_preproc_niworkflows_ants_0_skullstrip.anat_skullstrip_ants.atropos_wf.19_fill_7" in "/outputs/tmp/resting_preproc_sub-018_ses-1/anat_preproc_niworkflows_ants_0/anat_preproc_niworkflows_ants_0_skullstrip/anat_skullstrip_ants/atropos_wf/19_fill_7".
201113-00:25:01,890 nipype.workflow INFO:
[Node] Running "19_fill_7" ("CPAC.utils.interfaces.ants.ImageMath"), a CommandLine Interface with command:
ImageMath 3 09_relabel_wm_maths_class-03_maths_maths_maths_maths_maths.nii.gz FillHoles /outputs/tmp/resting_preproc_sub-018_ses-1/anat_preproc_niworkflows_ants_0/anat_preproc_niworkflows_ants_0_skullstrip/anat_skullstrip_ants/atropos_wf/18_md_7/09_relabel_wm_maths_class-03_maths_maths_maths_maths.nii.gz 2
201113-00:25:11,943 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.anat_preproc_niworkflows_ants_0.anat_preproc_niworkflows_ants_0_skullstrip.anat_skullstrip_ants.atropos_wf.19_fill_7".
201113-00:25:11,945 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.anat_preproc_niworkflows_ants_0.anat_preproc_niworkflows_ants_0_skullstrip.anat_skullstrip_ants.atropos_wf.20_add_7_2" in "/outputs/tmp/resting_preproc_sub-018_ses-1/anat_preproc_niworkflows_ants_0/anat_preproc_niworkflows_ants_0_skullstrip/anat_skullstrip_ants/atropos_wf/20_add_7_2".
201113-00:25:11,953 nipype.workflow INFO:
[Node] Running "20_add_7_2" ("CPAC.utils.interfaces.ants.ImageMath"), a CommandLine Interface with command:
ImageMath 3 09_relabel_wm_maths_class-03_maths_maths_maths_maths_maths_maths.nii.gz addtozero /outputs/tmp/resting_preproc_sub-018_ses-1/anat_preproc_niworkflows_ants_0/anat_preproc_niworkflows_ants_0_skullstrip/anat_skullstrip_ants/atropos_wf/19_fill_7/09_relabel_wm_maths_class-03_maths_maths_maths_maths_maths.nii.gz /outputs/tmp/resting_preproc_sub-018_ses-1/anat_preproc_niworkflows_ants_0/anat_preproc_niworkflows_ants_0_skullstrip/anat_skullstrip_ants/atropos_wf/03_pad_mask/T_template0_BrainCerebellumProbabilityMask_trans_resampled_maths.nii.gz
201113-00:25:16,98 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.anat_preproc_niworkflows_ants_0.anat_preproc_niworkflows_ants_0_skullstrip.anat_skullstrip_ants.atropos_wf.20_add_7_2".
201113-00:25:16,99 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.anat_preproc_niworkflows_ants_0.anat_preproc_niworkflows_ants_0_skullstrip.anat_skullstrip_ants.atropos_wf.21_md_7_2" in "/outputs/tmp/resting_preproc_sub-018_ses-1/anat_preproc_niworkflows_ants_0/anat_preproc_niworkflows_ants_0_skullstrip/anat_skullstrip_ants/atropos_wf/21_md_7_2".
201113-00:25:16,104 nipype.workflow INFO:
[Node] Running "21_md_7_2" ("CPAC.utils.interfaces.ants.ImageMath"), a CommandLine Interface with command:
ImageMath 3 09_relabel_wm_maths_class-03_maths_maths_maths_maths_maths_maths_maths.nii.gz MD /outputs/tmp/resting_preproc_sub-018_ses-1/anat_preproc_niworkflows_ants_0/anat_preproc_niworkflows_ants_0_skullstrip/anat_skullstrip_ants/atropos_wf/20_add_7_2/09_relabel_wm_maths_class-03_maths_maths_maths_maths_maths_maths.nii.gz 5
201113-00:25:18,181 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.anat_preproc_niworkflows_ants_0.anat_preproc_niworkflows_ants_0_skullstrip.anat_skullstrip_ants.atropos_wf.21_md_7_2".
201113-00:25:18,183 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.anat_preproc_niworkflows_ants_0.anat_preproc_niworkflows_ants_0_skullstrip.anat_skullstrip_ants.atropos_wf.22_me_7_2" in "/outputs/tmp/resting_preproc_sub-018_ses-1/anat_preproc_niworkflows_ants_0/anat_preproc_niworkflows_ants_0_skullstrip/anat_skullstrip_ants/atropos_wf/22_me_7_2".
201113-00:25:18,188 nipype.workflow INFO:
[Node] Running "22_me_7_2" ("CPAC.utils.interfaces.ants.ImageMath"), a CommandLine Interface with command:
ImageMath 3 09_relabel_wm_maths_class-03_maths_maths_maths_maths_maths_maths_maths_maths.nii.gz ME /outputs/tmp/resting_preproc_sub-018_ses-1/anat_preproc_niworkflows_ants_0/anat_preproc_niworkflows_ants_0_skullstrip/anat_skullstrip_ants/atropos_wf/21_md_7_2/09_relabel_wm_maths_class-03_maths_maths_maths_maths_maths_maths_maths.nii.gz 5
201113-00:25:21,899 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.anat_preproc_niworkflows_ants_0.anat_preproc_niworkflows_ants_0_skullstrip.anat_skullstrip_ants.atropos_wf.22_me_7_2".
201113-00:25:21,900 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.anat_preproc_niworkflows_ants_0.anat_preproc_niworkflows_ants_0_skullstrip.anat_skullstrip_ants.atropos_wf.23_depad_mask" in "/outputs/tmp/resting_preproc_sub-018_ses-1/anat_preproc_niworkflows_ants_0/anat_preproc_niworkflows_ants_0_skullstrip/anat_skullstrip_ants/atropos_wf/23_depad_mask".
201113-00:25:21,906 nipype.workflow INFO:
[Node] Running "23_depad_mask" ("CPAC.utils.interfaces.ants.ImageMath"), a CommandLine Interface with command:
ImageMath 3 09_relabel_wm_maths_class-03_maths_maths_maths_maths_maths_maths_maths_maths_maths.nii.gz PadImage /outputs/tmp/resting_preproc_sub-018_ses-1/anat_preproc_niworkflows_ants_0/anat_preproc_niworkflows_ants_0_skullstrip/anat_skullstrip_ants/atropos_wf/22_me_7_2/09_relabel_wm_maths_class-03_maths_maths_maths_maths_maths_maths_maths_maths.nii.gz -10
201113-00:25:23,258 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.anat_preproc_niworkflows_ants_0.anat_preproc_niworkflows_ants_0_skullstrip.anat_skullstrip_ants.atropos_wf.23_depad_mask".
201113-00:25:23,260 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.anat_preproc_niworkflows_ants_0.anat_preproc_niworkflows_ants_0_skullstrip.anat_skullstrip_ants.atropos_wf.msk_conform" in "/outputs/tmp/resting_preproc_sub-018_ses-1/anat_preproc_niworkflows_ants_0/anat_preproc_niworkflows_ants_0_skullstrip/anat_skullstrip_ants/atropos_wf/msk_conform".
201113-00:25:23,267 nipype.workflow INFO:
[Node] Running "msk_conform" ("nipype.interfaces.utility.wrappers.Function")
201113-00:25:23,769 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.anat_preproc_niworkflows_ants_0.anat_preproc_niworkflows_ants_0_skullstrip.anat_skullstrip_ants.atropos_wf.msk_conform".
201113-00:25:23,770 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.anat_preproc_niworkflows_ants_0.anat_preproc_niworkflows_ants_0_skullstrip.anat_skullstrip_ants.atropos_wf.copy_xform" in "/outputs/tmp/resting_preproc_sub-018_ses-1/anat_preproc_niworkflows_ants_0/anat_preproc_niworkflows_ants_0_skullstrip/anat_skullstrip_ants/atropos_wf/copy_xform".
201113-00:25:23,777 nipype.workflow INFO:
[Node] Running "copy_xform" ("CPAC.utils.interfaces.utils.CopyXForm")
201113-00:25:25,517 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.anat_preproc_niworkflows_ants_0.anat_preproc_niworkflows_ants_0_skullstrip.anat_skullstrip_ants.atropos_wf.copy_xform".
201113-00:25:25,520 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.sinker_0_anatomical_brain_mask" in "/outputs/tmp/resting_preproc_sub-018_ses-1/sinker_0_anatomical_brain_mask".
201113-00:25:25,527 nipype.workflow INFO:
[Node] Running "sinker_0_anatomical_brain_mask" ("CPAC.utils.interfaces.datasink.DataSink")
201113-00:25:25,756 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.sinker_0_anatomical_brain_mask".
201113-00:25:25,757 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.anat_preproc_niworkflows_ants_0.anat_preproc_niworkflows_ants_0_skullstrip.anat_skullstrip_ants.sel_wm" in "/outputs/tmp/resting_preproc_sub-018_ses-1/anat_preproc_niworkflows_ants_0/anat_preproc_niworkflows_ants_0_skullstrip/anat_skullstrip_ants/sel_wm".
201113-00:25:25,762 nipype.workflow INFO:
[Node] Running "sel_wm" ("nipype.interfaces.utility.base.Select")
201113-00:25:25,992 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.anat_preproc_niworkflows_ants_0.anat_preproc_niworkflows_ants_0_skullstrip.anat_skullstrip_ants.sel_wm".
201113-00:25:25,994 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.anat_preproc_niworkflows_ants_0.anat_preproc_niworkflows_ants_0_skullstrip.anat_skullstrip_ants.inu_n4_final" in "/outputs/tmp/resting_preproc_sub-018_ses-1/anat_preproc_niworkflows_ants_0/anat_preproc_niworkflows_ants_0_skullstrip/anat_skullstrip_ants/inu_n4_final".
201113-00:25:26,2 nipype.workflow INFO:
[Node] Setting-up "_inu_n4_final0" in "/outputs/tmp/resting_preproc_sub-018_ses-1/anat_preproc_niworkflows_ants_0/anat_preproc_niworkflows_ants_0_skullstrip/anat_skullstrip_ants/inu_n4_final/mapflow/_inu_n4_final0".
201113-00:25:26,7 nipype.workflow INFO:
[Node] Running "_inu_n4_final0" ("nipype.interfaces.ants.segmentation.N4BiasFieldCorrection"), a CommandLine Interface with command:
N4BiasFieldCorrection --bspline-fitting [ 200 ] -d 3 --input-image /outputs/tmp/resting_preproc_sub-018_ses-1/anat_preproc_niworkflows_ants_0/anat_reorient/sub-018_ses-1_T1w_resample.nii.gz --convergence [ 50x50x50x50x50, 1e-07 ] --output [ sub-018_ses-1_T1w_resample_corrected.nii.gz, sub-018_ses-1_T1w_resample_bias.nii.gz ] --shrink-factor 4 --weight-image /outputs/tmp/resting_preproc_sub-018_ses-1/anat_preproc_niworkflows_ants_0/anat_preproc_niworkflows_ants_0_skullstrip/anat_skullstrip_ants/atropos_wf/copy_xform/09_relabel_wm_maths_xform.nii.gz
201113-00:26:19,769 nipype.workflow INFO:
[Node] Finished "_inu_n4_final0".
201113-00:26:19,773 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.anat_preproc_niworkflows_ants_0.anat_preproc_niworkflows_ants_0_skullstrip.anat_skullstrip_ants.inu_n4_final".
201113-00:26:19,773 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.anat_preproc_niworkflows_ants_0.anat_preproc_niworkflows_ants_0_skullstrip.anat_skullstrip_ants.apply_mask" in "/outputs/tmp/resting_preproc_sub-018_ses-1/anat_preproc_niworkflows_ants_0/anat_preproc_niworkflows_ants_0_skullstrip/anat_skullstrip_ants/apply_mask".
201113-00:26:19,781 nipype.workflow INFO:
[Node] Setting-up "_apply_mask0" in "/outputs/tmp/resting_preproc_sub-018_ses-1/anat_preproc_niworkflows_ants_0/anat_preproc_niworkflows_ants_0_skullstrip/anat_skullstrip_ants/apply_mask/mapflow/_apply_mask0".
201113-00:26:19,787 nipype.workflow INFO:
[Node] Running "_apply_mask0" ("nipype.interfaces.fsl.maths.ApplyMask"), a CommandLine Interface with command:
fslmaths /outputs/tmp/resting_preproc_sub-018_ses-1/anat_preproc_niworkflows_ants_0/anat_preproc_niworkflows_ants_0_skullstrip/anat_skullstrip_ants/inu_n4_final/mapflow/_inu_n4_final0/sub-018_ses-1_T1w_resample_corrected.nii.gz -mas /outputs/tmp/resting_preproc_sub-018_ses-1/anat_preproc_niworkflows_ants_0/anat_preproc_niworkflows_ants_0_skullstrip/anat_skullstrip_ants/atropos_wf/copy_xform/09_relabel_wm_mask_xform.nii.gz /outputs/tmp/resting_preproc_sub-018_ses-1/anat_preproc_niworkflows_ants_0/anat_preproc_niworkflows_ants_0_skullstrip/anat_skullstrip_ants/apply_mask/mapflow/_apply_mask0/sub-018_ses-1_T1w_resample_corrected_masked.nii.gz
201113-00:26:21,172 nipype.workflow INFO:
[Node] Finished "_apply_mask0".
201113-00:26:21,176 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.anat_preproc_niworkflows_ants_0.anat_preproc_niworkflows_ants_0_skullstrip.anat_skullstrip_ants.apply_mask".
201113-00:26:21,176 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.anat_preproc_niworkflows_ants_0.anat_preproc_niworkflows_ants_0_skullstrip.anat_skullstrip_ants.copy_xform" in "/outputs/tmp/resting_preproc_sub-018_ses-1/anat_preproc_niworkflows_ants_0/anat_preproc_niworkflows_ants_0_skullstrip/anat_skullstrip_ants/copy_xform".
201113-00:26:21,183 nipype.workflow INFO:
[Node] Running "copy_xform" ("CPAC.utils.interfaces.utils.CopyXForm")
201113-00:26:26,528 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.anat_preproc_niworkflows_ants_0.anat_preproc_niworkflows_ants_0_skullstrip.anat_skullstrip_ants.copy_xform".
201113-00:26:26,530 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.nuisance_regressor_0_0.Anatomical_2mm_flirt" in "/outputs/tmp/resting_preproc_sub-018_ses-1/nuisance_regressor_0_0/_scan_conditioning_run-1/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/Anatomical_2mm_flirt".
201113-00:26:26,539 nipype.workflow INFO:
[Node] Running "Anatomical_2mm_flirt" ("nipype.interfaces.fsl.preprocess.FLIRT"), a CommandLine Interface with command:
flirt -in /outputs/tmp/resting_preproc_sub-018_ses-1/anat_preproc_niworkflows_ants_0/anat_preproc_niworkflows_ants_0_skullstrip/anat_skullstrip_ants/copy_xform/sub-018_ses-1_T1w_resample_corrected_masked_xform.nii.gz -ref /outputs/tmp/resting_preproc_sub-018_ses-1/anat_preproc_niworkflows_ants_0/anat_preproc_niworkflows_ants_0_skullstrip/anat_skullstrip_ants/copy_xform/sub-018_ses-1_T1w_resample_corrected_masked_xform.nii.gz -out sub-018_ses-1_T1w_resample_corrected_masked_xform_flirt.nii.gz -omat sub-018_ses-1_T1w_resample_corrected_masked_xform_flirt.mat -applyisoxfm 2.000000
201113-00:26:30,194 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.nuisance_regressor_0_0.Anatomical_2mm_flirt".
201113-00:26:30,196 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.nuisance_regressor_0_0.Anatomical_2mm_flirt" in "/outputs/tmp/resting_preproc_sub-018_ses-1/nuisance_regressor_0_0/_scan_matching_run-1/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/Anatomical_2mm_flirt".
201113-00:26:30,204 nipype.workflow INFO:
[Node] Running "Anatomical_2mm_flirt" ("nipype.interfaces.fsl.preprocess.FLIRT"), a CommandLine Interface with command:
flirt -in /outputs/tmp/resting_preproc_sub-018_ses-1/anat_preproc_niworkflows_ants_0/anat_preproc_niworkflows_ants_0_skullstrip/anat_skullstrip_ants/copy_xform/sub-018_ses-1_T1w_resample_corrected_masked_xform.nii.gz -ref /outputs/tmp/resting_preproc_sub-018_ses-1/anat_preproc_niworkflows_ants_0/anat_preproc_niworkflows_ants_0_skullstrip/anat_skullstrip_ants/copy_xform/sub-018_ses-1_T1w_resample_corrected_masked_xform.nii.gz -out sub-018_ses-1_T1w_resample_corrected_masked_xform_flirt.nii.gz -omat sub-018_ses-1_T1w_resample_corrected_masked_xform_flirt.mat -applyisoxfm 2.000000
201113-00:26:33,798 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.nuisance_regressor_0_0.Anatomical_2mm_flirt".
201113-00:26:33,799 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.nuisance_regressor_0_0.Anatomical_2mm_flirt" in "/outputs/tmp/resting_preproc_sub-018_ses-1/nuisance_regressor_0_0/_scan_matching_run-2/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/Anatomical_2mm_flirt".
201113-00:26:33,809 nipype.workflow INFO:
[Node] Running "Anatomical_2mm_flirt" ("nipype.interfaces.fsl.preprocess.FLIRT"), a CommandLine Interface with command:
flirt -in /outputs/tmp/resting_preproc_sub-018_ses-1/anat_preproc_niworkflows_ants_0/anat_preproc_niworkflows_ants_0_skullstrip/anat_skullstrip_ants/copy_xform/sub-018_ses-1_T1w_resample_corrected_masked_xform.nii.gz -ref /outputs/tmp/resting_preproc_sub-018_ses-1/anat_preproc_niworkflows_ants_0/anat_preproc_niworkflows_ants_0_skullstrip/anat_skullstrip_ants/copy_xform/sub-018_ses-1_T1w_resample_corrected_masked_xform.nii.gz -out sub-018_ses-1_T1w_resample_corrected_masked_xform_flirt.nii.gz -omat sub-018_ses-1_T1w_resample_corrected_masked_xform_flirt.mat -applyisoxfm 2.000000
201113-00:26:37,420 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.nuisance_regressor_0_0.Anatomical_2mm_flirt".
201113-00:26:37,422 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.nuisance_regressor_0_0.Anatomical_2mm_flirt" in "/outputs/tmp/resting_preproc_sub-018_ses-1/nuisance_regressor_0_0/_scan_matching_run-3/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/Anatomical_2mm_flirt".
201113-00:26:37,432 nipype.workflow INFO:
[Node] Running "Anatomical_2mm_flirt" ("nipype.interfaces.fsl.preprocess.FLIRT"), a CommandLine Interface with command:
flirt -in /outputs/tmp/resting_preproc_sub-018_ses-1/anat_preproc_niworkflows_ants_0/anat_preproc_niworkflows_ants_0_skullstrip/anat_skullstrip_ants/copy_xform/sub-018_ses-1_T1w_resample_corrected_masked_xform.nii.gz -ref /outputs/tmp/resting_preproc_sub-018_ses-1/anat_preproc_niworkflows_ants_0/anat_preproc_niworkflows_ants_0_skullstrip/anat_skullstrip_ants/copy_xform/sub-018_ses-1_T1w_resample_corrected_masked_xform.nii.gz -out sub-018_ses-1_T1w_resample_corrected_masked_xform_flirt.nii.gz -omat sub-018_ses-1_T1w_resample_corrected_masked_xform_flirt.mat -applyisoxfm 2.000000
201113-00:26:41,7 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.nuisance_regressor_0_0.Anatomical_2mm_flirt".
201113-00:26:41,9 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.nuisance_regressor_0_0.Anatomical_2mm_flirt" in "/outputs/tmp/resting_preproc_sub-018_ses-1/nuisance_regressor_0_0/_scan_ms_run-1/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/Anatomical_2mm_flirt".
201113-00:26:41,17 nipype.workflow INFO:
[Node] Running "Anatomical_2mm_flirt" ("nipype.interfaces.fsl.preprocess.FLIRT"), a CommandLine Interface with command:
flirt -in /outputs/tmp/resting_preproc_sub-018_ses-1/anat_preproc_niworkflows_ants_0/anat_preproc_niworkflows_ants_0_skullstrip/anat_skullstrip_ants/copy_xform/sub-018_ses-1_T1w_resample_corrected_masked_xform.nii.gz -ref /outputs/tmp/resting_preproc_sub-018_ses-1/anat_preproc_niworkflows_ants_0/anat_preproc_niworkflows_ants_0_skullstrip/anat_skullstrip_ants/copy_xform/sub-018_ses-1_T1w_resample_corrected_masked_xform.nii.gz -out sub-018_ses-1_T1w_resample_corrected_masked_xform_flirt.nii.gz -omat sub-018_ses-1_T1w_resample_corrected_masked_xform_flirt.mat -applyisoxfm 2.000000
201113-00:26:44,612 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.nuisance_regressor_0_0.Anatomical_2mm_flirt".
201113-00:26:44,613 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.nuisance_regressor_0_0.Anatomical_2mm_flirt" in "/outputs/tmp/resting_preproc_sub-018_ses-1/nuisance_regressor_0_0/_scan_rest_run-1/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/Anatomical_2mm_flirt".
201113-00:26:44,623 nipype.workflow INFO:
[Node] Running "Anatomical_2mm_flirt" ("nipype.interfaces.fsl.preprocess.FLIRT"), a CommandLine Interface with command:
flirt -in /outputs/tmp/resting_preproc_sub-018_ses-1/anat_preproc_niworkflows_ants_0/anat_preproc_niworkflows_ants_0_skullstrip/anat_skullstrip_ants/copy_xform/sub-018_ses-1_T1w_resample_corrected_masked_xform.nii.gz -ref /outputs/tmp/resting_preproc_sub-018_ses-1/anat_preproc_niworkflows_ants_0/anat_preproc_niworkflows_ants_0_skullstrip/anat_skullstrip_ants/copy_xform/sub-018_ses-1_T1w_resample_corrected_masked_xform.nii.gz -out sub-018_ses-1_T1w_resample_corrected_masked_xform_flirt.nii.gz -omat sub-018_ses-1_T1w_resample_corrected_masked_xform_flirt.mat -applyisoxfm 2.000000
201113-00:26:48,181 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.nuisance_regressor_0_0.Anatomical_2mm_flirt".
201113-00:26:48,182 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.nuisance_regressor_0_0.Anatomical_2mm_flirt" in "/outputs/tmp/resting_preproc_sub-018_ses-1/nuisance_regressor_0_0/_scan_tgng_run-1/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/Anatomical_2mm_flirt".
201113-00:26:48,192 nipype.workflow INFO:
[Node] Running "Anatomical_2mm_flirt" ("nipype.interfaces.fsl.preprocess.FLIRT"), a CommandLine Interface with command:
flirt -in /outputs/tmp/resting_preproc_sub-018_ses-1/anat_preproc_niworkflows_ants_0/anat_preproc_niworkflows_ants_0_skullstrip/anat_skullstrip_ants/copy_xform/sub-018_ses-1_T1w_resample_corrected_masked_xform.nii.gz -ref /outputs/tmp/resting_preproc_sub-018_ses-1/anat_preproc_niworkflows_ants_0/anat_preproc_niworkflows_ants_0_skullstrip/anat_skullstrip_ants/copy_xform/sub-018_ses-1_T1w_resample_corrected_masked_xform.nii.gz -out sub-018_ses-1_T1w_resample_corrected_masked_xform_flirt.nii.gz -omat sub-018_ses-1_T1w_resample_corrected_masked_xform_flirt.mat -applyisoxfm 2.000000
201113-00:26:51,790 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.nuisance_regressor_0_0.Anatomical_2mm_flirt".
201113-00:26:51,792 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.nuisance_regressor_0_0.Anatomical_2mm_flirt" in "/outputs/tmp/resting_preproc_sub-018_ses-1/nuisance_regressor_0_0/_scan_tgng_run-2/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/Anatomical_2mm_flirt".
201113-00:26:51,802 nipype.workflow INFO:
[Node] Running "Anatomical_2mm_flirt" ("nipype.interfaces.fsl.preprocess.FLIRT"), a CommandLine Interface with command:
flirt -in /outputs/tmp/resting_preproc_sub-018_ses-1/anat_preproc_niworkflows_ants_0/anat_preproc_niworkflows_ants_0_skullstrip/anat_skullstrip_ants/copy_xform/sub-018_ses-1_T1w_resample_corrected_masked_xform.nii.gz -ref /outputs/tmp/resting_preproc_sub-018_ses-1/anat_preproc_niworkflows_ants_0/anat_preproc_niworkflows_ants_0_skullstrip/anat_skullstrip_ants/copy_xform/sub-018_ses-1_T1w_resample_corrected_masked_xform.nii.gz -out sub-018_ses-1_T1w_resample_corrected_masked_xform_flirt.nii.gz -omat sub-018_ses-1_T1w_resample_corrected_masked_xform_flirt.mat -applyisoxfm 2.000000
201113-00:26:55,369 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.nuisance_regressor_0_0.Anatomical_2mm_flirt".
201113-00:26:55,370 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.func_to_anat_FLIRT_0.linear_func_to_anat" in "/outputs/tmp/resting_preproc_sub-018_ses-1/func_to_anat_FLIRT_0/_scan_tgng_run-2/linear_func_to_anat".
201113-00:26:55,408 nipype.workflow INFO:
[Node] Running "linear_func_to_anat" ("nipype.interfaces.fsl.preprocess.FLIRT"), a CommandLine Interface with command:
flirt -in /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/_scan_tgng_run-2/func_mean/sub-018_ses-1_task-tgng_run-2_bold_calc_despike_tshift_resample_mcf_calc_tstat.nii.gz -ref /outputs/tmp/resting_preproc_sub-018_ses-1/anat_preproc_niworkflows_ants_0/anat_preproc_niworkflows_ants_0_skullstrip/anat_skullstrip_ants/copy_xform/sub-018_ses-1_T1w_resample_corrected_masked_xform.nii.gz -out sub-018_ses-1_task-tgng_run-2_bold_calc_despike_tshift_resample_mcf_calc_tstat_flirt.nii.gz -omat sub-018_ses-1_task-tgng_run-2_bold_calc_despike_tshift_resample_mcf_calc_tstat_flirt.mat -cost corratio -dof 6 -interp trilinear
201113-00:27:01,72 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.func_to_anat_FLIRT_0.linear_func_to_anat".
201113-00:27:01,74 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.func_to_anat_FLIRT_0.linear_func_to_anat" in "/outputs/tmp/resting_preproc_sub-018_ses-1/func_to_anat_FLIRT_0/_scan_tgng_run-1/linear_func_to_anat".
201113-00:27:01,112 nipype.workflow INFO:
[Node] Running "linear_func_to_anat" ("nipype.interfaces.fsl.preprocess.FLIRT"), a CommandLine Interface with command:
flirt -in /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/_scan_tgng_run-1/func_mean/sub-018_ses-1_task-tgng_run-1_bold_calc_despike_tshift_resample_mcf_calc_tstat.nii.gz -ref /outputs/tmp/resting_preproc_sub-018_ses-1/anat_preproc_niworkflows_ants_0/anat_preproc_niworkflows_ants_0_skullstrip/anat_skullstrip_ants/copy_xform/sub-018_ses-1_T1w_resample_corrected_masked_xform.nii.gz -out sub-018_ses-1_task-tgng_run-1_bold_calc_despike_tshift_resample_mcf_calc_tstat_flirt.nii.gz -omat sub-018_ses-1_task-tgng_run-1_bold_calc_despike_tshift_resample_mcf_calc_tstat_flirt.mat -cost corratio -dof 6 -interp trilinear
201113-00:27:06,794 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.func_to_anat_FLIRT_0.linear_func_to_anat".
201113-00:27:06,797 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.func_to_anat_FLIRT_0.linear_func_to_anat" in "/outputs/tmp/resting_preproc_sub-018_ses-1/func_to_anat_FLIRT_0/_scan_rest_run-1/linear_func_to_anat".
201113-00:27:06,839 nipype.workflow INFO:
[Node] Running "linear_func_to_anat" ("nipype.interfaces.fsl.preprocess.FLIRT"), a CommandLine Interface with command:
flirt -in /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/_scan_rest_run-1/func_mean/sub-018_ses-1_task-rest_run-1_bold_calc_despike_tshift_resample_mcf_calc_tstat.nii.gz -ref /outputs/tmp/resting_preproc_sub-018_ses-1/anat_preproc_niworkflows_ants_0/anat_preproc_niworkflows_ants_0_skullstrip/anat_skullstrip_ants/copy_xform/sub-018_ses-1_T1w_resample_corrected_masked_xform.nii.gz -out sub-018_ses-1_task-rest_run-1_bold_calc_despike_tshift_resample_mcf_calc_tstat_flirt.nii.gz -omat sub-018_ses-1_task-rest_run-1_bold_calc_despike_tshift_resample_mcf_calc_tstat_flirt.mat -cost corratio -dof 6 -interp trilinear
201113-00:27:16,707 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.func_to_anat_FLIRT_0.linear_func_to_anat".
201113-00:27:16,709 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.func_to_anat_FLIRT_0.linear_func_to_anat" in "/outputs/tmp/resting_preproc_sub-018_ses-1/func_to_anat_FLIRT_0/_scan_ms_run-1/linear_func_to_anat".
201113-00:27:16,745 nipype.workflow INFO:
[Node] Running "linear_func_to_anat" ("nipype.interfaces.fsl.preprocess.FLIRT"), a CommandLine Interface with command:
flirt -in /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/_scan_ms_run-1/func_mean/sub-018_ses-1_task-ms_run-1_bold_calc_despike_tshift_resample_mcf_calc_tstat.nii.gz -ref /outputs/tmp/resting_preproc_sub-018_ses-1/anat_preproc_niworkflows_ants_0/anat_preproc_niworkflows_ants_0_skullstrip/anat_skullstrip_ants/copy_xform/sub-018_ses-1_T1w_resample_corrected_masked_xform.nii.gz -out sub-018_ses-1_task-ms_run-1_bold_calc_despike_tshift_resample_mcf_calc_tstat_flirt.nii.gz -omat sub-018_ses-1_task-ms_run-1_bold_calc_despike_tshift_resample_mcf_calc_tstat_flirt.mat -cost corratio -dof 6 -interp trilinear
201113-00:27:22,599 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.func_to_anat_FLIRT_0.linear_func_to_anat".
201113-00:27:22,601 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.func_to_anat_FLIRT_0.linear_func_to_anat" in "/outputs/tmp/resting_preproc_sub-018_ses-1/func_to_anat_FLIRT_0/_scan_matching_run-3/linear_func_to_anat".
201113-00:27:22,622 nipype.workflow INFO:
[Node] Running "linear_func_to_anat" ("nipype.interfaces.fsl.preprocess.FLIRT"), a CommandLine Interface with command:
flirt -in /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/_scan_matching_run-3/func_mean/sub-018_ses-1_task-matching_run-3_bold_calc_despike_tshift_resample_mcf_calc_tstat.nii.gz -ref /outputs/tmp/resting_preproc_sub-018_ses-1/anat_preproc_niworkflows_ants_0/anat_preproc_niworkflows_ants_0_skullstrip/anat_skullstrip_ants/copy_xform/sub-018_ses-1_T1w_resample_corrected_masked_xform.nii.gz -out sub-018_ses-1_task-matching_run-3_bold_calc_despike_tshift_resample_mcf_calc_tstat_flirt.nii.gz -omat sub-018_ses-1_task-matching_run-3_bold_calc_despike_tshift_resample_mcf_calc_tstat_flirt.mat -cost corratio -dof 6 -interp trilinear
201113-00:27:28,388 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.func_to_anat_FLIRT_0.linear_func_to_anat".
201113-00:27:28,390 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.func_to_anat_FLIRT_0.linear_func_to_anat" in "/outputs/tmp/resting_preproc_sub-018_ses-1/func_to_anat_FLIRT_0/_scan_matching_run-2/linear_func_to_anat".
201113-00:27:28,421 nipype.workflow INFO:
[Node] Running "linear_func_to_anat" ("nipype.interfaces.fsl.preprocess.FLIRT"), a CommandLine Interface with command:
flirt -in /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/_scan_matching_run-2/func_mean/sub-018_ses-1_task-matching_run-2_bold_calc_despike_tshift_resample_mcf_calc_tstat.nii.gz -ref /outputs/tmp/resting_preproc_sub-018_ses-1/anat_preproc_niworkflows_ants_0/anat_preproc_niworkflows_ants_0_skullstrip/anat_skullstrip_ants/copy_xform/sub-018_ses-1_T1w_resample_corrected_masked_xform.nii.gz -out sub-018_ses-1_task-matching_run-2_bold_calc_despike_tshift_resample_mcf_calc_tstat_flirt.nii.gz -omat sub-018_ses-1_task-matching_run-2_bold_calc_despike_tshift_resample_mcf_calc_tstat_flirt.mat -cost corratio -dof 6 -interp trilinear
201113-00:27:34,262 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.func_to_anat_FLIRT_0.linear_func_to_anat".
201113-00:27:34,264 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.func_to_anat_FLIRT_0.linear_func_to_anat" in "/outputs/tmp/resting_preproc_sub-018_ses-1/func_to_anat_FLIRT_0/_scan_matching_run-1/linear_func_to_anat".
201113-00:27:34,272 nipype.workflow INFO:
[Node] Running "linear_func_to_anat" ("nipype.interfaces.fsl.preprocess.FLIRT"), a CommandLine Interface with command:
flirt -in /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/_scan_matching_run-1/func_mean/sub-018_ses-1_task-matching_run-1_bold_calc_despike_tshift_resample_mcf_calc_tstat.nii.gz -ref /outputs/tmp/resting_preproc_sub-018_ses-1/anat_preproc_niworkflows_ants_0/anat_preproc_niworkflows_ants_0_skullstrip/anat_skullstrip_ants/copy_xform/sub-018_ses-1_T1w_resample_corrected_masked_xform.nii.gz -out sub-018_ses-1_task-matching_run-1_bold_calc_despike_tshift_resample_mcf_calc_tstat_flirt.nii.gz -omat sub-018_ses-1_task-matching_run-1_bold_calc_despike_tshift_resample_mcf_calc_tstat_flirt.mat -cost corratio -dof 6 -interp trilinear
201113-00:27:40,108 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.func_to_anat_FLIRT_0.linear_func_to_anat".
201113-00:27:40,110 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.func_to_anat_FLIRT_0.linear_func_to_anat" in "/outputs/tmp/resting_preproc_sub-018_ses-1/func_to_anat_FLIRT_0/_scan_conditioning_run-1/linear_func_to_anat".
201113-00:27:40,118 nipype.workflow INFO:
[Node] Running "linear_func_to_anat" ("nipype.interfaces.fsl.preprocess.FLIRT"), a CommandLine Interface with command:
flirt -in /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/_scan_conditioning_run-1/func_mean/sub-018_ses-1_task-conditioning_run-1_bold_calc_despike_tshift_resample_mcf_calc_tstat.nii.gz -ref /outputs/tmp/resting_preproc_sub-018_ses-1/anat_preproc_niworkflows_ants_0/anat_preproc_niworkflows_ants_0_skullstrip/anat_skullstrip_ants/copy_xform/sub-018_ses-1_T1w_resample_corrected_masked_xform.nii.gz -out sub-018_ses-1_task-conditioning_run-1_bold_calc_despike_tshift_resample_mcf_calc_tstat_flirt.nii.gz -omat sub-018_ses-1_task-conditioning_run-1_bold_calc_despike_tshift_resample_mcf_calc_tstat_flirt.mat -cost corratio -dof 6 -interp trilinear
201113-00:27:45,717 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.func_to_anat_FLIRT_0.linear_func_to_anat".
201113-00:27:45,719 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.qc_skullstrip_0.montage_skull.resample_u" in "/outputs/tmp/resting_preproc_sub-018_ses-1/qc_skullstrip_0/montage_skull/resample_u".
201113-00:27:45,723 nipype.workflow INFO:
[Node] Running "resample_u" ("CPAC.utils.interfaces.function.Function")
201113-00:27:46,790 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.qc_skullstrip_0.montage_skull.resample_u".
201113-00:27:46,791 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.qc_skullstrip_0.montage_skull.montage_s" in "/outputs/tmp/resting_preproc_sub-018_ses-1/qc_skullstrip_0/montage_skull/montage_s".
201113-00:27:46,798 nipype.workflow INFO:
[Node] Setting-up "_montage_s0" in "/outputs/tmp/resting_preproc_sub-018_ses-1/qc_skullstrip_0/montage_skull/montage_s/mapflow/_montage_s0".
201113-00:27:46,803 nipype.workflow INFO:
[Node] Running "_montage_s0" ("CPAC.utils.interfaces.function.Function")
201113-00:27:49,350 nipype.workflow INFO:
[Node] Finished "_montage_s0".
201113-00:27:49,353 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.qc_skullstrip_0.montage_skull.montage_s".
201113-00:27:49,354 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.sinker_0_qc___skullstrip_vis_s" in "/outputs/tmp/resting_preproc_sub-018_ses-1/sinker_0_qc___skullstrip_vis_s".
201113-00:27:49,362 nipype.workflow INFO:
[Node] Running "sinker_0_qc___skullstrip_vis_s" ("CPAC.utils.interfaces.datasink.DataSink")
201113-00:27:49,576 nipype.interface INFO:
sub: /outputs/output/pipeline_cpac_fmriprep-options/sub-018_ses-1/qc___skullstrip_vis_s/_montage_s0/skull_vis_s.png -> /outputs/output/pipeline_cpac_fmriprep-options/sub-018_ses-1/qc/skullstrip_vis_s/_montage_s0/skull_vis_s.png
201113-00:27:49,592 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.sinker_0_qc___skullstrip_vis_s".
201113-00:27:49,594 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.qc_skullstrip_0.montage_skull.montage_a" in "/outputs/tmp/resting_preproc_sub-018_ses-1/qc_skullstrip_0/montage_skull/montage_a".
201113-00:27:49,601 nipype.workflow INFO:
[Node] Setting-up "_montage_a0" in "/outputs/tmp/resting_preproc_sub-018_ses-1/qc_skullstrip_0/montage_skull/montage_a/mapflow/_montage_a0".
201113-00:27:49,606 nipype.workflow INFO:
[Node] Running "_montage_a0" ("CPAC.utils.interfaces.function.Function")
201113-00:27:52,335 nipype.workflow INFO:
[Node] Finished "_montage_a0".
201113-00:27:52,340 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.qc_skullstrip_0.montage_skull.montage_a".
201113-00:27:52,340 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.sinker_0_qc___skullstrip_vis_a" in "/outputs/tmp/resting_preproc_sub-018_ses-1/sinker_0_qc___skullstrip_vis_a".
201113-00:27:52,348 nipype.workflow INFO:
[Node] Running "sinker_0_qc___skullstrip_vis_a" ("CPAC.utils.interfaces.datasink.DataSink")
201113-00:27:52,559 nipype.interface INFO:
sub: /outputs/output/pipeline_cpac_fmriprep-options/sub-018_ses-1/qc___skullstrip_vis_a/_montage_a0/skull_vis_a.png -> /outputs/output/pipeline_cpac_fmriprep-options/sub-018_ses-1/qc/skullstrip_vis_a/_montage_a0/skull_vis_a.png
201113-00:27:52,581 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.sinker_0_qc___skullstrip_vis_a".
201113-00:27:52,582 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.qc_snr_0.montage_snr.resample_u" in "/outputs/tmp/resting_preproc_sub-018_ses-1/qc_snr_0/montage_snr/resample_u".
201113-00:27:52,588 nipype.workflow INFO:
[Node] Running "resample_u" ("CPAC.utils.interfaces.function.Function")
201113-00:27:53,618 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.qc_snr_0.montage_snr.resample_u".
201113-00:27:53,619 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.montage_csf_gm_wm_0.resample_u" in "/outputs/tmp/resting_preproc_sub-018_ses-1/montage_csf_gm_wm_0/resample_u".
201113-00:27:53,623 nipype.workflow INFO:
[Node] Running "resample_u" ("CPAC.utils.interfaces.function.Function")
201113-00:27:54,638 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.montage_csf_gm_wm_0.resample_u".
201113-00:27:54,639 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.seg_preproc_0.segment" in "/outputs/tmp/resting_preproc_sub-018_ses-1/seg_preproc_0/segment".
201113-00:27:54,646 nipype.workflow INFO:
[Node] Running "segment" ("nipype.interfaces.fsl.preprocess.FAST"), a CommandLine Interface with command:
fast -t 1 -o segment -p -g -S 1 /outputs/tmp/resting_preproc_sub-018_ses-1/seg_preproc_0/segment/sub-018_ses-1_T1w_resample_corrected_masked_xform.nii.gz
201113-00:32:19,205 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.seg_preproc_0.segment".
201113-00:32:19,208 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.func_to_anat_bbreg_0.wm_bb_mask" in "/outputs/tmp/resting_preproc_sub-018_ses-1/func_to_anat_bbreg_0/wm_bb_mask".
201113-00:32:19,214 nipype.workflow INFO:
[Node] Running "wm_bb_mask" ("nipype.interfaces.fsl.utils.ImageMaths"), a CommandLine Interface with command:
fslmaths /outputs/tmp/resting_preproc_sub-018_ses-1/seg_preproc_0/segment/segment_prob_2.nii.gz -thr 0.5 -bin /outputs/tmp/resting_preproc_sub-018_ses-1/func_to_anat_bbreg_0/wm_bb_mask/segment_prob_2_maths.nii.gz
201113-00:32:20,298 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.func_to_anat_bbreg_0.wm_bb_mask".
201113-00:32:20,299 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.func_to_anat_bbreg_0.bbreg_func_to_anat" in "/outputs/tmp/resting_preproc_sub-018_ses-1/func_to_anat_bbreg_0/_scan_tgng_run-2/bbreg_func_to_anat".
201113-00:32:20,314 nipype.workflow INFO:
[Node] Running "bbreg_func_to_anat" ("nipype.interfaces.fsl.preprocess.FLIRT"), a CommandLine Interface with command:
flirt -in /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/_scan_tgng_run-2/func_mean/sub-018_ses-1_task-tgng_run-2_bold_calc_despike_tshift_resample_mcf_calc_tstat.nii.gz -ref /outputs/tmp/resting_preproc_sub-018_ses-1/anat_preproc_niworkflows_ants_0/anat_reorient/sub-018_ses-1_T1w_resample.nii.gz -out sub-018_ses-1_task-tgng_run-2_bold_calc_despike_tshift_resample_mcf_calc_tstat_flirt.nii.gz -omat sub-018_ses-1_task-tgng_run-2_bold_calc_despike_tshift_resample_mcf_calc_tstat_flirt.mat -cost bbr -wmseg /outputs/tmp/resting_preproc_sub-018_ses-1/func_to_anat_bbreg_0/wm_bb_mask/segment_prob_2_maths.nii.gz -dof 6 -init /outputs/tmp/resting_preproc_sub-018_ses-1/func_to_anat_FLIRT_0/_scan_tgng_run-2/linear_func_to_anat/sub-018_ses-1_task-tgng_run-2_bold_calc_despike_tshift_resample_mcf_calc_tstat_flirt.mat -schedule /usr/share/fsl/5.0/etc/flirtsch/bbr.sch
201113-00:34:32,86 nipype.interface INFO:
stdout 2020-11-13T00:34:32.086314:Applying POWELL correction
201113-00:34:32,88 nipype.interface INFO:
stdout 2020-11-13T00:34:32.088677:finit, fend, fextrap = 0.65919 , 0.658606 , 0.658351
201113-00:34:34,41 nipype.interface INFO:
stdout 2020-11-13T00:34:34.041207:fval = 0.658058
201113-00:34:44,18 nipype.interface INFO:
stdout 2020-11-13T00:34:44.018390:0.656808 0.999813 0.013644 -0.013729 0.000000 -0.014155 0.999184 -0.037830 0.000000 0.013201 0.038017 0.999190 0.000000 0.976289 -3.811585 9.681184 1.000000
201113-00:34:45,963 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.func_to_anat_bbreg_0.bbreg_func_to_anat".
201113-00:34:45,965 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.nuisance_regressor_0_0.Functional_2mm_flirt" in "/outputs/tmp/resting_preproc_sub-018_ses-1/nuisance_regressor_0_0/_scan_tgng_run-2/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/Functional_2mm_flirt".
201113-00:34:46,23 nipype.workflow INFO:
[Node] Running "Functional_2mm_flirt" ("nipype.interfaces.fsl.preprocess.FLIRT"), a CommandLine Interface with command:
flirt -in /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/_scan_tgng_run-2/func_normalize/sub-018_ses-1_task-tgng_run-2_bold_calc_despike_tshift_resample_mcf_calc_maths.nii.gz -ref /outputs/tmp/resting_preproc_sub-018_ses-1/nuisance_regressor_0_0/_scan_tgng_run-2/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/Anatomical_2mm_flirt/sub-018_ses-1_T1w_resample_corrected_masked_xform_flirt.nii.gz -out sub-018_ses-1_task-tgng_run-2_bold_calc_despike_tshift_resample_mcf_calc_maths_flirt.nii.gz -omat sub-018_ses-1_task-tgng_run-2_bold_calc_despike_tshift_resample_mcf_calc_maths_flirt.mat -applyxfm -init /outputs/tmp/resting_preproc_sub-018_ses-1/func_to_anat_bbreg_0/_scan_tgng_run-2/bbreg_func_to_anat/sub-018_ses-1_task-tgng_run-2_bold_calc_despike_tshift_resample_mcf_calc_tstat_flirt.mat
201113-00:35:12,470 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.nuisance_regressor_0_0.Functional_2mm_flirt".
201113-00:35:12,471 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.montage_anat_0.resample_u" in "/outputs/tmp/resting_preproc_sub-018_ses-1/montage_anat_0/_scan_tgng_run-2/resample_u".
201113-00:35:12,476 nipype.workflow INFO:
[Node] Running "resample_u" ("CPAC.utils.interfaces.function.Function")
201113-00:35:13,588 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.montage_anat_0.resample_u".
201113-00:35:13,590 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.qc_snr_0.std_dev_anat" in "/outputs/tmp/resting_preproc_sub-018_ses-1/qc_snr_0/_scan_tgng_run-2/std_dev_anat".
201113-00:35:13,604 nipype.workflow INFO:
[Node] Running "std_dev_anat" ("nipype.interfaces.fsl.preprocess.ApplyWarp"), a CommandLine Interface with command:
applywarp --in=/outputs/tmp/resting_preproc_sub-018_ses-1/qc_snr_0/_scan_tgng_run-2/std_dev/sub-018_ses-1_task-tgng_run-2_bold_calc_despike_tshift_resample_mcf_calc_maths_tstat.nii.gz --ref=/outputs/tmp/resting_preproc_sub-018_ses-1/anat_preproc_niworkflows_ants_0/anat_preproc_niworkflows_ants_0_skullstrip/anat_skullstrip_ants/copy_xform/sub-018_ses-1_T1w_resample_corrected_masked_xform.nii.gz --out=/outputs/tmp/resting_preproc_sub-018_ses-1/qc_snr_0/_scan_tgng_run-2/std_dev_anat/sub-018_ses-1_task-tgng_run-2_bold_calc_despike_tshift_resample_mcf_calc_maths_tstat_warp.nii.gz --premat=/outputs/tmp/resting_preproc_sub-018_ses-1/func_to_anat_bbreg_0/_scan_tgng_run-2/bbreg_func_to_anat/sub-018_ses-1_task-tgng_run-2_bold_calc_despike_tshift_resample_mcf_calc_tstat_flirt.mat --interp=trilinear
201113-00:35:17,479 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.qc_snr_0.std_dev_anat".
201113-00:35:17,480 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.qc_snr_0.snr" in "/outputs/tmp/resting_preproc_sub-018_ses-1/qc_snr_0/_scan_tgng_run-2/snr".
201113-00:35:17,486 nipype.workflow INFO:
[Node] Running "snr" ("nipype.interfaces.afni.utils.Calc"), a CommandLine Interface with command:
3dcalc -a /outputs/tmp/resting_preproc_sub-018_ses-1/qc_snr_0/_scan_tgng_run-2/std_dev_anat/sub-018_ses-1_task-tgng_run-2_bold_calc_despike_tshift_resample_mcf_calc_maths_tstat_warp.nii.gz -b /outputs/tmp/resting_preproc_sub-018_ses-1/func_to_anat_bbreg_0/_scan_tgng_run-2/bbreg_func_to_anat/sub-018_ses-1_task-tgng_run-2_bold_calc_despike_tshift_resample_mcf_calc_tstat_flirt.nii.gz -expr "b/a" -prefix sub-018_ses-1_task-tgng_run-2_bold_calc_despike_tshift_resample_mcf_calc_maths_tstat_warp_calc.nii.gz
201113-00:35:17,729 nipype.interface INFO:
stderr 2020-11-13T00:35:17.729431:++ 3dcalc: AFNI version=AFNI_20.2.19 (Sep 27 2020) [64-bit]
201113-00:35:17,729 nipype.interface INFO:
stderr 2020-11-13T00:35:17.729769:++ Authored by: A cast of thousands
201113-00:35:19,726 nipype.interface INFO:
stderr 2020-11-13T00:35:19.726413:++ Output dataset ./sub-018_ses-1_task-tgng_run-2_bold_calc_despike_tshift_resample_mcf_calc_maths_tstat_warp_calc.nii.gz
201113-00:35:19,878 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.qc_snr_0.snr".
201113-00:35:19,879 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.qc_snr_0.dp_snr" in "/outputs/tmp/resting_preproc_sub-018_ses-1/qc_snr_0/_scan_tgng_run-2/dp_snr".
201113-00:35:19,883 nipype.workflow INFO:
[Node] Running "dp_snr" ("CPAC.utils.interfaces.function.Function")
201113-00:35:20,792 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.qc_snr_0.dp_snr".
201113-00:35:20,793 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.qc_snr_0.montage_snr.resample_o" in "/outputs/tmp/resting_preproc_sub-018_ses-1/qc_snr_0/montage_snr/_scan_tgng_run-2/resample_o".
201113-00:35:20,799 nipype.workflow INFO:
[Node] Running "resample_o" ("CPAC.utils.interfaces.function.Function")
201113-00:35:21,808 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.qc_snr_0.montage_snr.resample_o".
201113-00:35:21,810 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.qc_snr_0.montage_snr.montage_s" in "/outputs/tmp/resting_preproc_sub-018_ses-1/qc_snr_0/montage_snr/_scan_tgng_run-2/montage_s".
201113-00:35:21,818 nipype.workflow INFO:
[Node] Setting-up "_montage_s0" in "/outputs/tmp/resting_preproc_sub-018_ses-1/qc_snr_0/montage_snr/_scan_tgng_run-2/montage_s/mapflow/_montage_s0".
201113-00:35:21,823 nipype.workflow INFO:
[Node] Running "_montage_s0" ("CPAC.utils.interfaces.function.Function")
201113-00:35:24,79 nipype.workflow INFO:
[Node] Finished "_montage_s0".
201113-00:35:24,82 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.qc_snr_0.montage_snr.montage_s".
201113-00:35:24,82 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.sinker_0_qc___snr_s" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_tgng_run-2/sinker_0_qc___snr_s".
201113-00:35:24,91 nipype.workflow INFO:
[Node] Running "sinker_0_qc___snr_s" ("CPAC.utils.interfaces.datasink.DataSink")
201113-00:35:24,306 nipype.interface INFO:
sub: /outputs/output/pipeline_cpac_fmriprep-options/sub-018_ses-1/qc___snr_s/_scan_tgng_run-2/_montage_s0/snr_s.png -> /outputs/output/pipeline_cpac_fmriprep-options/sub-018_ses-1/qc/snr_s/_scan_tgng_run-2/_montage_s0/snr_s.png
201113-00:35:24,322 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.sinker_0_qc___snr_s".
201113-00:35:24,324 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.qc_snr_0.montage_snr.montage_a" in "/outputs/tmp/resting_preproc_sub-018_ses-1/qc_snr_0/montage_snr/_scan_tgng_run-2/montage_a".
201113-00:35:24,330 nipype.workflow INFO:
[Node] Setting-up "_montage_a0" in "/outputs/tmp/resting_preproc_sub-018_ses-1/qc_snr_0/montage_snr/_scan_tgng_run-2/montage_a/mapflow/_montage_a0".
201113-00:35:24,334 nipype.workflow INFO:
[Node] Running "_montage_a0" ("CPAC.utils.interfaces.function.Function")
201113-00:35:26,883 nipype.workflow INFO:
[Node] Finished "_montage_a0".
201113-00:35:26,888 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.qc_snr_0.montage_snr.montage_a".
201113-00:35:26,888 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.sinker_0_qc___snr_a" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_tgng_run-2/sinker_0_qc___snr_a".
201113-00:35:26,896 nipype.workflow INFO:
[Node] Running "sinker_0_qc___snr_a" ("CPAC.utils.interfaces.datasink.DataSink")
201113-00:35:27,107 nipype.interface INFO:
sub: /outputs/output/pipeline_cpac_fmriprep-options/sub-018_ses-1/qc___snr_a/_scan_tgng_run-2/_montage_a0/snr_a.png -> /outputs/output/pipeline_cpac_fmriprep-options/sub-018_ses-1/qc/snr_a/_scan_tgng_run-2/_montage_a0/snr_a.png
201113-00:35:27,125 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.sinker_0_qc___snr_a".
201113-00:35:27,127 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.qc_snr_0.hist_snr" in "/outputs/tmp/resting_preproc_sub-018_ses-1/qc_snr_0/_scan_tgng_run-2/hist_snr".
201113-00:35:27,131 nipype.workflow INFO:
[Node] Running "hist_snr" ("CPAC.utils.interfaces.function.Function")
201113-00:35:27,694 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.qc_snr_0.hist_snr".
201113-00:35:27,696 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.sinker_0_qc___snr_hist" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_tgng_run-2/sinker_0_qc___snr_hist".
201113-00:35:27,703 nipype.workflow INFO:
[Node] Running "sinker_0_qc___snr_hist" ("CPAC.utils.interfaces.datasink.DataSink")
201113-00:35:27,917 nipype.interface INFO:
sub: /outputs/output/pipeline_cpac_fmriprep-options/sub-018_ses-1/qc___snr_hist/_scan_tgng_run-2/snr_hist_plot.png -> /outputs/output/pipeline_cpac_fmriprep-options/sub-018_ses-1/qc/snr_hist/_scan_tgng_run-2/snr_hist_plot.png
201113-00:35:27,935 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.sinker_0_qc___snr_hist".
201113-00:35:27,937 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.qc_snr_0.snr_val" in "/outputs/tmp/resting_preproc_sub-018_ses-1/qc_snr_0/_scan_tgng_run-2/snr_val".
201113-00:35:27,941 nipype.workflow INFO:
[Node] Running "snr_val" ("CPAC.utils.interfaces.function.Function")
201113-00:35:28,440 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.qc_snr_0.snr_val".
201113-00:35:28,441 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.sinker_0_qc___snr_val" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_tgng_run-2/sinker_0_qc___snr_val".
201113-00:35:28,448 nipype.workflow INFO:
[Node] Running "sinker_0_qc___snr_val" ("CPAC.utils.interfaces.datasink.DataSink")
201113-00:35:28,658 nipype.interface INFO:
sub: /outputs/output/pipeline_cpac_fmriprep-options/sub-018_ses-1/qc___snr_val/_scan_tgng_run-2/average_snr_file.txt -> /outputs/output/pipeline_cpac_fmriprep-options/sub-018_ses-1/qc/snr_val/_scan_tgng_run-2/average_snr_file.txt
201113-00:35:28,676 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.sinker_0_qc___snr_val".
201113-00:35:28,678 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.sinker_0_mean_functional_in_anat" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_tgng_run-2/sinker_0_mean_functional_in_anat".
201113-00:35:28,685 nipype.workflow INFO:
[Node] Running "sinker_0_mean_functional_in_anat" ("CPAC.utils.interfaces.datasink.DataSink")
201113-00:35:28,916 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.sinker_0_mean_functional_in_anat".
201113-00:35:28,918 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.sinker_0_functional_to_anat_linear_xfm" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_tgng_run-2/sinker_0_functional_to_anat_linear_xfm".
201113-00:35:28,926 nipype.workflow INFO:
[Node] Running "sinker_0_functional_to_anat_linear_xfm" ("CPAC.utils.interfaces.datasink.DataSink")
201113-00:35:29,158 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.sinker_0_functional_to_anat_linear_xfm".
201113-00:35:29,159 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.anat_to_func_linear_xfm_0_0" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_tgng_run-2/anat_to_func_linear_xfm_0_0".
201113-00:35:29,166 nipype.workflow INFO:
[Node] Running "anat_to_func_linear_xfm_0_0" ("nipype.interfaces.fsl.utils.ConvertXFM"), a CommandLine Interface with command:
convert_xfm -omat /outputs/tmp/resting_preproc_sub-018_ses-1/_scan_tgng_run-2/anat_to_func_linear_xfm_0_0/sub-018_ses-1_task-tgng_run-2_bold_calc_despike_tshift_resample_mcf_calc_tstat_flirt_inv.mat -inverse /outputs/tmp/resting_preproc_sub-018_ses-1/func_to_anat_bbreg_0/_scan_tgng_run-2/bbreg_func_to_anat/sub-018_ses-1_task-tgng_run-2_bold_calc_despike_tshift_resample_mcf_calc_tstat_flirt.mat
201113-00:35:29,604 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.anat_to_func_linear_xfm_0_0".
201113-00:35:29,605 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.fsl_reg_2_itk_0" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_tgng_run-2/fsl_reg_2_itk_0".
201113-00:35:29,613 nipype.workflow INFO:
[Node] Running "fsl_reg_2_itk_0" ("nipype.interfaces.c3.C3dAffineTool"), a CommandLine Interface with command:
c3d_affine_tool -ref /outputs/tmp/resting_preproc_sub-018_ses-1/anat_preproc_niworkflows_ants_0/anat_preproc_niworkflows_ants_0_skullstrip/anat_skullstrip_ants/copy_xform/sub-018_ses-1_T1w_resample_corrected_masked_xform.nii.gz -src /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/_scan_tgng_run-2/func_mean/sub-018_ses-1_task-tgng_run-2_bold_calc_despike_tshift_resample_mcf_calc_tstat.nii.gz /outputs/tmp/resting_preproc_sub-018_ses-1/func_to_anat_bbreg_0/_scan_tgng_run-2/bbreg_func_to_anat/sub-018_ses-1_task-tgng_run-2_bold_calc_despike_tshift_resample_mcf_calc_tstat_flirt.mat -fsl2ras -oitk /outputs/tmp/resting_preproc_sub-018_ses-1/_scan_tgng_run-2/fsl_reg_2_itk_0/affine.txt
201113-00:35:30,250 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.fsl_reg_2_itk_0".
201113-00:35:30,251 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.change_transform_type_0" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_tgng_run-2/change_transform_type_0".
201113-00:35:30,257 nipype.workflow INFO:
[Node] Running "change_transform_type_0" ("nipype.interfaces.utility.wrappers.Function")
201113-00:35:30,486 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.change_transform_type_0".
201113-00:35:30,488 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.func_to_anat_bbreg_0.bbreg_func_to_anat" in "/outputs/tmp/resting_preproc_sub-018_ses-1/func_to_anat_bbreg_0/_scan_tgng_run-1/bbreg_func_to_anat".
201113-00:35:30,496 nipype.workflow INFO:
[Node] Running "bbreg_func_to_anat" ("nipype.interfaces.fsl.preprocess.FLIRT"), a CommandLine Interface with command:
flirt -in /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/_scan_tgng_run-1/func_mean/sub-018_ses-1_task-tgng_run-1_bold_calc_despike_tshift_resample_mcf_calc_tstat.nii.gz -ref /outputs/tmp/resting_preproc_sub-018_ses-1/anat_preproc_niworkflows_ants_0/anat_reorient/sub-018_ses-1_T1w_resample.nii.gz -out sub-018_ses-1_task-tgng_run-1_bold_calc_despike_tshift_resample_mcf_calc_tstat_flirt.nii.gz -omat sub-018_ses-1_task-tgng_run-1_bold_calc_despike_tshift_resample_mcf_calc_tstat_flirt.mat -cost bbr -wmseg /outputs/tmp/resting_preproc_sub-018_ses-1/func_to_anat_bbreg_0/wm_bb_mask/segment_prob_2_maths.nii.gz -dof 6 -init /outputs/tmp/resting_preproc_sub-018_ses-1/func_to_anat_FLIRT_0/_scan_tgng_run-1/linear_func_to_anat/sub-018_ses-1_task-tgng_run-1_bold_calc_despike_tshift_resample_mcf_calc_tstat_flirt.mat -schedule /usr/share/fsl/5.0/etc/flirtsch/bbr.sch
201113-00:38:10,662 nipype.interface INFO:
stdout 2020-11-13T00:38:10.660448:0.648138 0.999713 0.012666 -0.020310 0.000000 -0.013542 0.998958 -0.043587 0.000000 0.019736 0.043850 0.998843 0.000000 0.157045 -4.452050 11.205288 1.000000
201113-00:38:12,614 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.func_to_anat_bbreg_0.bbreg_func_to_anat".
201113-00:38:12,616 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.nuisance_regressor_0_0.Functional_2mm_flirt" in "/outputs/tmp/resting_preproc_sub-018_ses-1/nuisance_regressor_0_0/_scan_tgng_run-1/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/Functional_2mm_flirt".
201113-00:38:12,642 nipype.workflow INFO:
[Node] Running "Functional_2mm_flirt" ("nipype.interfaces.fsl.preprocess.FLIRT"), a CommandLine Interface with command:
flirt -in /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/_scan_tgng_run-1/func_normalize/sub-018_ses-1_task-tgng_run-1_bold_calc_despike_tshift_resample_mcf_calc_maths.nii.gz -ref /outputs/tmp/resting_preproc_sub-018_ses-1/nuisance_regressor_0_0/_scan_tgng_run-1/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/Anatomical_2mm_flirt/sub-018_ses-1_T1w_resample_corrected_masked_xform_flirt.nii.gz -out sub-018_ses-1_task-tgng_run-1_bold_calc_despike_tshift_resample_mcf_calc_maths_flirt.nii.gz -omat sub-018_ses-1_task-tgng_run-1_bold_calc_despike_tshift_resample_mcf_calc_maths_flirt.mat -applyxfm -init /outputs/tmp/resting_preproc_sub-018_ses-1/func_to_anat_bbreg_0/_scan_tgng_run-1/bbreg_func_to_anat/sub-018_ses-1_task-tgng_run-1_bold_calc_despike_tshift_resample_mcf_calc_tstat_flirt.mat
201113-00:38:39,115 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.nuisance_regressor_0_0.Functional_2mm_flirt".
201113-00:38:39,117 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.montage_anat_0.resample_u" in "/outputs/tmp/resting_preproc_sub-018_ses-1/montage_anat_0/_scan_tgng_run-1/resample_u".
201113-00:38:39,123 nipype.workflow INFO:
[Node] Running "resample_u" ("CPAC.utils.interfaces.function.Function")
201113-00:38:40,252 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.montage_anat_0.resample_u".
201113-00:38:40,253 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.qc_snr_0.std_dev_anat" in "/outputs/tmp/resting_preproc_sub-018_ses-1/qc_snr_0/_scan_tgng_run-1/std_dev_anat".
201113-00:38:40,289 nipype.workflow INFO:
[Node] Running "std_dev_anat" ("nipype.interfaces.fsl.preprocess.ApplyWarp"), a CommandLine Interface with command:
applywarp --in=/outputs/tmp/resting_preproc_sub-018_ses-1/qc_snr_0/_scan_tgng_run-1/std_dev/sub-018_ses-1_task-tgng_run-1_bold_calc_despike_tshift_resample_mcf_calc_maths_tstat.nii.gz --ref=/outputs/tmp/resting_preproc_sub-018_ses-1/anat_preproc_niworkflows_ants_0/anat_preproc_niworkflows_ants_0_skullstrip/anat_skullstrip_ants/copy_xform/sub-018_ses-1_T1w_resample_corrected_masked_xform.nii.gz --out=/outputs/tmp/resting_preproc_sub-018_ses-1/qc_snr_0/_scan_tgng_run-1/std_dev_anat/sub-018_ses-1_task-tgng_run-1_bold_calc_despike_tshift_resample_mcf_calc_maths_tstat_warp.nii.gz --premat=/outputs/tmp/resting_preproc_sub-018_ses-1/func_to_anat_bbreg_0/_scan_tgng_run-1/bbreg_func_to_anat/sub-018_ses-1_task-tgng_run-1_bold_calc_despike_tshift_resample_mcf_calc_tstat_flirt.mat --interp=trilinear
201113-00:38:44,126 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.qc_snr_0.std_dev_anat".
201113-00:38:44,128 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.qc_snr_0.snr" in "/outputs/tmp/resting_preproc_sub-018_ses-1/qc_snr_0/_scan_tgng_run-1/snr".
201113-00:38:44,133 nipype.workflow INFO:
[Node] Running "snr" ("nipype.interfaces.afni.utils.Calc"), a CommandLine Interface with command:
3dcalc -a /outputs/tmp/resting_preproc_sub-018_ses-1/qc_snr_0/_scan_tgng_run-1/std_dev_anat/sub-018_ses-1_task-tgng_run-1_bold_calc_despike_tshift_resample_mcf_calc_maths_tstat_warp.nii.gz -b /outputs/tmp/resting_preproc_sub-018_ses-1/func_to_anat_bbreg_0/_scan_tgng_run-1/bbreg_func_to_anat/sub-018_ses-1_task-tgng_run-1_bold_calc_despike_tshift_resample_mcf_calc_tstat_flirt.nii.gz -expr "b/a" -prefix sub-018_ses-1_task-tgng_run-1_bold_calc_despike_tshift_resample_mcf_calc_maths_tstat_warp_calc.nii.gz
201113-00:38:44,380 nipype.interface INFO:
stderr 2020-11-13T00:38:44.380434:++ 3dcalc: AFNI version=AFNI_20.2.19 (Sep 27 2020) [64-bit]
201113-00:38:44,380 nipype.interface INFO:
stderr 2020-11-13T00:38:44.380780:++ Authored by: A cast of thousands
201113-00:38:46,357 nipype.interface INFO:
stderr 2020-11-13T00:38:46.357194:++ Output dataset ./sub-018_ses-1_task-tgng_run-1_bold_calc_despike_tshift_resample_mcf_calc_maths_tstat_warp_calc.nii.gz
201113-00:38:46,510 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.qc_snr_0.snr".
201113-00:38:46,511 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.qc_snr_0.dp_snr" in "/outputs/tmp/resting_preproc_sub-018_ses-1/qc_snr_0/_scan_tgng_run-1/dp_snr".
201113-00:38:46,515 nipype.workflow INFO:
[Node] Running "dp_snr" ("CPAC.utils.interfaces.function.Function")
201113-00:38:47,426 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.qc_snr_0.dp_snr".
201113-00:38:47,428 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.qc_snr_0.montage_snr.resample_o" in "/outputs/tmp/resting_preproc_sub-018_ses-1/qc_snr_0/montage_snr/_scan_tgng_run-1/resample_o".
201113-00:38:47,432 nipype.workflow INFO:
[Node] Running "resample_o" ("CPAC.utils.interfaces.function.Function")
201113-00:38:48,454 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.qc_snr_0.montage_snr.resample_o".
201113-00:38:48,456 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.qc_snr_0.montage_snr.montage_s" in "/outputs/tmp/resting_preproc_sub-018_ses-1/qc_snr_0/montage_snr/_scan_tgng_run-1/montage_s".
201113-00:38:48,462 nipype.workflow INFO:
[Node] Setting-up "_montage_s0" in "/outputs/tmp/resting_preproc_sub-018_ses-1/qc_snr_0/montage_snr/_scan_tgng_run-1/montage_s/mapflow/_montage_s0".
201113-00:38:48,467 nipype.workflow INFO:
[Node] Running "_montage_s0" ("CPAC.utils.interfaces.function.Function")
201113-00:38:50,705 nipype.workflow INFO:
[Node] Finished "_montage_s0".
201113-00:38:50,709 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.qc_snr_0.montage_snr.montage_s".
201113-00:38:50,709 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.sinker_0_qc___snr_s" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_tgng_run-1/sinker_0_qc___snr_s".
201113-00:38:50,717 nipype.workflow INFO:
[Node] Running "sinker_0_qc___snr_s" ("CPAC.utils.interfaces.datasink.DataSink")
201113-00:38:50,928 nipype.interface INFO:
sub: /outputs/output/pipeline_cpac_fmriprep-options/sub-018_ses-1/qc___snr_s/_scan_tgng_run-1/_montage_s0/snr_s.png -> /outputs/output/pipeline_cpac_fmriprep-options/sub-018_ses-1/qc/snr_s/_scan_tgng_run-1/_montage_s0/snr_s.png
201113-00:38:50,945 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.sinker_0_qc___snr_s".
201113-00:38:50,947 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.qc_snr_0.montage_snr.montage_a" in "/outputs/tmp/resting_preproc_sub-018_ses-1/qc_snr_0/montage_snr/_scan_tgng_run-1/montage_a".
201113-00:38:50,953 nipype.workflow INFO:
[Node] Setting-up "_montage_a0" in "/outputs/tmp/resting_preproc_sub-018_ses-1/qc_snr_0/montage_snr/_scan_tgng_run-1/montage_a/mapflow/_montage_a0".
201113-00:38:50,958 nipype.workflow INFO:
[Node] Running "_montage_a0" ("CPAC.utils.interfaces.function.Function")
201113-00:38:53,506 nipype.workflow INFO:
[Node] Finished "_montage_a0".
201113-00:38:53,510 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.qc_snr_0.montage_snr.montage_a".
201113-00:38:53,510 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.sinker_0_qc___snr_a" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_tgng_run-1/sinker_0_qc___snr_a".
201113-00:38:53,518 nipype.workflow INFO:
[Node] Running "sinker_0_qc___snr_a" ("CPAC.utils.interfaces.datasink.DataSink")
201113-00:38:53,729 nipype.interface INFO:
sub: /outputs/output/pipeline_cpac_fmriprep-options/sub-018_ses-1/qc___snr_a/_scan_tgng_run-1/_montage_a0/snr_a.png -> /outputs/output/pipeline_cpac_fmriprep-options/sub-018_ses-1/qc/snr_a/_scan_tgng_run-1/_montage_a0/snr_a.png
201113-00:38:53,745 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.sinker_0_qc___snr_a".
201113-00:38:53,747 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.qc_snr_0.hist_snr" in "/outputs/tmp/resting_preproc_sub-018_ses-1/qc_snr_0/_scan_tgng_run-1/hist_snr".
201113-00:38:53,751 nipype.workflow INFO:
[Node] Running "hist_snr" ("CPAC.utils.interfaces.function.Function")
201113-00:38:54,294 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.qc_snr_0.hist_snr".
201113-00:38:54,296 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.sinker_0_qc___snr_hist" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_tgng_run-1/sinker_0_qc___snr_hist".
201113-00:38:54,303 nipype.workflow INFO:
[Node] Running "sinker_0_qc___snr_hist" ("CPAC.utils.interfaces.datasink.DataSink")
201113-00:38:54,516 nipype.interface INFO:
sub: /outputs/output/pipeline_cpac_fmriprep-options/sub-018_ses-1/qc___snr_hist/_scan_tgng_run-1/snr_hist_plot.png -> /outputs/output/pipeline_cpac_fmriprep-options/sub-018_ses-1/qc/snr_hist/_scan_tgng_run-1/snr_hist_plot.png
201113-00:38:54,535 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.sinker_0_qc___snr_hist".
201113-00:38:54,537 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.qc_snr_0.snr_val" in "/outputs/tmp/resting_preproc_sub-018_ses-1/qc_snr_0/_scan_tgng_run-1/snr_val".
201113-00:38:54,541 nipype.workflow INFO:
[Node] Running "snr_val" ("CPAC.utils.interfaces.function.Function")
201113-00:38:55,40 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.qc_snr_0.snr_val".
201113-00:38:55,41 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.sinker_0_qc___snr_val" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_tgng_run-1/sinker_0_qc___snr_val".
201113-00:38:55,48 nipype.workflow INFO:
[Node] Running "sinker_0_qc___snr_val" ("CPAC.utils.interfaces.datasink.DataSink")
201113-00:38:55,258 nipype.interface INFO:
sub: /outputs/output/pipeline_cpac_fmriprep-options/sub-018_ses-1/qc___snr_val/_scan_tgng_run-1/average_snr_file.txt -> /outputs/output/pipeline_cpac_fmriprep-options/sub-018_ses-1/qc/snr_val/_scan_tgng_run-1/average_snr_file.txt
201113-00:38:55,275 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.sinker_0_qc___snr_val".
201113-00:38:55,277 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.sinker_0_mean_functional_in_anat" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_tgng_run-1/sinker_0_mean_functional_in_anat".
201113-00:38:55,283 nipype.workflow INFO:
[Node] Running "sinker_0_mean_functional_in_anat" ("CPAC.utils.interfaces.datasink.DataSink")
201113-00:38:55,514 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.sinker_0_mean_functional_in_anat".
201113-00:38:55,516 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.sinker_0_functional_to_anat_linear_xfm" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_tgng_run-1/sinker_0_functional_to_anat_linear_xfm".
201113-00:38:55,523 nipype.workflow INFO:
[Node] Running "sinker_0_functional_to_anat_linear_xfm" ("CPAC.utils.interfaces.datasink.DataSink")
201113-00:38:55,751 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.sinker_0_functional_to_anat_linear_xfm".
201113-00:38:55,753 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.anat_to_func_linear_xfm_0_0" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_tgng_run-1/anat_to_func_linear_xfm_0_0".
201113-00:38:55,758 nipype.workflow INFO:
[Node] Running "anat_to_func_linear_xfm_0_0" ("nipype.interfaces.fsl.utils.ConvertXFM"), a CommandLine Interface with command:
convert_xfm -omat /outputs/tmp/resting_preproc_sub-018_ses-1/_scan_tgng_run-1/anat_to_func_linear_xfm_0_0/sub-018_ses-1_task-tgng_run-1_bold_calc_despike_tshift_resample_mcf_calc_tstat_flirt_inv.mat -inverse /outputs/tmp/resting_preproc_sub-018_ses-1/func_to_anat_bbreg_0/_scan_tgng_run-1/bbreg_func_to_anat/sub-018_ses-1_task-tgng_run-1_bold_calc_despike_tshift_resample_mcf_calc_tstat_flirt.mat
201113-00:38:56,187 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.anat_to_func_linear_xfm_0_0".
201113-00:38:56,188 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.fsl_reg_2_itk_0" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_tgng_run-1/fsl_reg_2_itk_0".
201113-00:38:56,195 nipype.workflow INFO:
[Node] Running "fsl_reg_2_itk_0" ("nipype.interfaces.c3.C3dAffineTool"), a CommandLine Interface with command:
c3d_affine_tool -ref /outputs/tmp/resting_preproc_sub-018_ses-1/anat_preproc_niworkflows_ants_0/anat_preproc_niworkflows_ants_0_skullstrip/anat_skullstrip_ants/copy_xform/sub-018_ses-1_T1w_resample_corrected_masked_xform.nii.gz -src /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/_scan_tgng_run-1/func_mean/sub-018_ses-1_task-tgng_run-1_bold_calc_despike_tshift_resample_mcf_calc_tstat.nii.gz /outputs/tmp/resting_preproc_sub-018_ses-1/func_to_anat_bbreg_0/_scan_tgng_run-1/bbreg_func_to_anat/sub-018_ses-1_task-tgng_run-1_bold_calc_despike_tshift_resample_mcf_calc_tstat_flirt.mat -fsl2ras -oitk /outputs/tmp/resting_preproc_sub-018_ses-1/_scan_tgng_run-1/fsl_reg_2_itk_0/affine.txt
201113-00:38:56,820 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.fsl_reg_2_itk_0".
201113-00:38:56,821 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.change_transform_type_0" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_tgng_run-1/change_transform_type_0".
201113-00:38:56,826 nipype.workflow INFO:
[Node] Running "change_transform_type_0" ("nipype.interfaces.utility.wrappers.Function")
201113-00:38:57,57 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.change_transform_type_0".
201113-00:38:57,58 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.func_to_anat_bbreg_0.bbreg_func_to_anat" in "/outputs/tmp/resting_preproc_sub-018_ses-1/func_to_anat_bbreg_0/_scan_rest_run-1/bbreg_func_to_anat".
201113-00:38:57,69 nipype.workflow INFO:
[Node] Running "bbreg_func_to_anat" ("nipype.interfaces.fsl.preprocess.FLIRT"), a CommandLine Interface with command:
flirt -in /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/_scan_rest_run-1/func_mean/sub-018_ses-1_task-rest_run-1_bold_calc_despike_tshift_resample_mcf_calc_tstat.nii.gz -ref /outputs/tmp/resting_preproc_sub-018_ses-1/anat_preproc_niworkflows_ants_0/anat_reorient/sub-018_ses-1_T1w_resample.nii.gz -out sub-018_ses-1_task-rest_run-1_bold_calc_despike_tshift_resample_mcf_calc_tstat_flirt.nii.gz -omat sub-018_ses-1_task-rest_run-1_bold_calc_despike_tshift_resample_mcf_calc_tstat_flirt.mat -cost bbr -wmseg /outputs/tmp/resting_preproc_sub-018_ses-1/func_to_anat_bbreg_0/wm_bb_mask/segment_prob_2_maths.nii.gz -dof 6 -init /outputs/tmp/resting_preproc_sub-018_ses-1/func_to_anat_FLIRT_0/_scan_rest_run-1/linear_func_to_anat/sub-018_ses-1_task-rest_run-1_bold_calc_despike_tshift_resample_mcf_calc_tstat_flirt.mat -schedule /usr/share/fsl/5.0/etc/flirtsch/bbr.sch
201113-00:41:22,418 nipype.interface INFO:
stdout 2020-11-13T00:41:22.418257:0.705293 0.999426 0.006568 -0.033234 0.000000 -0.007496 0.999583 -0.027881 0.000000 0.033037 0.028115 0.999059 0.000000 -1.840050 -0.909017 11.281656 1.000000
201113-00:41:24,237 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.func_to_anat_bbreg_0.bbreg_func_to_anat".
201113-00:41:24,239 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.nuisance_regressor_0_0.Functional_2mm_flirt" in "/outputs/tmp/resting_preproc_sub-018_ses-1/nuisance_regressor_0_0/_scan_rest_run-1/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/Functional_2mm_flirt".
201113-00:41:24,295 nipype.workflow INFO:
[Node] Running "Functional_2mm_flirt" ("nipype.interfaces.fsl.preprocess.FLIRT"), a CommandLine Interface with command:
flirt -in /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/_scan_rest_run-1/func_normalize/sub-018_ses-1_task-rest_run-1_bold_calc_despike_tshift_resample_mcf_calc_maths.nii.gz -ref /outputs/tmp/resting_preproc_sub-018_ses-1/nuisance_regressor_0_0/_scan_rest_run-1/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/Anatomical_2mm_flirt/sub-018_ses-1_T1w_resample_corrected_masked_xform_flirt.nii.gz -out sub-018_ses-1_task-rest_run-1_bold_calc_despike_tshift_resample_mcf_calc_maths_flirt.nii.gz -omat sub-018_ses-1_task-rest_run-1_bold_calc_despike_tshift_resample_mcf_calc_maths_flirt.mat -applyxfm -init /outputs/tmp/resting_preproc_sub-018_ses-1/func_to_anat_bbreg_0/_scan_rest_run-1/bbreg_func_to_anat/sub-018_ses-1_task-rest_run-1_bold_calc_despike_tshift_resample_mcf_calc_tstat_flirt.mat
201113-00:41:57,888 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.nuisance_regressor_0_0.Functional_2mm_flirt".
201113-00:41:57,890 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.montage_anat_0.resample_u" in "/outputs/tmp/resting_preproc_sub-018_ses-1/montage_anat_0/_scan_rest_run-1/resample_u".
201113-00:41:57,896 nipype.workflow INFO:
[Node] Running "resample_u" ("CPAC.utils.interfaces.function.Function")
201113-00:41:59,15 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.montage_anat_0.resample_u".
201113-00:41:59,16 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.qc_snr_0.std_dev_anat" in "/outputs/tmp/resting_preproc_sub-018_ses-1/qc_snr_0/_scan_rest_run-1/std_dev_anat".
201113-00:41:59,54 nipype.workflow INFO:
[Node] Running "std_dev_anat" ("nipype.interfaces.fsl.preprocess.ApplyWarp"), a CommandLine Interface with command:
applywarp --in=/outputs/tmp/resting_preproc_sub-018_ses-1/qc_snr_0/_scan_rest_run-1/std_dev/sub-018_ses-1_task-rest_run-1_bold_calc_despike_tshift_resample_mcf_calc_maths_tstat.nii.gz --ref=/outputs/tmp/resting_preproc_sub-018_ses-1/anat_preproc_niworkflows_ants_0/anat_preproc_niworkflows_ants_0_skullstrip/anat_skullstrip_ants/copy_xform/sub-018_ses-1_T1w_resample_corrected_masked_xform.nii.gz --out=/outputs/tmp/resting_preproc_sub-018_ses-1/qc_snr_0/_scan_rest_run-1/std_dev_anat/sub-018_ses-1_task-rest_run-1_bold_calc_despike_tshift_resample_mcf_calc_maths_tstat_warp.nii.gz --premat=/outputs/tmp/resting_preproc_sub-018_ses-1/func_to_anat_bbreg_0/_scan_rest_run-1/bbreg_func_to_anat/sub-018_ses-1_task-rest_run-1_bold_calc_despike_tshift_resample_mcf_calc_tstat_flirt.mat --interp=trilinear
201113-00:42:02,785 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.qc_snr_0.std_dev_anat".
201113-00:42:02,787 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.qc_snr_0.snr" in "/outputs/tmp/resting_preproc_sub-018_ses-1/qc_snr_0/_scan_rest_run-1/snr".
201113-00:42:02,793 nipype.workflow INFO:
[Node] Running "snr" ("nipype.interfaces.afni.utils.Calc"), a CommandLine Interface with command:
3dcalc -a /outputs/tmp/resting_preproc_sub-018_ses-1/qc_snr_0/_scan_rest_run-1/std_dev_anat/sub-018_ses-1_task-rest_run-1_bold_calc_despike_tshift_resample_mcf_calc_maths_tstat_warp.nii.gz -b /outputs/tmp/resting_preproc_sub-018_ses-1/func_to_anat_bbreg_0/_scan_rest_run-1/bbreg_func_to_anat/sub-018_ses-1_task-rest_run-1_bold_calc_despike_tshift_resample_mcf_calc_tstat_flirt.nii.gz -expr "b/a" -prefix sub-018_ses-1_task-rest_run-1_bold_calc_despike_tshift_resample_mcf_calc_maths_tstat_warp_calc.nii.gz
201113-00:42:03,40 nipype.interface INFO:
stderr 2020-11-13T00:42:03.040625:++ 3dcalc: AFNI version=AFNI_20.2.19 (Sep 27 2020) [64-bit]
201113-00:42:03,40 nipype.interface INFO:
stderr 2020-11-13T00:42:03.040952:++ Authored by: A cast of thousands
201113-00:42:04,999 nipype.interface INFO:
stderr 2020-11-13T00:42:04.999892:++ Output dataset ./sub-018_ses-1_task-rest_run-1_bold_calc_despike_tshift_resample_mcf_calc_maths_tstat_warp_calc.nii.gz
201113-00:42:05,162 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.qc_snr_0.snr".
201113-00:42:05,164 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.qc_snr_0.dp_snr" in "/outputs/tmp/resting_preproc_sub-018_ses-1/qc_snr_0/_scan_rest_run-1/dp_snr".
201113-00:42:05,168 nipype.workflow INFO:
[Node] Running "dp_snr" ("CPAC.utils.interfaces.function.Function")
201113-00:42:06,76 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.qc_snr_0.dp_snr".
201113-00:42:06,77 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.qc_snr_0.montage_snr.resample_o" in "/outputs/tmp/resting_preproc_sub-018_ses-1/qc_snr_0/montage_snr/_scan_rest_run-1/resample_o".
201113-00:42:06,82 nipype.workflow INFO:
[Node] Running "resample_o" ("CPAC.utils.interfaces.function.Function")
201113-00:42:07,131 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.qc_snr_0.montage_snr.resample_o".
201113-00:42:07,132 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.qc_snr_0.montage_snr.montage_s" in "/outputs/tmp/resting_preproc_sub-018_ses-1/qc_snr_0/montage_snr/_scan_rest_run-1/montage_s".
201113-00:42:07,138 nipype.workflow INFO:
[Node] Setting-up "_montage_s0" in "/outputs/tmp/resting_preproc_sub-018_ses-1/qc_snr_0/montage_snr/_scan_rest_run-1/montage_s/mapflow/_montage_s0".
201113-00:42:07,142 nipype.workflow INFO:
[Node] Running "_montage_s0" ("CPAC.utils.interfaces.function.Function")
201113-00:42:09,393 nipype.workflow INFO:
[Node] Finished "_montage_s0".
201113-00:42:09,397 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.qc_snr_0.montage_snr.montage_s".
201113-00:42:09,397 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.sinker_0_qc___snr_s" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_rest_run-1/sinker_0_qc___snr_s".
201113-00:42:09,406 nipype.workflow INFO:
[Node] Running "sinker_0_qc___snr_s" ("CPAC.utils.interfaces.datasink.DataSink")
201113-00:42:09,617 nipype.interface INFO:
sub: /outputs/output/pipeline_cpac_fmriprep-options/sub-018_ses-1/qc___snr_s/_scan_rest_run-1/_montage_s0/snr_s.png -> /outputs/output/pipeline_cpac_fmriprep-options/sub-018_ses-1/qc/snr_s/_scan_rest_run-1/_montage_s0/snr_s.png
201113-00:42:09,634 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.sinker_0_qc___snr_s".
201113-00:42:09,635 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.qc_snr_0.montage_snr.montage_a" in "/outputs/tmp/resting_preproc_sub-018_ses-1/qc_snr_0/montage_snr/_scan_rest_run-1/montage_a".
201113-00:42:09,642 nipype.workflow INFO:
[Node] Setting-up "_montage_a0" in "/outputs/tmp/resting_preproc_sub-018_ses-1/qc_snr_0/montage_snr/_scan_rest_run-1/montage_a/mapflow/_montage_a0".
201113-00:42:09,646 nipype.workflow INFO:
[Node] Running "_montage_a0" ("CPAC.utils.interfaces.function.Function")
201113-00:42:12,190 nipype.workflow INFO:
[Node] Finished "_montage_a0".
201113-00:42:12,193 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.qc_snr_0.montage_snr.montage_a".
201113-00:42:12,193 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.sinker_0_qc___snr_a" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_rest_run-1/sinker_0_qc___snr_a".
201113-00:42:12,201 nipype.workflow INFO:
[Node] Running "sinker_0_qc___snr_a" ("CPAC.utils.interfaces.datasink.DataSink")
201113-00:42:12,415 nipype.interface INFO:
sub: /outputs/output/pipeline_cpac_fmriprep-options/sub-018_ses-1/qc___snr_a/_scan_rest_run-1/_montage_a0/snr_a.png -> /outputs/output/pipeline_cpac_fmriprep-options/sub-018_ses-1/qc/snr_a/_scan_rest_run-1/_montage_a0/snr_a.png
201113-00:42:12,431 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.sinker_0_qc___snr_a".
201113-00:42:12,433 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.qc_snr_0.hist_snr" in "/outputs/tmp/resting_preproc_sub-018_ses-1/qc_snr_0/_scan_rest_run-1/hist_snr".
201113-00:42:12,440 nipype.workflow INFO:
[Node] Running "hist_snr" ("CPAC.utils.interfaces.function.Function")
201113-00:42:12,991 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.qc_snr_0.hist_snr".
201113-00:42:12,992 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.sinker_0_qc___snr_hist" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_rest_run-1/sinker_0_qc___snr_hist".
201113-00:42:13,0 nipype.workflow INFO:
[Node] Running "sinker_0_qc___snr_hist" ("CPAC.utils.interfaces.datasink.DataSink")
201113-00:42:13,212 nipype.interface INFO:
sub: /outputs/output/pipeline_cpac_fmriprep-options/sub-018_ses-1/qc___snr_hist/_scan_rest_run-1/snr_hist_plot.png -> /outputs/output/pipeline_cpac_fmriprep-options/sub-018_ses-1/qc/snr_hist/_scan_rest_run-1/snr_hist_plot.png
201113-00:42:13,232 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.sinker_0_qc___snr_hist".
201113-00:42:13,233 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.qc_snr_0.snr_val" in "/outputs/tmp/resting_preproc_sub-018_ses-1/qc_snr_0/_scan_rest_run-1/snr_val".
201113-00:42:13,238 nipype.workflow INFO:
[Node] Running "snr_val" ("CPAC.utils.interfaces.function.Function")
201113-00:42:13,735 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.qc_snr_0.snr_val".
201113-00:42:13,736 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.sinker_0_qc___snr_val" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_rest_run-1/sinker_0_qc___snr_val".
201113-00:42:13,743 nipype.workflow INFO:
[Node] Running "sinker_0_qc___snr_val" ("CPAC.utils.interfaces.datasink.DataSink")
201113-00:42:13,956 nipype.interface INFO:
sub: /outputs/output/pipeline_cpac_fmriprep-options/sub-018_ses-1/qc___snr_val/_scan_rest_run-1/average_snr_file.txt -> /outputs/output/pipeline_cpac_fmriprep-options/sub-018_ses-1/qc/snr_val/_scan_rest_run-1/average_snr_file.txt
201113-00:42:13,974 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.sinker_0_qc___snr_val".
201113-00:42:13,975 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.sinker_0_mean_functional_in_anat" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_rest_run-1/sinker_0_mean_functional_in_anat".
201113-00:42:13,984 nipype.workflow INFO:
[Node] Running "sinker_0_mean_functional_in_anat" ("CPAC.utils.interfaces.datasink.DataSink")
201113-00:42:14,216 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.sinker_0_mean_functional_in_anat".
201113-00:42:14,218 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.sinker_0_functional_to_anat_linear_xfm" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_rest_run-1/sinker_0_functional_to_anat_linear_xfm".
201113-00:42:14,226 nipype.workflow INFO:
[Node] Running "sinker_0_functional_to_anat_linear_xfm" ("CPAC.utils.interfaces.datasink.DataSink")
201113-00:42:14,456 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.sinker_0_functional_to_anat_linear_xfm".
201113-00:42:14,458 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.anat_to_func_linear_xfm_0_0" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_rest_run-1/anat_to_func_linear_xfm_0_0".
201113-00:42:14,464 nipype.workflow INFO:
[Node] Running "anat_to_func_linear_xfm_0_0" ("nipype.interfaces.fsl.utils.ConvertXFM"), a CommandLine Interface with command:
convert_xfm -omat /outputs/tmp/resting_preproc_sub-018_ses-1/_scan_rest_run-1/anat_to_func_linear_xfm_0_0/sub-018_ses-1_task-rest_run-1_bold_calc_despike_tshift_resample_mcf_calc_tstat_flirt_inv.mat -inverse /outputs/tmp/resting_preproc_sub-018_ses-1/func_to_anat_bbreg_0/_scan_rest_run-1/bbreg_func_to_anat/sub-018_ses-1_task-rest_run-1_bold_calc_despike_tshift_resample_mcf_calc_tstat_flirt.mat
201113-00:42:14,903 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.anat_to_func_linear_xfm_0_0".
201113-00:42:14,904 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.fsl_reg_2_itk_0" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_rest_run-1/fsl_reg_2_itk_0".
201113-00:42:14,912 nipype.workflow INFO:
[Node] Running "fsl_reg_2_itk_0" ("nipype.interfaces.c3.C3dAffineTool"), a CommandLine Interface with command:
c3d_affine_tool -ref /outputs/tmp/resting_preproc_sub-018_ses-1/anat_preproc_niworkflows_ants_0/anat_preproc_niworkflows_ants_0_skullstrip/anat_skullstrip_ants/copy_xform/sub-018_ses-1_T1w_resample_corrected_masked_xform.nii.gz -src /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/_scan_rest_run-1/func_mean/sub-018_ses-1_task-rest_run-1_bold_calc_despike_tshift_resample_mcf_calc_tstat.nii.gz /outputs/tmp/resting_preproc_sub-018_ses-1/func_to_anat_bbreg_0/_scan_rest_run-1/bbreg_func_to_anat/sub-018_ses-1_task-rest_run-1_bold_calc_despike_tshift_resample_mcf_calc_tstat_flirt.mat -fsl2ras -oitk /outputs/tmp/resting_preproc_sub-018_ses-1/_scan_rest_run-1/fsl_reg_2_itk_0/affine.txt
201113-00:42:15,547 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.fsl_reg_2_itk_0".
201113-00:42:15,549 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.change_transform_type_0" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_rest_run-1/change_transform_type_0".
201113-00:42:15,553 nipype.workflow INFO:
[Node] Running "change_transform_type_0" ("nipype.interfaces.utility.wrappers.Function")
201113-00:42:15,785 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.change_transform_type_0".
201113-00:42:15,786 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.func_to_anat_bbreg_0.bbreg_func_to_anat" in "/outputs/tmp/resting_preproc_sub-018_ses-1/func_to_anat_bbreg_0/_scan_ms_run-1/bbreg_func_to_anat".
201113-00:42:15,796 nipype.workflow INFO:
[Node] Running "bbreg_func_to_anat" ("nipype.interfaces.fsl.preprocess.FLIRT"), a CommandLine Interface with command:
flirt -in /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/_scan_ms_run-1/func_mean/sub-018_ses-1_task-ms_run-1_bold_calc_despike_tshift_resample_mcf_calc_tstat.nii.gz -ref /outputs/tmp/resting_preproc_sub-018_ses-1/anat_preproc_niworkflows_ants_0/anat_reorient/sub-018_ses-1_T1w_resample.nii.gz -out sub-018_ses-1_task-ms_run-1_bold_calc_despike_tshift_resample_mcf_calc_tstat_flirt.nii.gz -omat sub-018_ses-1_task-ms_run-1_bold_calc_despike_tshift_resample_mcf_calc_tstat_flirt.mat -cost bbr -wmseg /outputs/tmp/resting_preproc_sub-018_ses-1/func_to_anat_bbreg_0/wm_bb_mask/segment_prob_2_maths.nii.gz -dof 6 -init /outputs/tmp/resting_preproc_sub-018_ses-1/func_to_anat_FLIRT_0/_scan_ms_run-1/linear_func_to_anat/sub-018_ses-1_task-ms_run-1_bold_calc_despike_tshift_resample_mcf_calc_tstat_flirt.mat -schedule /usr/share/fsl/5.0/etc/flirtsch/bbr.sch
201113-00:44:48,109 nipype.interface INFO:
stdout 2020-11-13T00:44:48.109373:0.632336 0.999800 0.013352 -0.014891 0.000000 -0.013934 0.999114 -0.039706 0.000000 0.014347 0.039905 0.999100 0.000000 0.937711 -3.936967 10.086206 1.000000
201113-00:44:50,58 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.func_to_anat_bbreg_0.bbreg_func_to_anat".
201113-00:44:50,60 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.nuisance_regressor_0_0.Functional_2mm_flirt" in "/outputs/tmp/resting_preproc_sub-018_ses-1/nuisance_regressor_0_0/_scan_ms_run-1/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/Functional_2mm_flirt".
201113-00:44:50,93 nipype.workflow INFO:
[Node] Running "Functional_2mm_flirt" ("nipype.interfaces.fsl.preprocess.FLIRT"), a CommandLine Interface with command:
flirt -in /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/_scan_ms_run-1/func_normalize/sub-018_ses-1_task-ms_run-1_bold_calc_despike_tshift_resample_mcf_calc_maths.nii.gz -ref /outputs/tmp/resting_preproc_sub-018_ses-1/nuisance_regressor_0_0/_scan_ms_run-1/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/Anatomical_2mm_flirt/sub-018_ses-1_T1w_resample_corrected_masked_xform_flirt.nii.gz -out sub-018_ses-1_task-ms_run-1_bold_calc_despike_tshift_resample_mcf_calc_maths_flirt.nii.gz -omat sub-018_ses-1_task-ms_run-1_bold_calc_despike_tshift_resample_mcf_calc_maths_flirt.mat -applyxfm -init /outputs/tmp/resting_preproc_sub-018_ses-1/func_to_anat_bbreg_0/_scan_ms_run-1/bbreg_func_to_anat/sub-018_ses-1_task-ms_run-1_bold_calc_despike_tshift_resample_mcf_calc_tstat_flirt.mat
201113-00:45:19,116 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.nuisance_regressor_0_0.Functional_2mm_flirt".
201113-00:45:19,118 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.montage_anat_0.resample_u" in "/outputs/tmp/resting_preproc_sub-018_ses-1/montage_anat_0/_scan_ms_run-1/resample_u".
201113-00:45:19,124 nipype.workflow INFO:
[Node] Running "resample_u" ("CPAC.utils.interfaces.function.Function")
201113-00:45:20,283 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.montage_anat_0.resample_u".
201113-00:45:20,285 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.qc_snr_0.std_dev_anat" in "/outputs/tmp/resting_preproc_sub-018_ses-1/qc_snr_0/_scan_ms_run-1/std_dev_anat".
201113-00:45:20,296 nipype.workflow INFO:
[Node] Running "std_dev_anat" ("nipype.interfaces.fsl.preprocess.ApplyWarp"), a CommandLine Interface with command:
applywarp --in=/outputs/tmp/resting_preproc_sub-018_ses-1/qc_snr_0/_scan_ms_run-1/std_dev/sub-018_ses-1_task-ms_run-1_bold_calc_despike_tshift_resample_mcf_calc_maths_tstat.nii.gz --ref=/outputs/tmp/resting_preproc_sub-018_ses-1/anat_preproc_niworkflows_ants_0/anat_preproc_niworkflows_ants_0_skullstrip/anat_skullstrip_ants/copy_xform/sub-018_ses-1_T1w_resample_corrected_masked_xform.nii.gz --out=/outputs/tmp/resting_preproc_sub-018_ses-1/qc_snr_0/_scan_ms_run-1/std_dev_anat/sub-018_ses-1_task-ms_run-1_bold_calc_despike_tshift_resample_mcf_calc_maths_tstat_warp.nii.gz --premat=/outputs/tmp/resting_preproc_sub-018_ses-1/func_to_anat_bbreg_0/_scan_ms_run-1/bbreg_func_to_anat/sub-018_ses-1_task-ms_run-1_bold_calc_despike_tshift_resample_mcf_calc_tstat_flirt.mat --interp=trilinear
201113-00:45:24,146 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.qc_snr_0.std_dev_anat".
201113-00:45:24,148 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.qc_snr_0.snr" in "/outputs/tmp/resting_preproc_sub-018_ses-1/qc_snr_0/_scan_ms_run-1/snr".
201113-00:45:24,154 nipype.workflow INFO:
[Node] Running "snr" ("nipype.interfaces.afni.utils.Calc"), a CommandLine Interface with command:
3dcalc -a /outputs/tmp/resting_preproc_sub-018_ses-1/qc_snr_0/_scan_ms_run-1/std_dev_anat/sub-018_ses-1_task-ms_run-1_bold_calc_despike_tshift_resample_mcf_calc_maths_tstat_warp.nii.gz -b /outputs/tmp/resting_preproc_sub-018_ses-1/func_to_anat_bbreg_0/_scan_ms_run-1/bbreg_func_to_anat/sub-018_ses-1_task-ms_run-1_bold_calc_despike_tshift_resample_mcf_calc_tstat_flirt.nii.gz -expr "b/a" -prefix sub-018_ses-1_task-ms_run-1_bold_calc_despike_tshift_resample_mcf_calc_maths_tstat_warp_calc.nii.gz
201113-00:45:24,405 nipype.interface INFO:
stderr 2020-11-13T00:45:24.405666:++ 3dcalc: AFNI version=AFNI_20.2.19 (Sep 27 2020) [64-bit]
201113-00:45:24,406 nipype.interface INFO:
stderr 2020-11-13T00:45:24.406043:++ Authored by: A cast of thousands
201113-00:45:26,387 nipype.interface INFO:
stderr 2020-11-13T00:45:26.387368:++ Output dataset ./sub-018_ses-1_task-ms_run-1_bold_calc_despike_tshift_resample_mcf_calc_maths_tstat_warp_calc.nii.gz
201113-00:45:26,540 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.qc_snr_0.snr".
201113-00:45:26,541 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.qc_snr_0.dp_snr" in "/outputs/tmp/resting_preproc_sub-018_ses-1/qc_snr_0/_scan_ms_run-1/dp_snr".
201113-00:45:26,545 nipype.workflow INFO:
[Node] Running "dp_snr" ("CPAC.utils.interfaces.function.Function")
201113-00:45:27,438 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.qc_snr_0.dp_snr".
201113-00:45:27,440 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.qc_snr_0.montage_snr.resample_o" in "/outputs/tmp/resting_preproc_sub-018_ses-1/qc_snr_0/montage_snr/_scan_ms_run-1/resample_o".
201113-00:45:27,444 nipype.workflow INFO:
[Node] Running "resample_o" ("CPAC.utils.interfaces.function.Function")
201113-00:45:28,474 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.qc_snr_0.montage_snr.resample_o".
201113-00:45:28,476 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.qc_snr_0.montage_snr.montage_s" in "/outputs/tmp/resting_preproc_sub-018_ses-1/qc_snr_0/montage_snr/_scan_ms_run-1/montage_s".
201113-00:45:28,483 nipype.workflow INFO:
[Node] Setting-up "_montage_s0" in "/outputs/tmp/resting_preproc_sub-018_ses-1/qc_snr_0/montage_snr/_scan_ms_run-1/montage_s/mapflow/_montage_s0".
201113-00:45:28,488 nipype.workflow INFO:
[Node] Running "_montage_s0" ("CPAC.utils.interfaces.function.Function")
201113-00:45:30,723 nipype.workflow INFO:
[Node] Finished "_montage_s0".
201113-00:45:30,726 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.qc_snr_0.montage_snr.montage_s".
201113-00:45:30,726 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.sinker_0_qc___snr_s" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_ms_run-1/sinker_0_qc___snr_s".
201113-00:45:30,735 nipype.workflow INFO:
[Node] Running "sinker_0_qc___snr_s" ("CPAC.utils.interfaces.datasink.DataSink")
201113-00:45:30,947 nipype.interface INFO:
sub: /outputs/output/pipeline_cpac_fmriprep-options/sub-018_ses-1/qc___snr_s/_scan_ms_run-1/_montage_s0/snr_s.png -> /outputs/output/pipeline_cpac_fmriprep-options/sub-018_ses-1/qc/snr_s/_scan_ms_run-1/_montage_s0/snr_s.png
201113-00:45:30,963 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.sinker_0_qc___snr_s".
201113-00:45:30,964 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.qc_snr_0.montage_snr.montage_a" in "/outputs/tmp/resting_preproc_sub-018_ses-1/qc_snr_0/montage_snr/_scan_ms_run-1/montage_a".
201113-00:45:30,971 nipype.workflow INFO:
[Node] Setting-up "_montage_a0" in "/outputs/tmp/resting_preproc_sub-018_ses-1/qc_snr_0/montage_snr/_scan_ms_run-1/montage_a/mapflow/_montage_a0".
201113-00:45:30,975 nipype.workflow INFO:
[Node] Running "_montage_a0" ("CPAC.utils.interfaces.function.Function")
201113-00:45:33,518 nipype.workflow INFO:
[Node] Finished "_montage_a0".
201113-00:45:33,521 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.qc_snr_0.montage_snr.montage_a".
201113-00:45:33,522 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.sinker_0_qc___snr_a" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_ms_run-1/sinker_0_qc___snr_a".
201113-00:45:33,529 nipype.workflow INFO:
[Node] Running "sinker_0_qc___snr_a" ("CPAC.utils.interfaces.datasink.DataSink")
201113-00:45:33,741 nipype.interface INFO:
sub: /outputs/output/pipeline_cpac_fmriprep-options/sub-018_ses-1/qc___snr_a/_scan_ms_run-1/_montage_a0/snr_a.png -> /outputs/output/pipeline_cpac_fmriprep-options/sub-018_ses-1/qc/snr_a/_scan_ms_run-1/_montage_a0/snr_a.png
201113-00:45:33,759 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.sinker_0_qc___snr_a".
201113-00:45:33,760 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.qc_snr_0.hist_snr" in "/outputs/tmp/resting_preproc_sub-018_ses-1/qc_snr_0/_scan_ms_run-1/hist_snr".
201113-00:45:33,764 nipype.workflow INFO:
[Node] Running "hist_snr" ("CPAC.utils.interfaces.function.Function")
201113-00:45:34,319 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.qc_snr_0.hist_snr".
201113-00:45:34,320 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.sinker_0_qc___snr_hist" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_ms_run-1/sinker_0_qc___snr_hist".
201113-00:45:34,326 nipype.workflow INFO:
[Node] Running "sinker_0_qc___snr_hist" ("CPAC.utils.interfaces.datasink.DataSink")
201113-00:45:34,537 nipype.interface INFO:
sub: /outputs/output/pipeline_cpac_fmriprep-options/sub-018_ses-1/qc___snr_hist/_scan_ms_run-1/snr_hist_plot.png -> /outputs/output/pipeline_cpac_fmriprep-options/sub-018_ses-1/qc/snr_hist/_scan_ms_run-1/snr_hist_plot.png
201113-00:45:34,556 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.sinker_0_qc___snr_hist".
201113-00:45:34,558 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.qc_snr_0.snr_val" in "/outputs/tmp/resting_preproc_sub-018_ses-1/qc_snr_0/_scan_ms_run-1/snr_val".
201113-00:45:34,562 nipype.workflow INFO:
[Node] Running "snr_val" ("CPAC.utils.interfaces.function.Function")
201113-00:45:35,62 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.qc_snr_0.snr_val".
201113-00:45:35,63 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.sinker_0_qc___snr_val" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_ms_run-1/sinker_0_qc___snr_val".
201113-00:45:35,71 nipype.workflow INFO:
[Node] Running "sinker_0_qc___snr_val" ("CPAC.utils.interfaces.datasink.DataSink")
201113-00:45:35,280 nipype.interface INFO:
sub: /outputs/output/pipeline_cpac_fmriprep-options/sub-018_ses-1/qc___snr_val/_scan_ms_run-1/average_snr_file.txt -> /outputs/output/pipeline_cpac_fmriprep-options/sub-018_ses-1/qc/snr_val/_scan_ms_run-1/average_snr_file.txt
201113-00:45:35,298 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.sinker_0_qc___snr_val".
201113-00:45:35,300 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.sinker_0_mean_functional_in_anat" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_ms_run-1/sinker_0_mean_functional_in_anat".
201113-00:45:35,307 nipype.workflow INFO:
[Node] Running "sinker_0_mean_functional_in_anat" ("CPAC.utils.interfaces.datasink.DataSink")
201113-00:45:35,538 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.sinker_0_mean_functional_in_anat".
201113-00:45:35,540 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.sinker_0_functional_to_anat_linear_xfm" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_ms_run-1/sinker_0_functional_to_anat_linear_xfm".
201113-00:45:35,548 nipype.workflow INFO:
[Node] Running "sinker_0_functional_to_anat_linear_xfm" ("CPAC.utils.interfaces.datasink.DataSink")
201113-00:45:35,778 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.sinker_0_functional_to_anat_linear_xfm".
201113-00:45:35,780 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.anat_to_func_linear_xfm_0_0" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_ms_run-1/anat_to_func_linear_xfm_0_0".
201113-00:45:35,786 nipype.workflow INFO:
[Node] Running "anat_to_func_linear_xfm_0_0" ("nipype.interfaces.fsl.utils.ConvertXFM"), a CommandLine Interface with command:
convert_xfm -omat /outputs/tmp/resting_preproc_sub-018_ses-1/_scan_ms_run-1/anat_to_func_linear_xfm_0_0/sub-018_ses-1_task-ms_run-1_bold_calc_despike_tshift_resample_mcf_calc_tstat_flirt_inv.mat -inverse /outputs/tmp/resting_preproc_sub-018_ses-1/func_to_anat_bbreg_0/_scan_ms_run-1/bbreg_func_to_anat/sub-018_ses-1_task-ms_run-1_bold_calc_despike_tshift_resample_mcf_calc_tstat_flirt.mat
201113-00:45:36,217 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.anat_to_func_linear_xfm_0_0".
201113-00:45:36,219 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.fsl_reg_2_itk_0" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_ms_run-1/fsl_reg_2_itk_0".
201113-00:45:36,224 nipype.workflow INFO:
[Node] Running "fsl_reg_2_itk_0" ("nipype.interfaces.c3.C3dAffineTool"), a CommandLine Interface with command:
c3d_affine_tool -ref /outputs/tmp/resting_preproc_sub-018_ses-1/anat_preproc_niworkflows_ants_0/anat_preproc_niworkflows_ants_0_skullstrip/anat_skullstrip_ants/copy_xform/sub-018_ses-1_T1w_resample_corrected_masked_xform.nii.gz -src /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/_scan_ms_run-1/func_mean/sub-018_ses-1_task-ms_run-1_bold_calc_despike_tshift_resample_mcf_calc_tstat.nii.gz /outputs/tmp/resting_preproc_sub-018_ses-1/func_to_anat_bbreg_0/_scan_ms_run-1/bbreg_func_to_anat/sub-018_ses-1_task-ms_run-1_bold_calc_despike_tshift_resample_mcf_calc_tstat_flirt.mat -fsl2ras -oitk /outputs/tmp/resting_preproc_sub-018_ses-1/_scan_ms_run-1/fsl_reg_2_itk_0/affine.txt
201113-00:45:36,849 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.fsl_reg_2_itk_0".
201113-00:45:36,851 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.change_transform_type_0" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_ms_run-1/change_transform_type_0".
201113-00:45:36,855 nipype.workflow INFO:
[Node] Running "change_transform_type_0" ("nipype.interfaces.utility.wrappers.Function")
201113-00:45:37,90 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.change_transform_type_0".
201113-00:45:37,91 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.func_to_anat_bbreg_0.bbreg_func_to_anat" in "/outputs/tmp/resting_preproc_sub-018_ses-1/func_to_anat_bbreg_0/_scan_matching_run-3/bbreg_func_to_anat".
201113-00:45:37,104 nipype.workflow INFO:
[Node] Running "bbreg_func_to_anat" ("nipype.interfaces.fsl.preprocess.FLIRT"), a CommandLine Interface with command:
flirt -in /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/_scan_matching_run-3/func_mean/sub-018_ses-1_task-matching_run-3_bold_calc_despike_tshift_resample_mcf_calc_tstat.nii.gz -ref /outputs/tmp/resting_preproc_sub-018_ses-1/anat_preproc_niworkflows_ants_0/anat_reorient/sub-018_ses-1_T1w_resample.nii.gz -out sub-018_ses-1_task-matching_run-3_bold_calc_despike_tshift_resample_mcf_calc_tstat_flirt.nii.gz -omat sub-018_ses-1_task-matching_run-3_bold_calc_despike_tshift_resample_mcf_calc_tstat_flirt.mat -cost bbr -wmseg /outputs/tmp/resting_preproc_sub-018_ses-1/func_to_anat_bbreg_0/wm_bb_mask/segment_prob_2_maths.nii.gz -dof 6 -init /outputs/tmp/resting_preproc_sub-018_ses-1/func_to_anat_FLIRT_0/_scan_matching_run-3/linear_func_to_anat/sub-018_ses-1_task-matching_run-3_bold_calc_despike_tshift_resample_mcf_calc_tstat_flirt.mat -schedule /usr/share/fsl/5.0/etc/flirtsch/bbr.sch
201113-00:48:05,34 nipype.interface INFO:
stdout 2020-11-13T00:48:05.034443:0.664547 0.999788 0.016789 -0.011920 0.000000 -0.017090 0.999525 -0.025631 0.000000 0.011485 0.025830 0.999600 0.000000 1.497490 -2.560660 7.688220 1.000000
201113-00:48:06,990 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.func_to_anat_bbreg_0.bbreg_func_to_anat".
201113-00:48:06,993 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.nuisance_regressor_0_0.Functional_2mm_flirt" in "/outputs/tmp/resting_preproc_sub-018_ses-1/nuisance_regressor_0_0/_scan_matching_run-3/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/Functional_2mm_flirt".
201113-00:48:07,46 nipype.workflow INFO:
[Node] Running "Functional_2mm_flirt" ("nipype.interfaces.fsl.preprocess.FLIRT"), a CommandLine Interface with command:
flirt -in /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/_scan_matching_run-3/func_normalize/sub-018_ses-1_task-matching_run-3_bold_calc_despike_tshift_resample_mcf_calc_maths.nii.gz -ref /outputs/tmp/resting_preproc_sub-018_ses-1/nuisance_regressor_0_0/_scan_matching_run-3/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/Anatomical_2mm_flirt/sub-018_ses-1_T1w_resample_corrected_masked_xform_flirt.nii.gz -out sub-018_ses-1_task-matching_run-3_bold_calc_despike_tshift_resample_mcf_calc_maths_flirt.nii.gz -omat sub-018_ses-1_task-matching_run-3_bold_calc_despike_tshift_resample_mcf_calc_maths_flirt.mat -applyxfm -init /outputs/tmp/resting_preproc_sub-018_ses-1/func_to_anat_bbreg_0/_scan_matching_run-3/bbreg_func_to_anat/sub-018_ses-1_task-matching_run-3_bold_calc_despike_tshift_resample_mcf_calc_tstat_flirt.mat
201113-00:48:27,131 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.nuisance_regressor_0_0.Functional_2mm_flirt".
201113-00:48:27,132 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.montage_anat_0.resample_u" in "/outputs/tmp/resting_preproc_sub-018_ses-1/montage_anat_0/_scan_matching_run-3/resample_u".
201113-00:48:27,138 nipype.workflow INFO:
[Node] Running "resample_u" ("CPAC.utils.interfaces.function.Function")
201113-00:48:28,269 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.montage_anat_0.resample_u".
201113-00:48:28,270 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.qc_snr_0.std_dev_anat" in "/outputs/tmp/resting_preproc_sub-018_ses-1/qc_snr_0/_scan_matching_run-3/std_dev_anat".
201113-00:48:28,281 nipype.workflow INFO:
[Node] Running "std_dev_anat" ("nipype.interfaces.fsl.preprocess.ApplyWarp"), a CommandLine Interface with command:
applywarp --in=/outputs/tmp/resting_preproc_sub-018_ses-1/qc_snr_0/_scan_matching_run-3/std_dev/sub-018_ses-1_task-matching_run-3_bold_calc_despike_tshift_resample_mcf_calc_maths_tstat.nii.gz --ref=/outputs/tmp/resting_preproc_sub-018_ses-1/anat_preproc_niworkflows_ants_0/anat_preproc_niworkflows_ants_0_skullstrip/anat_skullstrip_ants/copy_xform/sub-018_ses-1_T1w_resample_corrected_masked_xform.nii.gz --out=/outputs/tmp/resting_preproc_sub-018_ses-1/qc_snr_0/_scan_matching_run-3/std_dev_anat/sub-018_ses-1_task-matching_run-3_bold_calc_despike_tshift_resample_mcf_calc_maths_tstat_warp.nii.gz --premat=/outputs/tmp/resting_preproc_sub-018_ses-1/func_to_anat_bbreg_0/_scan_matching_run-3/bbreg_func_to_anat/sub-018_ses-1_task-matching_run-3_bold_calc_despike_tshift_resample_mcf_calc_tstat_flirt.mat --interp=trilinear
201113-00:48:32,149 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.qc_snr_0.std_dev_anat".
201113-00:48:32,151 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.qc_snr_0.snr" in "/outputs/tmp/resting_preproc_sub-018_ses-1/qc_snr_0/_scan_matching_run-3/snr".
201113-00:48:32,158 nipype.workflow INFO:
[Node] Running "snr" ("nipype.interfaces.afni.utils.Calc"), a CommandLine Interface with command:
3dcalc -a /outputs/tmp/resting_preproc_sub-018_ses-1/qc_snr_0/_scan_matching_run-3/std_dev_anat/sub-018_ses-1_task-matching_run-3_bold_calc_despike_tshift_resample_mcf_calc_maths_tstat_warp.nii.gz -b /outputs/tmp/resting_preproc_sub-018_ses-1/func_to_anat_bbreg_0/_scan_matching_run-3/bbreg_func_to_anat/sub-018_ses-1_task-matching_run-3_bold_calc_despike_tshift_resample_mcf_calc_tstat_flirt.nii.gz -expr "b/a" -prefix sub-018_ses-1_task-matching_run-3_bold_calc_despike_tshift_resample_mcf_calc_maths_tstat_warp_calc.nii.gz
201113-00:48:32,405 nipype.interface INFO:
stderr 2020-11-13T00:48:32.405023:++ 3dcalc: AFNI version=AFNI_20.2.19 (Sep 27 2020) [64-bit]
201113-00:48:32,405 nipype.interface INFO:
stderr 2020-11-13T00:48:32.405371:++ Authored by: A cast of thousands
201113-00:48:34,379 nipype.interface INFO:
stderr 2020-11-13T00:48:34.379393:++ Output dataset ./sub-018_ses-1_task-matching_run-3_bold_calc_despike_tshift_resample_mcf_calc_maths_tstat_warp_calc.nii.gz
201113-00:48:34,537 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.qc_snr_0.snr".
201113-00:48:34,538 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.qc_snr_0.dp_snr" in "/outputs/tmp/resting_preproc_sub-018_ses-1/qc_snr_0/_scan_matching_run-3/dp_snr".
201113-00:48:34,542 nipype.workflow INFO:
[Node] Running "dp_snr" ("CPAC.utils.interfaces.function.Function")
201113-00:48:35,424 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.qc_snr_0.dp_snr".
201113-00:48:35,425 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.qc_snr_0.montage_snr.resample_o" in "/outputs/tmp/resting_preproc_sub-018_ses-1/qc_snr_0/montage_snr/_scan_matching_run-3/resample_o".
201113-00:48:35,430 nipype.workflow INFO:
[Node] Running "resample_o" ("CPAC.utils.interfaces.function.Function")
201113-00:48:36,440 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.qc_snr_0.montage_snr.resample_o".
201113-00:48:36,441 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.qc_snr_0.montage_snr.montage_s" in "/outputs/tmp/resting_preproc_sub-018_ses-1/qc_snr_0/montage_snr/_scan_matching_run-3/montage_s".
201113-00:48:36,448 nipype.workflow INFO:
[Node] Setting-up "_montage_s0" in "/outputs/tmp/resting_preproc_sub-018_ses-1/qc_snr_0/montage_snr/_scan_matching_run-3/montage_s/mapflow/_montage_s0".
201113-00:48:36,453 nipype.workflow INFO:
[Node] Running "_montage_s0" ("CPAC.utils.interfaces.function.Function")
201113-00:48:38,704 nipype.workflow INFO:
[Node] Finished "_montage_s0".
201113-00:48:38,707 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.qc_snr_0.montage_snr.montage_s".
201113-00:48:38,708 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.sinker_0_qc___snr_s" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_matching_run-3/sinker_0_qc___snr_s".
201113-00:48:38,717 nipype.workflow INFO:
[Node] Running "sinker_0_qc___snr_s" ("CPAC.utils.interfaces.datasink.DataSink")
201113-00:48:38,928 nipype.interface INFO:
sub: /outputs/output/pipeline_cpac_fmriprep-options/sub-018_ses-1/qc___snr_s/_scan_matching_run-3/_montage_s0/snr_s.png -> /outputs/output/pipeline_cpac_fmriprep-options/sub-018_ses-1/qc/snr_s/_scan_matching_run-3/_montage_s0/snr_s.png
201113-00:48:38,945 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.sinker_0_qc___snr_s".
201113-00:48:38,947 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.qc_snr_0.montage_snr.montage_a" in "/outputs/tmp/resting_preproc_sub-018_ses-1/qc_snr_0/montage_snr/_scan_matching_run-3/montage_a".
201113-00:48:38,954 nipype.workflow INFO:
[Node] Setting-up "_montage_a0" in "/outputs/tmp/resting_preproc_sub-018_ses-1/qc_snr_0/montage_snr/_scan_matching_run-3/montage_a/mapflow/_montage_a0".
201113-00:48:38,959 nipype.workflow INFO:
[Node] Running "_montage_a0" ("CPAC.utils.interfaces.function.Function")
201113-00:48:41,492 nipype.workflow INFO:
[Node] Finished "_montage_a0".
201113-00:48:41,496 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.qc_snr_0.montage_snr.montage_a".
201113-00:48:41,496 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.sinker_0_qc___snr_a" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_matching_run-3/sinker_0_qc___snr_a".
201113-00:48:41,503 nipype.workflow INFO:
[Node] Running "sinker_0_qc___snr_a" ("CPAC.utils.interfaces.datasink.DataSink")
201113-00:48:41,716 nipype.interface INFO:
sub: /outputs/output/pipeline_cpac_fmriprep-options/sub-018_ses-1/qc___snr_a/_scan_matching_run-3/_montage_a0/snr_a.png -> /outputs/output/pipeline_cpac_fmriprep-options/sub-018_ses-1/qc/snr_a/_scan_matching_run-3/_montage_a0/snr_a.png
201113-00:48:41,733 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.sinker_0_qc___snr_a".
201113-00:48:41,735 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.qc_snr_0.hist_snr" in "/outputs/tmp/resting_preproc_sub-018_ses-1/qc_snr_0/_scan_matching_run-3/hist_snr".
201113-00:48:41,739 nipype.workflow INFO:
[Node] Running "hist_snr" ("CPAC.utils.interfaces.function.Function")
201113-00:48:42,290 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.qc_snr_0.hist_snr".
201113-00:48:42,292 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.sinker_0_qc___snr_hist" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_matching_run-3/sinker_0_qc___snr_hist".
201113-00:48:42,299 nipype.workflow INFO:
[Node] Running "sinker_0_qc___snr_hist" ("CPAC.utils.interfaces.datasink.DataSink")
201113-00:48:42,509 nipype.interface INFO:
sub: /outputs/output/pipeline_cpac_fmriprep-options/sub-018_ses-1/qc___snr_hist/_scan_matching_run-3/snr_hist_plot.png -> /outputs/output/pipeline_cpac_fmriprep-options/sub-018_ses-1/qc/snr_hist/_scan_matching_run-3/snr_hist_plot.png
201113-00:48:42,527 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.sinker_0_qc___snr_hist".
201113-00:48:42,529 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.qc_snr_0.snr_val" in "/outputs/tmp/resting_preproc_sub-018_ses-1/qc_snr_0/_scan_matching_run-3/snr_val".
201113-00:48:42,533 nipype.workflow INFO:
[Node] Running "snr_val" ("CPAC.utils.interfaces.function.Function")
201113-00:48:43,35 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.qc_snr_0.snr_val".
201113-00:48:43,37 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.sinker_0_qc___snr_val" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_matching_run-3/sinker_0_qc___snr_val".
201113-00:48:43,45 nipype.workflow INFO:
[Node] Running "sinker_0_qc___snr_val" ("CPAC.utils.interfaces.datasink.DataSink")
201113-00:48:43,258 nipype.interface INFO:
sub: /outputs/output/pipeline_cpac_fmriprep-options/sub-018_ses-1/qc___snr_val/_scan_matching_run-3/average_snr_file.txt -> /outputs/output/pipeline_cpac_fmriprep-options/sub-018_ses-1/qc/snr_val/_scan_matching_run-3/average_snr_file.txt
201113-00:48:43,278 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.sinker_0_qc___snr_val".
201113-00:48:43,280 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.sinker_0_mean_functional_in_anat" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_matching_run-3/sinker_0_mean_functional_in_anat".
201113-00:48:43,287 nipype.workflow INFO:
[Node] Running "sinker_0_mean_functional_in_anat" ("CPAC.utils.interfaces.datasink.DataSink")
201113-00:48:43,518 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.sinker_0_mean_functional_in_anat".
201113-00:48:43,520 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.sinker_0_functional_to_anat_linear_xfm" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_matching_run-3/sinker_0_functional_to_anat_linear_xfm".
201113-00:48:43,528 nipype.workflow INFO:
[Node] Running "sinker_0_functional_to_anat_linear_xfm" ("CPAC.utils.interfaces.datasink.DataSink")
201113-00:48:43,761 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.sinker_0_functional_to_anat_linear_xfm".
201113-00:48:43,763 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.anat_to_func_linear_xfm_0_0" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_matching_run-3/anat_to_func_linear_xfm_0_0".
201113-00:48:43,768 nipype.workflow INFO:
[Node] Running "anat_to_func_linear_xfm_0_0" ("nipype.interfaces.fsl.utils.ConvertXFM"), a CommandLine Interface with command:
convert_xfm -omat /outputs/tmp/resting_preproc_sub-018_ses-1/_scan_matching_run-3/anat_to_func_linear_xfm_0_0/sub-018_ses-1_task-matching_run-3_bold_calc_despike_tshift_resample_mcf_calc_tstat_flirt_inv.mat -inverse /outputs/tmp/resting_preproc_sub-018_ses-1/func_to_anat_bbreg_0/_scan_matching_run-3/bbreg_func_to_anat/sub-018_ses-1_task-matching_run-3_bold_calc_despike_tshift_resample_mcf_calc_tstat_flirt.mat
201113-00:48:44,200 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.anat_to_func_linear_xfm_0_0".
201113-00:48:44,201 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.fsl_reg_2_itk_0" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_matching_run-3/fsl_reg_2_itk_0".
201113-00:48:44,208 nipype.workflow INFO:
[Node] Running "fsl_reg_2_itk_0" ("nipype.interfaces.c3.C3dAffineTool"), a CommandLine Interface with command:
c3d_affine_tool -ref /outputs/tmp/resting_preproc_sub-018_ses-1/anat_preproc_niworkflows_ants_0/anat_preproc_niworkflows_ants_0_skullstrip/anat_skullstrip_ants/copy_xform/sub-018_ses-1_T1w_resample_corrected_masked_xform.nii.gz -src /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/_scan_matching_run-3/func_mean/sub-018_ses-1_task-matching_run-3_bold_calc_despike_tshift_resample_mcf_calc_tstat.nii.gz /outputs/tmp/resting_preproc_sub-018_ses-1/func_to_anat_bbreg_0/_scan_matching_run-3/bbreg_func_to_anat/sub-018_ses-1_task-matching_run-3_bold_calc_despike_tshift_resample_mcf_calc_tstat_flirt.mat -fsl2ras -oitk /outputs/tmp/resting_preproc_sub-018_ses-1/_scan_matching_run-3/fsl_reg_2_itk_0/affine.txt
201113-00:48:44,829 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.fsl_reg_2_itk_0".
201113-00:48:44,831 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.change_transform_type_0" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_matching_run-3/change_transform_type_0".
201113-00:48:44,835 nipype.workflow INFO:
[Node] Running "change_transform_type_0" ("nipype.interfaces.utility.wrappers.Function")
201113-00:48:45,67 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.change_transform_type_0".
201113-00:48:45,68 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.func_to_anat_bbreg_0.bbreg_func_to_anat" in "/outputs/tmp/resting_preproc_sub-018_ses-1/func_to_anat_bbreg_0/_scan_matching_run-2/bbreg_func_to_anat".
201113-00:48:45,77 nipype.workflow INFO:
[Node] Running "bbreg_func_to_anat" ("nipype.interfaces.fsl.preprocess.FLIRT"), a CommandLine Interface with command:
flirt -in /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/_scan_matching_run-2/func_mean/sub-018_ses-1_task-matching_run-2_bold_calc_despike_tshift_resample_mcf_calc_tstat.nii.gz -ref /outputs/tmp/resting_preproc_sub-018_ses-1/anat_preproc_niworkflows_ants_0/anat_reorient/sub-018_ses-1_T1w_resample.nii.gz -out sub-018_ses-1_task-matching_run-2_bold_calc_despike_tshift_resample_mcf_calc_tstat_flirt.nii.gz -omat sub-018_ses-1_task-matching_run-2_bold_calc_despike_tshift_resample_mcf_calc_tstat_flirt.mat -cost bbr -wmseg /outputs/tmp/resting_preproc_sub-018_ses-1/func_to_anat_bbreg_0/wm_bb_mask/segment_prob_2_maths.nii.gz -dof 6 -init /outputs/tmp/resting_preproc_sub-018_ses-1/func_to_anat_FLIRT_0/_scan_matching_run-2/linear_func_to_anat/sub-018_ses-1_task-matching_run-2_bold_calc_despike_tshift_resample_mcf_calc_tstat_flirt.mat -schedule /usr/share/fsl/5.0/etc/flirtsch/bbr.sch
201113-00:51:16,465 nipype.interface INFO:
stdout 2020-11-13T00:51:16.465873:Applying POWELL correction
201113-00:51:16,466 nipype.interface INFO:
stdout 2020-11-13T00:51:16.466431:finit, fend, fextrap = 0.63336 , 0.632824 , 0.632516
201113-00:51:18,89 nipype.interface INFO:
stdout 2020-11-13T00:51:18.089623:fval = 0.632241
201113-00:51:24,707 nipype.interface INFO:
stdout 2020-11-13T00:51:24.707404:0.631716 0.999790 0.015494 -0.013391 0.000000 -0.015933 0.999317 -0.033344 0.000000 0.012865 0.033550 0.999354 0.000000 1.165732 -3.443379 8.936637 1.000000
201113-00:51:26,655 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.func_to_anat_bbreg_0.bbreg_func_to_anat".
201113-00:51:26,657 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.nuisance_regressor_0_0.Functional_2mm_flirt" in "/outputs/tmp/resting_preproc_sub-018_ses-1/nuisance_regressor_0_0/_scan_matching_run-2/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/Functional_2mm_flirt".
201113-00:51:26,668 nipype.workflow INFO:
[Node] Running "Functional_2mm_flirt" ("nipype.interfaces.fsl.preprocess.FLIRT"), a CommandLine Interface with command:
flirt -in /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/_scan_matching_run-2/func_normalize/sub-018_ses-1_task-matching_run-2_bold_calc_despike_tshift_resample_mcf_calc_maths.nii.gz -ref /outputs/tmp/resting_preproc_sub-018_ses-1/nuisance_regressor_0_0/_scan_matching_run-2/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/Anatomical_2mm_flirt/sub-018_ses-1_T1w_resample_corrected_masked_xform_flirt.nii.gz -out sub-018_ses-1_task-matching_run-2_bold_calc_despike_tshift_resample_mcf_calc_maths_flirt.nii.gz -omat sub-018_ses-1_task-matching_run-2_bold_calc_despike_tshift_resample_mcf_calc_maths_flirt.mat -applyxfm -init /outputs/tmp/resting_preproc_sub-018_ses-1/func_to_anat_bbreg_0/_scan_matching_run-2/bbreg_func_to_anat/sub-018_ses-1_task-matching_run-2_bold_calc_despike_tshift_resample_mcf_calc_tstat_flirt.mat
201113-00:51:46,849 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.nuisance_regressor_0_0.Functional_2mm_flirt".
201113-00:51:46,850 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.montage_anat_0.resample_u" in "/outputs/tmp/resting_preproc_sub-018_ses-1/montage_anat_0/_scan_matching_run-2/resample_u".
201113-00:51:46,856 nipype.workflow INFO:
[Node] Running "resample_u" ("CPAC.utils.interfaces.function.Function")
201113-00:51:47,984 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.montage_anat_0.resample_u".
201113-00:51:47,986 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.qc_snr_0.std_dev_anat" in "/outputs/tmp/resting_preproc_sub-018_ses-1/qc_snr_0/_scan_matching_run-2/std_dev_anat".
201113-00:51:48,10 nipype.workflow INFO:
[Node] Running "std_dev_anat" ("nipype.interfaces.fsl.preprocess.ApplyWarp"), a CommandLine Interface with command:
applywarp --in=/outputs/tmp/resting_preproc_sub-018_ses-1/qc_snr_0/_scan_matching_run-2/std_dev/sub-018_ses-1_task-matching_run-2_bold_calc_despike_tshift_resample_mcf_calc_maths_tstat.nii.gz --ref=/outputs/tmp/resting_preproc_sub-018_ses-1/anat_preproc_niworkflows_ants_0/anat_preproc_niworkflows_ants_0_skullstrip/anat_skullstrip_ants/copy_xform/sub-018_ses-1_T1w_resample_corrected_masked_xform.nii.gz --out=/outputs/tmp/resting_preproc_sub-018_ses-1/qc_snr_0/_scan_matching_run-2/std_dev_anat/sub-018_ses-1_task-matching_run-2_bold_calc_despike_tshift_resample_mcf_calc_maths_tstat_warp.nii.gz --premat=/outputs/tmp/resting_preproc_sub-018_ses-1/func_to_anat_bbreg_0/_scan_matching_run-2/bbreg_func_to_anat/sub-018_ses-1_task-matching_run-2_bold_calc_despike_tshift_resample_mcf_calc_tstat_flirt.mat --interp=trilinear
201113-00:51:51,842 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.qc_snr_0.std_dev_anat".
201113-00:51:51,843 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.qc_snr_0.snr" in "/outputs/tmp/resting_preproc_sub-018_ses-1/qc_snr_0/_scan_matching_run-2/snr".
201113-00:51:51,849 nipype.workflow INFO:
[Node] Running "snr" ("nipype.interfaces.afni.utils.Calc"), a CommandLine Interface with command:
3dcalc -a /outputs/tmp/resting_preproc_sub-018_ses-1/qc_snr_0/_scan_matching_run-2/std_dev_anat/sub-018_ses-1_task-matching_run-2_bold_calc_despike_tshift_resample_mcf_calc_maths_tstat_warp.nii.gz -b /outputs/tmp/resting_preproc_sub-018_ses-1/func_to_anat_bbreg_0/_scan_matching_run-2/bbreg_func_to_anat/sub-018_ses-1_task-matching_run-2_bold_calc_despike_tshift_resample_mcf_calc_tstat_flirt.nii.gz -expr "b/a" -prefix sub-018_ses-1_task-matching_run-2_bold_calc_despike_tshift_resample_mcf_calc_maths_tstat_warp_calc.nii.gz
201113-00:51:52,92 nipype.interface INFO:
stderr 2020-11-13T00:51:52.092537:++ 3dcalc: AFNI version=AFNI_20.2.19 (Sep 27 2020) [64-bit]
201113-00:51:52,92 nipype.interface INFO:
stderr 2020-11-13T00:51:52.092870:++ Authored by: A cast of thousands
201113-00:51:54,54 nipype.interface INFO:
stderr 2020-11-13T00:51:54.054155:++ Output dataset ./sub-018_ses-1_task-matching_run-2_bold_calc_despike_tshift_resample_mcf_calc_maths_tstat_warp_calc.nii.gz
201113-00:51:54,215 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.qc_snr_0.snr".
201113-00:51:54,217 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.qc_snr_0.dp_snr" in "/outputs/tmp/resting_preproc_sub-018_ses-1/qc_snr_0/_scan_matching_run-2/dp_snr".
201113-00:51:54,221 nipype.workflow INFO:
[Node] Running "dp_snr" ("CPAC.utils.interfaces.function.Function")
201113-00:51:55,104 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.qc_snr_0.dp_snr".
201113-00:51:55,105 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.qc_snr_0.montage_snr.resample_o" in "/outputs/tmp/resting_preproc_sub-018_ses-1/qc_snr_0/montage_snr/_scan_matching_run-2/resample_o".
201113-00:51:55,110 nipype.workflow INFO:
[Node] Running "resample_o" ("CPAC.utils.interfaces.function.Function")
201113-00:51:56,130 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.qc_snr_0.montage_snr.resample_o".
201113-00:51:56,131 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.qc_snr_0.montage_snr.montage_s" in "/outputs/tmp/resting_preproc_sub-018_ses-1/qc_snr_0/montage_snr/_scan_matching_run-2/montage_s".
201113-00:51:56,137 nipype.workflow INFO:
[Node] Setting-up "_montage_s0" in "/outputs/tmp/resting_preproc_sub-018_ses-1/qc_snr_0/montage_snr/_scan_matching_run-2/montage_s/mapflow/_montage_s0".
201113-00:51:56,140 nipype.workflow INFO:
[Node] Running "_montage_s0" ("CPAC.utils.interfaces.function.Function")
201113-00:51:58,403 nipype.workflow INFO:
[Node] Finished "_montage_s0".
201113-00:51:58,407 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.qc_snr_0.montage_snr.montage_s".
201113-00:51:58,407 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.sinker_0_qc___snr_s" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_matching_run-2/sinker_0_qc___snr_s".
201113-00:51:58,417 nipype.workflow INFO:
[Node] Running "sinker_0_qc___snr_s" ("CPAC.utils.interfaces.datasink.DataSink")
201113-00:51:58,628 nipype.interface INFO:
sub: /outputs/output/pipeline_cpac_fmriprep-options/sub-018_ses-1/qc___snr_s/_scan_matching_run-2/_montage_s0/snr_s.png -> /outputs/output/pipeline_cpac_fmriprep-options/sub-018_ses-1/qc/snr_s/_scan_matching_run-2/_montage_s0/snr_s.png
201113-00:51:58,645 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.sinker_0_qc___snr_s".
201113-00:51:58,647 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.qc_snr_0.montage_snr.montage_a" in "/outputs/tmp/resting_preproc_sub-018_ses-1/qc_snr_0/montage_snr/_scan_matching_run-2/montage_a".
201113-00:51:58,654 nipype.workflow INFO:
[Node] Setting-up "_montage_a0" in "/outputs/tmp/resting_preproc_sub-018_ses-1/qc_snr_0/montage_snr/_scan_matching_run-2/montage_a/mapflow/_montage_a0".
201113-00:51:58,659 nipype.workflow INFO:
[Node] Running "_montage_a0" ("CPAC.utils.interfaces.function.Function")
201113-00:52:01,208 nipype.workflow INFO:
[Node] Finished "_montage_a0".
201113-00:52:01,212 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.qc_snr_0.montage_snr.montage_a".
201113-00:52:01,213 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.sinker_0_qc___snr_a" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_matching_run-2/sinker_0_qc___snr_a".
201113-00:52:01,220 nipype.workflow INFO:
[Node] Running "sinker_0_qc___snr_a" ("CPAC.utils.interfaces.datasink.DataSink")
201113-00:52:01,429 nipype.interface INFO:
sub: /outputs/output/pipeline_cpac_fmriprep-options/sub-018_ses-1/qc___snr_a/_scan_matching_run-2/_montage_a0/snr_a.png -> /outputs/output/pipeline_cpac_fmriprep-options/sub-018_ses-1/qc/snr_a/_scan_matching_run-2/_montage_a0/snr_a.png
201113-00:52:01,448 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.sinker_0_qc___snr_a".
201113-00:52:01,450 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.qc_snr_0.hist_snr" in "/outputs/tmp/resting_preproc_sub-018_ses-1/qc_snr_0/_scan_matching_run-2/hist_snr".
201113-00:52:01,454 nipype.workflow INFO:
[Node] Running "hist_snr" ("CPAC.utils.interfaces.function.Function")
201113-00:52:02,11 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.qc_snr_0.hist_snr".
201113-00:52:02,12 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.sinker_0_qc___snr_hist" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_matching_run-2/sinker_0_qc___snr_hist".
201113-00:52:02,19 nipype.workflow INFO:
[Node] Running "sinker_0_qc___snr_hist" ("CPAC.utils.interfaces.datasink.DataSink")
201113-00:52:02,229 nipype.interface INFO:
sub: /outputs/output/pipeline_cpac_fmriprep-options/sub-018_ses-1/qc___snr_hist/_scan_matching_run-2/snr_hist_plot.png -> /outputs/output/pipeline_cpac_fmriprep-options/sub-018_ses-1/qc/snr_hist/_scan_matching_run-2/snr_hist_plot.png
201113-00:52:02,247 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.sinker_0_qc___snr_hist".
201113-00:52:02,249 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.qc_snr_0.snr_val" in "/outputs/tmp/resting_preproc_sub-018_ses-1/qc_snr_0/_scan_matching_run-2/snr_val".
201113-00:52:02,253 nipype.workflow INFO:
[Node] Running "snr_val" ("CPAC.utils.interfaces.function.Function")
201113-00:52:02,763 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.qc_snr_0.snr_val".
201113-00:52:02,765 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.sinker_0_qc___snr_val" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_matching_run-2/sinker_0_qc___snr_val".
201113-00:52:02,772 nipype.workflow INFO:
[Node] Running "sinker_0_qc___snr_val" ("CPAC.utils.interfaces.datasink.DataSink")
201113-00:52:02,986 nipype.interface INFO:
sub: /outputs/output/pipeline_cpac_fmriprep-options/sub-018_ses-1/qc___snr_val/_scan_matching_run-2/average_snr_file.txt -> /outputs/output/pipeline_cpac_fmriprep-options/sub-018_ses-1/qc/snr_val/_scan_matching_run-2/average_snr_file.txt
201113-00:52:03,3 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.sinker_0_qc___snr_val".
201113-00:52:03,5 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.sinker_0_mean_functional_in_anat" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_matching_run-2/sinker_0_mean_functional_in_anat".
201113-00:52:03,12 nipype.workflow INFO:
[Node] Running "sinker_0_mean_functional_in_anat" ("CPAC.utils.interfaces.datasink.DataSink")
201113-00:52:03,243 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.sinker_0_mean_functional_in_anat".
201113-00:52:03,245 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.sinker_0_functional_to_anat_linear_xfm" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_matching_run-2/sinker_0_functional_to_anat_linear_xfm".
201113-00:52:03,252 nipype.workflow INFO:
[Node] Running "sinker_0_functional_to_anat_linear_xfm" ("CPAC.utils.interfaces.datasink.DataSink")
201113-00:52:03,485 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.sinker_0_functional_to_anat_linear_xfm".
201113-00:52:03,487 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.anat_to_func_linear_xfm_0_0" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_matching_run-2/anat_to_func_linear_xfm_0_0".
201113-00:52:03,492 nipype.workflow INFO:
[Node] Running "anat_to_func_linear_xfm_0_0" ("nipype.interfaces.fsl.utils.ConvertXFM"), a CommandLine Interface with command:
convert_xfm -omat /outputs/tmp/resting_preproc_sub-018_ses-1/_scan_matching_run-2/anat_to_func_linear_xfm_0_0/sub-018_ses-1_task-matching_run-2_bold_calc_despike_tshift_resample_mcf_calc_tstat_flirt_inv.mat -inverse /outputs/tmp/resting_preproc_sub-018_ses-1/func_to_anat_bbreg_0/_scan_matching_run-2/bbreg_func_to_anat/sub-018_ses-1_task-matching_run-2_bold_calc_despike_tshift_resample_mcf_calc_tstat_flirt.mat
201113-00:52:03,937 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.anat_to_func_linear_xfm_0_0".
201113-00:52:03,938 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.fsl_reg_2_itk_0" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_matching_run-2/fsl_reg_2_itk_0".
201113-00:52:03,945 nipype.workflow INFO:
[Node] Running "fsl_reg_2_itk_0" ("nipype.interfaces.c3.C3dAffineTool"), a CommandLine Interface with command:
c3d_affine_tool -ref /outputs/tmp/resting_preproc_sub-018_ses-1/anat_preproc_niworkflows_ants_0/anat_preproc_niworkflows_ants_0_skullstrip/anat_skullstrip_ants/copy_xform/sub-018_ses-1_T1w_resample_corrected_masked_xform.nii.gz -src /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/_scan_matching_run-2/func_mean/sub-018_ses-1_task-matching_run-2_bold_calc_despike_tshift_resample_mcf_calc_tstat.nii.gz /outputs/tmp/resting_preproc_sub-018_ses-1/func_to_anat_bbreg_0/_scan_matching_run-2/bbreg_func_to_anat/sub-018_ses-1_task-matching_run-2_bold_calc_despike_tshift_resample_mcf_calc_tstat_flirt.mat -fsl2ras -oitk /outputs/tmp/resting_preproc_sub-018_ses-1/_scan_matching_run-2/fsl_reg_2_itk_0/affine.txt
201113-00:52:04,575 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.fsl_reg_2_itk_0".
201113-00:52:04,577 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.change_transform_type_0" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_matching_run-2/change_transform_type_0".
201113-00:52:04,581 nipype.workflow INFO:
[Node] Running "change_transform_type_0" ("nipype.interfaces.utility.wrappers.Function")
201113-00:52:04,809 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.change_transform_type_0".
201113-00:52:04,810 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.func_to_anat_bbreg_0.bbreg_func_to_anat" in "/outputs/tmp/resting_preproc_sub-018_ses-1/func_to_anat_bbreg_0/_scan_matching_run-1/bbreg_func_to_anat".
201113-00:52:04,820 nipype.workflow INFO:
[Node] Running "bbreg_func_to_anat" ("nipype.interfaces.fsl.preprocess.FLIRT"), a CommandLine Interface with command:
flirt -in /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/_scan_matching_run-1/func_mean/sub-018_ses-1_task-matching_run-1_bold_calc_despike_tshift_resample_mcf_calc_tstat.nii.gz -ref /outputs/tmp/resting_preproc_sub-018_ses-1/anat_preproc_niworkflows_ants_0/anat_reorient/sub-018_ses-1_T1w_resample.nii.gz -out sub-018_ses-1_task-matching_run-1_bold_calc_despike_tshift_resample_mcf_calc_tstat_flirt.nii.gz -omat sub-018_ses-1_task-matching_run-1_bold_calc_despike_tshift_resample_mcf_calc_tstat_flirt.mat -cost bbr -wmseg /outputs/tmp/resting_preproc_sub-018_ses-1/func_to_anat_bbreg_0/wm_bb_mask/segment_prob_2_maths.nii.gz -dof 6 -init /outputs/tmp/resting_preproc_sub-018_ses-1/func_to_anat_FLIRT_0/_scan_matching_run-1/linear_func_to_anat/sub-018_ses-1_task-matching_run-1_bold_calc_despike_tshift_resample_mcf_calc_tstat_flirt.mat -schedule /usr/share/fsl/5.0/etc/flirtsch/bbr.sch
201113-00:54:36,927 nipype.interface INFO:
stdout 2020-11-13T00:54:36.927010:Applying POWELL correction
201113-00:54:36,927 nipype.interface INFO:
stdout 2020-11-13T00:54:36.927580:finit, fend, fextrap = 0.642881 , 0.641974 , 0.641418
201113-00:54:38,664 nipype.interface INFO:
stdout 2020-11-13T00:54:38.664477:fval = 0.64092
201113-00:54:44,844 nipype.interface INFO:
stdout 2020-11-13T00:54:44.844898:0.640387 0.999392 0.023627 -0.025654 0.000000 -0.024686 0.998822 -0.041767 0.000000 0.024637 0.042375 0.998798 0.000000 1.032999 -5.446666 11.376028 1.000000
201113-00:54:46,798 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.func_to_anat_bbreg_0.bbreg_func_to_anat".
201113-00:54:46,800 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.nuisance_regressor_0_0.Functional_2mm_flirt" in "/outputs/tmp/resting_preproc_sub-018_ses-1/nuisance_regressor_0_0/_scan_matching_run-1/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/Functional_2mm_flirt".
201113-00:54:46,811 nipype.workflow INFO:
[Node] Running "Functional_2mm_flirt" ("nipype.interfaces.fsl.preprocess.FLIRT"), a CommandLine Interface with command:
flirt -in /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/_scan_matching_run-1/func_normalize/sub-018_ses-1_task-matching_run-1_bold_calc_despike_tshift_resample_mcf_calc_maths.nii.gz -ref /outputs/tmp/resting_preproc_sub-018_ses-1/nuisance_regressor_0_0/_scan_matching_run-1/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/Anatomical_2mm_flirt/sub-018_ses-1_T1w_resample_corrected_masked_xform_flirt.nii.gz -out sub-018_ses-1_task-matching_run-1_bold_calc_despike_tshift_resample_mcf_calc_maths_flirt.nii.gz -omat sub-018_ses-1_task-matching_run-1_bold_calc_despike_tshift_resample_mcf_calc_maths_flirt.mat -applyxfm -init /outputs/tmp/resting_preproc_sub-018_ses-1/func_to_anat_bbreg_0/_scan_matching_run-1/bbreg_func_to_anat/sub-018_ses-1_task-matching_run-1_bold_calc_despike_tshift_resample_mcf_calc_tstat_flirt.mat
201113-00:55:06,897 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.nuisance_regressor_0_0.Functional_2mm_flirt".
201113-00:55:06,898 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.montage_anat_0.resample_u" in "/outputs/tmp/resting_preproc_sub-018_ses-1/montage_anat_0/_scan_matching_run-1/resample_u".
201113-00:55:06,904 nipype.workflow INFO:
[Node] Running "resample_u" ("CPAC.utils.interfaces.function.Function")
201113-00:55:08,40 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.montage_anat_0.resample_u".
201113-00:55:08,41 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.qc_snr_0.std_dev_anat" in "/outputs/tmp/resting_preproc_sub-018_ses-1/qc_snr_0/_scan_matching_run-1/std_dev_anat".
201113-00:55:08,51 nipype.workflow INFO:
[Node] Running "std_dev_anat" ("nipype.interfaces.fsl.preprocess.ApplyWarp"), a CommandLine Interface with command:
applywarp --in=/outputs/tmp/resting_preproc_sub-018_ses-1/qc_snr_0/_scan_matching_run-1/std_dev/sub-018_ses-1_task-matching_run-1_bold_calc_despike_tshift_resample_mcf_calc_maths_tstat.nii.gz --ref=/outputs/tmp/resting_preproc_sub-018_ses-1/anat_preproc_niworkflows_ants_0/anat_preproc_niworkflows_ants_0_skullstrip/anat_skullstrip_ants/copy_xform/sub-018_ses-1_T1w_resample_corrected_masked_xform.nii.gz --out=/outputs/tmp/resting_preproc_sub-018_ses-1/qc_snr_0/_scan_matching_run-1/std_dev_anat/sub-018_ses-1_task-matching_run-1_bold_calc_despike_tshift_resample_mcf_calc_maths_tstat_warp.nii.gz --premat=/outputs/tmp/resting_preproc_sub-018_ses-1/func_to_anat_bbreg_0/_scan_matching_run-1/bbreg_func_to_anat/sub-018_ses-1_task-matching_run-1_bold_calc_despike_tshift_resample_mcf_calc_tstat_flirt.mat --interp=trilinear
201113-00:55:11,882 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.qc_snr_0.std_dev_anat".
201113-00:55:11,884 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.qc_snr_0.snr" in "/outputs/tmp/resting_preproc_sub-018_ses-1/qc_snr_0/_scan_matching_run-1/snr".
201113-00:55:11,890 nipype.workflow INFO:
[Node] Running "snr" ("nipype.interfaces.afni.utils.Calc"), a CommandLine Interface with command:
3dcalc -a /outputs/tmp/resting_preproc_sub-018_ses-1/qc_snr_0/_scan_matching_run-1/std_dev_anat/sub-018_ses-1_task-matching_run-1_bold_calc_despike_tshift_resample_mcf_calc_maths_tstat_warp.nii.gz -b /outputs/tmp/resting_preproc_sub-018_ses-1/func_to_anat_bbreg_0/_scan_matching_run-1/bbreg_func_to_anat/sub-018_ses-1_task-matching_run-1_bold_calc_despike_tshift_resample_mcf_calc_tstat_flirt.nii.gz -expr "b/a" -prefix sub-018_ses-1_task-matching_run-1_bold_calc_despike_tshift_resample_mcf_calc_maths_tstat_warp_calc.nii.gz
201113-00:55:12,133 nipype.interface INFO:
stderr 2020-11-13T00:55:12.133884:++ 3dcalc: AFNI version=AFNI_20.2.19 (Sep 27 2020) [64-bit]
201113-00:55:12,134 nipype.interface INFO:
stderr 2020-11-13T00:55:12.134226:++ Authored by: A cast of thousands
201113-00:55:14,125 nipype.interface INFO:
stderr 2020-11-13T00:55:14.125607:++ Output dataset ./sub-018_ses-1_task-matching_run-1_bold_calc_despike_tshift_resample_mcf_calc_maths_tstat_warp_calc.nii.gz
201113-00:55:14,282 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.qc_snr_0.snr".
201113-00:55:14,283 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.qc_snr_0.dp_snr" in "/outputs/tmp/resting_preproc_sub-018_ses-1/qc_snr_0/_scan_matching_run-1/dp_snr".
201113-00:55:14,288 nipype.workflow INFO:
[Node] Running "dp_snr" ("CPAC.utils.interfaces.function.Function")
201113-00:55:15,180 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.qc_snr_0.dp_snr".
201113-00:55:15,181 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.qc_snr_0.montage_snr.resample_o" in "/outputs/tmp/resting_preproc_sub-018_ses-1/qc_snr_0/montage_snr/_scan_matching_run-1/resample_o".
201113-00:55:15,185 nipype.workflow INFO:
[Node] Running "resample_o" ("CPAC.utils.interfaces.function.Function")
201113-00:55:16,200 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.qc_snr_0.montage_snr.resample_o".
201113-00:55:16,201 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.qc_snr_0.montage_snr.montage_s" in "/outputs/tmp/resting_preproc_sub-018_ses-1/qc_snr_0/montage_snr/_scan_matching_run-1/montage_s".
201113-00:55:16,207 nipype.workflow INFO:
[Node] Setting-up "_montage_s0" in "/outputs/tmp/resting_preproc_sub-018_ses-1/qc_snr_0/montage_snr/_scan_matching_run-1/montage_s/mapflow/_montage_s0".
201113-00:55:16,211 nipype.workflow INFO:
[Node] Running "_montage_s0" ("CPAC.utils.interfaces.function.Function")
201113-00:55:18,449 nipype.workflow INFO:
[Node] Finished "_montage_s0".
201113-00:55:18,452 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.qc_snr_0.montage_snr.montage_s".
201113-00:55:18,453 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.sinker_0_qc___snr_s" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_matching_run-1/sinker_0_qc___snr_s".
201113-00:55:18,459 nipype.workflow INFO:
[Node] Running "sinker_0_qc___snr_s" ("CPAC.utils.interfaces.datasink.DataSink")
201113-00:55:18,669 nipype.interface INFO:
sub: /outputs/output/pipeline_cpac_fmriprep-options/sub-018_ses-1/qc___snr_s/_scan_matching_run-1/_montage_s0/snr_s.png -> /outputs/output/pipeline_cpac_fmriprep-options/sub-018_ses-1/qc/snr_s/_scan_matching_run-1/_montage_s0/snr_s.png
201113-00:55:18,686 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.sinker_0_qc___snr_s".
201113-00:55:18,688 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.qc_snr_0.montage_snr.montage_a" in "/outputs/tmp/resting_preproc_sub-018_ses-1/qc_snr_0/montage_snr/_scan_matching_run-1/montage_a".
201113-00:55:18,695 nipype.workflow INFO:
[Node] Setting-up "_montage_a0" in "/outputs/tmp/resting_preproc_sub-018_ses-1/qc_snr_0/montage_snr/_scan_matching_run-1/montage_a/mapflow/_montage_a0".
201113-00:55:18,700 nipype.workflow INFO:
[Node] Running "_montage_a0" ("CPAC.utils.interfaces.function.Function")
201113-00:55:21,232 nipype.workflow INFO:
[Node] Finished "_montage_a0".
201113-00:55:21,236 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.qc_snr_0.montage_snr.montage_a".
201113-00:55:21,237 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.sinker_0_qc___snr_a" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_matching_run-1/sinker_0_qc___snr_a".
201113-00:55:21,245 nipype.workflow INFO:
[Node] Running "sinker_0_qc___snr_a" ("CPAC.utils.interfaces.datasink.DataSink")
201113-00:55:21,457 nipype.interface INFO:
sub: /outputs/output/pipeline_cpac_fmriprep-options/sub-018_ses-1/qc___snr_a/_scan_matching_run-1/_montage_a0/snr_a.png -> /outputs/output/pipeline_cpac_fmriprep-options/sub-018_ses-1/qc/snr_a/_scan_matching_run-1/_montage_a0/snr_a.png
201113-00:55:21,474 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.sinker_0_qc___snr_a".
201113-00:55:21,476 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.qc_snr_0.hist_snr" in "/outputs/tmp/resting_preproc_sub-018_ses-1/qc_snr_0/_scan_matching_run-1/hist_snr".
201113-00:55:21,480 nipype.workflow INFO:
[Node] Running "hist_snr" ("CPAC.utils.interfaces.function.Function")
201113-00:55:22,23 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.qc_snr_0.hist_snr".
201113-00:55:22,24 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.sinker_0_qc___snr_hist" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_matching_run-1/sinker_0_qc___snr_hist".
201113-00:55:22,31 nipype.workflow INFO:
[Node] Running "sinker_0_qc___snr_hist" ("CPAC.utils.interfaces.datasink.DataSink")
201113-00:55:22,242 nipype.interface INFO:
sub: /outputs/output/pipeline_cpac_fmriprep-options/sub-018_ses-1/qc___snr_hist/_scan_matching_run-1/snr_hist_plot.png -> /outputs/output/pipeline_cpac_fmriprep-options/sub-018_ses-1/qc/snr_hist/_scan_matching_run-1/snr_hist_plot.png
201113-00:55:22,261 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.sinker_0_qc___snr_hist".
201113-00:55:22,262 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.qc_snr_0.snr_val" in "/outputs/tmp/resting_preproc_sub-018_ses-1/qc_snr_0/_scan_matching_run-1/snr_val".
201113-00:55:22,267 nipype.workflow INFO:
[Node] Running "snr_val" ("CPAC.utils.interfaces.function.Function")
201113-00:55:22,778 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.qc_snr_0.snr_val".
201113-00:55:22,779 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.sinker_0_qc___snr_val" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_matching_run-1/sinker_0_qc___snr_val".
201113-00:55:22,787 nipype.workflow INFO:
[Node] Running "sinker_0_qc___snr_val" ("CPAC.utils.interfaces.datasink.DataSink")
201113-00:55:22,997 nipype.interface INFO:
sub: /outputs/output/pipeline_cpac_fmriprep-options/sub-018_ses-1/qc___snr_val/_scan_matching_run-1/average_snr_file.txt -> /outputs/output/pipeline_cpac_fmriprep-options/sub-018_ses-1/qc/snr_val/_scan_matching_run-1/average_snr_file.txt
201113-00:55:23,15 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.sinker_0_qc___snr_val".
201113-00:55:23,16 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.sinker_0_mean_functional_in_anat" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_matching_run-1/sinker_0_mean_functional_in_anat".
201113-00:55:23,24 nipype.workflow INFO:
[Node] Running "sinker_0_mean_functional_in_anat" ("CPAC.utils.interfaces.datasink.DataSink")
201113-00:55:23,254 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.sinker_0_mean_functional_in_anat".
201113-00:55:23,256 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.sinker_0_functional_to_anat_linear_xfm" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_matching_run-1/sinker_0_functional_to_anat_linear_xfm".
201113-00:55:23,263 nipype.workflow INFO:
[Node] Running "sinker_0_functional_to_anat_linear_xfm" ("CPAC.utils.interfaces.datasink.DataSink")
201113-00:55:23,498 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.sinker_0_functional_to_anat_linear_xfm".
201113-00:55:23,500 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.anat_to_func_linear_xfm_0_0" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_matching_run-1/anat_to_func_linear_xfm_0_0".
201113-00:55:23,505 nipype.workflow INFO:
[Node] Running "anat_to_func_linear_xfm_0_0" ("nipype.interfaces.fsl.utils.ConvertXFM"), a CommandLine Interface with command:
convert_xfm -omat /outputs/tmp/resting_preproc_sub-018_ses-1/_scan_matching_run-1/anat_to_func_linear_xfm_0_0/sub-018_ses-1_task-matching_run-1_bold_calc_despike_tshift_resample_mcf_calc_tstat_flirt_inv.mat -inverse /outputs/tmp/resting_preproc_sub-018_ses-1/func_to_anat_bbreg_0/_scan_matching_run-1/bbreg_func_to_anat/sub-018_ses-1_task-matching_run-1_bold_calc_despike_tshift_resample_mcf_calc_tstat_flirt.mat
201113-00:55:23,944 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.anat_to_func_linear_xfm_0_0".
201113-00:55:23,946 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.fsl_reg_2_itk_0" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_matching_run-1/fsl_reg_2_itk_0".
201113-00:55:23,952 nipype.workflow INFO:
[Node] Running "fsl_reg_2_itk_0" ("nipype.interfaces.c3.C3dAffineTool"), a CommandLine Interface with command:
c3d_affine_tool -ref /outputs/tmp/resting_preproc_sub-018_ses-1/anat_preproc_niworkflows_ants_0/anat_preproc_niworkflows_ants_0_skullstrip/anat_skullstrip_ants/copy_xform/sub-018_ses-1_T1w_resample_corrected_masked_xform.nii.gz -src /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/_scan_matching_run-1/func_mean/sub-018_ses-1_task-matching_run-1_bold_calc_despike_tshift_resample_mcf_calc_tstat.nii.gz /outputs/tmp/resting_preproc_sub-018_ses-1/func_to_anat_bbreg_0/_scan_matching_run-1/bbreg_func_to_anat/sub-018_ses-1_task-matching_run-1_bold_calc_despike_tshift_resample_mcf_calc_tstat_flirt.mat -fsl2ras -oitk /outputs/tmp/resting_preproc_sub-018_ses-1/_scan_matching_run-1/fsl_reg_2_itk_0/affine.txt
201113-00:55:24,584 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.fsl_reg_2_itk_0".
201113-00:55:24,586 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.change_transform_type_0" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_matching_run-1/change_transform_type_0".
201113-00:55:24,591 nipype.workflow INFO:
[Node] Running "change_transform_type_0" ("nipype.interfaces.utility.wrappers.Function")
201113-00:55:24,817 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.change_transform_type_0".
201113-00:55:24,819 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.func_to_anat_bbreg_0.bbreg_func_to_anat" in "/outputs/tmp/resting_preproc_sub-018_ses-1/func_to_anat_bbreg_0/_scan_conditioning_run-1/bbreg_func_to_anat".
201113-00:55:24,827 nipype.workflow INFO:
[Node] Running "bbreg_func_to_anat" ("nipype.interfaces.fsl.preprocess.FLIRT"), a CommandLine Interface with command:
flirt -in /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/_scan_conditioning_run-1/func_mean/sub-018_ses-1_task-conditioning_run-1_bold_calc_despike_tshift_resample_mcf_calc_tstat.nii.gz -ref /outputs/tmp/resting_preproc_sub-018_ses-1/anat_preproc_niworkflows_ants_0/anat_reorient/sub-018_ses-1_T1w_resample.nii.gz -out sub-018_ses-1_task-conditioning_run-1_bold_calc_despike_tshift_resample_mcf_calc_tstat_flirt.nii.gz -omat sub-018_ses-1_task-conditioning_run-1_bold_calc_despike_tshift_resample_mcf_calc_tstat_flirt.mat -cost bbr -wmseg /outputs/tmp/resting_preproc_sub-018_ses-1/func_to_anat_bbreg_0/wm_bb_mask/segment_prob_2_maths.nii.gz -dof 6 -init /outputs/tmp/resting_preproc_sub-018_ses-1/func_to_anat_FLIRT_0/_scan_conditioning_run-1/linear_func_to_anat/sub-018_ses-1_task-conditioning_run-1_bold_calc_despike_tshift_resample_mcf_calc_tstat_flirt.mat -schedule /usr/share/fsl/5.0/etc/flirtsch/bbr.sch
201113-00:57:49,883 nipype.interface INFO:
stdout 2020-11-13T00:57:49.883187:Applying POWELL correction
201113-00:57:49,883 nipype.interface INFO:
stdout 2020-11-13T00:57:49.883738:finit, fend, fextrap = 0.655564 , 0.655028 , 0.654659
201113-00:57:50,751 nipype.interface INFO:
stdout 2020-11-13T00:57:50.751403:fval = 0.654769
201113-00:57:54,870 nipype.interface INFO:
stdout 2020-11-13T00:57:54.870483:Applying POWELL correction
201113-00:57:54,870 nipype.interface INFO:
stdout 2020-11-13T00:57:54.870658:finit, fend, fextrap = 0.654769 , 0.654186 , 0.653859
201113-00:57:56,822 nipype.interface INFO:
stdout 2020-11-13T00:57:56.822605:fval = 0.65355
201113-00:58:03,893 nipype.interface INFO:
stdout 2020-11-13T00:58:03.893711:0.653137 0.999859 0.010033 -0.013442 0.000000 -0.010478 0.999386 -0.033448 0.000000 0.013098 0.033584 0.999350 0.000000 0.442264 -3.169310 9.221922 1.000000
201113-00:58:05,843 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.func_to_anat_bbreg_0.bbreg_func_to_anat".
201113-00:58:05,845 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.nuisance_regressor_0_0.Functional_2mm_flirt" in "/outputs/tmp/resting_preproc_sub-018_ses-1/nuisance_regressor_0_0/_scan_conditioning_run-1/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/Functional_2mm_flirt".
201113-00:58:05,855 nipype.workflow INFO:
[Node] Running "Functional_2mm_flirt" ("nipype.interfaces.fsl.preprocess.FLIRT"), a CommandLine Interface with command:
flirt -in /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/_scan_conditioning_run-1/func_normalize/sub-018_ses-1_task-conditioning_run-1_bold_calc_despike_tshift_resample_mcf_calc_maths.nii.gz -ref /outputs/tmp/resting_preproc_sub-018_ses-1/nuisance_regressor_0_0/_scan_conditioning_run-1/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/Anatomical_2mm_flirt/sub-018_ses-1_T1w_resample_corrected_masked_xform_flirt.nii.gz -out sub-018_ses-1_task-conditioning_run-1_bold_calc_despike_tshift_resample_mcf_calc_maths_flirt.nii.gz -omat sub-018_ses-1_task-conditioning_run-1_bold_calc_despike_tshift_resample_mcf_calc_maths_flirt.mat -applyxfm -init /outputs/tmp/resting_preproc_sub-018_ses-1/func_to_anat_bbreg_0/_scan_conditioning_run-1/bbreg_func_to_anat/sub-018_ses-1_task-conditioning_run-1_bold_calc_despike_tshift_resample_mcf_calc_tstat_flirt.mat
201113-00:58:36,380 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.nuisance_regressor_0_0.Functional_2mm_flirt".
201113-00:58:36,382 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.montage_anat_0.resample_u" in "/outputs/tmp/resting_preproc_sub-018_ses-1/montage_anat_0/_scan_conditioning_run-1/resample_u".
201113-00:58:36,388 nipype.workflow INFO:
[Node] Running "resample_u" ("CPAC.utils.interfaces.function.Function")
201113-00:58:37,532 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.montage_anat_0.resample_u".
201113-00:58:37,534 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.qc_snr_0.std_dev_anat" in "/outputs/tmp/resting_preproc_sub-018_ses-1/qc_snr_0/_scan_conditioning_run-1/std_dev_anat".
201113-00:58:37,543 nipype.workflow INFO:
[Node] Running "std_dev_anat" ("nipype.interfaces.fsl.preprocess.ApplyWarp"), a CommandLine Interface with command:
applywarp --in=/outputs/tmp/resting_preproc_sub-018_ses-1/qc_snr_0/_scan_conditioning_run-1/std_dev/sub-018_ses-1_task-conditioning_run-1_bold_calc_despike_tshift_resample_mcf_calc_maths_tstat.nii.gz --ref=/outputs/tmp/resting_preproc_sub-018_ses-1/anat_preproc_niworkflows_ants_0/anat_preproc_niworkflows_ants_0_skullstrip/anat_skullstrip_ants/copy_xform/sub-018_ses-1_T1w_resample_corrected_masked_xform.nii.gz --out=/outputs/tmp/resting_preproc_sub-018_ses-1/qc_snr_0/_scan_conditioning_run-1/std_dev_anat/sub-018_ses-1_task-conditioning_run-1_bold_calc_despike_tshift_resample_mcf_calc_maths_tstat_warp.nii.gz --premat=/outputs/tmp/resting_preproc_sub-018_ses-1/func_to_anat_bbreg_0/_scan_conditioning_run-1/bbreg_func_to_anat/sub-018_ses-1_task-conditioning_run-1_bold_calc_despike_tshift_resample_mcf_calc_tstat_flirt.mat --interp=trilinear
201113-00:58:41,371 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.qc_snr_0.std_dev_anat".
201113-00:58:41,372 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.qc_snr_0.snr" in "/outputs/tmp/resting_preproc_sub-018_ses-1/qc_snr_0/_scan_conditioning_run-1/snr".
201113-00:58:41,379 nipype.workflow INFO:
[Node] Running "snr" ("nipype.interfaces.afni.utils.Calc"), a CommandLine Interface with command:
3dcalc -a /outputs/tmp/resting_preproc_sub-018_ses-1/qc_snr_0/_scan_conditioning_run-1/std_dev_anat/sub-018_ses-1_task-conditioning_run-1_bold_calc_despike_tshift_resample_mcf_calc_maths_tstat_warp.nii.gz -b /outputs/tmp/resting_preproc_sub-018_ses-1/func_to_anat_bbreg_0/_scan_conditioning_run-1/bbreg_func_to_anat/sub-018_ses-1_task-conditioning_run-1_bold_calc_despike_tshift_resample_mcf_calc_tstat_flirt.nii.gz -expr "b/a" -prefix sub-018_ses-1_task-conditioning_run-1_bold_calc_despike_tshift_resample_mcf_calc_maths_tstat_warp_calc.nii.gz
201113-00:58:41,627 nipype.interface INFO:
stderr 2020-11-13T00:58:41.627785:++ 3dcalc: AFNI version=AFNI_20.2.19 (Sep 27 2020) [64-bit]
201113-00:58:41,628 nipype.interface INFO:
stderr 2020-11-13T00:58:41.628157:++ Authored by: A cast of thousands
201113-00:58:43,618 nipype.interface INFO:
stderr 2020-11-13T00:58:43.618550:++ Output dataset ./sub-018_ses-1_task-conditioning_run-1_bold_calc_despike_tshift_resample_mcf_calc_maths_tstat_warp_calc.nii.gz
201113-00:58:43,775 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.qc_snr_0.snr".
201113-00:58:43,777 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.qc_snr_0.dp_snr" in "/outputs/tmp/resting_preproc_sub-018_ses-1/qc_snr_0/_scan_conditioning_run-1/dp_snr".
201113-00:58:43,782 nipype.workflow INFO:
[Node] Running "dp_snr" ("CPAC.utils.interfaces.function.Function")
201113-00:58:44,709 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.qc_snr_0.dp_snr".
201113-00:58:44,710 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.qc_snr_0.montage_snr.resample_o" in "/outputs/tmp/resting_preproc_sub-018_ses-1/qc_snr_0/montage_snr/_scan_conditioning_run-1/resample_o".
201113-00:58:44,714 nipype.workflow INFO:
[Node] Running "resample_o" ("CPAC.utils.interfaces.function.Function")
201113-00:58:45,726 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.qc_snr_0.montage_snr.resample_o".
201113-00:58:45,727 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.qc_snr_0.montage_snr.montage_s" in "/outputs/tmp/resting_preproc_sub-018_ses-1/qc_snr_0/montage_snr/_scan_conditioning_run-1/montage_s".
201113-00:58:45,733 nipype.workflow INFO:
[Node] Setting-up "_montage_s0" in "/outputs/tmp/resting_preproc_sub-018_ses-1/qc_snr_0/montage_snr/_scan_conditioning_run-1/montage_s/mapflow/_montage_s0".
201113-00:58:45,737 nipype.workflow INFO:
[Node] Running "_montage_s0" ("CPAC.utils.interfaces.function.Function")
201113-00:58:47,989 nipype.workflow INFO:
[Node] Finished "_montage_s0".
201113-00:58:47,992 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.qc_snr_0.montage_snr.montage_s".
201113-00:58:47,992 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.sinker_0_qc___snr_s" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_conditioning_run-1/sinker_0_qc___snr_s".
201113-00:58:48,0 nipype.workflow INFO:
[Node] Running "sinker_0_qc___snr_s" ("CPAC.utils.interfaces.datasink.DataSink")
201113-00:58:48,210 nipype.interface INFO:
sub: /outputs/output/pipeline_cpac_fmriprep-options/sub-018_ses-1/qc___snr_s/_scan_conditioning_run-1/_montage_s0/snr_s.png -> /outputs/output/pipeline_cpac_fmriprep-options/sub-018_ses-1/qc/snr_s/_scan_conditioning_run-1/_montage_s0/snr_s.png
201113-00:58:48,226 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.sinker_0_qc___snr_s".
201113-00:58:48,228 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.qc_snr_0.montage_snr.montage_a" in "/outputs/tmp/resting_preproc_sub-018_ses-1/qc_snr_0/montage_snr/_scan_conditioning_run-1/montage_a".
201113-00:58:48,234 nipype.workflow INFO:
[Node] Setting-up "_montage_a0" in "/outputs/tmp/resting_preproc_sub-018_ses-1/qc_snr_0/montage_snr/_scan_conditioning_run-1/montage_a/mapflow/_montage_a0".
201113-00:58:48,239 nipype.workflow INFO:
[Node] Running "_montage_a0" ("CPAC.utils.interfaces.function.Function")
201113-00:58:50,773 nipype.workflow INFO:
[Node] Finished "_montage_a0".
201113-00:58:50,776 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.qc_snr_0.montage_snr.montage_a".
201113-00:58:50,777 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.sinker_0_qc___snr_a" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_conditioning_run-1/sinker_0_qc___snr_a".
201113-00:58:50,784 nipype.workflow INFO:
[Node] Running "sinker_0_qc___snr_a" ("CPAC.utils.interfaces.datasink.DataSink")
201113-00:58:50,998 nipype.interface INFO:
sub: /outputs/output/pipeline_cpac_fmriprep-options/sub-018_ses-1/qc___snr_a/_scan_conditioning_run-1/_montage_a0/snr_a.png -> /outputs/output/pipeline_cpac_fmriprep-options/sub-018_ses-1/qc/snr_a/_scan_conditioning_run-1/_montage_a0/snr_a.png
201113-00:58:51,15 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.sinker_0_qc___snr_a".
201113-00:58:51,17 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.qc_snr_0.hist_snr" in "/outputs/tmp/resting_preproc_sub-018_ses-1/qc_snr_0/_scan_conditioning_run-1/hist_snr".
201113-00:58:51,21 nipype.workflow INFO:
[Node] Running "hist_snr" ("CPAC.utils.interfaces.function.Function")
201113-00:58:51,567 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.qc_snr_0.hist_snr".
201113-00:58:51,569 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.sinker_0_qc___snr_hist" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_conditioning_run-1/sinker_0_qc___snr_hist".
201113-00:58:51,576 nipype.workflow INFO:
[Node] Running "sinker_0_qc___snr_hist" ("CPAC.utils.interfaces.datasink.DataSink")
201113-00:58:51,787 nipype.interface INFO:
sub: /outputs/output/pipeline_cpac_fmriprep-options/sub-018_ses-1/qc___snr_hist/_scan_conditioning_run-1/snr_hist_plot.png -> /outputs/output/pipeline_cpac_fmriprep-options/sub-018_ses-1/qc/snr_hist/_scan_conditioning_run-1/snr_hist_plot.png
201113-00:58:51,805 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.sinker_0_qc___snr_hist".
201113-00:58:51,807 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.qc_snr_0.snr_val" in "/outputs/tmp/resting_preproc_sub-018_ses-1/qc_snr_0/_scan_conditioning_run-1/snr_val".
201113-00:58:51,811 nipype.workflow INFO:
[Node] Running "snr_val" ("CPAC.utils.interfaces.function.Function")
201113-00:58:52,309 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.qc_snr_0.snr_val".
201113-00:58:52,310 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.sinker_0_qc___snr_val" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_conditioning_run-1/sinker_0_qc___snr_val".
201113-00:58:52,317 nipype.workflow INFO:
[Node] Running "sinker_0_qc___snr_val" ("CPAC.utils.interfaces.datasink.DataSink")
201113-00:58:52,528 nipype.interface INFO:
sub: /outputs/output/pipeline_cpac_fmriprep-options/sub-018_ses-1/qc___snr_val/_scan_conditioning_run-1/average_snr_file.txt -> /outputs/output/pipeline_cpac_fmriprep-options/sub-018_ses-1/qc/snr_val/_scan_conditioning_run-1/average_snr_file.txt
201113-00:58:52,547 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.sinker_0_qc___snr_val".
201113-00:58:52,548 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.sinker_0_mean_functional_in_anat" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_conditioning_run-1/sinker_0_mean_functional_in_anat".
201113-00:58:52,556 nipype.workflow INFO:
[Node] Running "sinker_0_mean_functional_in_anat" ("CPAC.utils.interfaces.datasink.DataSink")
201113-00:58:52,788 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.sinker_0_mean_functional_in_anat".
201113-00:58:52,789 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.sinker_0_functional_to_anat_linear_xfm" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_conditioning_run-1/sinker_0_functional_to_anat_linear_xfm".
201113-00:58:52,797 nipype.workflow INFO:
[Node] Running "sinker_0_functional_to_anat_linear_xfm" ("CPAC.utils.interfaces.datasink.DataSink")
201113-00:58:53,27 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.sinker_0_functional_to_anat_linear_xfm".
201113-00:58:53,29 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.anat_to_func_linear_xfm_0_0" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_conditioning_run-1/anat_to_func_linear_xfm_0_0".
201113-00:58:53,36 nipype.workflow INFO:
[Node] Running "anat_to_func_linear_xfm_0_0" ("nipype.interfaces.fsl.utils.ConvertXFM"), a CommandLine Interface with command:
convert_xfm -omat /outputs/tmp/resting_preproc_sub-018_ses-1/_scan_conditioning_run-1/anat_to_func_linear_xfm_0_0/sub-018_ses-1_task-conditioning_run-1_bold_calc_despike_tshift_resample_mcf_calc_tstat_flirt_inv.mat -inverse /outputs/tmp/resting_preproc_sub-018_ses-1/func_to_anat_bbreg_0/_scan_conditioning_run-1/bbreg_func_to_anat/sub-018_ses-1_task-conditioning_run-1_bold_calc_despike_tshift_resample_mcf_calc_tstat_flirt.mat
201113-00:58:53,478 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.anat_to_func_linear_xfm_0_0".
201113-00:58:53,480 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.fsl_reg_2_itk_0" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_conditioning_run-1/fsl_reg_2_itk_0".
201113-00:58:53,487 nipype.workflow INFO:
[Node] Running "fsl_reg_2_itk_0" ("nipype.interfaces.c3.C3dAffineTool"), a CommandLine Interface with command:
c3d_affine_tool -ref /outputs/tmp/resting_preproc_sub-018_ses-1/anat_preproc_niworkflows_ants_0/anat_preproc_niworkflows_ants_0_skullstrip/anat_skullstrip_ants/copy_xform/sub-018_ses-1_T1w_resample_corrected_masked_xform.nii.gz -src /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/_scan_conditioning_run-1/func_mean/sub-018_ses-1_task-conditioning_run-1_bold_calc_despike_tshift_resample_mcf_calc_tstat.nii.gz /outputs/tmp/resting_preproc_sub-018_ses-1/func_to_anat_bbreg_0/_scan_conditioning_run-1/bbreg_func_to_anat/sub-018_ses-1_task-conditioning_run-1_bold_calc_despike_tshift_resample_mcf_calc_tstat_flirt.mat -fsl2ras -oitk /outputs/tmp/resting_preproc_sub-018_ses-1/_scan_conditioning_run-1/fsl_reg_2_itk_0/affine.txt
201113-00:58:54,120 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.fsl_reg_2_itk_0".
201113-00:58:54,122 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.change_transform_type_0" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_conditioning_run-1/change_transform_type_0".
201113-00:58:54,126 nipype.workflow INFO:
[Node] Running "change_transform_type_0" ("nipype.interfaces.utility.wrappers.Function")
201113-00:58:54,356 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.change_transform_type_0".
201113-00:58:54,358 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.sinker_0_seg_probability_maps" in "/outputs/tmp/resting_preproc_sub-018_ses-1/sinker_0_seg_probability_maps".
201113-00:58:54,366 nipype.workflow INFO:
[Node] Running "sinker_0_seg_probability_maps" ("CPAC.utils.interfaces.datasink.DataSink")
201113-00:58:54,597 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.sinker_0_seg_probability_maps".
201113-00:58:54,599 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.sinker_0_seg_partial_volume_map" in "/outputs/tmp/resting_preproc_sub-018_ses-1/sinker_0_seg_partial_volume_map".
201113-00:58:54,606 nipype.workflow INFO:
[Node] Running "sinker_0_seg_partial_volume_map" ("CPAC.utils.interfaces.datasink.DataSink")
201113-00:58:54,837 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.sinker_0_seg_partial_volume_map".
201113-00:58:54,839 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.sinker_0_seg_partial_volume_files" in "/outputs/tmp/resting_preproc_sub-018_ses-1/sinker_0_seg_partial_volume_files".
201113-00:58:54,846 nipype.workflow INFO:
[Node] Running "sinker_0_seg_partial_volume_files" ("CPAC.utils.interfaces.datasink.DataSink")
201113-00:58:55,80 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.sinker_0_seg_partial_volume_files".
201113-00:58:55,82 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.sinker_0_seg_mixeltype" in "/outputs/tmp/resting_preproc_sub-018_ses-1/sinker_0_seg_mixeltype".
201113-00:58:55,90 nipype.workflow INFO:
[Node] Running "sinker_0_seg_mixeltype" ("CPAC.utils.interfaces.datasink.DataSink")
201113-00:58:55,321 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.sinker_0_seg_mixeltype".
201113-00:58:55,322 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.seg_preproc_0.GM.threshold_segmentmap_GM" in "/outputs/tmp/resting_preproc_sub-018_ses-1/seg_preproc_0/GM/threshold_segmentmap_GM".
201113-00:58:55,329 nipype.workflow INFO:
[Node] Running "threshold_segmentmap_GM" ("nipype.interfaces.fsl.utils.ImageMaths"), a CommandLine Interface with command:
fslmaths /outputs/tmp/resting_preproc_sub-018_ses-1/seg_preproc_0/segment/segment_prob_1.nii.gz -thr 0.950000 /outputs/tmp/resting_preproc_sub-018_ses-1/seg_preproc_0/GM/threshold_segmentmap_GM/segment_prob_1_maths.nii.gz
201113-00:58:56,360 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.seg_preproc_0.GM.threshold_segmentmap_GM".
201113-00:58:56,361 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.seg_preproc_0.GM.binarize_GM" in "/outputs/tmp/resting_preproc_sub-018_ses-1/seg_preproc_0/GM/binarize_GM".
201113-00:58:56,366 nipype.workflow INFO:
[Node] Running "binarize_GM" ("nipype.interfaces.fsl.utils.ImageMaths"), a CommandLine Interface with command:
fslmaths /outputs/tmp/resting_preproc_sub-018_ses-1/seg_preproc_0/GM/threshold_segmentmap_GM/segment_prob_1_maths.nii.gz -bin /outputs/tmp/resting_preproc_sub-018_ses-1/seg_preproc_0/GM/binarize_GM/segment_prob_1_maths_maths.nii.gz
201113-00:58:57,383 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.seg_preproc_0.GM.binarize_GM".
201113-00:58:57,385 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.montage_csf_gm_wm_0.resample_o_gm" in "/outputs/tmp/resting_preproc_sub-018_ses-1/montage_csf_gm_wm_0/resample_o_gm".
201113-00:58:57,389 nipype.workflow INFO:
[Node] Running "resample_o_gm" ("CPAC.utils.interfaces.function.Function")
201113-00:58:58,308 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.montage_csf_gm_wm_0.resample_o_gm".
201113-00:58:58,310 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.sinker_0_anatomical_gm_mask" in "/outputs/tmp/resting_preproc_sub-018_ses-1/sinker_0_anatomical_gm_mask".
201113-00:58:58,317 nipype.workflow INFO:
[Node] Running "sinker_0_anatomical_gm_mask" ("CPAC.utils.interfaces.datasink.DataSink")
201113-00:58:58,546 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.sinker_0_anatomical_gm_mask".
201113-00:58:58,547 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.seg_preproc_0.WM.threshold_segmentmap_WM" in "/outputs/tmp/resting_preproc_sub-018_ses-1/seg_preproc_0/WM/threshold_segmentmap_WM".
201113-00:58:58,553 nipype.workflow INFO:
[Node] Running "threshold_segmentmap_WM" ("nipype.interfaces.fsl.utils.ImageMaths"), a CommandLine Interface with command:
fslmaths /outputs/tmp/resting_preproc_sub-018_ses-1/seg_preproc_0/segment/segment_prob_2.nii.gz -thr 0.950000 /outputs/tmp/resting_preproc_sub-018_ses-1/seg_preproc_0/WM/threshold_segmentmap_WM/segment_prob_2_maths.nii.gz
201113-00:58:59,616 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.seg_preproc_0.WM.threshold_segmentmap_WM".
201113-00:58:59,618 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.seg_preproc_0.WM.binarize_WM" in "/outputs/tmp/resting_preproc_sub-018_ses-1/seg_preproc_0/WM/binarize_WM".
201113-00:58:59,623 nipype.workflow INFO:
[Node] Running "binarize_WM" ("nipype.interfaces.fsl.utils.ImageMaths"), a CommandLine Interface with command:
fslmaths /outputs/tmp/resting_preproc_sub-018_ses-1/seg_preproc_0/WM/threshold_segmentmap_WM/segment_prob_2_maths.nii.gz -bin /outputs/tmp/resting_preproc_sub-018_ses-1/seg_preproc_0/WM/binarize_WM/segment_prob_2_maths_maths.nii.gz
201113-00:59:00,611 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.seg_preproc_0.WM.binarize_WM".
201113-00:59:00,612 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.seg_preproc_0.WM.erode_skullstrip_mask_WM" in "/outputs/tmp/resting_preproc_sub-018_ses-1/seg_preproc_0/WM/erode_skullstrip_mask_WM".
201113-00:59:00,619 nipype.workflow INFO:
[Node] Running "erode_skullstrip_mask_WM" ("nipype.interfaces.utility.wrappers.Function")
201113-00:59:05,478 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.seg_preproc_0.WM.erode_skullstrip_mask_WM".
201113-00:59:05,479 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.seg_preproc_0.WM.erosion_segmentmap_WM" in "/outputs/tmp/resting_preproc_sub-018_ses-1/seg_preproc_0/WM/erosion_segmentmap_WM".
201113-00:59:05,484 nipype.workflow INFO:
[Node] Running "erosion_segmentmap_WM" ("nipype.interfaces.utility.wrappers.Function")
201113-00:59:06,540 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.seg_preproc_0.WM.erosion_segmentmap_WM".
201113-00:59:06,541 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.nuisance_regressor_0_0.WhiteMatter_2mm_flirt" in "/outputs/tmp/resting_preproc_sub-018_ses-1/nuisance_regressor_0_0/_scan_conditioning_run-1/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/WhiteMatter_2mm_flirt".
201113-00:59:06,549 nipype.workflow INFO:
[Node] Running "WhiteMatter_2mm_flirt" ("nipype.interfaces.fsl.preprocess.FLIRT"), a CommandLine Interface with command:
flirt -in /outputs/tmp/resting_preproc_sub-018_ses-1/seg_preproc_0/WM/erosion_segmentmap_WM/segment_tissue_mask.nii.gz -ref /outputs/tmp/resting_preproc_sub-018_ses-1/nuisance_regressor_0_0/_scan_conditioning_run-1/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/Anatomical_2mm_flirt/sub-018_ses-1_T1w_resample_corrected_masked_xform_flirt.nii.gz -out segment_tissue_mask_flirt.nii.gz -omat segment_tissue_mask_flirt.mat -applyisoxfm 2.000000 -interp nearestneighbour
201113-00:59:07,329 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.nuisance_regressor_0_0.WhiteMatter_2mm_flirt".
201113-00:59:07,331 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.nuisance_regressor_0_0.WhiteMatter_merge_masks" in "/outputs/tmp/resting_preproc_sub-018_ses-1/nuisance_regressor_0_0/_scan_conditioning_run-1/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/WhiteMatter_merge_masks".
201113-00:59:07,335 nipype.workflow INFO:
[Node] Running "WhiteMatter_merge_masks" ("nipype.interfaces.utility.base.Merge")
201113-00:59:07,566 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.nuisance_regressor_0_0.WhiteMatter_merge_masks".
201113-00:59:07,568 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.nuisance_regressor_0_0.WhiteMatter_union_masks" in "/outputs/tmp/resting_preproc_sub-018_ses-1/nuisance_regressor_0_0/_scan_conditioning_run-1/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/WhiteMatter_union_masks".
201113-00:59:07,574 nipype.workflow INFO:
[Node] Running "WhiteMatter_union_masks" ("CPAC.utils.interfaces.masktool.MaskTool"), a CommandLine Interface with command:
3dmask_tool -prefix segment_tissue_mask_flirt_mask.nii.gz -input /outputs/tmp/resting_preproc_sub-018_ses-1/nuisance_regressor_0_0/_scan_conditioning_run-1/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/WhiteMatter_union_masks/segment_tissue_mask_flirt.nii.gz
201113-00:59:07,837 nipype.interface INFO:
stderr 2020-11-13T00:59:07.837121:++ no -frac option: defaulting to -union
201113-00:59:07,837 nipype.interface INFO:
stderr 2020-11-13T00:59:07.837846:++ processing 1 input dataset(s), NN=2...
201113-00:59:07,838 nipype.interface INFO:
stderr 2020-11-13T00:59:07.838108:++ padding all datasets by 0 (for dilations)
201113-00:59:07,876 nipype.interface INFO:
stderr 2020-11-13T00:59:07.876736:++ frac 0 over 1 volumes gives min count 0
201113-00:59:07,878 nipype.interface INFO:
stderr 2020-11-13T00:59:07.878377:++ voxel limits: 0 clipped, 9272 survived, 1547208 were zero
201113-00:59:07,878 nipype.interface INFO:
stderr 2020-11-13T00:59:07.878753:++ writing result segment_tissue_mask_flirt_mask.nii.gz...
201113-00:59:07,898 nipype.interface INFO:
stderr 2020-11-13T00:59:07.898041:++ Output dataset ./segment_tissue_mask_flirt_mask.nii.gz
201113-00:59:08,52 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.nuisance_regressor_0_0.WhiteMatter_union_masks".
201113-00:59:08,53 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.nuisance_regressor_0_0.WhiteMatter_mean" in "/outputs/tmp/resting_preproc_sub-018_ses-1/nuisance_regressor_0_0/_scan_conditioning_run-1/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/WhiteMatter_mean".
201113-00:59:08,60 nipype.workflow INFO:
[Node] Running "WhiteMatter_mean" ("nipype.interfaces.afni.preprocess.ROIStats"), a CommandLine Interface with command:
3dROIstats -mask /outputs/tmp/resting_preproc_sub-018_ses-1/nuisance_regressor_0_0/_scan_conditioning_run-1/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/WhiteMatter_union_masks/segment_tissue_mask_flirt_mask.nii.gz -1Dformat /outputs/tmp/resting_preproc_sub-018_ses-1/nuisance_regressor_0_0/_scan_conditioning_run-1/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/Functional_2mm_flirt/sub-018_ses-1_task-conditioning_run-1_bold_calc_despike_tshift_resample_mcf_calc_maths_flirt.nii.gz
201113-00:59:13,615 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.nuisance_regressor_0_0.WhiteMatter_mean".
201113-00:59:13,617 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.nuisance_regressor_0_0.WhiteMatter_2mm_flirt" in "/outputs/tmp/resting_preproc_sub-018_ses-1/nuisance_regressor_0_0/_scan_matching_run-1/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/WhiteMatter_2mm_flirt".
201113-00:59:13,624 nipype.workflow INFO:
[Node] Running "WhiteMatter_2mm_flirt" ("nipype.interfaces.fsl.preprocess.FLIRT"), a CommandLine Interface with command:
flirt -in /outputs/tmp/resting_preproc_sub-018_ses-1/seg_preproc_0/WM/erosion_segmentmap_WM/segment_tissue_mask.nii.gz -ref /outputs/tmp/resting_preproc_sub-018_ses-1/nuisance_regressor_0_0/_scan_matching_run-1/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/Anatomical_2mm_flirt/sub-018_ses-1_T1w_resample_corrected_masked_xform_flirt.nii.gz -out segment_tissue_mask_flirt.nii.gz -omat segment_tissue_mask_flirt.mat -applyisoxfm 2.000000 -interp nearestneighbour
201113-00:59:14,376 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.nuisance_regressor_0_0.WhiteMatter_2mm_flirt".
201113-00:59:14,377 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.nuisance_regressor_0_0.WhiteMatter_merge_masks" in "/outputs/tmp/resting_preproc_sub-018_ses-1/nuisance_regressor_0_0/_scan_matching_run-1/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/WhiteMatter_merge_masks".
201113-00:59:14,382 nipype.workflow INFO:
[Node] Running "WhiteMatter_merge_masks" ("nipype.interfaces.utility.base.Merge")
201113-00:59:14,614 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.nuisance_regressor_0_0.WhiteMatter_merge_masks".
201113-00:59:14,616 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.nuisance_regressor_0_0.WhiteMatter_union_masks" in "/outputs/tmp/resting_preproc_sub-018_ses-1/nuisance_regressor_0_0/_scan_matching_run-1/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/WhiteMatter_union_masks".
201113-00:59:14,622 nipype.workflow INFO:
[Node] Running "WhiteMatter_union_masks" ("CPAC.utils.interfaces.masktool.MaskTool"), a CommandLine Interface with command:
3dmask_tool -prefix segment_tissue_mask_flirt_mask.nii.gz -input /outputs/tmp/resting_preproc_sub-018_ses-1/nuisance_regressor_0_0/_scan_matching_run-1/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/WhiteMatter_union_masks/segment_tissue_mask_flirt.nii.gz
201113-00:59:14,886 nipype.interface INFO:
stderr 2020-11-13T00:59:14.886803:++ no -frac option: defaulting to -union
201113-00:59:14,887 nipype.interface INFO:
stderr 2020-11-13T00:59:14.887202:++ processing 1 input dataset(s), NN=2...
201113-00:59:14,887 nipype.interface INFO:
stderr 2020-11-13T00:59:14.887392:++ padding all datasets by 0 (for dilations)
201113-00:59:14,926 nipype.interface INFO:
stderr 2020-11-13T00:59:14.926313:++ frac 0 over 1 volumes gives min count 0
201113-00:59:14,927 nipype.interface INFO:
stderr 2020-11-13T00:59:14.927965:++ voxel limits: 0 clipped, 9272 survived, 1547208 were zero
201113-00:59:14,928 nipype.interface INFO:
stderr 2020-11-13T00:59:14.928157:++ writing result segment_tissue_mask_flirt_mask.nii.gz...
201113-00:59:14,948 nipype.interface INFO:
stderr 2020-11-13T00:59:14.948307:++ Output dataset ./segment_tissue_mask_flirt_mask.nii.gz
201113-00:59:15,108 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.nuisance_regressor_0_0.WhiteMatter_union_masks".
201113-00:59:15,110 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.nuisance_regressor_0_0.WhiteMatter_mean" in "/outputs/tmp/resting_preproc_sub-018_ses-1/nuisance_regressor_0_0/_scan_matching_run-1/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/WhiteMatter_mean".
201113-00:59:15,117 nipype.workflow INFO:
[Node] Running "WhiteMatter_mean" ("nipype.interfaces.afni.preprocess.ROIStats"), a CommandLine Interface with command:
3dROIstats -mask /outputs/tmp/resting_preproc_sub-018_ses-1/nuisance_regressor_0_0/_scan_matching_run-1/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/WhiteMatter_union_masks/segment_tissue_mask_flirt_mask.nii.gz -1Dformat /outputs/tmp/resting_preproc_sub-018_ses-1/nuisance_regressor_0_0/_scan_matching_run-1/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/Functional_2mm_flirt/sub-018_ses-1_task-matching_run-1_bold_calc_despike_tshift_resample_mcf_calc_maths_flirt.nii.gz
201113-00:59:18,881 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.nuisance_regressor_0_0.WhiteMatter_mean".
201113-00:59:18,883 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.nuisance_regressor_0_0.WhiteMatter_2mm_flirt" in "/outputs/tmp/resting_preproc_sub-018_ses-1/nuisance_regressor_0_0/_scan_matching_run-2/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/WhiteMatter_2mm_flirt".
201113-00:59:18,890 nipype.workflow INFO:
[Node] Running "WhiteMatter_2mm_flirt" ("nipype.interfaces.fsl.preprocess.FLIRT"), a CommandLine Interface with command:
flirt -in /outputs/tmp/resting_preproc_sub-018_ses-1/seg_preproc_0/WM/erosion_segmentmap_WM/segment_tissue_mask.nii.gz -ref /outputs/tmp/resting_preproc_sub-018_ses-1/nuisance_regressor_0_0/_scan_matching_run-2/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/Anatomical_2mm_flirt/sub-018_ses-1_T1w_resample_corrected_masked_xform_flirt.nii.gz -out segment_tissue_mask_flirt.nii.gz -omat segment_tissue_mask_flirt.mat -applyisoxfm 2.000000 -interp nearestneighbour
201113-00:59:19,645 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.nuisance_regressor_0_0.WhiteMatter_2mm_flirt".
201113-00:59:19,647 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.nuisance_regressor_0_0.WhiteMatter_merge_masks" in "/outputs/tmp/resting_preproc_sub-018_ses-1/nuisance_regressor_0_0/_scan_matching_run-2/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/WhiteMatter_merge_masks".
201113-00:59:19,651 nipype.workflow INFO:
[Node] Running "WhiteMatter_merge_masks" ("nipype.interfaces.utility.base.Merge")
201113-00:59:19,878 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.nuisance_regressor_0_0.WhiteMatter_merge_masks".
201113-00:59:19,880 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.nuisance_regressor_0_0.WhiteMatter_union_masks" in "/outputs/tmp/resting_preproc_sub-018_ses-1/nuisance_regressor_0_0/_scan_matching_run-2/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/WhiteMatter_union_masks".
201113-00:59:19,886 nipype.workflow INFO:
[Node] Running "WhiteMatter_union_masks" ("CPAC.utils.interfaces.masktool.MaskTool"), a CommandLine Interface with command:
3dmask_tool -prefix segment_tissue_mask_flirt_mask.nii.gz -input /outputs/tmp/resting_preproc_sub-018_ses-1/nuisance_regressor_0_0/_scan_matching_run-2/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/WhiteMatter_union_masks/segment_tissue_mask_flirt.nii.gz
201113-00:59:20,140 nipype.interface INFO:
stderr 2020-11-13T00:59:20.140761:++ no -frac option: defaulting to -union
201113-00:59:20,141 nipype.interface INFO:
stderr 2020-11-13T00:59:20.141199:++ processing 1 input dataset(s), NN=2...
201113-00:59:20,141 nipype.interface INFO:
stderr 2020-11-13T00:59:20.141419:++ padding all datasets by 0 (for dilations)
201113-00:59:20,180 nipype.interface INFO:
stderr 2020-11-13T00:59:20.179981:++ frac 0 over 1 volumes gives min count 0
201113-00:59:20,181 nipype.interface INFO:
stderr 2020-11-13T00:59:20.181600:++ voxel limits: 0 clipped, 9272 survived, 1547208 were zero
201113-00:59:20,181 nipype.interface INFO:
stderr 2020-11-13T00:59:20.181772:++ writing result segment_tissue_mask_flirt_mask.nii.gz...
201113-00:59:20,199 nipype.interface INFO:
stderr 2020-11-13T00:59:20.199904:++ Output dataset ./segment_tissue_mask_flirt_mask.nii.gz
201113-00:59:20,369 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.nuisance_regressor_0_0.WhiteMatter_union_masks".
201113-00:59:20,371 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.nuisance_regressor_0_0.WhiteMatter_mean" in "/outputs/tmp/resting_preproc_sub-018_ses-1/nuisance_regressor_0_0/_scan_matching_run-2/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/WhiteMatter_mean".
201113-00:59:20,378 nipype.workflow INFO:
[Node] Running "WhiteMatter_mean" ("nipype.interfaces.afni.preprocess.ROIStats"), a CommandLine Interface with command:
3dROIstats -mask /outputs/tmp/resting_preproc_sub-018_ses-1/nuisance_regressor_0_0/_scan_matching_run-2/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/WhiteMatter_union_masks/segment_tissue_mask_flirt_mask.nii.gz -1Dformat /outputs/tmp/resting_preproc_sub-018_ses-1/nuisance_regressor_0_0/_scan_matching_run-2/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/Functional_2mm_flirt/sub-018_ses-1_task-matching_run-2_bold_calc_despike_tshift_resample_mcf_calc_maths_flirt.nii.gz
201113-00:59:24,172 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.nuisance_regressor_0_0.WhiteMatter_mean".
201113-00:59:24,174 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.nuisance_regressor_0_0.WhiteMatter_2mm_flirt" in "/outputs/tmp/resting_preproc_sub-018_ses-1/nuisance_regressor_0_0/_scan_matching_run-3/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/WhiteMatter_2mm_flirt".
201113-00:59:24,182 nipype.workflow INFO:
[Node] Running "WhiteMatter_2mm_flirt" ("nipype.interfaces.fsl.preprocess.FLIRT"), a CommandLine Interface with command:
flirt -in /outputs/tmp/resting_preproc_sub-018_ses-1/seg_preproc_0/WM/erosion_segmentmap_WM/segment_tissue_mask.nii.gz -ref /outputs/tmp/resting_preproc_sub-018_ses-1/nuisance_regressor_0_0/_scan_matching_run-3/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/Anatomical_2mm_flirt/sub-018_ses-1_T1w_resample_corrected_masked_xform_flirt.nii.gz -out segment_tissue_mask_flirt.nii.gz -omat segment_tissue_mask_flirt.mat -applyisoxfm 2.000000 -interp nearestneighbour
201113-00:59:24,940 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.nuisance_regressor_0_0.WhiteMatter_2mm_flirt".
201113-00:59:24,941 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.nuisance_regressor_0_0.WhiteMatter_merge_masks" in "/outputs/tmp/resting_preproc_sub-018_ses-1/nuisance_regressor_0_0/_scan_matching_run-3/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/WhiteMatter_merge_masks".
201113-00:59:24,946 nipype.workflow INFO:
[Node] Running "WhiteMatter_merge_masks" ("nipype.interfaces.utility.base.Merge")
201113-00:59:25,176 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.nuisance_regressor_0_0.WhiteMatter_merge_masks".
201113-00:59:25,178 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.nuisance_regressor_0_0.WhiteMatter_union_masks" in "/outputs/tmp/resting_preproc_sub-018_ses-1/nuisance_regressor_0_0/_scan_matching_run-3/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/WhiteMatter_union_masks".
201113-00:59:25,184 nipype.workflow INFO:
[Node] Running "WhiteMatter_union_masks" ("CPAC.utils.interfaces.masktool.MaskTool"), a CommandLine Interface with command:
3dmask_tool -prefix segment_tissue_mask_flirt_mask.nii.gz -input /outputs/tmp/resting_preproc_sub-018_ses-1/nuisance_regressor_0_0/_scan_matching_run-3/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/WhiteMatter_union_masks/segment_tissue_mask_flirt.nii.gz
201113-00:59:25,438 nipype.interface INFO:
stderr 2020-11-13T00:59:25.438854:++ no -frac option: defaulting to -union
201113-00:59:25,439 nipype.interface INFO:
stderr 2020-11-13T00:59:25.439235:++ processing 1 input dataset(s), NN=2...
201113-00:59:25,439 nipype.interface INFO:
stderr 2020-11-13T00:59:25.439400:++ padding all datasets by 0 (for dilations)
201113-00:59:25,479 nipype.interface INFO:
stderr 2020-11-13T00:59:25.479166:++ frac 0 over 1 volumes gives min count 0
201113-00:59:25,480 nipype.interface INFO:
stderr 2020-11-13T00:59:25.480955:++ voxel limits: 0 clipped, 9272 survived, 1547208 were zero
201113-00:59:25,481 nipype.interface INFO:
stderr 2020-11-13T00:59:25.481128:++ writing result segment_tissue_mask_flirt_mask.nii.gz...
201113-00:59:25,499 nipype.interface INFO:
stderr 2020-11-13T00:59:25.499624:++ Output dataset ./segment_tissue_mask_flirt_mask.nii.gz
201113-00:59:25,660 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.nuisance_regressor_0_0.WhiteMatter_union_masks".
201113-00:59:25,662 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.nuisance_regressor_0_0.WhiteMatter_mean" in "/outputs/tmp/resting_preproc_sub-018_ses-1/nuisance_regressor_0_0/_scan_matching_run-3/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/WhiteMatter_mean".
201113-00:59:25,669 nipype.workflow INFO:
[Node] Running "WhiteMatter_mean" ("nipype.interfaces.afni.preprocess.ROIStats"), a CommandLine Interface with command:
3dROIstats -mask /outputs/tmp/resting_preproc_sub-018_ses-1/nuisance_regressor_0_0/_scan_matching_run-3/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/WhiteMatter_union_masks/segment_tissue_mask_flirt_mask.nii.gz -1Dformat /outputs/tmp/resting_preproc_sub-018_ses-1/nuisance_regressor_0_0/_scan_matching_run-3/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/Functional_2mm_flirt/sub-018_ses-1_task-matching_run-3_bold_calc_despike_tshift_resample_mcf_calc_maths_flirt.nii.gz
201113-00:59:29,433 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.nuisance_regressor_0_0.WhiteMatter_mean".
201113-00:59:29,434 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.nuisance_regressor_0_0.WhiteMatter_2mm_flirt" in "/outputs/tmp/resting_preproc_sub-018_ses-1/nuisance_regressor_0_0/_scan_ms_run-1/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/WhiteMatter_2mm_flirt".
201113-00:59:29,442 nipype.workflow INFO:
[Node] Running "WhiteMatter_2mm_flirt" ("nipype.interfaces.fsl.preprocess.FLIRT"), a CommandLine Interface with command:
flirt -in /outputs/tmp/resting_preproc_sub-018_ses-1/seg_preproc_0/WM/erosion_segmentmap_WM/segment_tissue_mask.nii.gz -ref /outputs/tmp/resting_preproc_sub-018_ses-1/nuisance_regressor_0_0/_scan_ms_run-1/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/Anatomical_2mm_flirt/sub-018_ses-1_T1w_resample_corrected_masked_xform_flirt.nii.gz -out segment_tissue_mask_flirt.nii.gz -omat segment_tissue_mask_flirt.mat -applyisoxfm 2.000000 -interp nearestneighbour
201113-00:59:30,199 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.nuisance_regressor_0_0.WhiteMatter_2mm_flirt".
201113-00:59:30,201 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.nuisance_regressor_0_0.WhiteMatter_merge_masks" in "/outputs/tmp/resting_preproc_sub-018_ses-1/nuisance_regressor_0_0/_scan_ms_run-1/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/WhiteMatter_merge_masks".
201113-00:59:30,205 nipype.workflow INFO:
[Node] Running "WhiteMatter_merge_masks" ("nipype.interfaces.utility.base.Merge")
201113-00:59:30,434 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.nuisance_regressor_0_0.WhiteMatter_merge_masks".
201113-00:59:30,435 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.nuisance_regressor_0_0.WhiteMatter_union_masks" in "/outputs/tmp/resting_preproc_sub-018_ses-1/nuisance_regressor_0_0/_scan_ms_run-1/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/WhiteMatter_union_masks".
201113-00:59:30,441 nipype.workflow INFO:
[Node] Running "WhiteMatter_union_masks" ("CPAC.utils.interfaces.masktool.MaskTool"), a CommandLine Interface with command:
3dmask_tool -prefix segment_tissue_mask_flirt_mask.nii.gz -input /outputs/tmp/resting_preproc_sub-018_ses-1/nuisance_regressor_0_0/_scan_ms_run-1/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/WhiteMatter_union_masks/segment_tissue_mask_flirt.nii.gz
201113-00:59:30,691 nipype.interface INFO:
stderr 2020-11-13T00:59:30.690926:++ no -frac option: defaulting to -union
201113-00:59:30,691 nipype.interface INFO:
stderr 2020-11-13T00:59:30.691326:++ processing 1 input dataset(s), NN=2...
201113-00:59:30,691 nipype.interface INFO:
stderr 2020-11-13T00:59:30.691492:++ padding all datasets by 0 (for dilations)
201113-00:59:30,730 nipype.interface INFO:
stderr 2020-11-13T00:59:30.730743:++ frac 0 over 1 volumes gives min count 0
201113-00:59:30,732 nipype.interface INFO:
stderr 2020-11-13T00:59:30.732361:++ voxel limits: 0 clipped, 9272 survived, 1547208 were zero
201113-00:59:30,732 nipype.interface INFO:
stderr 2020-11-13T00:59:30.732541:++ writing result segment_tissue_mask_flirt_mask.nii.gz...
201113-00:59:30,751 nipype.interface INFO:
stderr 2020-11-13T00:59:30.751101:++ Output dataset ./segment_tissue_mask_flirt_mask.nii.gz
201113-00:59:30,908 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.nuisance_regressor_0_0.WhiteMatter_union_masks".
201113-00:59:30,910 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.nuisance_regressor_0_0.WhiteMatter_mean" in "/outputs/tmp/resting_preproc_sub-018_ses-1/nuisance_regressor_0_0/_scan_ms_run-1/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/WhiteMatter_mean".
201113-00:59:30,917 nipype.workflow INFO:
[Node] Running "WhiteMatter_mean" ("nipype.interfaces.afni.preprocess.ROIStats"), a CommandLine Interface with command:
3dROIstats -mask /outputs/tmp/resting_preproc_sub-018_ses-1/nuisance_regressor_0_0/_scan_ms_run-1/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/WhiteMatter_union_masks/segment_tissue_mask_flirt_mask.nii.gz -1Dformat /outputs/tmp/resting_preproc_sub-018_ses-1/nuisance_regressor_0_0/_scan_ms_run-1/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/Functional_2mm_flirt/sub-018_ses-1_task-ms_run-1_bold_calc_despike_tshift_resample_mcf_calc_maths_flirt.nii.gz
201113-00:59:36,193 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.nuisance_regressor_0_0.WhiteMatter_mean".
201113-00:59:36,195 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.nuisance_regressor_0_0.WhiteMatter_2mm_flirt" in "/outputs/tmp/resting_preproc_sub-018_ses-1/nuisance_regressor_0_0/_scan_rest_run-1/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/WhiteMatter_2mm_flirt".
201113-00:59:36,225 nipype.workflow INFO:
[Node] Running "WhiteMatter_2mm_flirt" ("nipype.interfaces.fsl.preprocess.FLIRT"), a CommandLine Interface with command:
flirt -in /outputs/tmp/resting_preproc_sub-018_ses-1/seg_preproc_0/WM/erosion_segmentmap_WM/segment_tissue_mask.nii.gz -ref /outputs/tmp/resting_preproc_sub-018_ses-1/nuisance_regressor_0_0/_scan_rest_run-1/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/Anatomical_2mm_flirt/sub-018_ses-1_T1w_resample_corrected_masked_xform_flirt.nii.gz -out segment_tissue_mask_flirt.nii.gz -omat segment_tissue_mask_flirt.mat -applyisoxfm 2.000000 -interp nearestneighbour
201113-00:59:36,986 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.nuisance_regressor_0_0.WhiteMatter_2mm_flirt".
201113-00:59:36,988 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.nuisance_regressor_0_0.WhiteMatter_merge_masks" in "/outputs/tmp/resting_preproc_sub-018_ses-1/nuisance_regressor_0_0/_scan_rest_run-1/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/WhiteMatter_merge_masks".
201113-00:59:36,992 nipype.workflow INFO:
[Node] Running "WhiteMatter_merge_masks" ("nipype.interfaces.utility.base.Merge")
201113-00:59:37,222 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.nuisance_regressor_0_0.WhiteMatter_merge_masks".
201113-00:59:37,223 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.nuisance_regressor_0_0.WhiteMatter_union_masks" in "/outputs/tmp/resting_preproc_sub-018_ses-1/nuisance_regressor_0_0/_scan_rest_run-1/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/WhiteMatter_union_masks".
201113-00:59:37,230 nipype.workflow INFO:
[Node] Running "WhiteMatter_union_masks" ("CPAC.utils.interfaces.masktool.MaskTool"), a CommandLine Interface with command:
3dmask_tool -prefix segment_tissue_mask_flirt_mask.nii.gz -input /outputs/tmp/resting_preproc_sub-018_ses-1/nuisance_regressor_0_0/_scan_rest_run-1/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/WhiteMatter_union_masks/segment_tissue_mask_flirt.nii.gz
201113-00:59:37,485 nipype.interface INFO:
stderr 2020-11-13T00:59:37.485291:++ no -frac option: defaulting to -union
201113-00:59:37,486 nipype.interface INFO:
stderr 2020-11-13T00:59:37.486831:++ processing 1 input dataset(s), NN=2...
201113-00:59:37,487 nipype.interface INFO:
stderr 2020-11-13T00:59:37.486831:++ padding all datasets by 0 (for dilations)
201113-00:59:37,528 nipype.interface INFO:
stderr 2020-11-13T00:59:37.528088:++ frac 0 over 1 volumes gives min count 0
201113-00:59:37,529 nipype.interface INFO:
stderr 2020-11-13T00:59:37.529711:++ voxel limits: 0 clipped, 9272 survived, 1547208 were zero
201113-00:59:37,529 nipype.interface INFO:
stderr 2020-11-13T00:59:37.529881:++ writing result segment_tissue_mask_flirt_mask.nii.gz...
201113-00:59:37,547 nipype.interface INFO:
stderr 2020-11-13T00:59:37.547203:++ Output dataset ./segment_tissue_mask_flirt_mask.nii.gz
201113-00:59:37,707 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.nuisance_regressor_0_0.WhiteMatter_union_masks".
201113-00:59:37,709 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.nuisance_regressor_0_0.WhiteMatter_mean" in "/outputs/tmp/resting_preproc_sub-018_ses-1/nuisance_regressor_0_0/_scan_rest_run-1/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/WhiteMatter_mean".
201113-00:59:37,747 nipype.workflow INFO:
[Node] Running "WhiteMatter_mean" ("nipype.interfaces.afni.preprocess.ROIStats"), a CommandLine Interface with command:
3dROIstats -mask /outputs/tmp/resting_preproc_sub-018_ses-1/nuisance_regressor_0_0/_scan_rest_run-1/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/WhiteMatter_union_masks/segment_tissue_mask_flirt_mask.nii.gz -1Dformat /outputs/tmp/resting_preproc_sub-018_ses-1/nuisance_regressor_0_0/_scan_rest_run-1/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/Functional_2mm_flirt/sub-018_ses-1_task-rest_run-1_bold_calc_despike_tshift_resample_mcf_calc_maths_flirt.nii.gz
201113-00:59:44,248 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.nuisance_regressor_0_0.WhiteMatter_mean".
201113-00:59:44,249 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.nuisance_regressor_0_0.WhiteMatter_2mm_flirt" in "/outputs/tmp/resting_preproc_sub-018_ses-1/nuisance_regressor_0_0/_scan_tgng_run-1/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/WhiteMatter_2mm_flirt".
201113-00:59:44,256 nipype.workflow INFO:
[Node] Running "WhiteMatter_2mm_flirt" ("nipype.interfaces.fsl.preprocess.FLIRT"), a CommandLine Interface with command:
flirt -in /outputs/tmp/resting_preproc_sub-018_ses-1/seg_preproc_0/WM/erosion_segmentmap_WM/segment_tissue_mask.nii.gz -ref /outputs/tmp/resting_preproc_sub-018_ses-1/nuisance_regressor_0_0/_scan_tgng_run-1/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/Anatomical_2mm_flirt/sub-018_ses-1_T1w_resample_corrected_masked_xform_flirt.nii.gz -out segment_tissue_mask_flirt.nii.gz -omat segment_tissue_mask_flirt.mat -applyisoxfm 2.000000 -interp nearestneighbour
201113-00:59:45,21 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.nuisance_regressor_0_0.WhiteMatter_2mm_flirt".
201113-00:59:45,23 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.nuisance_regressor_0_0.WhiteMatter_merge_masks" in "/outputs/tmp/resting_preproc_sub-018_ses-1/nuisance_regressor_0_0/_scan_tgng_run-1/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/WhiteMatter_merge_masks".
201113-00:59:45,27 nipype.workflow INFO:
[Node] Running "WhiteMatter_merge_masks" ("nipype.interfaces.utility.base.Merge")
201113-00:59:45,256 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.nuisance_regressor_0_0.WhiteMatter_merge_masks".
201113-00:59:45,257 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.nuisance_regressor_0_0.WhiteMatter_union_masks" in "/outputs/tmp/resting_preproc_sub-018_ses-1/nuisance_regressor_0_0/_scan_tgng_run-1/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/WhiteMatter_union_masks".
201113-00:59:45,264 nipype.workflow INFO:
[Node] Running "WhiteMatter_union_masks" ("CPAC.utils.interfaces.masktool.MaskTool"), a CommandLine Interface with command:
3dmask_tool -prefix segment_tissue_mask_flirt_mask.nii.gz -input /outputs/tmp/resting_preproc_sub-018_ses-1/nuisance_regressor_0_0/_scan_tgng_run-1/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/WhiteMatter_union_masks/segment_tissue_mask_flirt.nii.gz
201113-00:59:45,521 nipype.interface INFO:
stderr 2020-11-13T00:59:45.521692:++ no -frac option: defaulting to -union
201113-00:59:45,522 nipype.interface INFO:
stderr 2020-11-13T00:59:45.522055:++ processing 1 input dataset(s), NN=2...
201113-00:59:45,522 nipype.interface INFO:
stderr 2020-11-13T00:59:45.522213:++ padding all datasets by 0 (for dilations)
201113-00:59:45,562 nipype.interface INFO:
stderr 2020-11-13T00:59:45.562306:++ frac 0 over 1 volumes gives min count 0
201113-00:59:45,563 nipype.interface INFO:
stderr 2020-11-13T00:59:45.563930:++ voxel limits: 0 clipped, 9272 survived, 1547208 were zero
201113-00:59:45,564 nipype.interface INFO:
stderr 2020-11-13T00:59:45.564103:++ writing result segment_tissue_mask_flirt_mask.nii.gz...
201113-00:59:45,582 nipype.interface INFO:
stderr 2020-11-13T00:59:45.582868:++ Output dataset ./segment_tissue_mask_flirt_mask.nii.gz
201113-00:59:45,740 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.nuisance_regressor_0_0.WhiteMatter_union_masks".
201113-00:59:45,741 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.nuisance_regressor_0_0.WhiteMatter_mean" in "/outputs/tmp/resting_preproc_sub-018_ses-1/nuisance_regressor_0_0/_scan_tgng_run-1/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/WhiteMatter_mean".
201113-00:59:45,747 nipype.workflow INFO:
[Node] Running "WhiteMatter_mean" ("nipype.interfaces.afni.preprocess.ROIStats"), a CommandLine Interface with command:
3dROIstats -mask /outputs/tmp/resting_preproc_sub-018_ses-1/nuisance_regressor_0_0/_scan_tgng_run-1/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/WhiteMatter_union_masks/segment_tissue_mask_flirt_mask.nii.gz -1Dformat /outputs/tmp/resting_preproc_sub-018_ses-1/nuisance_regressor_0_0/_scan_tgng_run-1/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/Functional_2mm_flirt/sub-018_ses-1_task-tgng_run-1_bold_calc_despike_tshift_resample_mcf_calc_maths_flirt.nii.gz
201113-00:59:50,596 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.nuisance_regressor_0_0.WhiteMatter_mean".
201113-00:59:50,597 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.nuisance_regressor_0_0.WhiteMatter_2mm_flirt" in "/outputs/tmp/resting_preproc_sub-018_ses-1/nuisance_regressor_0_0/_scan_tgng_run-2/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/WhiteMatter_2mm_flirt".
201113-00:59:50,603 nipype.workflow INFO:
[Node] Running "WhiteMatter_2mm_flirt" ("nipype.interfaces.fsl.preprocess.FLIRT"), a CommandLine Interface with command:
flirt -in /outputs/tmp/resting_preproc_sub-018_ses-1/seg_preproc_0/WM/erosion_segmentmap_WM/segment_tissue_mask.nii.gz -ref /outputs/tmp/resting_preproc_sub-018_ses-1/nuisance_regressor_0_0/_scan_tgng_run-2/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/Anatomical_2mm_flirt/sub-018_ses-1_T1w_resample_corrected_masked_xform_flirt.nii.gz -out segment_tissue_mask_flirt.nii.gz -omat segment_tissue_mask_flirt.mat -applyisoxfm 2.000000 -interp nearestneighbour
201113-00:59:51,364 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.nuisance_regressor_0_0.WhiteMatter_2mm_flirt".
201113-00:59:51,366 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.nuisance_regressor_0_0.WhiteMatter_merge_masks" in "/outputs/tmp/resting_preproc_sub-018_ses-1/nuisance_regressor_0_0/_scan_tgng_run-2/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/WhiteMatter_merge_masks".
201113-00:59:51,370 nipype.workflow INFO:
[Node] Running "WhiteMatter_merge_masks" ("nipype.interfaces.utility.base.Merge")
201113-00:59:51,599 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.nuisance_regressor_0_0.WhiteMatter_merge_masks".
201113-00:59:51,600 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.nuisance_regressor_0_0.WhiteMatter_union_masks" in "/outputs/tmp/resting_preproc_sub-018_ses-1/nuisance_regressor_0_0/_scan_tgng_run-2/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/WhiteMatter_union_masks".
201113-00:59:51,607 nipype.workflow INFO:
[Node] Running "WhiteMatter_union_masks" ("CPAC.utils.interfaces.masktool.MaskTool"), a CommandLine Interface with command:
3dmask_tool -prefix segment_tissue_mask_flirt_mask.nii.gz -input /outputs/tmp/resting_preproc_sub-018_ses-1/nuisance_regressor_0_0/_scan_tgng_run-2/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/WhiteMatter_union_masks/segment_tissue_mask_flirt.nii.gz
201113-00:59:51,866 nipype.interface INFO:
stderr 2020-11-13T00:59:51.866340:++ no -frac option: defaulting to -union
201113-00:59:51,867 nipype.interface INFO:
stderr 2020-11-13T00:59:51.867055:++ processing 1 input dataset(s), NN=2...
201113-00:59:51,867 nipype.interface INFO:
stderr 2020-11-13T00:59:51.867310:++ padding all datasets by 0 (for dilations)
201113-00:59:51,905 nipype.interface INFO:
stderr 2020-11-13T00:59:51.905026:++ frac 0 over 1 volumes gives min count 0
201113-00:59:51,906 nipype.interface INFO:
stderr 2020-11-13T00:59:51.906652:++ voxel limits: 0 clipped, 9272 survived, 1547208 were zero
201113-00:59:51,906 nipype.interface INFO:
stderr 2020-11-13T00:59:51.906827:++ writing result segment_tissue_mask_flirt_mask.nii.gz...
201113-00:59:51,926 nipype.interface INFO:
stderr 2020-11-13T00:59:51.926167:++ Output dataset ./segment_tissue_mask_flirt_mask.nii.gz
201113-00:59:52,83 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.nuisance_regressor_0_0.WhiteMatter_union_masks".
201113-00:59:52,85 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.nuisance_regressor_0_0.WhiteMatter_mean" in "/outputs/tmp/resting_preproc_sub-018_ses-1/nuisance_regressor_0_0/_scan_tgng_run-2/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/WhiteMatter_mean".
201113-00:59:52,91 nipype.workflow INFO:
[Node] Running "WhiteMatter_mean" ("nipype.interfaces.afni.preprocess.ROIStats"), a CommandLine Interface with command:
3dROIstats -mask /outputs/tmp/resting_preproc_sub-018_ses-1/nuisance_regressor_0_0/_scan_tgng_run-2/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/WhiteMatter_union_masks/segment_tissue_mask_flirt_mask.nii.gz -1Dformat /outputs/tmp/resting_preproc_sub-018_ses-1/nuisance_regressor_0_0/_scan_tgng_run-2/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/Functional_2mm_flirt/sub-018_ses-1_task-tgng_run-2_bold_calc_despike_tshift_resample_mcf_calc_maths_flirt.nii.gz
201113-00:59:56,911 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.nuisance_regressor_0_0.WhiteMatter_mean".
201113-00:59:56,912 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.montage_csf_gm_wm_0.resample_o_wm" in "/outputs/tmp/resting_preproc_sub-018_ses-1/montage_csf_gm_wm_0/resample_o_wm".
201113-00:59:56,916 nipype.workflow INFO:
[Node] Running "resample_o_wm" ("CPAC.utils.interfaces.function.Function")
201113-00:59:57,713 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.montage_csf_gm_wm_0.resample_o_wm".
201113-00:59:57,715 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.sinker_0_anatomical_wm_mask" in "/outputs/tmp/resting_preproc_sub-018_ses-1/sinker_0_anatomical_wm_mask".
201113-00:59:57,722 nipype.workflow INFO:
[Node] Running "sinker_0_anatomical_wm_mask" ("CPAC.utils.interfaces.datasink.DataSink")
201113-00:59:57,953 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.sinker_0_anatomical_wm_mask".
201113-00:59:57,954 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.seg_preproc_0.CSF.threshold_segmentmap_CSF" in "/outputs/tmp/resting_preproc_sub-018_ses-1/seg_preproc_0/CSF/threshold_segmentmap_CSF".
201113-00:59:57,962 nipype.workflow INFO:
[Node] Running "threshold_segmentmap_CSF" ("nipype.interfaces.fsl.utils.ImageMaths"), a CommandLine Interface with command:
fslmaths /outputs/tmp/resting_preproc_sub-018_ses-1/seg_preproc_0/segment/segment_prob_0.nii.gz -thr 0.950000 /outputs/tmp/resting_preproc_sub-018_ses-1/seg_preproc_0/CSF/threshold_segmentmap_CSF/segment_prob_0_maths.nii.gz
201113-00:59:58,963 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.seg_preproc_0.CSF.threshold_segmentmap_CSF".
201113-00:59:58,965 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.seg_preproc_0.CSF.binarize_CSF" in "/outputs/tmp/resting_preproc_sub-018_ses-1/seg_preproc_0/CSF/binarize_CSF".
201113-00:59:58,971 nipype.workflow INFO:
[Node] Running "binarize_CSF" ("nipype.interfaces.fsl.utils.ImageMaths"), a CommandLine Interface with command:
fslmaths /outputs/tmp/resting_preproc_sub-018_ses-1/seg_preproc_0/CSF/threshold_segmentmap_CSF/segment_prob_0_maths.nii.gz -bin /outputs/tmp/resting_preproc_sub-018_ses-1/seg_preproc_0/CSF/binarize_CSF/segment_prob_0_maths_maths.nii.gz
201113-00:59:59,957 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.seg_preproc_0.CSF.binarize_CSF".
201113-00:59:59,958 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.erode_skullstrip_brain_mask" in "/outputs/tmp/resting_preproc_sub-018_ses-1/erode_skullstrip_brain_mask".
201113-00:59:59,963 nipype.workflow INFO:
[Node] Running "erode_skullstrip_brain_mask" ("nipype.interfaces.utility.wrappers.Function")
201113-01:00:01,433 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.erode_skullstrip_brain_mask".
201113-01:00:01,435 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.seg_preproc_0.CSF.erode_skullstrip_mask_CSF" in "/outputs/tmp/resting_preproc_sub-018_ses-1/seg_preproc_0/CSF/erode_skullstrip_mask_CSF".
201113-01:00:01,441 nipype.workflow INFO:
[Node] Running "erode_skullstrip_mask_CSF" ("nipype.interfaces.utility.wrappers.Function")
201113-01:00:02,922 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.seg_preproc_0.CSF.erode_skullstrip_mask_CSF".
201113-01:00:02,923 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.seg_preproc_0.CSF.erosion_segmentmap_CSF" in "/outputs/tmp/resting_preproc_sub-018_ses-1/seg_preproc_0/CSF/erosion_segmentmap_CSF".
201113-01:00:02,928 nipype.workflow INFO:
[Node] Running "erosion_segmentmap_CSF" ("nipype.interfaces.utility.wrappers.Function")
201113-01:00:03,497 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.seg_preproc_0.CSF.erosion_segmentmap_CSF".
201113-01:00:03,498 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.nuisance_regressor_0_0.CerebrospinalFluid_2mm_flirt" in "/outputs/tmp/resting_preproc_sub-018_ses-1/nuisance_regressor_0_0/_scan_conditioning_run-1/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/CerebrospinalFluid_2mm_flirt".
201113-01:00:03,506 nipype.workflow INFO:
[Node] Running "CerebrospinalFluid_2mm_flirt" ("nipype.interfaces.fsl.preprocess.FLIRT"), a CommandLine Interface with command:
flirt -in /outputs/tmp/resting_preproc_sub-018_ses-1/seg_preproc_0/CSF/erosion_segmentmap_CSF/segment_tissue_mask.nii.gz -ref /outputs/tmp/resting_preproc_sub-018_ses-1/nuisance_regressor_0_0/_scan_conditioning_run-1/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/Anatomical_2mm_flirt/sub-018_ses-1_T1w_resample_corrected_masked_xform_flirt.nii.gz -out segment_tissue_mask_flirt.nii.gz -omat segment_tissue_mask_flirt.mat -applyisoxfm 2.000000 -interp nearestneighbour
201113-01:00:04,280 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.nuisance_regressor_0_0.CerebrospinalFluid_2mm_flirt".
201113-01:00:04,282 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.nuisance_regressor_0_0.CerebrospinalFluid_merge_masks" in "/outputs/tmp/resting_preproc_sub-018_ses-1/nuisance_regressor_0_0/_scan_conditioning_run-1/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/CerebrospinalFluid_merge_masks".
201113-01:00:04,286 nipype.workflow INFO:
[Node] Running "CerebrospinalFluid_merge_masks" ("nipype.interfaces.utility.base.Merge")
201113-01:00:04,517 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.nuisance_regressor_0_0.CerebrospinalFluid_merge_masks".
201113-01:00:04,518 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.nuisance_regressor_0_0.CerebrospinalFluid_union_masks" in "/outputs/tmp/resting_preproc_sub-018_ses-1/nuisance_regressor_0_0/_scan_conditioning_run-1/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/CerebrospinalFluid_union_masks".
201113-01:00:04,524 nipype.workflow INFO:
[Node] Running "CerebrospinalFluid_union_masks" ("CPAC.utils.interfaces.masktool.MaskTool"), a CommandLine Interface with command:
3dmask_tool -prefix segment_tissue_mask_flirt_mask.nii.gz -input /outputs/tmp/resting_preproc_sub-018_ses-1/nuisance_regressor_0_0/_scan_conditioning_run-1/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/CerebrospinalFluid_union_masks/segment_tissue_mask_flirt.nii.gz
201113-01:00:04,783 nipype.interface INFO:
stderr 2020-11-13T01:00:04.783759:++ no -frac option: defaulting to -union
201113-01:00:04,784 nipype.interface INFO:
stderr 2020-11-13T01:00:04.784191:++ processing 1 input dataset(s), NN=2...
201113-01:00:04,784 nipype.interface INFO:
stderr 2020-11-13T01:00:04.784359:++ padding all datasets by 0 (for dilations)
201113-01:00:04,824 nipype.interface INFO:
stderr 2020-11-13T01:00:04.824405:++ frac 0 over 1 volumes gives min count 0
201113-01:00:04,826 nipype.interface INFO:
stderr 2020-11-13T01:00:04.826246:++ voxel limits: 0 clipped, 1831 survived, 1554649 were zero
201113-01:00:04,826 nipype.interface INFO:
stderr 2020-11-13T01:00:04.826427:++ writing result segment_tissue_mask_flirt_mask.nii.gz...
201113-01:00:04,844 nipype.interface INFO:
stderr 2020-11-13T01:00:04.844885:++ Output dataset ./segment_tissue_mask_flirt_mask.nii.gz
201113-01:00:04,998 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.nuisance_regressor_0_0.CerebrospinalFluid_union_masks".
201113-01:00:05,0 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.nuisance_regressor_0_0.CerebrospinalFluid_mean" in "/outputs/tmp/resting_preproc_sub-018_ses-1/nuisance_regressor_0_0/_scan_conditioning_run-1/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/CerebrospinalFluid_mean".
201113-01:00:05,5 nipype.workflow INFO:
[Node] Running "CerebrospinalFluid_mean" ("nipype.interfaces.afni.preprocess.ROIStats"), a CommandLine Interface with command:
3dROIstats -mask /outputs/tmp/resting_preproc_sub-018_ses-1/nuisance_regressor_0_0/_scan_conditioning_run-1/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/CerebrospinalFluid_union_masks/segment_tissue_mask_flirt_mask.nii.gz -1Dformat /outputs/tmp/resting_preproc_sub-018_ses-1/nuisance_regressor_0_0/_scan_conditioning_run-1/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/Functional_2mm_flirt/sub-018_ses-1_task-conditioning_run-1_bold_calc_despike_tshift_resample_mcf_calc_maths_flirt.nii.gz
201113-01:00:10,567 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.nuisance_regressor_0_0.CerebrospinalFluid_mean".
201113-01:00:10,569 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.nuisance_regressor_0_0.build_nuisance_regressors" in "/outputs/tmp/resting_preproc_sub-018_ses-1/nuisance_regressor_0_0/_scan_conditioning_run-1/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/build_nuisance_regressors".
201113-01:00:10,586 nipype.workflow INFO:
[Node] Running "build_nuisance_regressors" ("CPAC.utils.interfaces.function.Function")
201113-01:00:10,846 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.nuisance_regressor_0_0.build_nuisance_regressors".
201113-01:00:10,847 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.nuisance_regression_before-filt_0_0.nuisance_regression" in "/outputs/tmp/resting_preproc_sub-018_ses-1/nuisance_regression_before-filt_0_0/_scan_conditioning_run-1/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/nuisance_regression".
201113-01:00:10,856 nipype.workflow INFO:
[Node] Running "nuisance_regression" ("nipype.interfaces.afni.preprocess.TProject"), a CommandLine Interface with command:
3dTproject -input /outputs/tmp/resting_preproc_sub-018_ses-1/nuisance_regression_before-filt_0_0/_scan_conditioning_run-1/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/nuisance_regression/sub-018_ses-1_task-conditioning_run-1_bold_calc_despike_tshift_resample_mcf_calc_maths.nii.gz -mask /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/func_preproc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_conditioning_run-1/combine_masks/sub-018_ses-1_task-conditioning_run-1_bold_calc_despike_tshift_resample_mcf_tstat_brain_mask_maths.nii.gz -ort /outputs/tmp/resting_preproc_sub-018_ses-1/nuisance_regressor_0_0/_scan_conditioning_run-1/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/build_nuisance_regressors/nuisance_regressors.1D -polort 2 -prefix residuals.nii.gz
201113-01:00:11,252 nipype.interface INFO:
stderr 2020-11-13T01:00:11.251962:++ 3dTproject: AFNI version=AFNI_20.2.19 (Sep 27 2020) [64-bit]
201113-01:00:11,252 nipype.interface INFO:
stderr 2020-11-13T01:00:11.252371:++ Authored by: Cox the Algebraic (Linear)
201113-01:00:11,754 nipype.interface INFO:
stderr 2020-11-13T01:00:11.754326:++ Setting up regressors
201113-01:00:11,754 nipype.interface INFO:
stderr 2020-11-13T01:00:11.754656:++ 1 Blocks * 3 polynomials -- 3 polort regressors
201113-01:00:11,754 nipype.interface INFO:
stderr 2020-11-13T01:00:11.754805: + -- 36 other fixed ort regressors
201113-01:00:11,754 nipype.interface INFO:
stderr 2020-11-13T01:00:11.754947:++ 151 retained time points MINUS 39 regressors ==> 112 D.O.F. left
201113-01:00:11,755 nipype.interface INFO:
stderr 2020-11-13T01:00:11.755465:++ 33989 voxels in the spatial mask
201113-01:00:11,755 nipype.interface INFO:
stderr 2020-11-13T01:00:11.755641:++ Compute pseudo-inverse of fixed orts
201113-01:00:11,758 nipype.interface INFO:
stderr 2020-11-13T01:00:11.758435:++ Loading dataset
201113-01:00:11,813 nipype.interface INFO:
stderr 2020-11-13T01:00:11.813384:++ Starting project-orization
201113-01:00:12,137 nipype.interface INFO:
stderr 2020-11-13T01:00:12.137179:++ Convert results to output dataset
201113-01:00:13,701 nipype.interface INFO:
stderr 2020-11-13T01:00:13.701336:++ Output dataset ./residuals.nii.gz
201113-01:00:13,701 nipype.interface INFO:
stderr 2020-11-13T01:00:13.701860:++ ===== clock time = 2s 449ms
201113-01:00:13,891 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.nuisance_regression_before-filt_0_0.nuisance_regression".
201113-01:00:13,893 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.frequency_filtering_0_0.frequency_filter" in "/outputs/tmp/resting_preproc_sub-018_ses-1/frequency_filtering_0_0/_scan_conditioning_run-1/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/frequency_filter".
201113-01:00:13,898 nipype.workflow INFO:
[Node] Running "frequency_filter" ("CPAC.utils.interfaces.function.Function")
201113-01:00:19,469 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.frequency_filtering_0_0.frequency_filter".
201113-01:00:19,470 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.nuisance_regression_after-filt_0_0.nuisance_regression" in "/outputs/tmp/resting_preproc_sub-018_ses-1/nuisance_regression_after-filt_0_0/_scan_conditioning_run-1/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/nuisance_regression".
201113-01:00:19,479 nipype.workflow INFO:
[Node] Running "nuisance_regression" ("nipype.interfaces.afni.preprocess.TProject"), a CommandLine Interface with command:
3dTproject -input /outputs/tmp/resting_preproc_sub-018_ses-1/nuisance_regression_after-filt_0_0/_scan_conditioning_run-1/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/nuisance_regression/bandpassed_demeaned_filtered.nii.gz -mask /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/func_preproc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_conditioning_run-1/combine_masks/sub-018_ses-1_task-conditioning_run-1_bold_calc_despike_tshift_resample_mcf_tstat_brain_mask_maths.nii.gz -ort /outputs/tmp/resting_preproc_sub-018_ses-1/frequency_filtering_0_0/_scan_conditioning_run-1/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/frequency_filter/regressor_bandpassed_demeaned_filtered.1D -polort 2 -prefix residuals.nii.gz
201113-01:00:19,733 nipype.interface INFO:
stderr 2020-11-13T01:00:19.732951:++ 3dTproject: AFNI version=AFNI_20.2.19 (Sep 27 2020) [64-bit]
201113-01:00:19,733 nipype.interface INFO:
stderr 2020-11-13T01:00:19.733516:++ Authored by: Cox the Algebraic (Linear)
201113-01:00:20,174 nipype.interface INFO:
stderr 2020-11-13T01:00:20.174842:++ Setting up regressors
201113-01:00:20,175 nipype.interface INFO:
stderr 2020-11-13T01:00:20.175164:++ 1 Blocks * 3 polynomials -- 3 polort regressors
201113-01:00:20,175 nipype.interface INFO:
stderr 2020-11-13T01:00:20.175316: + -- 36 other fixed ort regressors
201113-01:00:20,175 nipype.interface INFO:
stderr 2020-11-13T01:00:20.175467:++ 151 retained time points MINUS 39 regressors ==> 112 D.O.F. left
201113-01:00:20,176 nipype.interface INFO:
stderr 2020-11-13T01:00:20.175986:++ 33989 voxels in the spatial mask
201113-01:00:20,176 nipype.interface INFO:
stderr 2020-11-13T01:00:20.176160:++ Compute pseudo-inverse of fixed orts
201113-01:00:20,177 nipype.interface INFO:
stderr 2020-11-13T01:00:20.177847:++ Loading dataset
201113-01:00:20,232 nipype.interface INFO:
stderr 2020-11-13T01:00:20.232904:++ Starting project-orization
201113-01:00:20,548 nipype.interface INFO:
stderr 2020-11-13T01:00:20.548537:++ Convert results to output dataset
201113-01:00:22,46 nipype.interface INFO:
stderr 2020-11-13T01:00:22.046294:++ Output dataset ./residuals.nii.gz
201113-01:00:22,49 nipype.interface INFO:
stderr 2020-11-13T01:00:22.049101:++ ===== clock time = 2s 315ms
201113-01:00:22,234 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.nuisance_regression_after-filt_0_0.nuisance_regression".
201113-01:00:22,236 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.sinker_0_functional_nuisance_residuals" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_conditioning_run-1/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/sinker_0_functional_nuisance_residuals".
201113-01:00:22,245 nipype.workflow INFO:
[Node] Running "sinker_0_functional_nuisance_residuals" ("CPAC.utils.interfaces.datasink.DataSink")
201113-01:00:22,474 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.sinker_0_functional_nuisance_residuals".
201113-01:00:22,475 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.sinker_0_functional_freq_filtered" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_conditioning_run-1/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/sinker_0_functional_freq_filtered".
201113-01:00:22,482 nipype.workflow INFO:
[Node] Running "sinker_0_functional_freq_filtered" ("CPAC.utils.interfaces.datasink.DataSink")
201113-01:00:22,718 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.sinker_0_functional_freq_filtered".
201113-01:00:22,720 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.sinker_0_functional_nuisance_regressors" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_conditioning_run-1/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/sinker_0_functional_nuisance_regressors".
201113-01:00:22,728 nipype.workflow INFO:
[Node] Running "sinker_0_functional_nuisance_regressors" ("CPAC.utils.interfaces.datasink.DataSink")
201113-01:00:22,962 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.sinker_0_functional_nuisance_regressors".
201113-01:00:22,963 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.nuisance_regressor_0_0.CerebrospinalFluid_2mm_flirt" in "/outputs/tmp/resting_preproc_sub-018_ses-1/nuisance_regressor_0_0/_scan_matching_run-1/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/CerebrospinalFluid_2mm_flirt".
201113-01:00:22,972 nipype.workflow INFO:
[Node] Running "CerebrospinalFluid_2mm_flirt" ("nipype.interfaces.fsl.preprocess.FLIRT"), a CommandLine Interface with command:
flirt -in /outputs/tmp/resting_preproc_sub-018_ses-1/seg_preproc_0/CSF/erosion_segmentmap_CSF/segment_tissue_mask.nii.gz -ref /outputs/tmp/resting_preproc_sub-018_ses-1/nuisance_regressor_0_0/_scan_matching_run-1/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/Anatomical_2mm_flirt/sub-018_ses-1_T1w_resample_corrected_masked_xform_flirt.nii.gz -out segment_tissue_mask_flirt.nii.gz -omat segment_tissue_mask_flirt.mat -applyisoxfm 2.000000 -interp nearestneighbour
201113-01:00:23,751 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.nuisance_regressor_0_0.CerebrospinalFluid_2mm_flirt".
201113-01:00:23,752 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.nuisance_regressor_0_0.CerebrospinalFluid_merge_masks" in "/outputs/tmp/resting_preproc_sub-018_ses-1/nuisance_regressor_0_0/_scan_matching_run-1/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/CerebrospinalFluid_merge_masks".
201113-01:00:23,756 nipype.workflow INFO:
[Node] Running "CerebrospinalFluid_merge_masks" ("nipype.interfaces.utility.base.Merge")
201113-01:00:23,986 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.nuisance_regressor_0_0.CerebrospinalFluid_merge_masks".
201113-01:00:23,988 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.nuisance_regressor_0_0.CerebrospinalFluid_union_masks" in "/outputs/tmp/resting_preproc_sub-018_ses-1/nuisance_regressor_0_0/_scan_matching_run-1/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/CerebrospinalFluid_union_masks".
201113-01:00:23,993 nipype.workflow INFO:
[Node] Running "CerebrospinalFluid_union_masks" ("CPAC.utils.interfaces.masktool.MaskTool"), a CommandLine Interface with command:
3dmask_tool -prefix segment_tissue_mask_flirt_mask.nii.gz -input /outputs/tmp/resting_preproc_sub-018_ses-1/nuisance_regressor_0_0/_scan_matching_run-1/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/CerebrospinalFluid_union_masks/segment_tissue_mask_flirt.nii.gz
201113-01:00:24,252 nipype.interface INFO:
stderr 2020-11-13T01:00:24.251946:++ no -frac option: defaulting to -union
201113-01:00:24,252 nipype.interface INFO:
stderr 2020-11-13T01:00:24.252417:++ processing 1 input dataset(s), NN=2...
201113-01:00:24,252 nipype.interface INFO:
stderr 2020-11-13T01:00:24.252854:++ padding all datasets by 0 (for dilations)
201113-01:00:24,291 nipype.interface INFO:
stderr 2020-11-13T01:00:24.291221:++ frac 0 over 1 volumes gives min count 0
201113-01:00:24,292 nipype.interface INFO:
stderr 2020-11-13T01:00:24.292798:++ voxel limits: 0 clipped, 1831 survived, 1554649 were zero
201113-01:00:24,292 nipype.interface INFO:
stderr 2020-11-13T01:00:24.292974:++ writing result segment_tissue_mask_flirt_mask.nii.gz...
201113-01:00:24,310 nipype.interface INFO:
stderr 2020-11-13T01:00:24.310224:++ Output dataset ./segment_tissue_mask_flirt_mask.nii.gz
201113-01:00:24,471 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.nuisance_regressor_0_0.CerebrospinalFluid_union_masks".
201113-01:00:24,473 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.nuisance_regressor_0_0.CerebrospinalFluid_mean" in "/outputs/tmp/resting_preproc_sub-018_ses-1/nuisance_regressor_0_0/_scan_matching_run-1/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/CerebrospinalFluid_mean".
201113-01:00:24,479 nipype.workflow INFO:
[Node] Running "CerebrospinalFluid_mean" ("nipype.interfaces.afni.preprocess.ROIStats"), a CommandLine Interface with command:
3dROIstats -mask /outputs/tmp/resting_preproc_sub-018_ses-1/nuisance_regressor_0_0/_scan_matching_run-1/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/CerebrospinalFluid_union_masks/segment_tissue_mask_flirt_mask.nii.gz -1Dformat /outputs/tmp/resting_preproc_sub-018_ses-1/nuisance_regressor_0_0/_scan_matching_run-1/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/Functional_2mm_flirt/sub-018_ses-1_task-matching_run-1_bold_calc_despike_tshift_resample_mcf_calc_maths_flirt.nii.gz
201113-01:00:28,243 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.nuisance_regressor_0_0.CerebrospinalFluid_mean".
201113-01:00:28,245 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.nuisance_regressor_0_0.build_nuisance_regressors" in "/outputs/tmp/resting_preproc_sub-018_ses-1/nuisance_regressor_0_0/_scan_matching_run-1/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/build_nuisance_regressors".
201113-01:00:28,297 nipype.workflow INFO:
[Node] Running "build_nuisance_regressors" ("CPAC.utils.interfaces.function.Function")
201113-01:00:28,568 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.nuisance_regressor_0_0.build_nuisance_regressors".
201113-01:00:28,570 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.nuisance_regression_before-filt_0_0.nuisance_regression" in "/outputs/tmp/resting_preproc_sub-018_ses-1/nuisance_regression_before-filt_0_0/_scan_matching_run-1/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/nuisance_regression".
201113-01:00:28,607 nipype.workflow INFO:
[Node] Running "nuisance_regression" ("nipype.interfaces.afni.preprocess.TProject"), a CommandLine Interface with command:
3dTproject -input /outputs/tmp/resting_preproc_sub-018_ses-1/nuisance_regression_before-filt_0_0/_scan_matching_run-1/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/nuisance_regression/sub-018_ses-1_task-matching_run-1_bold_calc_despike_tshift_resample_mcf_calc_maths.nii.gz -mask /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/func_preproc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_matching_run-1/combine_masks/sub-018_ses-1_task-matching_run-1_bold_calc_despike_tshift_resample_mcf_tstat_brain_mask_maths.nii.gz -ort /outputs/tmp/resting_preproc_sub-018_ses-1/nuisance_regressor_0_0/_scan_matching_run-1/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/build_nuisance_regressors/nuisance_regressors.1D -polort 2 -prefix residuals.nii.gz
201113-01:00:28,860 nipype.interface INFO:
stderr 2020-11-13T01:00:28.860057:++ 3dTproject: AFNI version=AFNI_20.2.19 (Sep 27 2020) [64-bit]
201113-01:00:28,860 nipype.interface INFO:
stderr 2020-11-13T01:00:28.860438:++ Authored by: Cox the Algebraic (Linear)
201113-01:00:29,197 nipype.interface INFO:
stderr 2020-11-13T01:00:29.197787:++ Setting up regressors
201113-01:00:29,198 nipype.interface INFO:
stderr 2020-11-13T01:00:29.198108:++ 1 Blocks * 3 polynomials -- 3 polort regressors
201113-01:00:29,198 nipype.interface INFO:
stderr 2020-11-13T01:00:29.198261: + -- 36 other fixed ort regressors
201113-01:00:29,198 nipype.interface INFO:
stderr 2020-11-13T01:00:29.198403:++ 99 retained time points MINUS 39 regressors ==> 60 D.O.F. left
201113-01:00:29,198 nipype.interface INFO:
stderr 2020-11-13T01:00:29.198927:++ 33830 voxels in the spatial mask
201113-01:00:29,199 nipype.interface INFO:
stderr 2020-11-13T01:00:29.199095:++ Compute pseudo-inverse of fixed orts
201113-01:00:29,200 nipype.interface INFO:
stderr 2020-11-13T01:00:29.200355:++ Loading dataset
201113-01:00:29,232 nipype.interface INFO:
stderr 2020-11-13T01:00:29.232110:++ Starting project-orization
201113-01:00:29,446 nipype.interface INFO:
stderr 2020-11-13T01:00:29.446607:++ Convert results to output dataset
201113-01:00:30,404 nipype.interface INFO:
stderr 2020-11-13T01:00:30.403910:++ Output dataset ./residuals.nii.gz
201113-01:00:30,404 nipype.interface INFO:
stderr 2020-11-13T01:00:30.404435:++ ===== clock time = 1s 543ms
201113-01:00:30,593 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.nuisance_regression_before-filt_0_0.nuisance_regression".
201113-01:00:30,595 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.frequency_filtering_0_0.frequency_filter" in "/outputs/tmp/resting_preproc_sub-018_ses-1/frequency_filtering_0_0/_scan_matching_run-1/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/frequency_filter".
201113-01:00:30,604 nipype.workflow INFO:
[Node] Running "frequency_filter" ("CPAC.utils.interfaces.function.Function")
201113-01:00:35,362 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.frequency_filtering_0_0.frequency_filter".
201113-01:00:35,364 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.nuisance_regression_after-filt_0_0.nuisance_regression" in "/outputs/tmp/resting_preproc_sub-018_ses-1/nuisance_regression_after-filt_0_0/_scan_matching_run-1/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/nuisance_regression".
201113-01:00:35,372 nipype.workflow INFO:
[Node] Running "nuisance_regression" ("nipype.interfaces.afni.preprocess.TProject"), a CommandLine Interface with command:
3dTproject -input /outputs/tmp/resting_preproc_sub-018_ses-1/nuisance_regression_after-filt_0_0/_scan_matching_run-1/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/nuisance_regression/bandpassed_demeaned_filtered.nii.gz -mask /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/func_preproc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_matching_run-1/combine_masks/sub-018_ses-1_task-matching_run-1_bold_calc_despike_tshift_resample_mcf_tstat_brain_mask_maths.nii.gz -ort /outputs/tmp/resting_preproc_sub-018_ses-1/frequency_filtering_0_0/_scan_matching_run-1/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/frequency_filter/regressor_bandpassed_demeaned_filtered.1D -polort 2 -prefix residuals.nii.gz
201113-01:00:35,647 nipype.interface INFO:
stderr 2020-11-13T01:00:35.647339:++ 3dTproject: AFNI version=AFNI_20.2.19 (Sep 27 2020) [64-bit]
201113-01:00:35,647 nipype.interface INFO:
stderr 2020-11-13T01:00:35.647884:++ Authored by: Cox the Algebraic (Linear)
201113-01:00:35,940 nipype.interface INFO:
stderr 2020-11-13T01:00:35.939990:++ Setting up regressors
201113-01:00:35,940 nipype.interface INFO:
stderr 2020-11-13T01:00:35.940316:++ 1 Blocks * 3 polynomials -- 3 polort regressors
201113-01:00:35,940 nipype.interface INFO:
stderr 2020-11-13T01:00:35.940476: + -- 36 other fixed ort regressors
201113-01:00:35,940 nipype.interface INFO:
stderr 2020-11-13T01:00:35.940618:++ 99 retained time points MINUS 39 regressors ==> 60 D.O.F. left
201113-01:00:35,941 nipype.interface INFO:
stderr 2020-11-13T01:00:35.941123:++ 33830 voxels in the spatial mask
201113-01:00:35,941 nipype.interface INFO:
stderr 2020-11-13T01:00:35.941289:++ Compute pseudo-inverse of fixed orts
201113-01:00:35,942 nipype.interface INFO:
stderr 2020-11-13T01:00:35.942484:++ Loading dataset
201113-01:00:35,974 nipype.interface INFO:
stderr 2020-11-13T01:00:35.974635:++ Starting project-orization
201113-01:00:36,189 nipype.interface INFO:
stderr 2020-11-13T01:00:36.189211:++ Convert results to output dataset
201113-01:00:37,247 nipype.interface INFO:
stderr 2020-11-13T01:00:37.247900:++ Output dataset ./residuals.nii.gz
201113-01:00:37,248 nipype.interface INFO:
stderr 2020-11-13T01:00:37.248204:++ ===== clock time = 1s 600ms
201113-01:00:37,440 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.nuisance_regression_after-filt_0_0.nuisance_regression".
201113-01:00:37,442 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.sinker_0_functional_nuisance_residuals" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_matching_run-1/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/sinker_0_functional_nuisance_residuals".
201113-01:00:37,449 nipype.workflow INFO:
[Node] Running "sinker_0_functional_nuisance_residuals" ("CPAC.utils.interfaces.datasink.DataSink")
201113-01:00:37,676 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.sinker_0_functional_nuisance_residuals".
201113-01:00:37,678 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.sinker_0_functional_freq_filtered" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_matching_run-1/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/sinker_0_functional_freq_filtered".
201113-01:00:37,685 nipype.workflow INFO:
[Node] Running "sinker_0_functional_freq_filtered" ("CPAC.utils.interfaces.datasink.DataSink")
201113-01:00:37,916 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.sinker_0_functional_freq_filtered".
201113-01:00:37,918 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.sinker_0_functional_nuisance_regressors" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_matching_run-1/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/sinker_0_functional_nuisance_regressors".
201113-01:00:37,925 nipype.workflow INFO:
[Node] Running "sinker_0_functional_nuisance_regressors" ("CPAC.utils.interfaces.datasink.DataSink")
201113-01:00:38,155 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.sinker_0_functional_nuisance_regressors".
201113-01:00:38,157 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.nuisance_regressor_0_0.CerebrospinalFluid_2mm_flirt" in "/outputs/tmp/resting_preproc_sub-018_ses-1/nuisance_regressor_0_0/_scan_matching_run-2/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/CerebrospinalFluid_2mm_flirt".
201113-01:00:38,165 nipype.workflow INFO:
[Node] Running "CerebrospinalFluid_2mm_flirt" ("nipype.interfaces.fsl.preprocess.FLIRT"), a CommandLine Interface with command:
flirt -in /outputs/tmp/resting_preproc_sub-018_ses-1/seg_preproc_0/CSF/erosion_segmentmap_CSF/segment_tissue_mask.nii.gz -ref /outputs/tmp/resting_preproc_sub-018_ses-1/nuisance_regressor_0_0/_scan_matching_run-2/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/Anatomical_2mm_flirt/sub-018_ses-1_T1w_resample_corrected_masked_xform_flirt.nii.gz -out segment_tissue_mask_flirt.nii.gz -omat segment_tissue_mask_flirt.mat -applyisoxfm 2.000000 -interp nearestneighbour
201113-01:00:38,931 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.nuisance_regressor_0_0.CerebrospinalFluid_2mm_flirt".
201113-01:00:38,932 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.nuisance_regressor_0_0.CerebrospinalFluid_merge_masks" in "/outputs/tmp/resting_preproc_sub-018_ses-1/nuisance_regressor_0_0/_scan_matching_run-2/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/CerebrospinalFluid_merge_masks".
201113-01:00:38,937 nipype.workflow INFO:
[Node] Running "CerebrospinalFluid_merge_masks" ("nipype.interfaces.utility.base.Merge")
201113-01:00:39,165 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.nuisance_regressor_0_0.CerebrospinalFluid_merge_masks".
201113-01:00:39,166 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.nuisance_regressor_0_0.CerebrospinalFluid_union_masks" in "/outputs/tmp/resting_preproc_sub-018_ses-1/nuisance_regressor_0_0/_scan_matching_run-2/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/CerebrospinalFluid_union_masks".
201113-01:00:39,172 nipype.workflow INFO:
[Node] Running "CerebrospinalFluid_union_masks" ("CPAC.utils.interfaces.masktool.MaskTool"), a CommandLine Interface with command:
3dmask_tool -prefix segment_tissue_mask_flirt_mask.nii.gz -input /outputs/tmp/resting_preproc_sub-018_ses-1/nuisance_regressor_0_0/_scan_matching_run-2/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/CerebrospinalFluid_union_masks/segment_tissue_mask_flirt.nii.gz
201113-01:00:39,426 nipype.interface INFO:
stderr 2020-11-13T01:00:39.426083:++ no -frac option: defaulting to -union
201113-01:00:39,426 nipype.interface INFO:
stderr 2020-11-13T01:00:39.426469:++ processing 1 input dataset(s), NN=2...
201113-01:00:39,426 nipype.interface INFO:
stderr 2020-11-13T01:00:39.426637:++ padding all datasets by 0 (for dilations)
201113-01:00:39,464 nipype.interface INFO:
stderr 2020-11-13T01:00:39.464060:++ frac 0 over 1 volumes gives min count 0
201113-01:00:39,465 nipype.interface INFO:
stderr 2020-11-13T01:00:39.465635:++ voxel limits: 0 clipped, 1831 survived, 1554649 were zero
201113-01:00:39,465 nipype.interface INFO:
stderr 2020-11-13T01:00:39.465808:++ writing result segment_tissue_mask_flirt_mask.nii.gz...
201113-01:00:39,483 nipype.interface INFO:
stderr 2020-11-13T01:00:39.483929:++ Output dataset ./segment_tissue_mask_flirt_mask.nii.gz
201113-01:00:39,640 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.nuisance_regressor_0_0.CerebrospinalFluid_union_masks".
201113-01:00:39,641 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.nuisance_regressor_0_0.CerebrospinalFluid_mean" in "/outputs/tmp/resting_preproc_sub-018_ses-1/nuisance_regressor_0_0/_scan_matching_run-2/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/CerebrospinalFluid_mean".
201113-01:00:39,648 nipype.workflow INFO:
[Node] Running "CerebrospinalFluid_mean" ("nipype.interfaces.afni.preprocess.ROIStats"), a CommandLine Interface with command:
3dROIstats -mask /outputs/tmp/resting_preproc_sub-018_ses-1/nuisance_regressor_0_0/_scan_matching_run-2/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/CerebrospinalFluid_union_masks/segment_tissue_mask_flirt_mask.nii.gz -1Dformat /outputs/tmp/resting_preproc_sub-018_ses-1/nuisance_regressor_0_0/_scan_matching_run-2/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/Functional_2mm_flirt/sub-018_ses-1_task-matching_run-2_bold_calc_despike_tshift_resample_mcf_calc_maths_flirt.nii.gz
201113-01:00:43,428 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.nuisance_regressor_0_0.CerebrospinalFluid_mean".
201113-01:00:43,429 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.nuisance_regressor_0_0.build_nuisance_regressors" in "/outputs/tmp/resting_preproc_sub-018_ses-1/nuisance_regressor_0_0/_scan_matching_run-2/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/build_nuisance_regressors".
201113-01:00:43,466 nipype.workflow INFO:
[Node] Running "build_nuisance_regressors" ("CPAC.utils.interfaces.function.Function")
201113-01:00:43,749 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.nuisance_regressor_0_0.build_nuisance_regressors".
201113-01:00:43,751 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.nuisance_regression_before-filt_0_0.nuisance_regression" in "/outputs/tmp/resting_preproc_sub-018_ses-1/nuisance_regression_before-filt_0_0/_scan_matching_run-2/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/nuisance_regression".
201113-01:00:43,783 nipype.workflow INFO:
[Node] Running "nuisance_regression" ("nipype.interfaces.afni.preprocess.TProject"), a CommandLine Interface with command:
3dTproject -input /outputs/tmp/resting_preproc_sub-018_ses-1/nuisance_regression_before-filt_0_0/_scan_matching_run-2/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/nuisance_regression/sub-018_ses-1_task-matching_run-2_bold_calc_despike_tshift_resample_mcf_calc_maths.nii.gz -mask /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/func_preproc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_matching_run-2/combine_masks/sub-018_ses-1_task-matching_run-2_bold_calc_despike_tshift_resample_mcf_tstat_brain_mask_maths.nii.gz -ort /outputs/tmp/resting_preproc_sub-018_ses-1/nuisance_regressor_0_0/_scan_matching_run-2/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/build_nuisance_regressors/nuisance_regressors.1D -polort 2 -prefix residuals.nii.gz
201113-01:00:44,51 nipype.interface INFO:
stderr 2020-11-13T01:00:44.051770:++ 3dTproject: AFNI version=AFNI_20.2.19 (Sep 27 2020) [64-bit]
201113-01:00:44,52 nipype.interface INFO:
stderr 2020-11-13T01:00:44.052342:++ Authored by: Cox the Algebraic (Linear)
201113-01:00:44,394 nipype.interface INFO:
stderr 2020-11-13T01:00:44.394625:++ Setting up regressors
201113-01:00:44,394 nipype.interface INFO:
stderr 2020-11-13T01:00:44.394946:++ 1 Blocks * 3 polynomials -- 3 polort regressors
201113-01:00:44,395 nipype.interface INFO:
stderr 2020-11-13T01:00:44.395097: + -- 36 other fixed ort regressors
201113-01:00:44,395 nipype.interface INFO:
stderr 2020-11-13T01:00:44.395239:++ 99 retained time points MINUS 39 regressors ==> 60 D.O.F. left
201113-01:00:44,395 nipype.interface INFO:
stderr 2020-11-13T01:00:44.395764:++ 33891 voxels in the spatial mask
201113-01:00:44,395 nipype.interface INFO:
stderr 2020-11-13T01:00:44.395934:++ Compute pseudo-inverse of fixed orts
201113-01:00:44,397 nipype.interface INFO:
stderr 2020-11-13T01:00:44.397205:++ Loading dataset
201113-01:00:44,428 nipype.interface INFO:
stderr 2020-11-13T01:00:44.428858:++ Starting project-orization
201113-01:00:44,652 nipype.interface INFO:
stderr 2020-11-13T01:00:44.652173:++ Convert results to output dataset
201113-01:00:45,612 nipype.interface INFO:
stderr 2020-11-13T01:00:45.612761:++ Output dataset ./residuals.nii.gz
201113-01:00:45,613 nipype.interface INFO:
stderr 2020-11-13T01:00:45.613343:++ ===== clock time = 1s 560ms
201113-01:00:45,800 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.nuisance_regression_before-filt_0_0.nuisance_regression".
201113-01:00:45,801 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.frequency_filtering_0_0.frequency_filter" in "/outputs/tmp/resting_preproc_sub-018_ses-1/frequency_filtering_0_0/_scan_matching_run-2/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/frequency_filter".
201113-01:00:45,807 nipype.workflow INFO:
[Node] Running "frequency_filter" ("CPAC.utils.interfaces.function.Function")
201113-01:00:50,574 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.frequency_filtering_0_0.frequency_filter".
201113-01:00:50,576 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.nuisance_regression_after-filt_0_0.nuisance_regression" in "/outputs/tmp/resting_preproc_sub-018_ses-1/nuisance_regression_after-filt_0_0/_scan_matching_run-2/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/nuisance_regression".
201113-01:00:50,583 nipype.workflow INFO:
[Node] Running "nuisance_regression" ("nipype.interfaces.afni.preprocess.TProject"), a CommandLine Interface with command:
3dTproject -input /outputs/tmp/resting_preproc_sub-018_ses-1/nuisance_regression_after-filt_0_0/_scan_matching_run-2/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/nuisance_regression/bandpassed_demeaned_filtered.nii.gz -mask /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/func_preproc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_matching_run-2/combine_masks/sub-018_ses-1_task-matching_run-2_bold_calc_despike_tshift_resample_mcf_tstat_brain_mask_maths.nii.gz -ort /outputs/tmp/resting_preproc_sub-018_ses-1/frequency_filtering_0_0/_scan_matching_run-2/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/frequency_filter/regressor_bandpassed_demeaned_filtered.1D -polort 2 -prefix residuals.nii.gz
201113-01:00:50,850 nipype.interface INFO:
stderr 2020-11-13T01:00:50.850336:++ 3dTproject: AFNI version=AFNI_20.2.19 (Sep 27 2020) [64-bit]
201113-01:00:50,851 nipype.interface INFO:
stderr 2020-11-13T01:00:50.851083:++ Authored by: Cox the Algebraic (Linear)
201113-01:00:51,143 nipype.interface INFO:
stderr 2020-11-13T01:00:51.143546:++ Setting up regressors
201113-01:00:51,143 nipype.interface INFO:
stderr 2020-11-13T01:00:51.143875:++ 1 Blocks * 3 polynomials -- 3 polort regressors
201113-01:00:51,144 nipype.interface INFO:
stderr 2020-11-13T01:00:51.144028: + -- 36 other fixed ort regressors
201113-01:00:51,144 nipype.interface INFO:
stderr 2020-11-13T01:00:51.144172:++ 99 retained time points MINUS 39 regressors ==> 60 D.O.F. left
201113-01:00:51,144 nipype.interface INFO:
stderr 2020-11-13T01:00:51.144689:++ 33891 voxels in the spatial mask
201113-01:00:51,144 nipype.interface INFO:
stderr 2020-11-13T01:00:51.144861:++ Compute pseudo-inverse of fixed orts
201113-01:00:51,146 nipype.interface INFO:
stderr 2020-11-13T01:00:51.146063:++ Loading dataset
201113-01:00:51,178 nipype.interface INFO:
stderr 2020-11-13T01:00:51.178525:++ Starting project-orization
201113-01:00:51,393 nipype.interface INFO:
stderr 2020-11-13T01:00:51.393455:++ Convert results to output dataset
201113-01:00:52,434 nipype.interface INFO:
stderr 2020-11-13T01:00:52.434637:++ Output dataset ./residuals.nii.gz
201113-01:00:52,434 nipype.interface INFO:
stderr 2020-11-13T01:00:52.434932:++ ===== clock time = 1s 583ms
201113-01:00:52,627 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.nuisance_regression_after-filt_0_0.nuisance_regression".
201113-01:00:52,629 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.sinker_0_functional_nuisance_residuals" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_matching_run-2/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/sinker_0_functional_nuisance_residuals".
201113-01:00:52,637 nipype.workflow INFO:
[Node] Running "sinker_0_functional_nuisance_residuals" ("CPAC.utils.interfaces.datasink.DataSink")
201113-01:00:52,864 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.sinker_0_functional_nuisance_residuals".
201113-01:00:52,866 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.sinker_0_functional_freq_filtered" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_matching_run-2/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/sinker_0_functional_freq_filtered".
201113-01:00:52,874 nipype.workflow INFO:
[Node] Running "sinker_0_functional_freq_filtered" ("CPAC.utils.interfaces.datasink.DataSink")
201113-01:00:53,105 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.sinker_0_functional_freq_filtered".
201113-01:00:53,107 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.sinker_0_functional_nuisance_regressors" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_matching_run-2/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/sinker_0_functional_nuisance_regressors".
201113-01:00:53,115 nipype.workflow INFO:
[Node] Running "sinker_0_functional_nuisance_regressors" ("CPAC.utils.interfaces.datasink.DataSink")
201113-01:00:53,345 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.sinker_0_functional_nuisance_regressors".
201113-01:00:53,347 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.nuisance_regressor_0_0.CerebrospinalFluid_2mm_flirt" in "/outputs/tmp/resting_preproc_sub-018_ses-1/nuisance_regressor_0_0/_scan_matching_run-3/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/CerebrospinalFluid_2mm_flirt".
201113-01:00:53,355 nipype.workflow INFO:
[Node] Running "CerebrospinalFluid_2mm_flirt" ("nipype.interfaces.fsl.preprocess.FLIRT"), a CommandLine Interface with command:
flirt -in /outputs/tmp/resting_preproc_sub-018_ses-1/seg_preproc_0/CSF/erosion_segmentmap_CSF/segment_tissue_mask.nii.gz -ref /outputs/tmp/resting_preproc_sub-018_ses-1/nuisance_regressor_0_0/_scan_matching_run-3/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/Anatomical_2mm_flirt/sub-018_ses-1_T1w_resample_corrected_masked_xform_flirt.nii.gz -out segment_tissue_mask_flirt.nii.gz -omat segment_tissue_mask_flirt.mat -applyisoxfm 2.000000 -interp nearestneighbour
201113-01:00:54,128 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.nuisance_regressor_0_0.CerebrospinalFluid_2mm_flirt".
201113-01:00:54,130 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.nuisance_regressor_0_0.CerebrospinalFluid_merge_masks" in "/outputs/tmp/resting_preproc_sub-018_ses-1/nuisance_regressor_0_0/_scan_matching_run-3/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/CerebrospinalFluid_merge_masks".
201113-01:00:54,134 nipype.workflow INFO:
[Node] Running "CerebrospinalFluid_merge_masks" ("nipype.interfaces.utility.base.Merge")
201113-01:00:54,364 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.nuisance_regressor_0_0.CerebrospinalFluid_merge_masks".
201113-01:00:54,365 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.nuisance_regressor_0_0.CerebrospinalFluid_union_masks" in "/outputs/tmp/resting_preproc_sub-018_ses-1/nuisance_regressor_0_0/_scan_matching_run-3/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/CerebrospinalFluid_union_masks".
201113-01:00:54,372 nipype.workflow INFO:
[Node] Running "CerebrospinalFluid_union_masks" ("CPAC.utils.interfaces.masktool.MaskTool"), a CommandLine Interface with command:
3dmask_tool -prefix segment_tissue_mask_flirt_mask.nii.gz -input /outputs/tmp/resting_preproc_sub-018_ses-1/nuisance_regressor_0_0/_scan_matching_run-3/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/CerebrospinalFluid_union_masks/segment_tissue_mask_flirt.nii.gz
201113-01:00:54,634 nipype.interface INFO:
stderr 2020-11-13T01:00:54.634806:++ no -frac option: defaulting to -union
201113-01:00:54,635 nipype.interface INFO:
stderr 2020-11-13T01:00:54.635198:++ processing 1 input dataset(s), NN=2...
201113-01:00:54,635 nipype.interface INFO:
stderr 2020-11-13T01:00:54.635366:++ padding all datasets by 0 (for dilations)
201113-01:00:54,675 nipype.interface INFO:
stderr 2020-11-13T01:00:54.675165:++ frac 0 over 1 volumes gives min count 0
201113-01:00:54,677 nipype.interface INFO:
stderr 2020-11-13T01:00:54.677012:++ voxel limits: 0 clipped, 1831 survived, 1554649 were zero
201113-01:00:54,677 nipype.interface INFO:
stderr 2020-11-13T01:00:54.677195:++ writing result segment_tissue_mask_flirt_mask.nii.gz...
201113-01:00:54,695 nipype.interface INFO:
stderr 2020-11-13T01:00:54.695836:++ Output dataset ./segment_tissue_mask_flirt_mask.nii.gz
201113-01:00:54,854 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.nuisance_regressor_0_0.CerebrospinalFluid_union_masks".
201113-01:00:54,856 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.nuisance_regressor_0_0.CerebrospinalFluid_mean" in "/outputs/tmp/resting_preproc_sub-018_ses-1/nuisance_regressor_0_0/_scan_matching_run-3/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/CerebrospinalFluid_mean".
201113-01:00:54,862 nipype.workflow INFO:
[Node] Running "CerebrospinalFluid_mean" ("nipype.interfaces.afni.preprocess.ROIStats"), a CommandLine Interface with command:
3dROIstats -mask /outputs/tmp/resting_preproc_sub-018_ses-1/nuisance_regressor_0_0/_scan_matching_run-3/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/CerebrospinalFluid_union_masks/segment_tissue_mask_flirt_mask.nii.gz -1Dformat /outputs/tmp/resting_preproc_sub-018_ses-1/nuisance_regressor_0_0/_scan_matching_run-3/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/Functional_2mm_flirt/sub-018_ses-1_task-matching_run-3_bold_calc_despike_tshift_resample_mcf_calc_maths_flirt.nii.gz
201113-01:00:58,632 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.nuisance_regressor_0_0.CerebrospinalFluid_mean".
201113-01:00:58,633 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.nuisance_regressor_0_0.build_nuisance_regressors" in "/outputs/tmp/resting_preproc_sub-018_ses-1/nuisance_regressor_0_0/_scan_matching_run-3/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/build_nuisance_regressors".
201113-01:00:58,692 nipype.workflow INFO:
[Node] Running "build_nuisance_regressors" ("CPAC.utils.interfaces.function.Function")
201113-01:00:58,989 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.nuisance_regressor_0_0.build_nuisance_regressors".
201113-01:00:58,991 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.nuisance_regression_before-filt_0_0.nuisance_regression" in "/outputs/tmp/resting_preproc_sub-018_ses-1/nuisance_regression_before-filt_0_0/_scan_matching_run-3/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/nuisance_regression".
201113-01:00:59,17 nipype.workflow INFO:
[Node] Running "nuisance_regression" ("nipype.interfaces.afni.preprocess.TProject"), a CommandLine Interface with command:
3dTproject -input /outputs/tmp/resting_preproc_sub-018_ses-1/nuisance_regression_before-filt_0_0/_scan_matching_run-3/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/nuisance_regression/sub-018_ses-1_task-matching_run-3_bold_calc_despike_tshift_resample_mcf_calc_maths.nii.gz -mask /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/func_preproc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_matching_run-3/combine_masks/sub-018_ses-1_task-matching_run-3_bold_calc_despike_tshift_resample_mcf_tstat_brain_mask_maths.nii.gz -ort /outputs/tmp/resting_preproc_sub-018_ses-1/nuisance_regressor_0_0/_scan_matching_run-3/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/build_nuisance_regressors/nuisance_regressors.1D -polort 2 -prefix residuals.nii.gz
201113-01:00:59,268 nipype.interface INFO:
stderr 2020-11-13T01:00:59.268321:++ 3dTproject: AFNI version=AFNI_20.2.19 (Sep 27 2020) [64-bit]
201113-01:00:59,268 nipype.interface INFO:
stderr 2020-11-13T01:00:59.268698:++ Authored by: Cox the Algebraic (Linear)
201113-01:00:59,595 nipype.interface INFO:
stderr 2020-11-13T01:00:59.595267:++ Setting up regressors
201113-01:00:59,595 nipype.interface INFO:
stderr 2020-11-13T01:00:59.595592:++ 1 Blocks * 3 polynomials -- 3 polort regressors
201113-01:00:59,595 nipype.interface INFO:
stderr 2020-11-13T01:00:59.595745: + -- 36 other fixed ort regressors
201113-01:00:59,595 nipype.interface INFO:
stderr 2020-11-13T01:00:59.595891:++ 99 retained time points MINUS 39 regressors ==> 60 D.O.F. left
201113-01:00:59,596 nipype.interface INFO:
stderr 2020-11-13T01:00:59.596409:++ 33930 voxels in the spatial mask
201113-01:00:59,596 nipype.interface INFO:
stderr 2020-11-13T01:00:59.596587:++ Compute pseudo-inverse of fixed orts
201113-01:00:59,598 nipype.interface INFO:
stderr 2020-11-13T01:00:59.598125:++ Loading dataset
201113-01:00:59,630 nipype.interface INFO:
stderr 2020-11-13T01:00:59.630080:++ Starting project-orization
201113-01:00:59,844 nipype.interface INFO:
stderr 2020-11-13T01:00:59.844856:++ Convert results to output dataset
201113-01:01:00,806 nipype.interface INFO:
stderr 2020-11-13T01:01:00.806446:++ Output dataset ./residuals.nii.gz
201113-01:01:00,806 nipype.interface INFO:
stderr 2020-11-13T01:01:00.806944:++ ===== clock time = 1s 538ms
201113-01:01:00,993 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.nuisance_regression_before-filt_0_0.nuisance_regression".
201113-01:01:00,994 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.frequency_filtering_0_0.frequency_filter" in "/outputs/tmp/resting_preproc_sub-018_ses-1/frequency_filtering_0_0/_scan_matching_run-3/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/frequency_filter".
201113-01:01:01,1 nipype.workflow INFO:
[Node] Running "frequency_filter" ("CPAC.utils.interfaces.function.Function")
201113-01:01:05,788 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.frequency_filtering_0_0.frequency_filter".
201113-01:01:05,789 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.nuisance_regression_after-filt_0_0.nuisance_regression" in "/outputs/tmp/resting_preproc_sub-018_ses-1/nuisance_regression_after-filt_0_0/_scan_matching_run-3/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/nuisance_regression".
201113-01:01:05,796 nipype.workflow INFO:
[Node] Running "nuisance_regression" ("nipype.interfaces.afni.preprocess.TProject"), a CommandLine Interface with command:
3dTproject -input /outputs/tmp/resting_preproc_sub-018_ses-1/nuisance_regression_after-filt_0_0/_scan_matching_run-3/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/nuisance_regression/bandpassed_demeaned_filtered.nii.gz -mask /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/func_preproc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_matching_run-3/combine_masks/sub-018_ses-1_task-matching_run-3_bold_calc_despike_tshift_resample_mcf_tstat_brain_mask_maths.nii.gz -ort /outputs/tmp/resting_preproc_sub-018_ses-1/frequency_filtering_0_0/_scan_matching_run-3/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/frequency_filter/regressor_bandpassed_demeaned_filtered.1D -polort 2 -prefix residuals.nii.gz
201113-01:01:06,48 nipype.interface INFO:
stderr 2020-11-13T01:01:06.048040:++ 3dTproject: AFNI version=AFNI_20.2.19 (Sep 27 2020) [64-bit]
201113-01:01:06,48 nipype.interface INFO:
stderr 2020-11-13T01:01:06.048494:++ Authored by: Cox the Algebraic (Linear)
201113-01:01:06,341 nipype.interface INFO:
stderr 2020-11-13T01:01:06.341853:++ Setting up regressors
201113-01:01:06,342 nipype.interface INFO:
stderr 2020-11-13T01:01:06.342180:++ 1 Blocks * 3 polynomials -- 3 polort regressors
201113-01:01:06,342 nipype.interface INFO:
stderr 2020-11-13T01:01:06.342329: + -- 36 other fixed ort regressors
201113-01:01:06,342 nipype.interface INFO:
stderr 2020-11-13T01:01:06.342476:++ 99 retained time points MINUS 39 regressors ==> 60 D.O.F. left
201113-01:01:06,343 nipype.interface INFO:
stderr 2020-11-13T01:01:06.342981:++ 33930 voxels in the spatial mask
201113-01:01:06,343 nipype.interface INFO:
stderr 2020-11-13T01:01:06.343147:++ Compute pseudo-inverse of fixed orts
201113-01:01:06,344 nipype.interface INFO:
stderr 2020-11-13T01:01:06.344329:++ Loading dataset
201113-01:01:06,376 nipype.interface INFO:
stderr 2020-11-13T01:01:06.376564:++ Starting project-orization
201113-01:01:06,592 nipype.interface INFO:
stderr 2020-11-13T01:01:06.592909:++ Convert results to output dataset
201113-01:01:07,627 nipype.interface INFO:
stderr 2020-11-13T01:01:07.626952:++ Output dataset ./residuals.nii.gz
201113-01:01:07,627 nipype.interface INFO:
stderr 2020-11-13T01:01:07.627536:++ ===== clock time = 1s 579ms
201113-01:01:07,816 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.nuisance_regression_after-filt_0_0.nuisance_regression".
201113-01:01:07,817 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.sinker_0_functional_nuisance_residuals" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_matching_run-3/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/sinker_0_functional_nuisance_residuals".
201113-01:01:07,825 nipype.workflow INFO:
[Node] Running "sinker_0_functional_nuisance_residuals" ("CPAC.utils.interfaces.datasink.DataSink")
201113-01:01:08,54 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.sinker_0_functional_nuisance_residuals".
201113-01:01:08,56 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.sinker_0_functional_freq_filtered" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_matching_run-3/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/sinker_0_functional_freq_filtered".
201113-01:01:08,63 nipype.workflow INFO:
[Node] Running "sinker_0_functional_freq_filtered" ("CPAC.utils.interfaces.datasink.DataSink")
201113-01:01:08,296 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.sinker_0_functional_freq_filtered".
201113-01:01:08,298 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.sinker_0_functional_nuisance_regressors" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_matching_run-3/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/sinker_0_functional_nuisance_regressors".
201113-01:01:08,306 nipype.workflow INFO:
[Node] Running "sinker_0_functional_nuisance_regressors" ("CPAC.utils.interfaces.datasink.DataSink")
201113-01:01:08,536 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.sinker_0_functional_nuisance_regressors".
201113-01:01:08,538 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.nuisance_regressor_0_0.CerebrospinalFluid_2mm_flirt" in "/outputs/tmp/resting_preproc_sub-018_ses-1/nuisance_regressor_0_0/_scan_ms_run-1/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/CerebrospinalFluid_2mm_flirt".
201113-01:01:08,546 nipype.workflow INFO:
[Node] Running "CerebrospinalFluid_2mm_flirt" ("nipype.interfaces.fsl.preprocess.FLIRT"), a CommandLine Interface with command:
flirt -in /outputs/tmp/resting_preproc_sub-018_ses-1/seg_preproc_0/CSF/erosion_segmentmap_CSF/segment_tissue_mask.nii.gz -ref /outputs/tmp/resting_preproc_sub-018_ses-1/nuisance_regressor_0_0/_scan_ms_run-1/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/Anatomical_2mm_flirt/sub-018_ses-1_T1w_resample_corrected_masked_xform_flirt.nii.gz -out segment_tissue_mask_flirt.nii.gz -omat segment_tissue_mask_flirt.mat -applyisoxfm 2.000000 -interp nearestneighbour
201113-01:01:09,323 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.nuisance_regressor_0_0.CerebrospinalFluid_2mm_flirt".
201113-01:01:09,325 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.nuisance_regressor_0_0.CerebrospinalFluid_merge_masks" in "/outputs/tmp/resting_preproc_sub-018_ses-1/nuisance_regressor_0_0/_scan_ms_run-1/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/CerebrospinalFluid_merge_masks".
201113-01:01:09,330 nipype.workflow INFO:
[Node] Running "CerebrospinalFluid_merge_masks" ("nipype.interfaces.utility.base.Merge")
201113-01:01:09,563 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.nuisance_regressor_0_0.CerebrospinalFluid_merge_masks".
201113-01:01:09,565 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.nuisance_regressor_0_0.CerebrospinalFluid_union_masks" in "/outputs/tmp/resting_preproc_sub-018_ses-1/nuisance_regressor_0_0/_scan_ms_run-1/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/CerebrospinalFluid_union_masks".
201113-01:01:09,572 nipype.workflow INFO:
[Node] Running "CerebrospinalFluid_union_masks" ("CPAC.utils.interfaces.masktool.MaskTool"), a CommandLine Interface with command:
3dmask_tool -prefix segment_tissue_mask_flirt_mask.nii.gz -input /outputs/tmp/resting_preproc_sub-018_ses-1/nuisance_regressor_0_0/_scan_ms_run-1/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/CerebrospinalFluid_union_masks/segment_tissue_mask_flirt.nii.gz
201113-01:01:09,823 nipype.interface INFO:
stderr 2020-11-13T01:01:09.823386:++ no -frac option: defaulting to -union
201113-01:01:09,823 nipype.interface INFO:
stderr 2020-11-13T01:01:09.823754:++ processing 1 input dataset(s), NN=2...
201113-01:01:09,823 nipype.interface INFO:
stderr 2020-11-13T01:01:09.823922:++ padding all datasets by 0 (for dilations)
201113-01:01:09,859 nipype.interface INFO:
stderr 2020-11-13T01:01:09.859189:++ frac 0 over 1 volumes gives min count 0
201113-01:01:09,860 nipype.interface INFO:
stderr 2020-11-13T01:01:09.860805:++ voxel limits: 0 clipped, 1831 survived, 1554649 were zero
201113-01:01:09,860 nipype.interface INFO:
stderr 2020-11-13T01:01:09.860974:++ writing result segment_tissue_mask_flirt_mask.nii.gz...
201113-01:01:09,877 nipype.interface INFO:
stderr 2020-11-13T01:01:09.877800:++ Output dataset ./segment_tissue_mask_flirt_mask.nii.gz
201113-01:01:10,37 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.nuisance_regressor_0_0.CerebrospinalFluid_union_masks".
201113-01:01:10,39 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.nuisance_regressor_0_0.CerebrospinalFluid_mean" in "/outputs/tmp/resting_preproc_sub-018_ses-1/nuisance_regressor_0_0/_scan_ms_run-1/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/CerebrospinalFluid_mean".
201113-01:01:10,45 nipype.workflow INFO:
[Node] Running "CerebrospinalFluid_mean" ("nipype.interfaces.afni.preprocess.ROIStats"), a CommandLine Interface with command:
3dROIstats -mask /outputs/tmp/resting_preproc_sub-018_ses-1/nuisance_regressor_0_0/_scan_ms_run-1/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/CerebrospinalFluid_union_masks/segment_tissue_mask_flirt_mask.nii.gz -1Dformat /outputs/tmp/resting_preproc_sub-018_ses-1/nuisance_regressor_0_0/_scan_ms_run-1/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/Functional_2mm_flirt/sub-018_ses-1_task-ms_run-1_bold_calc_despike_tshift_resample_mcf_calc_maths_flirt.nii.gz
201113-01:01:15,287 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.nuisance_regressor_0_0.CerebrospinalFluid_mean".
201113-01:01:15,288 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.nuisance_regressor_0_0.build_nuisance_regressors" in "/outputs/tmp/resting_preproc_sub-018_ses-1/nuisance_regressor_0_0/_scan_ms_run-1/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/build_nuisance_regressors".
201113-01:01:15,366 nipype.workflow INFO:
[Node] Running "build_nuisance_regressors" ("CPAC.utils.interfaces.function.Function")
201113-01:01:15,626 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.nuisance_regressor_0_0.build_nuisance_regressors".
201113-01:01:15,628 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.nuisance_regression_before-filt_0_0.nuisance_regression" in "/outputs/tmp/resting_preproc_sub-018_ses-1/nuisance_regression_before-filt_0_0/_scan_ms_run-1/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/nuisance_regression".
201113-01:01:15,659 nipype.workflow INFO:
[Node] Running "nuisance_regression" ("nipype.interfaces.afni.preprocess.TProject"), a CommandLine Interface with command:
3dTproject -input /outputs/tmp/resting_preproc_sub-018_ses-1/nuisance_regression_before-filt_0_0/_scan_ms_run-1/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/nuisance_regression/sub-018_ses-1_task-ms_run-1_bold_calc_despike_tshift_resample_mcf_calc_maths.nii.gz -mask /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/func_preproc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_ms_run-1/combine_masks/sub-018_ses-1_task-ms_run-1_bold_calc_despike_tshift_resample_mcf_tstat_brain_mask_maths.nii.gz -ort /outputs/tmp/resting_preproc_sub-018_ses-1/nuisance_regressor_0_0/_scan_ms_run-1/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/build_nuisance_regressors/nuisance_regressors.1D -polort 2 -prefix residuals.nii.gz
201113-01:01:15,914 nipype.interface INFO:
stderr 2020-11-13T01:01:15.913904:++ 3dTproject: AFNI version=AFNI_20.2.19 (Sep 27 2020) [64-bit]
201113-01:01:15,914 nipype.interface INFO:
stderr 2020-11-13T01:01:15.914317:++ Authored by: Cox the Algebraic (Linear)
201113-01:01:16,400 nipype.interface INFO:
stderr 2020-11-13T01:01:16.400442:++ Setting up regressors
201113-01:01:16,400 nipype.interface INFO:
stderr 2020-11-13T01:01:16.400771:++ 1 Blocks * 3 polynomials -- 3 polort regressors
201113-01:01:16,400 nipype.interface INFO:
stderr 2020-11-13T01:01:16.400923: + -- 36 other fixed ort regressors
201113-01:01:16,401 nipype.interface INFO:
stderr 2020-11-13T01:01:16.401066:++ 143 retained time points MINUS 39 regressors ==> 104 D.O.F. left
201113-01:01:16,401 nipype.interface INFO:
stderr 2020-11-13T01:01:16.401586:++ 33838 voxels in the spatial mask
201113-01:01:16,401 nipype.interface INFO:
stderr 2020-11-13T01:01:16.401762:++ Compute pseudo-inverse of fixed orts
201113-01:01:16,403 nipype.interface INFO:
stderr 2020-11-13T01:01:16.403427:++ Loading dataset
201113-01:01:16,454 nipype.interface INFO:
stderr 2020-11-13T01:01:16.454395:++ Starting project-orization
201113-01:01:16,756 nipype.interface INFO:
stderr 2020-11-13T01:01:16.756828:++ Convert results to output dataset
201113-01:01:18,157 nipype.interface INFO:
stderr 2020-11-13T01:01:18.157796:++ Output dataset ./residuals.nii.gz
201113-01:01:18,158 nipype.interface INFO:
stderr 2020-11-13T01:01:18.158288:++ ===== clock time = 2s 244ms
201113-01:01:18,348 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.nuisance_regression_before-filt_0_0.nuisance_regression".
201113-01:01:18,350 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.frequency_filtering_0_0.frequency_filter" in "/outputs/tmp/resting_preproc_sub-018_ses-1/frequency_filtering_0_0/_scan_ms_run-1/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/frequency_filter".
201113-01:01:18,355 nipype.workflow INFO:
[Node] Running "frequency_filter" ("CPAC.utils.interfaces.function.Function")
201113-01:01:23,749 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.frequency_filtering_0_0.frequency_filter".
201113-01:01:23,751 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.nuisance_regression_after-filt_0_0.nuisance_regression" in "/outputs/tmp/resting_preproc_sub-018_ses-1/nuisance_regression_after-filt_0_0/_scan_ms_run-1/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/nuisance_regression".
201113-01:01:23,759 nipype.workflow INFO:
[Node] Running "nuisance_regression" ("nipype.interfaces.afni.preprocess.TProject"), a CommandLine Interface with command:
3dTproject -input /outputs/tmp/resting_preproc_sub-018_ses-1/nuisance_regression_after-filt_0_0/_scan_ms_run-1/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/nuisance_regression/bandpassed_demeaned_filtered.nii.gz -mask /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/func_preproc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_ms_run-1/combine_masks/sub-018_ses-1_task-ms_run-1_bold_calc_despike_tshift_resample_mcf_tstat_brain_mask_maths.nii.gz -ort /outputs/tmp/resting_preproc_sub-018_ses-1/frequency_filtering_0_0/_scan_ms_run-1/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/frequency_filter/regressor_bandpassed_demeaned_filtered.1D -polort 2 -prefix residuals.nii.gz
201113-01:01:24,4 nipype.interface INFO:
stderr 2020-11-13T01:01:24.004891:++ 3dTproject: AFNI version=AFNI_20.2.19 (Sep 27 2020) [64-bit]
201113-01:01:24,5 nipype.interface INFO:
stderr 2020-11-13T01:01:24.005235:++ Authored by: Cox the Algebraic (Linear)
201113-01:01:24,420 nipype.interface INFO:
stderr 2020-11-13T01:01:24.420645:++ Setting up regressors
201113-01:01:24,420 nipype.interface INFO:
stderr 2020-11-13T01:01:24.420966:++ 1 Blocks * 3 polynomials -- 3 polort regressors
201113-01:01:24,421 nipype.interface INFO:
stderr 2020-11-13T01:01:24.421115: + -- 36 other fixed ort regressors
201113-01:01:24,421 nipype.interface INFO:
stderr 2020-11-13T01:01:24.421256:++ 143 retained time points MINUS 39 regressors ==> 104 D.O.F. left
201113-01:01:24,421 nipype.interface INFO:
stderr 2020-11-13T01:01:24.421770:++ 33838 voxels in the spatial mask
201113-01:01:24,421 nipype.interface INFO:
stderr 2020-11-13T01:01:24.421943:++ Compute pseudo-inverse of fixed orts
201113-01:01:24,423 nipype.interface INFO:
stderr 2020-11-13T01:01:24.423571:++ Loading dataset
201113-01:01:24,473 nipype.interface INFO:
stderr 2020-11-13T01:01:24.473933:++ Starting project-orization
201113-01:01:24,778 nipype.interface INFO:
stderr 2020-11-13T01:01:24.778538:++ Convert results to output dataset
201113-01:01:26,217 nipype.interface INFO:
stderr 2020-11-13T01:01:26.217757:++ Output dataset ./residuals.nii.gz
201113-01:01:26,218 nipype.interface INFO:
stderr 2020-11-13T01:01:26.218211:++ ===== clock time = 2s 213ms
201113-01:01:26,402 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.nuisance_regression_after-filt_0_0.nuisance_regression".
201113-01:01:26,403 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.sinker_0_functional_nuisance_residuals" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_ms_run-1/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/sinker_0_functional_nuisance_residuals".
201113-01:01:26,411 nipype.workflow INFO:
[Node] Running "sinker_0_functional_nuisance_residuals" ("CPAC.utils.interfaces.datasink.DataSink")
201113-01:01:26,636 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.sinker_0_functional_nuisance_residuals".
201113-01:01:26,638 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.sinker_0_functional_freq_filtered" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_ms_run-1/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/sinker_0_functional_freq_filtered".
201113-01:01:26,644 nipype.workflow INFO:
[Node] Running "sinker_0_functional_freq_filtered" ("CPAC.utils.interfaces.datasink.DataSink")
201113-01:01:26,875 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.sinker_0_functional_freq_filtered".
201113-01:01:26,876 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.sinker_0_functional_nuisance_regressors" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_ms_run-1/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/sinker_0_functional_nuisance_regressors".
201113-01:01:26,883 nipype.workflow INFO:
[Node] Running "sinker_0_functional_nuisance_regressors" ("CPAC.utils.interfaces.datasink.DataSink")
201113-01:01:27,115 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.sinker_0_functional_nuisance_regressors".
201113-01:01:27,117 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.nuisance_regressor_0_0.CerebrospinalFluid_2mm_flirt" in "/outputs/tmp/resting_preproc_sub-018_ses-1/nuisance_regressor_0_0/_scan_rest_run-1/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/CerebrospinalFluid_2mm_flirt".
201113-01:01:27,125 nipype.workflow INFO:
[Node] Running "CerebrospinalFluid_2mm_flirt" ("nipype.interfaces.fsl.preprocess.FLIRT"), a CommandLine Interface with command:
flirt -in /outputs/tmp/resting_preproc_sub-018_ses-1/seg_preproc_0/CSF/erosion_segmentmap_CSF/segment_tissue_mask.nii.gz -ref /outputs/tmp/resting_preproc_sub-018_ses-1/nuisance_regressor_0_0/_scan_rest_run-1/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/Anatomical_2mm_flirt/sub-018_ses-1_T1w_resample_corrected_masked_xform_flirt.nii.gz -out segment_tissue_mask_flirt.nii.gz -omat segment_tissue_mask_flirt.mat -applyisoxfm 2.000000 -interp nearestneighbour
201113-01:01:27,894 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.nuisance_regressor_0_0.CerebrospinalFluid_2mm_flirt".
201113-01:01:27,897 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.nuisance_regressor_0_0.CerebrospinalFluid_merge_masks" in "/outputs/tmp/resting_preproc_sub-018_ses-1/nuisance_regressor_0_0/_scan_rest_run-1/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/CerebrospinalFluid_merge_masks".
201113-01:01:27,901 nipype.workflow INFO:
[Node] Running "CerebrospinalFluid_merge_masks" ("nipype.interfaces.utility.base.Merge")
201113-01:01:28,132 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.nuisance_regressor_0_0.CerebrospinalFluid_merge_masks".
201113-01:01:28,133 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.nuisance_regressor_0_0.CerebrospinalFluid_union_masks" in "/outputs/tmp/resting_preproc_sub-018_ses-1/nuisance_regressor_0_0/_scan_rest_run-1/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/CerebrospinalFluid_union_masks".
201113-01:01:28,139 nipype.workflow INFO:
[Node] Running "CerebrospinalFluid_union_masks" ("CPAC.utils.interfaces.masktool.MaskTool"), a CommandLine Interface with command:
3dmask_tool -prefix segment_tissue_mask_flirt_mask.nii.gz -input /outputs/tmp/resting_preproc_sub-018_ses-1/nuisance_regressor_0_0/_scan_rest_run-1/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/CerebrospinalFluid_union_masks/segment_tissue_mask_flirt.nii.gz
201113-01:01:28,385 nipype.interface INFO:
stderr 2020-11-13T01:01:28.385218:++ no -frac option: defaulting to -union
201113-01:01:28,385 nipype.interface INFO:
stderr 2020-11-13T01:01:28.385578:++ processing 1 input dataset(s), NN=2...
201113-01:01:28,385 nipype.interface INFO:
stderr 2020-11-13T01:01:28.385740:++ padding all datasets by 0 (for dilations)
201113-01:01:28,420 nipype.interface INFO:
stderr 2020-11-13T01:01:28.420579:++ frac 0 over 1 volumes gives min count 0
201113-01:01:28,422 nipype.interface INFO:
stderr 2020-11-13T01:01:28.422145:++ voxel limits: 0 clipped, 1831 survived, 1554649 were zero
201113-01:01:28,422 nipype.interface INFO:
stderr 2020-11-13T01:01:28.422314:++ writing result segment_tissue_mask_flirt_mask.nii.gz...
201113-01:01:28,439 nipype.interface INFO:
stderr 2020-11-13T01:01:28.439145:++ Output dataset ./segment_tissue_mask_flirt_mask.nii.gz
201113-01:01:28,596 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.nuisance_regressor_0_0.CerebrospinalFluid_union_masks".
201113-01:01:28,598 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.nuisance_regressor_0_0.CerebrospinalFluid_mean" in "/outputs/tmp/resting_preproc_sub-018_ses-1/nuisance_regressor_0_0/_scan_rest_run-1/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/CerebrospinalFluid_mean".
201113-01:01:28,604 nipype.workflow INFO:
[Node] Running "CerebrospinalFluid_mean" ("nipype.interfaces.afni.preprocess.ROIStats"), a CommandLine Interface with command:
3dROIstats -mask /outputs/tmp/resting_preproc_sub-018_ses-1/nuisance_regressor_0_0/_scan_rest_run-1/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/CerebrospinalFluid_union_masks/segment_tissue_mask_flirt_mask.nii.gz -1Dformat /outputs/tmp/resting_preproc_sub-018_ses-1/nuisance_regressor_0_0/_scan_rest_run-1/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/Functional_2mm_flirt/sub-018_ses-1_task-rest_run-1_bold_calc_despike_tshift_resample_mcf_calc_maths_flirt.nii.gz
201113-01:01:35,99 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.nuisance_regressor_0_0.CerebrospinalFluid_mean".
201113-01:01:35,100 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.nuisance_regressor_0_0.build_nuisance_regressors" in "/outputs/tmp/resting_preproc_sub-018_ses-1/nuisance_regressor_0_0/_scan_rest_run-1/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/build_nuisance_regressors".
201113-01:01:35,149 nipype.workflow INFO:
[Node] Running "build_nuisance_regressors" ("CPAC.utils.interfaces.function.Function")
201113-01:01:35,423 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.nuisance_regressor_0_0.build_nuisance_regressors".
201113-01:01:35,424 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.nuisance_regression_before-filt_0_0.nuisance_regression" in "/outputs/tmp/resting_preproc_sub-018_ses-1/nuisance_regression_before-filt_0_0/_scan_rest_run-1/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/nuisance_regression".
201113-01:01:35,454 nipype.workflow INFO:
[Node] Running "nuisance_regression" ("nipype.interfaces.afni.preprocess.TProject"), a CommandLine Interface with command:
3dTproject -input /outputs/tmp/resting_preproc_sub-018_ses-1/nuisance_regression_before-filt_0_0/_scan_rest_run-1/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/nuisance_regression/sub-018_ses-1_task-rest_run-1_bold_calc_despike_tshift_resample_mcf_calc_maths.nii.gz -mask /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/func_preproc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_rest_run-1/combine_masks/sub-018_ses-1_task-rest_run-1_bold_calc_despike_tshift_resample_mcf_tstat_brain_mask_maths.nii.gz -ort /outputs/tmp/resting_preproc_sub-018_ses-1/nuisance_regressor_0_0/_scan_rest_run-1/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/build_nuisance_regressors/nuisance_regressors.1D -polort 2 -prefix residuals.nii.gz
201113-01:01:35,706 nipype.interface INFO:
stderr 2020-11-13T01:01:35.706114:++ 3dTproject: AFNI version=AFNI_20.2.19 (Sep 27 2020) [64-bit]
201113-01:01:35,706 nipype.interface INFO:
stderr 2020-11-13T01:01:35.706495:++ Authored by: Cox the Algebraic (Linear)
201113-01:01:36,236 nipype.interface INFO:
stderr 2020-11-13T01:01:36.236054:++ Setting up regressors
201113-01:01:36,236 nipype.interface INFO:
stderr 2020-11-13T01:01:36.236371:++ 1 Blocks * 3 polynomials -- 3 polort regressors
201113-01:01:36,236 nipype.interface INFO:
stderr 2020-11-13T01:01:36.236534: + -- 36 other fixed ort regressors
201113-01:01:36,236 nipype.interface INFO:
stderr 2020-11-13T01:01:36.236677:++ 180 retained time points MINUS 39 regressors ==> 141 D.O.F. left
201113-01:01:36,237 nipype.interface INFO:
stderr 2020-11-13T01:01:36.237206:++ 20381 voxels in the spatial mask
201113-01:01:36,237 nipype.interface INFO:
stderr 2020-11-13T01:01:36.237392:++ Compute pseudo-inverse of fixed orts
201113-01:01:36,239 nipype.interface INFO:
stderr 2020-11-13T01:01:36.239461:++ Loading dataset
201113-01:01:36,275 nipype.interface INFO:
stderr 2020-11-13T01:01:36.275017:++ Starting project-orization
201113-01:01:36,498 nipype.interface INFO:
stderr 2020-11-13T01:01:36.498088:++ Convert results to output dataset
201113-01:01:37,777 nipype.interface INFO:
stderr 2020-11-13T01:01:37.777303:++ Output dataset ./residuals.nii.gz
201113-01:01:37,777 nipype.interface INFO:
stderr 2020-11-13T01:01:37.777953:++ ===== clock time = 2s 72ms
201113-01:01:37,971 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.nuisance_regression_before-filt_0_0.nuisance_regression".
201113-01:01:37,973 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.frequency_filtering_0_0.frequency_filter" in "/outputs/tmp/resting_preproc_sub-018_ses-1/frequency_filtering_0_0/_scan_rest_run-1/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/frequency_filter".
201113-01:01:37,978 nipype.workflow INFO:
[Node] Running "frequency_filter" ("CPAC.utils.interfaces.function.Function")
201113-01:01:41,952 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.frequency_filtering_0_0.frequency_filter".
201113-01:01:41,954 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.nuisance_regression_after-filt_0_0.nuisance_regression" in "/outputs/tmp/resting_preproc_sub-018_ses-1/nuisance_regression_after-filt_0_0/_scan_rest_run-1/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/nuisance_regression".
201113-01:01:41,962 nipype.workflow INFO:
[Node] Running "nuisance_regression" ("nipype.interfaces.afni.preprocess.TProject"), a CommandLine Interface with command:
3dTproject -input /outputs/tmp/resting_preproc_sub-018_ses-1/nuisance_regression_after-filt_0_0/_scan_rest_run-1/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/nuisance_regression/bandpassed_demeaned_filtered.nii.gz -mask /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/func_preproc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_rest_run-1/combine_masks/sub-018_ses-1_task-rest_run-1_bold_calc_despike_tshift_resample_mcf_tstat_brain_mask_maths.nii.gz -ort /outputs/tmp/resting_preproc_sub-018_ses-1/frequency_filtering_0_0/_scan_rest_run-1/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/frequency_filter/regressor_bandpassed_demeaned_filtered.1D -polort 2 -prefix residuals.nii.gz
201113-01:01:42,212 nipype.interface INFO:
stderr 2020-11-13T01:01:42.212590:++ 3dTproject: AFNI version=AFNI_20.2.19 (Sep 27 2020) [64-bit]
201113-01:01:42,212 nipype.interface INFO:
stderr 2020-11-13T01:01:42.212941:++ Authored by: Cox the Algebraic (Linear)
201113-01:01:42,670 nipype.interface INFO:
stderr 2020-11-13T01:01:42.670618:++ Setting up regressors
201113-01:01:42,670 nipype.interface INFO:
stderr 2020-11-13T01:01:42.670948:++ 1 Blocks * 3 polynomials -- 3 polort regressors
201113-01:01:42,671 nipype.interface INFO:
stderr 2020-11-13T01:01:42.671100: + -- 36 other fixed ort regressors
201113-01:01:42,671 nipype.interface INFO:
stderr 2020-11-13T01:01:42.671241:++ 180 retained time points MINUS 39 regressors ==> 141 D.O.F. left
201113-01:01:42,671 nipype.interface INFO:
stderr 2020-11-13T01:01:42.671764:++ 20381 voxels in the spatial mask
201113-01:01:42,671 nipype.interface INFO:
stderr 2020-11-13T01:01:42.671946:++ Compute pseudo-inverse of fixed orts
201113-01:01:42,674 nipype.interface INFO:
stderr 2020-11-13T01:01:42.674030:++ Loading dataset
201113-01:01:42,709 nipype.interface INFO:
stderr 2020-11-13T01:01:42.709311:++ Starting project-orization
201113-01:01:42,932 nipype.interface INFO:
stderr 2020-11-13T01:01:42.932893:++ Convert results to output dataset
201113-01:01:44,213 nipype.interface INFO:
stderr 2020-11-13T01:01:44.213327:++ Output dataset ./residuals.nii.gz
201113-01:01:44,213 nipype.interface INFO:
stderr 2020-11-13T01:01:44.213819:++ ===== clock time = 2s 1ms
201113-01:01:44,402 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.nuisance_regression_after-filt_0_0.nuisance_regression".
201113-01:01:44,404 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.sinker_0_functional_nuisance_residuals" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_rest_run-1/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/sinker_0_functional_nuisance_residuals".
201113-01:01:44,413 nipype.workflow INFO:
[Node] Running "sinker_0_functional_nuisance_residuals" ("CPAC.utils.interfaces.datasink.DataSink")
201113-01:01:44,643 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.sinker_0_functional_nuisance_residuals".
201113-01:01:44,645 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.sinker_0_functional_freq_filtered" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_rest_run-1/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/sinker_0_functional_freq_filtered".
201113-01:01:44,651 nipype.workflow INFO:
[Node] Running "sinker_0_functional_freq_filtered" ("CPAC.utils.interfaces.datasink.DataSink")
201113-01:01:44,884 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.sinker_0_functional_freq_filtered".
201113-01:01:44,886 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.sinker_0_functional_nuisance_regressors" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_rest_run-1/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/sinker_0_functional_nuisance_regressors".
201113-01:01:44,894 nipype.workflow INFO:
[Node] Running "sinker_0_functional_nuisance_regressors" ("CPAC.utils.interfaces.datasink.DataSink")
201113-01:01:45,126 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.sinker_0_functional_nuisance_regressors".
201113-01:01:45,128 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.nuisance_regressor_0_0.CerebrospinalFluid_2mm_flirt" in "/outputs/tmp/resting_preproc_sub-018_ses-1/nuisance_regressor_0_0/_scan_tgng_run-1/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/CerebrospinalFluid_2mm_flirt".
201113-01:01:45,136 nipype.workflow INFO:
[Node] Running "CerebrospinalFluid_2mm_flirt" ("nipype.interfaces.fsl.preprocess.FLIRT"), a CommandLine Interface with command:
flirt -in /outputs/tmp/resting_preproc_sub-018_ses-1/seg_preproc_0/CSF/erosion_segmentmap_CSF/segment_tissue_mask.nii.gz -ref /outputs/tmp/resting_preproc_sub-018_ses-1/nuisance_regressor_0_0/_scan_tgng_run-1/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/Anatomical_2mm_flirt/sub-018_ses-1_T1w_resample_corrected_masked_xform_flirt.nii.gz -out segment_tissue_mask_flirt.nii.gz -omat segment_tissue_mask_flirt.mat -applyisoxfm 2.000000 -interp nearestneighbour
201113-01:01:45,903 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.nuisance_regressor_0_0.CerebrospinalFluid_2mm_flirt".
201113-01:01:45,905 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.nuisance_regressor_0_0.CerebrospinalFluid_merge_masks" in "/outputs/tmp/resting_preproc_sub-018_ses-1/nuisance_regressor_0_0/_scan_tgng_run-1/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/CerebrospinalFluid_merge_masks".
201113-01:01:45,910 nipype.workflow INFO:
[Node] Running "CerebrospinalFluid_merge_masks" ("nipype.interfaces.utility.base.Merge")
201113-01:01:46,136 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.nuisance_regressor_0_0.CerebrospinalFluid_merge_masks".
201113-01:01:46,138 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.nuisance_regressor_0_0.CerebrospinalFluid_union_masks" in "/outputs/tmp/resting_preproc_sub-018_ses-1/nuisance_regressor_0_0/_scan_tgng_run-1/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/CerebrospinalFluid_union_masks".
201113-01:01:46,144 nipype.workflow INFO:
[Node] Running "CerebrospinalFluid_union_masks" ("CPAC.utils.interfaces.masktool.MaskTool"), a CommandLine Interface with command:
3dmask_tool -prefix segment_tissue_mask_flirt_mask.nii.gz -input /outputs/tmp/resting_preproc_sub-018_ses-1/nuisance_regressor_0_0/_scan_tgng_run-1/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/CerebrospinalFluid_union_masks/segment_tissue_mask_flirt.nii.gz
201113-01:01:46,395 nipype.interface INFO:
stderr 2020-11-13T01:01:46.395839:++ no -frac option: defaulting to -union
201113-01:01:46,396 nipype.interface INFO:
stderr 2020-11-13T01:01:46.396238:++ processing 1 input dataset(s), NN=2...
201113-01:01:46,396 nipype.interface INFO:
stderr 2020-11-13T01:01:46.396397:++ padding all datasets by 0 (for dilations)
201113-01:01:46,433 nipype.interface INFO:
stderr 2020-11-13T01:01:46.433970:++ frac 0 over 1 volumes gives min count 0
201113-01:01:46,435 nipype.interface INFO:
stderr 2020-11-13T01:01:46.435539:++ voxel limits: 0 clipped, 1831 survived, 1554649 were zero
201113-01:01:46,435 nipype.interface INFO:
stderr 2020-11-13T01:01:46.435709:++ writing result segment_tissue_mask_flirt_mask.nii.gz...
201113-01:01:46,453 nipype.interface INFO:
stderr 2020-11-13T01:01:46.453544:++ Output dataset ./segment_tissue_mask_flirt_mask.nii.gz
201113-01:01:46,613 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.nuisance_regressor_0_0.CerebrospinalFluid_union_masks".
201113-01:01:46,614 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.nuisance_regressor_0_0.CerebrospinalFluid_mean" in "/outputs/tmp/resting_preproc_sub-018_ses-1/nuisance_regressor_0_0/_scan_tgng_run-1/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/CerebrospinalFluid_mean".
201113-01:01:46,620 nipype.workflow INFO:
[Node] Running "CerebrospinalFluid_mean" ("nipype.interfaces.afni.preprocess.ROIStats"), a CommandLine Interface with command:
3dROIstats -mask /outputs/tmp/resting_preproc_sub-018_ses-1/nuisance_regressor_0_0/_scan_tgng_run-1/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/CerebrospinalFluid_union_masks/segment_tissue_mask_flirt_mask.nii.gz -1Dformat /outputs/tmp/resting_preproc_sub-018_ses-1/nuisance_regressor_0_0/_scan_tgng_run-1/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/Functional_2mm_flirt/sub-018_ses-1_task-tgng_run-1_bold_calc_despike_tshift_resample_mcf_calc_maths_flirt.nii.gz
201113-01:01:51,432 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.nuisance_regressor_0_0.CerebrospinalFluid_mean".
201113-01:01:51,434 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.nuisance_regressor_0_0.build_nuisance_regressors" in "/outputs/tmp/resting_preproc_sub-018_ses-1/nuisance_regressor_0_0/_scan_tgng_run-1/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/build_nuisance_regressors".
201113-01:01:51,498 nipype.workflow INFO:
[Node] Running "build_nuisance_regressors" ("CPAC.utils.interfaces.function.Function")
201113-01:01:51,772 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.nuisance_regressor_0_0.build_nuisance_regressors".
201113-01:01:51,774 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.nuisance_regression_before-filt_0_0.nuisance_regression" in "/outputs/tmp/resting_preproc_sub-018_ses-1/nuisance_regression_before-filt_0_0/_scan_tgng_run-1/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/nuisance_regression".
201113-01:01:51,812 nipype.workflow INFO:
[Node] Running "nuisance_regression" ("nipype.interfaces.afni.preprocess.TProject"), a CommandLine Interface with command:
3dTproject -input /outputs/tmp/resting_preproc_sub-018_ses-1/nuisance_regression_before-filt_0_0/_scan_tgng_run-1/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/nuisance_regression/sub-018_ses-1_task-tgng_run-1_bold_calc_despike_tshift_resample_mcf_calc_maths.nii.gz -mask /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/func_preproc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_tgng_run-1/combine_masks/sub-018_ses-1_task-tgng_run-1_bold_calc_despike_tshift_resample_mcf_tstat_brain_mask_maths.nii.gz -ort /outputs/tmp/resting_preproc_sub-018_ses-1/nuisance_regressor_0_0/_scan_tgng_run-1/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/build_nuisance_regressors/nuisance_regressors.1D -polort 2 -prefix residuals.nii.gz
201113-01:01:52,77 nipype.interface INFO:
stderr 2020-11-13T01:01:52.077003:++ 3dTproject: AFNI version=AFNI_20.2.19 (Sep 27 2020) [64-bit]
201113-01:01:52,77 nipype.interface INFO:
stderr 2020-11-13T01:01:52.077395:++ Authored by: Cox the Algebraic (Linear)
201113-01:01:52,521 nipype.interface INFO:
stderr 2020-11-13T01:01:52.521672:++ Setting up regressors
201113-01:01:52,522 nipype.interface INFO:
stderr 2020-11-13T01:01:52.521988:++ 1 Blocks * 3 polynomials -- 3 polort regressors
201113-01:01:52,522 nipype.interface INFO:
stderr 2020-11-13T01:01:52.522137: + -- 36 other fixed ort regressors
201113-01:01:52,522 nipype.interface INFO:
stderr 2020-11-13T01:01:52.522278:++ 130 retained time points MINUS 39 regressors ==> 91 D.O.F. left
201113-01:01:52,522 nipype.interface INFO:
stderr 2020-11-13T01:01:52.522896:++ 33847 voxels in the spatial mask
201113-01:01:52,523 nipype.interface INFO:
stderr 2020-11-13T01:01:52.523069:++ Compute pseudo-inverse of fixed orts
201113-01:01:52,524 nipype.interface INFO:
stderr 2020-11-13T01:01:52.524638:++ Loading dataset
201113-01:01:52,570 nipype.interface INFO:
stderr 2020-11-13T01:01:52.570540:++ Starting project-orization
201113-01:01:52,846 nipype.interface INFO:
stderr 2020-11-13T01:01:52.846582:++ Convert results to output dataset
201113-01:01:54,120 nipype.interface INFO:
stderr 2020-11-13T01:01:54.120094:++ Output dataset ./residuals.nii.gz
201113-01:01:54,120 nipype.interface INFO:
stderr 2020-11-13T01:01:54.120369:++ ===== clock time = 2s 42ms
201113-01:01:54,311 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.nuisance_regression_before-filt_0_0.nuisance_regression".
201113-01:01:54,313 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.frequency_filtering_0_0.frequency_filter" in "/outputs/tmp/resting_preproc_sub-018_ses-1/frequency_filtering_0_0/_scan_tgng_run-1/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/frequency_filter".
201113-01:01:54,319 nipype.workflow INFO:
[Node] Running "frequency_filter" ("CPAC.utils.interfaces.function.Function")
201113-01:01:59,558 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.frequency_filtering_0_0.frequency_filter".
201113-01:01:59,559 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.nuisance_regression_after-filt_0_0.nuisance_regression" in "/outputs/tmp/resting_preproc_sub-018_ses-1/nuisance_regression_after-filt_0_0/_scan_tgng_run-1/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/nuisance_regression".
201113-01:01:59,568 nipype.workflow INFO:
[Node] Running "nuisance_regression" ("nipype.interfaces.afni.preprocess.TProject"), a CommandLine Interface with command:
3dTproject -input /outputs/tmp/resting_preproc_sub-018_ses-1/nuisance_regression_after-filt_0_0/_scan_tgng_run-1/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/nuisance_regression/bandpassed_demeaned_filtered.nii.gz -mask /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/func_preproc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_tgng_run-1/combine_masks/sub-018_ses-1_task-tgng_run-1_bold_calc_despike_tshift_resample_mcf_tstat_brain_mask_maths.nii.gz -ort /outputs/tmp/resting_preproc_sub-018_ses-1/frequency_filtering_0_0/_scan_tgng_run-1/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/frequency_filter/regressor_bandpassed_demeaned_filtered.1D -polort 2 -prefix residuals.nii.gz
201113-01:01:59,827 nipype.interface INFO:
stderr 2020-11-13T01:01:59.827365:++ 3dTproject: AFNI version=AFNI_20.2.19 (Sep 27 2020) [64-bit]
201113-01:01:59,828 nipype.interface INFO:
stderr 2020-11-13T01:01:59.828267:++ Authored by: Cox the Algebraic (Linear)
201113-01:02:00,211 nipype.interface INFO:
stderr 2020-11-13T01:02:00.211226:++ Setting up regressors
201113-01:02:00,211 nipype.interface INFO:
stderr 2020-11-13T01:02:00.211565:++ 1 Blocks * 3 polynomials -- 3 polort regressors
201113-01:02:00,211 nipype.interface INFO:
stderr 2020-11-13T01:02:00.211717: + -- 36 other fixed ort regressors
201113-01:02:00,211 nipype.interface INFO:
stderr 2020-11-13T01:02:00.211859:++ 130 retained time points MINUS 39 regressors ==> 91 D.O.F. left
201113-01:02:00,212 nipype.interface INFO:
stderr 2020-11-13T01:02:00.212376:++ 33847 voxels in the spatial mask
201113-01:02:00,212 nipype.interface INFO:
stderr 2020-11-13T01:02:00.212557:++ Compute pseudo-inverse of fixed orts
201113-01:02:00,214 nipype.interface INFO:
stderr 2020-11-13T01:02:00.214085:++ Loading dataset
201113-01:02:00,258 nipype.interface INFO:
stderr 2020-11-13T01:02:00.258855:++ Starting project-orization
201113-01:02:00,533 nipype.interface INFO:
stderr 2020-11-13T01:02:00.533051:++ Convert results to output dataset
201113-01:02:01,873 nipype.interface INFO:
stderr 2020-11-13T01:02:01.872912:++ Output dataset ./residuals.nii.gz
201113-01:02:01,873 nipype.interface INFO:
stderr 2020-11-13T01:02:01.873526:++ ===== clock time = 2s 45ms
201113-01:02:02,64 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.nuisance_regression_after-filt_0_0.nuisance_regression".
201113-01:02:02,66 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.sinker_0_functional_nuisance_residuals" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_tgng_run-1/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/sinker_0_functional_nuisance_residuals".
201113-01:02:02,74 nipype.workflow INFO:
[Node] Running "sinker_0_functional_nuisance_residuals" ("CPAC.utils.interfaces.datasink.DataSink")
201113-01:02:02,303 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.sinker_0_functional_nuisance_residuals".
201113-01:02:02,305 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.sinker_0_functional_freq_filtered" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_tgng_run-1/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/sinker_0_functional_freq_filtered".
201113-01:02:02,312 nipype.workflow INFO:
[Node] Running "sinker_0_functional_freq_filtered" ("CPAC.utils.interfaces.datasink.DataSink")
201113-01:02:02,543 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.sinker_0_functional_freq_filtered".
201113-01:02:02,545 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.sinker_0_functional_nuisance_regressors" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_tgng_run-1/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/sinker_0_functional_nuisance_regressors".
201113-01:02:02,552 nipype.workflow INFO:
[Node] Running "sinker_0_functional_nuisance_regressors" ("CPAC.utils.interfaces.datasink.DataSink")
201113-01:02:02,788 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.sinker_0_functional_nuisance_regressors".
201113-01:02:02,790 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.nuisance_regressor_0_0.CerebrospinalFluid_2mm_flirt" in "/outputs/tmp/resting_preproc_sub-018_ses-1/nuisance_regressor_0_0/_scan_tgng_run-2/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/CerebrospinalFluid_2mm_flirt".
201113-01:02:02,798 nipype.workflow INFO:
[Node] Running "CerebrospinalFluid_2mm_flirt" ("nipype.interfaces.fsl.preprocess.FLIRT"), a CommandLine Interface with command:
flirt -in /outputs/tmp/resting_preproc_sub-018_ses-1/seg_preproc_0/CSF/erosion_segmentmap_CSF/segment_tissue_mask.nii.gz -ref /outputs/tmp/resting_preproc_sub-018_ses-1/nuisance_regressor_0_0/_scan_tgng_run-2/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/Anatomical_2mm_flirt/sub-018_ses-1_T1w_resample_corrected_masked_xform_flirt.nii.gz -out segment_tissue_mask_flirt.nii.gz -omat segment_tissue_mask_flirt.mat -applyisoxfm 2.000000 -interp nearestneighbour
201113-01:02:03,571 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.nuisance_regressor_0_0.CerebrospinalFluid_2mm_flirt".
201113-01:02:03,573 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.nuisance_regressor_0_0.CerebrospinalFluid_merge_masks" in "/outputs/tmp/resting_preproc_sub-018_ses-1/nuisance_regressor_0_0/_scan_tgng_run-2/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/CerebrospinalFluid_merge_masks".
201113-01:02:03,578 nipype.workflow INFO:
[Node] Running "CerebrospinalFluid_merge_masks" ("nipype.interfaces.utility.base.Merge")
201113-01:02:03,807 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.nuisance_regressor_0_0.CerebrospinalFluid_merge_masks".
201113-01:02:03,809 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.nuisance_regressor_0_0.CerebrospinalFluid_union_masks" in "/outputs/tmp/resting_preproc_sub-018_ses-1/nuisance_regressor_0_0/_scan_tgng_run-2/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/CerebrospinalFluid_union_masks".
201113-01:02:03,814 nipype.workflow INFO:
[Node] Running "CerebrospinalFluid_union_masks" ("CPAC.utils.interfaces.masktool.MaskTool"), a CommandLine Interface with command:
3dmask_tool -prefix segment_tissue_mask_flirt_mask.nii.gz -input /outputs/tmp/resting_preproc_sub-018_ses-1/nuisance_regressor_0_0/_scan_tgng_run-2/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/CerebrospinalFluid_union_masks/segment_tissue_mask_flirt.nii.gz
201113-01:02:04,68 nipype.interface INFO:
stderr 2020-11-13T01:02:04.067946:++ no -frac option: defaulting to -union
201113-01:02:04,68 nipype.interface INFO:
stderr 2020-11-13T01:02:04.068297:++ processing 1 input dataset(s), NN=2...
201113-01:02:04,68 nipype.interface INFO:
stderr 2020-11-13T01:02:04.068663:++ padding all datasets by 0 (for dilations)
201113-01:02:04,107 nipype.interface INFO:
stderr 2020-11-13T01:02:04.107643:++ frac 0 over 1 volumes gives min count 0
201113-01:02:04,109 nipype.interface INFO:
stderr 2020-11-13T01:02:04.109223:++ voxel limits: 0 clipped, 1831 survived, 1554649 were zero
201113-01:02:04,109 nipype.interface INFO:
stderr 2020-11-13T01:02:04.109391:++ writing result segment_tissue_mask_flirt_mask.nii.gz...
201113-01:02:04,127 nipype.interface INFO:
stderr 2020-11-13T01:02:04.127334:++ Output dataset ./segment_tissue_mask_flirt_mask.nii.gz
201113-01:02:04,282 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.nuisance_regressor_0_0.CerebrospinalFluid_union_masks".
201113-01:02:04,283 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.nuisance_regressor_0_0.CerebrospinalFluid_mean" in "/outputs/tmp/resting_preproc_sub-018_ses-1/nuisance_regressor_0_0/_scan_tgng_run-2/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/CerebrospinalFluid_mean".
201113-01:02:04,289 nipype.workflow INFO:
[Node] Running "CerebrospinalFluid_mean" ("nipype.interfaces.afni.preprocess.ROIStats"), a CommandLine Interface with command:
3dROIstats -mask /outputs/tmp/resting_preproc_sub-018_ses-1/nuisance_regressor_0_0/_scan_tgng_run-2/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/CerebrospinalFluid_union_masks/segment_tissue_mask_flirt_mask.nii.gz -1Dformat /outputs/tmp/resting_preproc_sub-018_ses-1/nuisance_regressor_0_0/_scan_tgng_run-2/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/Functional_2mm_flirt/sub-018_ses-1_task-tgng_run-2_bold_calc_despike_tshift_resample_mcf_calc_maths_flirt.nii.gz
201113-01:02:09,113 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.nuisance_regressor_0_0.CerebrospinalFluid_mean".
201113-01:02:09,115 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.nuisance_regressor_0_0.build_nuisance_regressors" in "/outputs/tmp/resting_preproc_sub-018_ses-1/nuisance_regressor_0_0/_scan_tgng_run-2/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/build_nuisance_regressors".
201113-01:02:09,175 nipype.workflow INFO:
[Node] Running "build_nuisance_regressors" ("CPAC.utils.interfaces.function.Function")
201113-01:02:09,500 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.nuisance_regressor_0_0.build_nuisance_regressors".
201113-01:02:09,502 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.nuisance_regression_before-filt_0_0.nuisance_regression" in "/outputs/tmp/resting_preproc_sub-018_ses-1/nuisance_regression_before-filt_0_0/_scan_tgng_run-2/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/nuisance_regression".
201113-01:02:09,530 nipype.workflow INFO:
[Node] Running "nuisance_regression" ("nipype.interfaces.afni.preprocess.TProject"), a CommandLine Interface with command:
3dTproject -input /outputs/tmp/resting_preproc_sub-018_ses-1/nuisance_regression_before-filt_0_0/_scan_tgng_run-2/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/nuisance_regression/sub-018_ses-1_task-tgng_run-2_bold_calc_despike_tshift_resample_mcf_calc_maths.nii.gz -mask /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/func_preproc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_tgng_run-2/combine_masks/sub-018_ses-1_task-tgng_run-2_bold_calc_despike_tshift_resample_mcf_tstat_brain_mask_maths.nii.gz -ort /outputs/tmp/resting_preproc_sub-018_ses-1/nuisance_regressor_0_0/_scan_tgng_run-2/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/build_nuisance_regressors/nuisance_regressors.1D -polort 2 -prefix residuals.nii.gz
201113-01:02:09,782 nipype.interface INFO:
stderr 2020-11-13T01:02:09.782761:++ 3dTproject: AFNI version=AFNI_20.2.19 (Sep 27 2020) [64-bit]
201113-01:02:09,783 nipype.interface INFO:
stderr 2020-11-13T01:02:09.783130:++ Authored by: Cox the Algebraic (Linear)
201113-01:02:10,253 nipype.interface INFO:
stderr 2020-11-13T01:02:10.253888:++ Setting up regressors
201113-01:02:10,254 nipype.interface INFO:
stderr 2020-11-13T01:02:10.254205:++ 1 Blocks * 3 polynomials -- 3 polort regressors
201113-01:02:10,254 nipype.interface INFO:
stderr 2020-11-13T01:02:10.254357: + -- 36 other fixed ort regressors
201113-01:02:10,254 nipype.interface INFO:
stderr 2020-11-13T01:02:10.254518:++ 130 retained time points MINUS 39 regressors ==> 91 D.O.F. left
201113-01:02:10,255 nipype.interface INFO:
stderr 2020-11-13T01:02:10.255039:++ 33911 voxels in the spatial mask
201113-01:02:10,255 nipype.interface INFO:
stderr 2020-11-13T01:02:10.255212:++ Compute pseudo-inverse of fixed orts
201113-01:02:10,256 nipype.interface INFO:
stderr 2020-11-13T01:02:10.256747:++ Loading dataset
201113-01:02:10,300 nipype.interface INFO:
stderr 2020-11-13T01:02:10.300370:++ Starting project-orization
201113-01:02:10,574 nipype.interface INFO:
stderr 2020-11-13T01:02:10.574941:++ Convert results to output dataset
201113-01:02:11,844 nipype.interface INFO:
stderr 2020-11-13T01:02:11.844036:++ Output dataset ./residuals.nii.gz
201113-01:02:11,844 nipype.interface INFO:
stderr 2020-11-13T01:02:11.844696:++ ===== clock time = 2s 62ms
201113-01:02:12,35 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.nuisance_regression_before-filt_0_0.nuisance_regression".
201113-01:02:12,37 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.frequency_filtering_0_0.frequency_filter" in "/outputs/tmp/resting_preproc_sub-018_ses-1/frequency_filtering_0_0/_scan_tgng_run-2/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/frequency_filter".
201113-01:02:12,43 nipype.workflow INFO:
[Node] Running "frequency_filter" ("CPAC.utils.interfaces.function.Function")
201113-01:02:17,350 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.frequency_filtering_0_0.frequency_filter".
201113-01:02:17,351 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.nuisance_regression_after-filt_0_0.nuisance_regression" in "/outputs/tmp/resting_preproc_sub-018_ses-1/nuisance_regression_after-filt_0_0/_scan_tgng_run-2/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/nuisance_regression".
201113-01:02:17,360 nipype.workflow INFO:
[Node] Running "nuisance_regression" ("nipype.interfaces.afni.preprocess.TProject"), a CommandLine Interface with command:
3dTproject -input /outputs/tmp/resting_preproc_sub-018_ses-1/nuisance_regression_after-filt_0_0/_scan_tgng_run-2/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/nuisance_regression/bandpassed_demeaned_filtered.nii.gz -mask /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/func_preproc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_tgng_run-2/combine_masks/sub-018_ses-1_task-tgng_run-2_bold_calc_despike_tshift_resample_mcf_tstat_brain_mask_maths.nii.gz -ort /outputs/tmp/resting_preproc_sub-018_ses-1/frequency_filtering_0_0/_scan_tgng_run-2/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/frequency_filter/regressor_bandpassed_demeaned_filtered.1D -polort 2 -prefix residuals.nii.gz
201113-01:02:17,608 nipype.interface INFO:
stderr 2020-11-13T01:02:17.608537:++ 3dTproject: AFNI version=AFNI_20.2.19 (Sep 27 2020) [64-bit]
201113-01:02:17,608 nipype.interface INFO:
stderr 2020-11-13T01:02:17.608879:++ Authored by: Cox the Algebraic (Linear)
201113-01:02:17,987 nipype.interface INFO:
stderr 2020-11-13T01:02:17.987847:++ Setting up regressors
201113-01:02:17,988 nipype.interface INFO:
stderr 2020-11-13T01:02:17.988176:++ 1 Blocks * 3 polynomials -- 3 polort regressors
201113-01:02:17,988 nipype.interface INFO:
stderr 2020-11-13T01:02:17.988327: + -- 36 other fixed ort regressors
201113-01:02:17,988 nipype.interface INFO:
stderr 2020-11-13T01:02:17.988475:++ 130 retained time points MINUS 39 regressors ==> 91 D.O.F. left
201113-01:02:17,989 nipype.interface INFO:
stderr 2020-11-13T01:02:17.988991:++ 33911 voxels in the spatial mask
201113-01:02:17,989 nipype.interface INFO:
stderr 2020-11-13T01:02:17.989162:++ Compute pseudo-inverse of fixed orts
201113-01:02:17,990 nipype.interface INFO:
stderr 2020-11-13T01:02:17.990658:++ Loading dataset
201113-01:02:18,35 nipype.interface INFO:
stderr 2020-11-13T01:02:18.035382:++ Starting project-orization
201113-01:02:18,310 nipype.interface INFO:
stderr 2020-11-13T01:02:18.310678:++ Convert results to output dataset
201113-01:02:19,640 nipype.interface INFO:
stderr 2020-11-13T01:02:19.640634:++ Output dataset ./residuals.nii.gz
201113-01:02:19,640 nipype.interface INFO:
stderr 2020-11-13T01:02:19.640911:++ ===== clock time = 2s 32ms
201113-01:02:19,830 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.nuisance_regression_after-filt_0_0.nuisance_regression".
201113-01:02:19,832 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.sinker_0_functional_nuisance_residuals" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_tgng_run-2/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/sinker_0_functional_nuisance_residuals".
201113-01:02:19,841 nipype.workflow INFO:
[Node] Running "sinker_0_functional_nuisance_residuals" ("CPAC.utils.interfaces.datasink.DataSink")
201113-01:02:20,72 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.sinker_0_functional_nuisance_residuals".
201113-01:02:20,73 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.sinker_0_functional_freq_filtered" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_tgng_run-2/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/sinker_0_functional_freq_filtered".
201113-01:02:20,80 nipype.workflow INFO:
[Node] Running "sinker_0_functional_freq_filtered" ("CPAC.utils.interfaces.datasink.DataSink")
201113-01:02:20,307 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.sinker_0_functional_freq_filtered".
201113-01:02:20,309 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.sinker_0_functional_nuisance_regressors" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_tgng_run-2/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/sinker_0_functional_nuisance_regressors".
201113-01:02:20,315 nipype.workflow INFO:
[Node] Running "sinker_0_functional_nuisance_regressors" ("CPAC.utils.interfaces.datasink.DataSink")
201113-01:02:20,543 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.sinker_0_functional_nuisance_regressors".
201113-01:02:20,545 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.montage_csf_gm_wm_0.resample_o_csf" in "/outputs/tmp/resting_preproc_sub-018_ses-1/montage_csf_gm_wm_0/resample_o_csf".
201113-01:02:20,549 nipype.workflow INFO:
[Node] Running "resample_o_csf" ("CPAC.utils.interfaces.function.Function")
201113-01:02:21,322 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.montage_csf_gm_wm_0.resample_o_csf".
201113-01:02:21,323 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.montage_csf_gm_wm_0.montage_s" in "/outputs/tmp/resting_preproc_sub-018_ses-1/montage_csf_gm_wm_0/montage_s".
201113-01:02:21,332 nipype.workflow INFO:
[Node] Running "montage_s" ("CPAC.utils.interfaces.function.Function")
201113-01:02:24,802 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.montage_csf_gm_wm_0.montage_s".
201113-01:02:24,804 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.sinker_0_qc___csf_gm_wm_s" in "/outputs/tmp/resting_preproc_sub-018_ses-1/sinker_0_qc___csf_gm_wm_s".
201113-01:02:24,811 nipype.workflow INFO:
[Node] Running "sinker_0_qc___csf_gm_wm_s" ("CPAC.utils.interfaces.datasink.DataSink")
201113-01:02:25,20 nipype.interface INFO:
sub: /outputs/output/pipeline_cpac_fmriprep-options/sub-018_ses-1/qc___csf_gm_wm_s/montage_csf_gm_wm_s.png -> /outputs/output/pipeline_cpac_fmriprep-options/sub-018_ses-1/qc/csf_gm_wm_s/montage_csf_gm_wm_s.png
201113-01:02:25,38 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.sinker_0_qc___csf_gm_wm_s".
201113-01:02:25,40 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.montage_csf_gm_wm_0.montage_a" in "/outputs/tmp/resting_preproc_sub-018_ses-1/montage_csf_gm_wm_0/montage_a".
201113-01:02:25,46 nipype.workflow INFO:
[Node] Running "montage_a" ("CPAC.utils.interfaces.function.Function")
201113-01:02:28,756 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.montage_csf_gm_wm_0.montage_a".
201113-01:02:28,757 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.sinker_0_qc___csf_gm_wm_a" in "/outputs/tmp/resting_preproc_sub-018_ses-1/sinker_0_qc___csf_gm_wm_a".
201113-01:02:28,766 nipype.workflow INFO:
[Node] Running "sinker_0_qc___csf_gm_wm_a" ("CPAC.utils.interfaces.datasink.DataSink")
201113-01:02:28,977 nipype.interface INFO:
sub: /outputs/output/pipeline_cpac_fmriprep-options/sub-018_ses-1/qc___csf_gm_wm_a/montage_csf_gm_wm_a.png -> /outputs/output/pipeline_cpac_fmriprep-options/sub-018_ses-1/qc/csf_gm_wm_a/montage_csf_gm_wm_a.png
201113-01:02:28,995 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.sinker_0_qc___csf_gm_wm_a".
201113-01:02:28,997 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.sinker_0_anatomical_csf_mask" in "/outputs/tmp/resting_preproc_sub-018_ses-1/sinker_0_anatomical_csf_mask".
201113-01:02:29,3 nipype.workflow INFO:
[Node] Running "sinker_0_anatomical_csf_mask" ("CPAC.utils.interfaces.datasink.DataSink")
201113-01:02:29,234 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.sinker_0_anatomical_csf_mask".
201113-01:02:29,236 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.sinker_0_anatomical_brain" in "/outputs/tmp/resting_preproc_sub-018_ses-1/sinker_0_anatomical_brain".
201113-01:02:29,244 nipype.workflow INFO:
[Node] Running "sinker_0_anatomical_brain" ("CPAC.utils.interfaces.datasink.DataSink")
201113-01:02:29,476 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.sinker_0_anatomical_brain".
201113-01:02:29,478 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.anat_edge_0" in "/outputs/tmp/resting_preproc_sub-018_ses-1/anat_edge_0".
201113-01:02:29,482 nipype.workflow INFO:
[Node] Running "anat_edge_0" ("CPAC.utils.interfaces.function.Function")
201113-01:02:32,758 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.anat_edge_0".
201113-01:02:32,760 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.montage_anat_0.resample_o" in "/outputs/tmp/resting_preproc_sub-018_ses-1/montage_anat_0/resample_o".
201113-01:02:32,765 nipype.workflow INFO:
[Node] Running "resample_o" ("CPAC.utils.interfaces.function.Function")
201113-01:02:33,673 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.montage_anat_0.resample_o".
201113-01:02:33,675 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.montage_anat_0.montage_s" in "/outputs/tmp/resting_preproc_sub-018_ses-1/montage_anat_0/_scan_tgng_run-2/montage_s".
201113-01:02:33,703 nipype.workflow INFO:
[Node] Setting-up "_montage_s0" in "/outputs/tmp/resting_preproc_sub-018_ses-1/montage_anat_0/_scan_tgng_run-2/montage_s/mapflow/_montage_s0".
201113-01:02:33,707 nipype.workflow INFO:
[Node] Running "_montage_s0" ("CPAC.utils.interfaces.function.Function")
201113-01:02:36,25 nipype.workflow INFO:
[Node] Finished "_montage_s0".
201113-01:02:36,29 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.montage_anat_0.montage_s".
201113-01:02:36,29 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.sinker_0_qc___mean_func_with_t1_edge_s" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_tgng_run-2/sinker_0_qc___mean_func_with_t1_edge_s".
201113-01:02:36,36 nipype.workflow INFO:
[Node] Running "sinker_0_qc___mean_func_with_t1_edge_s" ("CPAC.utils.interfaces.datasink.DataSink")
201113-01:02:36,248 nipype.interface INFO:
sub: /outputs/output/pipeline_cpac_fmriprep-options/sub-018_ses-1/qc___mean_func_with_t1_edge_s/_scan_tgng_run-2/_montage_s0/t1_edge_on_mean_func_in_t1_s.png -> /outputs/output/pipeline_cpac_fmriprep-options/sub-018_ses-1/qc/mean_func_with_t1_edge_s/_scan_tgng_run-2/_montage_s0/t1_edge_on_mean_func_in_t1_s.png
201113-01:02:36,264 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.sinker_0_qc___mean_func_with_t1_edge_s".
201113-01:02:36,266 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.montage_anat_0.montage_a" in "/outputs/tmp/resting_preproc_sub-018_ses-1/montage_anat_0/_scan_tgng_run-2/montage_a".
201113-01:02:36,272 nipype.workflow INFO:
[Node] Setting-up "_montage_a0" in "/outputs/tmp/resting_preproc_sub-018_ses-1/montage_anat_0/_scan_tgng_run-2/montage_a/mapflow/_montage_a0".
201113-01:02:36,277 nipype.workflow INFO:
[Node] Running "_montage_a0" ("CPAC.utils.interfaces.function.Function")
201113-01:02:38,900 nipype.workflow INFO:
[Node] Finished "_montage_a0".
201113-01:02:38,904 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.montage_anat_0.montage_a".
201113-01:02:38,904 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.sinker_0_qc___mean_func_with_t1_edge_a" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_tgng_run-2/sinker_0_qc___mean_func_with_t1_edge_a".
201113-01:02:38,912 nipype.workflow INFO:
[Node] Running "sinker_0_qc___mean_func_with_t1_edge_a" ("CPAC.utils.interfaces.datasink.DataSink")
201113-01:02:39,126 nipype.interface INFO:
sub: /outputs/output/pipeline_cpac_fmriprep-options/sub-018_ses-1/qc___mean_func_with_t1_edge_a/_scan_tgng_run-2/_montage_a0/t1_edge_on_mean_func_in_t1_a.png -> /outputs/output/pipeline_cpac_fmriprep-options/sub-018_ses-1/qc/mean_func_with_t1_edge_a/_scan_tgng_run-2/_montage_a0/t1_edge_on_mean_func_in_t1_a.png
201113-01:02:39,144 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.sinker_0_qc___mean_func_with_t1_edge_a".
201113-01:02:39,146 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.montage_anat_0.montage_s" in "/outputs/tmp/resting_preproc_sub-018_ses-1/montage_anat_0/_scan_tgng_run-1/montage_s".
201113-01:02:39,154 nipype.workflow INFO:
[Node] Setting-up "_montage_s0" in "/outputs/tmp/resting_preproc_sub-018_ses-1/montage_anat_0/_scan_tgng_run-1/montage_s/mapflow/_montage_s0".
201113-01:02:39,158 nipype.workflow INFO:
[Node] Running "_montage_s0" ("CPAC.utils.interfaces.function.Function")
201113-01:02:41,556 nipype.workflow INFO:
[Node] Finished "_montage_s0".
201113-01:02:41,560 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.montage_anat_0.montage_s".
201113-01:02:41,560 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.sinker_0_qc___mean_func_with_t1_edge_s" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_tgng_run-1/sinker_0_qc___mean_func_with_t1_edge_s".
201113-01:02:41,567 nipype.workflow INFO:
[Node] Running "sinker_0_qc___mean_func_with_t1_edge_s" ("CPAC.utils.interfaces.datasink.DataSink")
201113-01:02:41,778 nipype.interface INFO:
sub: /outputs/output/pipeline_cpac_fmriprep-options/sub-018_ses-1/qc___mean_func_with_t1_edge_s/_scan_tgng_run-1/_montage_s0/t1_edge_on_mean_func_in_t1_s.png -> /outputs/output/pipeline_cpac_fmriprep-options/sub-018_ses-1/qc/mean_func_with_t1_edge_s/_scan_tgng_run-1/_montage_s0/t1_edge_on_mean_func_in_t1_s.png
201113-01:02:41,795 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.sinker_0_qc___mean_func_with_t1_edge_s".
201113-01:02:41,797 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.montage_anat_0.montage_a" in "/outputs/tmp/resting_preproc_sub-018_ses-1/montage_anat_0/_scan_tgng_run-1/montage_a".
201113-01:02:41,802 nipype.workflow INFO:
[Node] Setting-up "_montage_a0" in "/outputs/tmp/resting_preproc_sub-018_ses-1/montage_anat_0/_scan_tgng_run-1/montage_a/mapflow/_montage_a0".
201113-01:02:41,807 nipype.workflow INFO:
[Node] Running "_montage_a0" ("CPAC.utils.interfaces.function.Function")
201113-01:02:44,423 nipype.workflow INFO:
[Node] Finished "_montage_a0".
201113-01:02:44,427 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.montage_anat_0.montage_a".
201113-01:02:44,427 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.sinker_0_qc___mean_func_with_t1_edge_a" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_tgng_run-1/sinker_0_qc___mean_func_with_t1_edge_a".
201113-01:02:44,434 nipype.workflow INFO:
[Node] Running "sinker_0_qc___mean_func_with_t1_edge_a" ("CPAC.utils.interfaces.datasink.DataSink")
201113-01:02:44,647 nipype.interface INFO:
sub: /outputs/output/pipeline_cpac_fmriprep-options/sub-018_ses-1/qc___mean_func_with_t1_edge_a/_scan_tgng_run-1/_montage_a0/t1_edge_on_mean_func_in_t1_a.png -> /outputs/output/pipeline_cpac_fmriprep-options/sub-018_ses-1/qc/mean_func_with_t1_edge_a/_scan_tgng_run-1/_montage_a0/t1_edge_on_mean_func_in_t1_a.png
201113-01:02:44,664 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.sinker_0_qc___mean_func_with_t1_edge_a".
201113-01:02:44,665 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.montage_anat_0.montage_s" in "/outputs/tmp/resting_preproc_sub-018_ses-1/montage_anat_0/_scan_rest_run-1/montage_s".
201113-01:02:44,673 nipype.workflow INFO:
[Node] Setting-up "_montage_s0" in "/outputs/tmp/resting_preproc_sub-018_ses-1/montage_anat_0/_scan_rest_run-1/montage_s/mapflow/_montage_s0".
201113-01:02:44,677 nipype.workflow INFO:
[Node] Running "_montage_s0" ("CPAC.utils.interfaces.function.Function")
201113-01:02:47,89 nipype.workflow INFO:
[Node] Finished "_montage_s0".
201113-01:02:47,92 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.montage_anat_0.montage_s".
201113-01:02:47,93 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.sinker_0_qc___mean_func_with_t1_edge_s" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_rest_run-1/sinker_0_qc___mean_func_with_t1_edge_s".
201113-01:02:47,101 nipype.workflow INFO:
[Node] Running "sinker_0_qc___mean_func_with_t1_edge_s" ("CPAC.utils.interfaces.datasink.DataSink")
201113-01:02:47,310 nipype.interface INFO:
sub: /outputs/output/pipeline_cpac_fmriprep-options/sub-018_ses-1/qc___mean_func_with_t1_edge_s/_scan_rest_run-1/_montage_s0/t1_edge_on_mean_func_in_t1_s.png -> /outputs/output/pipeline_cpac_fmriprep-options/sub-018_ses-1/qc/mean_func_with_t1_edge_s/_scan_rest_run-1/_montage_s0/t1_edge_on_mean_func_in_t1_s.png
201113-01:02:47,326 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.sinker_0_qc___mean_func_with_t1_edge_s".
201113-01:02:47,328 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.montage_anat_0.montage_a" in "/outputs/tmp/resting_preproc_sub-018_ses-1/montage_anat_0/_scan_rest_run-1/montage_a".
201113-01:02:47,335 nipype.workflow INFO:
[Node] Setting-up "_montage_a0" in "/outputs/tmp/resting_preproc_sub-018_ses-1/montage_anat_0/_scan_rest_run-1/montage_a/mapflow/_montage_a0".
201113-01:02:47,339 nipype.workflow INFO:
[Node] Running "_montage_a0" ("CPAC.utils.interfaces.function.Function")
201113-01:02:49,959 nipype.workflow INFO:
[Node] Finished "_montage_a0".
201113-01:02:49,962 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.montage_anat_0.montage_a".
201113-01:02:49,962 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.sinker_0_qc___mean_func_with_t1_edge_a" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_rest_run-1/sinker_0_qc___mean_func_with_t1_edge_a".
201113-01:02:49,970 nipype.workflow INFO:
[Node] Running "sinker_0_qc___mean_func_with_t1_edge_a" ("CPAC.utils.interfaces.datasink.DataSink")
201113-01:02:50,179 nipype.interface INFO:
sub: /outputs/output/pipeline_cpac_fmriprep-options/sub-018_ses-1/qc___mean_func_with_t1_edge_a/_scan_rest_run-1/_montage_a0/t1_edge_on_mean_func_in_t1_a.png -> /outputs/output/pipeline_cpac_fmriprep-options/sub-018_ses-1/qc/mean_func_with_t1_edge_a/_scan_rest_run-1/_montage_a0/t1_edge_on_mean_func_in_t1_a.png
201113-01:02:50,197 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.sinker_0_qc___mean_func_with_t1_edge_a".
201113-01:02:50,199 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.montage_anat_0.montage_s" in "/outputs/tmp/resting_preproc_sub-018_ses-1/montage_anat_0/_scan_ms_run-1/montage_s".
201113-01:02:50,205 nipype.workflow INFO:
[Node] Setting-up "_montage_s0" in "/outputs/tmp/resting_preproc_sub-018_ses-1/montage_anat_0/_scan_ms_run-1/montage_s/mapflow/_montage_s0".
201113-01:02:50,209 nipype.workflow INFO:
[Node] Running "_montage_s0" ("CPAC.utils.interfaces.function.Function")
201113-01:02:52,527 nipype.workflow INFO:
[Node] Finished "_montage_s0".
201113-01:02:52,530 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.montage_anat_0.montage_s".
201113-01:02:52,531 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.sinker_0_qc___mean_func_with_t1_edge_s" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_ms_run-1/sinker_0_qc___mean_func_with_t1_edge_s".
201113-01:02:52,539 nipype.workflow INFO:
[Node] Running "sinker_0_qc___mean_func_with_t1_edge_s" ("CPAC.utils.interfaces.datasink.DataSink")
201113-01:02:52,749 nipype.interface INFO:
sub: /outputs/output/pipeline_cpac_fmriprep-options/sub-018_ses-1/qc___mean_func_with_t1_edge_s/_scan_ms_run-1/_montage_s0/t1_edge_on_mean_func_in_t1_s.png -> /outputs/output/pipeline_cpac_fmriprep-options/sub-018_ses-1/qc/mean_func_with_t1_edge_s/_scan_ms_run-1/_montage_s0/t1_edge_on_mean_func_in_t1_s.png
201113-01:02:52,768 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.sinker_0_qc___mean_func_with_t1_edge_s".
201113-01:02:52,770 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.montage_anat_0.montage_a" in "/outputs/tmp/resting_preproc_sub-018_ses-1/montage_anat_0/_scan_ms_run-1/montage_a".
201113-01:02:52,778 nipype.workflow INFO:
[Node] Setting-up "_montage_a0" in "/outputs/tmp/resting_preproc_sub-018_ses-1/montage_anat_0/_scan_ms_run-1/montage_a/mapflow/_montage_a0".
201113-01:02:52,782 nipype.workflow INFO:
[Node] Running "_montage_a0" ("CPAC.utils.interfaces.function.Function")
201113-01:02:55,401 nipype.workflow INFO:
[Node] Finished "_montage_a0".
201113-01:02:55,404 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.montage_anat_0.montage_a".
201113-01:02:55,405 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.sinker_0_qc___mean_func_with_t1_edge_a" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_ms_run-1/sinker_0_qc___mean_func_with_t1_edge_a".
201113-01:02:55,413 nipype.workflow INFO:
[Node] Running "sinker_0_qc___mean_func_with_t1_edge_a" ("CPAC.utils.interfaces.datasink.DataSink")
201113-01:02:55,626 nipype.interface INFO:
sub: /outputs/output/pipeline_cpac_fmriprep-options/sub-018_ses-1/qc___mean_func_with_t1_edge_a/_scan_ms_run-1/_montage_a0/t1_edge_on_mean_func_in_t1_a.png -> /outputs/output/pipeline_cpac_fmriprep-options/sub-018_ses-1/qc/mean_func_with_t1_edge_a/_scan_ms_run-1/_montage_a0/t1_edge_on_mean_func_in_t1_a.png
201113-01:02:55,644 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.sinker_0_qc___mean_func_with_t1_edge_a".
201113-01:02:55,646 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.montage_anat_0.montage_s" in "/outputs/tmp/resting_preproc_sub-018_ses-1/montage_anat_0/_scan_matching_run-3/montage_s".
201113-01:02:55,654 nipype.workflow INFO:
[Node] Setting-up "_montage_s0" in "/outputs/tmp/resting_preproc_sub-018_ses-1/montage_anat_0/_scan_matching_run-3/montage_s/mapflow/_montage_s0".
201113-01:02:55,660 nipype.workflow INFO:
[Node] Running "_montage_s0" ("CPAC.utils.interfaces.function.Function")
201113-01:02:58,86 nipype.workflow INFO:
[Node] Finished "_montage_s0".
201113-01:02:58,90 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.montage_anat_0.montage_s".
201113-01:02:58,90 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.sinker_0_qc___mean_func_with_t1_edge_s" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_matching_run-3/sinker_0_qc___mean_func_with_t1_edge_s".
201113-01:02:58,99 nipype.workflow INFO:
[Node] Running "sinker_0_qc___mean_func_with_t1_edge_s" ("CPAC.utils.interfaces.datasink.DataSink")
201113-01:02:58,309 nipype.interface INFO:
sub: /outputs/output/pipeline_cpac_fmriprep-options/sub-018_ses-1/qc___mean_func_with_t1_edge_s/_scan_matching_run-3/_montage_s0/t1_edge_on_mean_func_in_t1_s.png -> /outputs/output/pipeline_cpac_fmriprep-options/sub-018_ses-1/qc/mean_func_with_t1_edge_s/_scan_matching_run-3/_montage_s0/t1_edge_on_mean_func_in_t1_s.png
201113-01:02:58,325 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.sinker_0_qc___mean_func_with_t1_edge_s".
201113-01:02:58,327 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.montage_anat_0.montage_a" in "/outputs/tmp/resting_preproc_sub-018_ses-1/montage_anat_0/_scan_matching_run-3/montage_a".
201113-01:02:58,333 nipype.workflow INFO:
[Node] Setting-up "_montage_a0" in "/outputs/tmp/resting_preproc_sub-018_ses-1/montage_anat_0/_scan_matching_run-3/montage_a/mapflow/_montage_a0".
201113-01:02:58,338 nipype.workflow INFO:
[Node] Running "_montage_a0" ("CPAC.utils.interfaces.function.Function")
201113-01:03:00,945 nipype.workflow INFO:
[Node] Finished "_montage_a0".
201113-01:03:00,950 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.montage_anat_0.montage_a".
201113-01:03:00,950 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.sinker_0_qc___mean_func_with_t1_edge_a" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_matching_run-3/sinker_0_qc___mean_func_with_t1_edge_a".
201113-01:03:00,957 nipype.workflow INFO:
[Node] Running "sinker_0_qc___mean_func_with_t1_edge_a" ("CPAC.utils.interfaces.datasink.DataSink")
201113-01:03:01,168 nipype.interface INFO:
sub: /outputs/output/pipeline_cpac_fmriprep-options/sub-018_ses-1/qc___mean_func_with_t1_edge_a/_scan_matching_run-3/_montage_a0/t1_edge_on_mean_func_in_t1_a.png -> /outputs/output/pipeline_cpac_fmriprep-options/sub-018_ses-1/qc/mean_func_with_t1_edge_a/_scan_matching_run-3/_montage_a0/t1_edge_on_mean_func_in_t1_a.png
201113-01:03:01,184 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.sinker_0_qc___mean_func_with_t1_edge_a".
201113-01:03:01,186 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.montage_anat_0.montage_s" in "/outputs/tmp/resting_preproc_sub-018_ses-1/montage_anat_0/_scan_matching_run-2/montage_s".
201113-01:03:01,218 nipype.workflow INFO:
[Node] Setting-up "_montage_s0" in "/outputs/tmp/resting_preproc_sub-018_ses-1/montage_anat_0/_scan_matching_run-2/montage_s/mapflow/_montage_s0".
201113-01:03:01,222 nipype.workflow INFO:
[Node] Running "_montage_s0" ("CPAC.utils.interfaces.function.Function")
201113-01:03:03,531 nipype.workflow INFO:
[Node] Finished "_montage_s0".
201113-01:03:03,534 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.montage_anat_0.montage_s".
201113-01:03:03,535 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.sinker_0_qc___mean_func_with_t1_edge_s" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_matching_run-2/sinker_0_qc___mean_func_with_t1_edge_s".
201113-01:03:03,543 nipype.workflow INFO:
[Node] Running "sinker_0_qc___mean_func_with_t1_edge_s" ("CPAC.utils.interfaces.datasink.DataSink")
201113-01:03:03,755 nipype.interface INFO:
sub: /outputs/output/pipeline_cpac_fmriprep-options/sub-018_ses-1/qc___mean_func_with_t1_edge_s/_scan_matching_run-2/_montage_s0/t1_edge_on_mean_func_in_t1_s.png -> /outputs/output/pipeline_cpac_fmriprep-options/sub-018_ses-1/qc/mean_func_with_t1_edge_s/_scan_matching_run-2/_montage_s0/t1_edge_on_mean_func_in_t1_s.png
201113-01:03:03,773 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.sinker_0_qc___mean_func_with_t1_edge_s".
201113-01:03:03,774 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.montage_anat_0.montage_a" in "/outputs/tmp/resting_preproc_sub-018_ses-1/montage_anat_0/_scan_matching_run-2/montage_a".
201113-01:03:03,781 nipype.workflow INFO:
[Node] Setting-up "_montage_a0" in "/outputs/tmp/resting_preproc_sub-018_ses-1/montage_anat_0/_scan_matching_run-2/montage_a/mapflow/_montage_a0".
201113-01:03:03,785 nipype.workflow INFO:
[Node] Running "_montage_a0" ("CPAC.utils.interfaces.function.Function")
201113-01:03:06,388 nipype.workflow INFO:
[Node] Finished "_montage_a0".
201113-01:03:06,392 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.montage_anat_0.montage_a".
201113-01:03:06,392 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.sinker_0_qc___mean_func_with_t1_edge_a" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_matching_run-2/sinker_0_qc___mean_func_with_t1_edge_a".
201113-01:03:06,399 nipype.workflow INFO:
[Node] Running "sinker_0_qc___mean_func_with_t1_edge_a" ("CPAC.utils.interfaces.datasink.DataSink")
201113-01:03:06,609 nipype.interface INFO:
sub: /outputs/output/pipeline_cpac_fmriprep-options/sub-018_ses-1/qc___mean_func_with_t1_edge_a/_scan_matching_run-2/_montage_a0/t1_edge_on_mean_func_in_t1_a.png -> /outputs/output/pipeline_cpac_fmriprep-options/sub-018_ses-1/qc/mean_func_with_t1_edge_a/_scan_matching_run-2/_montage_a0/t1_edge_on_mean_func_in_t1_a.png
201113-01:03:06,626 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.sinker_0_qc___mean_func_with_t1_edge_a".
201113-01:03:06,628 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.montage_anat_0.montage_s" in "/outputs/tmp/resting_preproc_sub-018_ses-1/montage_anat_0/_scan_matching_run-1/montage_s".
201113-01:03:06,646 nipype.workflow INFO:
[Node] Setting-up "_montage_s0" in "/outputs/tmp/resting_preproc_sub-018_ses-1/montage_anat_0/_scan_matching_run-1/montage_s/mapflow/_montage_s0".
201113-01:03:06,649 nipype.workflow INFO:
[Node] Running "_montage_s0" ("CPAC.utils.interfaces.function.Function")
201113-01:03:08,971 nipype.workflow INFO:
[Node] Finished "_montage_s0".
201113-01:03:08,975 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.montage_anat_0.montage_s".
201113-01:03:08,975 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.sinker_0_qc___mean_func_with_t1_edge_s" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_matching_run-1/sinker_0_qc___mean_func_with_t1_edge_s".
201113-01:03:08,984 nipype.workflow INFO:
[Node] Running "sinker_0_qc___mean_func_with_t1_edge_s" ("CPAC.utils.interfaces.datasink.DataSink")
201113-01:03:09,197 nipype.interface INFO:
sub: /outputs/output/pipeline_cpac_fmriprep-options/sub-018_ses-1/qc___mean_func_with_t1_edge_s/_scan_matching_run-1/_montage_s0/t1_edge_on_mean_func_in_t1_s.png -> /outputs/output/pipeline_cpac_fmriprep-options/sub-018_ses-1/qc/mean_func_with_t1_edge_s/_scan_matching_run-1/_montage_s0/t1_edge_on_mean_func_in_t1_s.png
201113-01:03:09,214 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.sinker_0_qc___mean_func_with_t1_edge_s".
201113-01:03:09,215 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.montage_anat_0.montage_a" in "/outputs/tmp/resting_preproc_sub-018_ses-1/montage_anat_0/_scan_matching_run-1/montage_a".
201113-01:03:09,222 nipype.workflow INFO:
[Node] Setting-up "_montage_a0" in "/outputs/tmp/resting_preproc_sub-018_ses-1/montage_anat_0/_scan_matching_run-1/montage_a/mapflow/_montage_a0".
201113-01:03:09,226 nipype.workflow INFO:
[Node] Running "_montage_a0" ("CPAC.utils.interfaces.function.Function")
201113-01:03:11,821 nipype.workflow INFO:
[Node] Finished "_montage_a0".
201113-01:03:11,825 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.montage_anat_0.montage_a".
201113-01:03:11,825 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.sinker_0_qc___mean_func_with_t1_edge_a" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_matching_run-1/sinker_0_qc___mean_func_with_t1_edge_a".
201113-01:03:11,833 nipype.workflow INFO:
[Node] Running "sinker_0_qc___mean_func_with_t1_edge_a" ("CPAC.utils.interfaces.datasink.DataSink")
201113-01:03:12,46 nipype.interface INFO:
sub: /outputs/output/pipeline_cpac_fmriprep-options/sub-018_ses-1/qc___mean_func_with_t1_edge_a/_scan_matching_run-1/_montage_a0/t1_edge_on_mean_func_in_t1_a.png -> /outputs/output/pipeline_cpac_fmriprep-options/sub-018_ses-1/qc/mean_func_with_t1_edge_a/_scan_matching_run-1/_montage_a0/t1_edge_on_mean_func_in_t1_a.png
201113-01:03:12,63 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.sinker_0_qc___mean_func_with_t1_edge_a".
201113-01:03:12,66 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.montage_anat_0.montage_s" in "/outputs/tmp/resting_preproc_sub-018_ses-1/montage_anat_0/_scan_conditioning_run-1/montage_s".
201113-01:03:12,72 nipype.workflow INFO:
[Node] Setting-up "_montage_s0" in "/outputs/tmp/resting_preproc_sub-018_ses-1/montage_anat_0/_scan_conditioning_run-1/montage_s/mapflow/_montage_s0".
201113-01:03:12,76 nipype.workflow INFO:
[Node] Running "_montage_s0" ("CPAC.utils.interfaces.function.Function")
201113-01:03:14,398 nipype.workflow INFO:
[Node] Finished "_montage_s0".
201113-01:03:14,402 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.montage_anat_0.montage_s".
201113-01:03:14,402 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.sinker_0_qc___mean_func_with_t1_edge_s" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_conditioning_run-1/sinker_0_qc___mean_func_with_t1_edge_s".
201113-01:03:14,410 nipype.workflow INFO:
[Node] Running "sinker_0_qc___mean_func_with_t1_edge_s" ("CPAC.utils.interfaces.datasink.DataSink")
201113-01:03:14,620 nipype.interface INFO:
sub: /outputs/output/pipeline_cpac_fmriprep-options/sub-018_ses-1/qc___mean_func_with_t1_edge_s/_scan_conditioning_run-1/_montage_s0/t1_edge_on_mean_func_in_t1_s.png -> /outputs/output/pipeline_cpac_fmriprep-options/sub-018_ses-1/qc/mean_func_with_t1_edge_s/_scan_conditioning_run-1/_montage_s0/t1_edge_on_mean_func_in_t1_s.png
201113-01:03:14,639 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.sinker_0_qc___mean_func_with_t1_edge_s".
201113-01:03:14,640 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.montage_anat_0.montage_a" in "/outputs/tmp/resting_preproc_sub-018_ses-1/montage_anat_0/_scan_conditioning_run-1/montage_a".
201113-01:03:14,646 nipype.workflow INFO:
[Node] Setting-up "_montage_a0" in "/outputs/tmp/resting_preproc_sub-018_ses-1/montage_anat_0/_scan_conditioning_run-1/montage_a/mapflow/_montage_a0".
201113-01:03:14,650 nipype.workflow INFO:
[Node] Running "_montage_a0" ("CPAC.utils.interfaces.function.Function")
201113-01:03:17,241 nipype.workflow INFO:
[Node] Finished "_montage_a0".
201113-01:03:17,245 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.montage_anat_0.montage_a".
201113-01:03:17,245 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.sinker_0_qc___mean_func_with_t1_edge_a" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_conditioning_run-1/sinker_0_qc___mean_func_with_t1_edge_a".
201113-01:03:17,253 nipype.workflow INFO:
[Node] Running "sinker_0_qc___mean_func_with_t1_edge_a" ("CPAC.utils.interfaces.datasink.DataSink")
201113-01:03:17,466 nipype.interface INFO:
sub: /outputs/output/pipeline_cpac_fmriprep-options/sub-018_ses-1/qc___mean_func_with_t1_edge_a/_scan_conditioning_run-1/_montage_a0/t1_edge_on_mean_func_in_t1_a.png -> /outputs/output/pipeline_cpac_fmriprep-options/sub-018_ses-1/qc/mean_func_with_t1_edge_a/_scan_conditioning_run-1/_montage_a0/t1_edge_on_mean_func_in_t1_a.png
201113-01:03:17,482 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.sinker_0_qc___mean_func_with_t1_edge_a".
201113-01:03:17,484 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.sinker_0_motion_estimate_filter_info_plot" in "/outputs/tmp/resting_preproc_sub-018_ses-1/sinker_0_motion_estimate_filter_info_plot".
201113-01:03:17,491 nipype.workflow INFO:
[Node] Running "sinker_0_motion_estimate_filter_info_plot" ("CPAC.utils.interfaces.datasink.DataSink")
201113-01:03:17,722 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.sinker_0_motion_estimate_filter_info_plot".
201113-01:03:17,724 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.sinker_0_motion_estimate_filter_info_design" in "/outputs/tmp/resting_preproc_sub-018_ses-1/sinker_0_motion_estimate_filter_info_design".
201113-01:03:17,732 nipype.workflow INFO:
[Node] Running "sinker_0_motion_estimate_filter_info_design" ("CPAC.utils.interfaces.datasink.DataSink")
201113-01:03:17,964 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.sinker_0_motion_estimate_filter_info_design".
201113-01:03:17,966 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.check_for_s3_lateral_ventricles_mask" in "/outputs/tmp/resting_preproc_sub-018_ses-1/check_for_s3_lateral_ventricles_mask".
201113-01:03:17,970 nipype.workflow INFO:
[Node] Running "check_for_s3_lateral_ventricles_mask" ("CPAC.utils.interfaces.function.Function")
201113-01:03:18,200 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.check_for_s3_lateral_ventricles_mask".
201113-01:03:18,201 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.resampled_template_brain_for_func_derivative" in "/outputs/tmp/resting_preproc_sub-018_ses-1/resampled_template_brain_for_func_derivative".
201113-01:03:18,205 nipype.workflow INFO:
[Node] Running "resampled_template_brain_for_func_derivative" ("CPAC.utils.interfaces.function.Function")
201113-01:03:18,440 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.resampled_template_brain_for_func_derivative".
201113-01:03:18,441 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.resampled_template_brain_for_func_preproc" in "/outputs/tmp/resting_preproc_sub-018_ses-1/resampled_template_brain_for_func_preproc".
201113-01:03:18,446 nipype.workflow INFO:
[Node] Running "resampled_template_brain_for_func_preproc" ("CPAC.utils.interfaces.function.Function")
201113-01:03:18,680 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.resampled_template_brain_for_func_preproc".
201113-01:03:18,681 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.func_template_edge_0" in "/outputs/tmp/resting_preproc_sub-018_ses-1/func_template_edge_0".
201113-01:03:18,686 nipype.workflow INFO:
[Node] Running "func_template_edge_0" ("CPAC.utils.interfaces.function.Function")
201113-01:03:19,203 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.func_template_edge_0".
201113-01:03:19,205 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.montage_mfi_0.resample_o" in "/outputs/tmp/resting_preproc_sub-018_ses-1/montage_mfi_0/resample_o".
201113-01:03:19,209 nipype.workflow INFO:
[Node] Running "resample_o" ("CPAC.utils.interfaces.function.Function")
201113-01:03:19,651 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.montage_mfi_0.resample_o".
201113-01:03:19,653 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.resampled_template_skull_for_func_derivative" in "/outputs/tmp/resting_preproc_sub-018_ses-1/resampled_template_skull_for_func_derivative".
201113-01:03:19,657 nipype.workflow INFO:
[Node] Running "resampled_template_skull_for_func_derivative" ("CPAC.utils.interfaces.function.Function")
201113-01:03:19,868 nipype.workflow INFO:
[Node] Setting-up "template_skull_for_func_derivative" in "/outputs/tmp/resting_preproc_sub-018_ses-1/resampled_template_skull_for_func_derivative/template_skull_for_func_derivative".
201113-01:03:19,873 nipype.workflow INFO:
[Node] Running "template_skull_for_func_derivative" ("nipype.interfaces.afni.utils.Resample"), a CommandLine Interface with command:
3dresample -prefix tpl-MNI152NLin2009cAsym_res-02_T1w_reference_resample.nii.gz -rmode Cu -dxyz 2.000000 2.000000 2.000000 -inset /outputs/tmp/resting_preproc_sub-018_ses-1/resampled_template_skull_for_func_derivative/template_skull_for_func_derivative/tpl-MNI152NLin2009cAsym_res-02_T1w_reference.nii.gz
201113-01:03:20,628 nipype.workflow INFO:
[Node] Finished "template_skull_for_func_derivative".
201113-01:03:20,644 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.resampled_template_skull_for_func_derivative".
201113-01:03:20,645 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.resampled_template_skull_for_func_preproc" in "/outputs/tmp/resting_preproc_sub-018_ses-1/resampled_template_skull_for_func_preproc".
201113-01:03:20,649 nipype.workflow INFO:
[Node] Running "resampled_template_skull_for_func_preproc" ("CPAC.utils.interfaces.function.Function")
201113-01:03:20,859 nipype.workflow INFO:
[Node] Setting-up "template_skull_for_func_preproc" in "/outputs/tmp/resting_preproc_sub-018_ses-1/resampled_template_skull_for_func_preproc/template_skull_for_func_preproc".
201113-01:03:20,864 nipype.workflow INFO:
[Node] Running "template_skull_for_func_preproc" ("nipype.interfaces.afni.utils.Resample"), a CommandLine Interface with command:
3dresample -prefix tpl-MNI152NLin2009cAsym_res-02_T1w_reference_resample.nii.gz -rmode Cu -dxyz 2.000000 2.000000 2.000000 -inset /outputs/tmp/resting_preproc_sub-018_ses-1/resampled_template_skull_for_func_preproc/template_skull_for_func_preproc/tpl-MNI152NLin2009cAsym_res-02_T1w_reference.nii.gz
201113-01:03:21,518 nipype.workflow INFO:
[Node] Finished "template_skull_for_func_preproc".
201113-01:03:21,532 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.resampled_template_skull_for_func_preproc".
201113-01:03:21,533 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.check_for_s3_PRIORS_WHITE" in "/outputs/tmp/resting_preproc_sub-018_ses-1/check_for_s3_PRIORS_WHITE".
201113-01:03:21,537 nipype.workflow INFO:
[Node] Running "check_for_s3_PRIORS_WHITE" ("CPAC.utils.interfaces.function.Function")
201113-01:03:21,792 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.check_for_s3_PRIORS_WHITE".
201113-01:03:21,794 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.check_for_s3_PRIORS_GRAY" in "/outputs/tmp/resting_preproc_sub-018_ses-1/check_for_s3_PRIORS_GRAY".
201113-01:03:21,798 nipype.workflow INFO:
[Node] Running "check_for_s3_PRIORS_GRAY" ("CPAC.utils.interfaces.function.Function")
201113-01:03:22,27 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.check_for_s3_PRIORS_GRAY".
201113-01:03:22,29 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.check_for_s3_PRIORS_CSF" in "/outputs/tmp/resting_preproc_sub-018_ses-1/check_for_s3_PRIORS_CSF".
201113-01:03:22,32 nipype.workflow INFO:
[Node] Running "check_for_s3_PRIORS_CSF" ("CPAC.utils.interfaces.function.Function")
201113-01:03:22,285 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.check_for_s3_PRIORS_CSF".
201113-01:03:22,286 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.resampled_template_skull_for_anat" in "/outputs/tmp/resting_preproc_sub-018_ses-1/resampled_template_skull_for_anat".
201113-01:03:22,290 nipype.workflow INFO:
[Node] Running "resampled_template_skull_for_anat" ("CPAC.utils.interfaces.function.Function")
201113-01:03:22,501 nipype.workflow INFO:
[Node] Setting-up "template_skull_for_anat" in "/outputs/tmp/resting_preproc_sub-018_ses-1/resampled_template_skull_for_anat/template_skull_for_anat".
201113-01:03:22,507 nipype.workflow INFO:
[Node] Running "template_skull_for_anat" ("nipype.interfaces.afni.utils.Resample"), a CommandLine Interface with command:
3dresample -prefix mni_icbm152_t1_tal_nlin_asym_09c_resample.nii.gz -rmode Cu -dxyz 1.000000 1.000000 1.000000 -inset /outputs/tmp/resting_preproc_sub-018_ses-1/resampled_template_skull_for_anat/template_skull_for_anat/mni_icbm152_t1_tal_nlin_asym_09c.nii
201113-01:03:22,762 nipype.interface INFO:
stderr 2020-11-13T01:03:22.762717:** AFNI converts NIFTI_datatype=4 (INT16) in file /outputs/tmp/resting_preproc_sub-018_ses-1/resampled_template_skull_for_anat/template_skull_for_anat/mni_icbm152_t1_tal_nlin_asym_09c.nii to FLOAT32
201113-01:03:22,763 nipype.interface INFO:
stderr 2020-11-13T01:03:22.763178: Warnings of this type will be muted for this session.
201113-01:03:22,763 nipype.interface INFO:
stderr 2020-11-13T01:03:22.763178: Set AFNI_NIFTI_TYPE_WARN to YES to see them all, NO to see none.
201113-01:03:25,273 nipype.workflow INFO:
[Node] Finished "template_skull_for_anat".
201113-01:03:25,289 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.resampled_template_skull_for_anat".
201113-01:03:25,290 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.resampled_template_brain_for_anat" in "/outputs/tmp/resting_preproc_sub-018_ses-1/resampled_template_brain_for_anat".
201113-01:03:25,294 nipype.workflow INFO:
[Node] Running "resampled_template_brain_for_anat" ("CPAC.utils.interfaces.function.Function")
201113-01:03:25,507 nipype.workflow INFO:
[Node] Setting-up "template_brain_for_anat" in "/outputs/tmp/resting_preproc_sub-018_ses-1/resampled_template_brain_for_anat/template_brain_for_anat".
201113-01:03:25,512 nipype.workflow INFO:
[Node] Running "template_brain_for_anat" ("nipype.interfaces.afni.utils.Resample"), a CommandLine Interface with command:
3dresample -prefix tpl-MNI152NLin2009cAsym_res-01_desc-brain_T1w_resample.nii.gz -rmode Cu -dxyz 1.000000 1.000000 1.000000 -inset /outputs/tmp/resting_preproc_sub-018_ses-1/resampled_template_brain_for_anat/template_brain_for_anat/tpl-MNI152NLin2009cAsym_res-01_desc-brain_T1w.nii.gz
201113-01:03:27,309 nipype.workflow INFO:
[Node] Finished "template_brain_for_anat".
201113-01:03:27,323 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.resampled_template_brain_for_anat".
201113-01:03:27,325 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.anat_mni_ants_register_0.calc_ants_warp" in "/outputs/tmp/resting_preproc_sub-018_ses-1/anat_mni_ants_register_0/calc_ants_warp".
201113-01:03:27,336 nipype.workflow INFO:
[Node] Running "calc_ants_warp" ("nipype.interfaces.utility.wrappers.Function")
201113-04:36:03,466 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.anat_mni_ants_register_0.calc_ants_warp".
201113-04:36:03,479 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.montage_mni_anat_0.resample_u" in "/outputs/tmp/resting_preproc_sub-018_ses-1/montage_mni_anat_0/resample_u".
201113-04:36:03,492 nipype.workflow INFO:
[Node] Running "resample_u" ("CPAC.utils.interfaces.function.Function")
201113-04:36:04,780 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.montage_mni_anat_0.resample_u".
201113-04:36:04,782 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.sinker_0_anatomical_to_standard" in "/outputs/tmp/resting_preproc_sub-018_ses-1/sinker_0_anatomical_to_standard".
201113-04:36:04,799 nipype.workflow INFO:
[Node] Running "sinker_0_anatomical_to_standard" ("CPAC.utils.interfaces.datasink.DataSink")
201113-04:36:05,30 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.sinker_0_anatomical_to_standard".
201113-04:36:05,31 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.anat_mni_ants_register_0.select_inverse_warp" in "/outputs/tmp/resting_preproc_sub-018_ses-1/anat_mni_ants_register_0/select_inverse_warp".
201113-04:36:05,43 nipype.workflow INFO:
[Node] Running "select_inverse_warp" ("nipype.interfaces.utility.wrappers.Function")
201113-04:36:05,276 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.anat_mni_ants_register_0.select_inverse_warp".
201113-04:36:05,277 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.sinker_0_mni_to_anatomical_nonlinear_xfm" in "/outputs/tmp/resting_preproc_sub-018_ses-1/sinker_0_mni_to_anatomical_nonlinear_xfm".
201113-04:36:05,284 nipype.workflow INFO:
[Node] Running "sinker_0_mni_to_anatomical_nonlinear_xfm" ("CPAC.utils.interfaces.datasink.DataSink")
201113-04:36:05,518 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.sinker_0_mni_to_anatomical_nonlinear_xfm".
201113-04:36:05,519 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.anat_mni_ants_register_0.select_forward_warp" in "/outputs/tmp/resting_preproc_sub-018_ses-1/anat_mni_ants_register_0/select_forward_warp".
201113-04:36:05,531 nipype.workflow INFO:
[Node] Running "select_forward_warp" ("nipype.interfaces.utility.wrappers.Function")
201113-04:36:05,763 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.anat_mni_ants_register_0.select_forward_warp".
201113-04:36:05,765 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.sinker_0_anatomical_to_mni_nonlinear_xfm" in "/outputs/tmp/resting_preproc_sub-018_ses-1/sinker_0_anatomical_to_mni_nonlinear_xfm".
201113-04:36:05,773 nipype.workflow INFO:
[Node] Running "sinker_0_anatomical_to_mni_nonlinear_xfm" ("CPAC.utils.interfaces.datasink.DataSink")
201113-04:36:06,7 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.sinker_0_anatomical_to_mni_nonlinear_xfm".
201113-04:36:06,8 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.anat_mni_ants_register_0.select_forward_affine" in "/outputs/tmp/resting_preproc_sub-018_ses-1/anat_mni_ants_register_0/select_forward_affine".
201113-04:36:06,20 nipype.workflow INFO:
[Node] Running "select_forward_affine" ("nipype.interfaces.utility.wrappers.Function")
201113-04:36:06,250 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.anat_mni_ants_register_0.select_forward_affine".
201113-04:36:06,251 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.sinker_0_ants_affine_xfm" in "/outputs/tmp/resting_preproc_sub-018_ses-1/sinker_0_ants_affine_xfm".
201113-04:36:06,260 nipype.workflow INFO:
[Node] Running "sinker_0_ants_affine_xfm" ("CPAC.utils.interfaces.datasink.DataSink")
201113-04:36:06,490 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.sinker_0_ants_affine_xfm".
201113-04:36:06,491 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.anat_mni_ants_register_0.select_forward_rigid" in "/outputs/tmp/resting_preproc_sub-018_ses-1/anat_mni_ants_register_0/select_forward_rigid".
201113-04:36:06,502 nipype.workflow INFO:
[Node] Running "select_forward_rigid" ("nipype.interfaces.utility.wrappers.Function")
201113-04:36:06,736 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.anat_mni_ants_register_0.select_forward_rigid".
201113-04:36:06,738 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.sinker_0_ants_rigid_xfm" in "/outputs/tmp/resting_preproc_sub-018_ses-1/sinker_0_ants_rigid_xfm".
201113-04:36:06,745 nipype.workflow INFO:
[Node] Running "sinker_0_ants_rigid_xfm" ("CPAC.utils.interfaces.datasink.DataSink")
201113-04:36:06,980 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.sinker_0_ants_rigid_xfm".
201113-04:36:06,982 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.anat_mni_ants_register_0.select_forward_initial" in "/outputs/tmp/resting_preproc_sub-018_ses-1/anat_mni_ants_register_0/select_forward_initial".
201113-04:36:06,995 nipype.workflow INFO:
[Node] Running "select_forward_initial" ("nipype.interfaces.utility.wrappers.Function")
201113-04:36:07,228 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.anat_mni_ants_register_0.select_forward_initial".
201113-04:36:07,230 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.collect_transforms_functional_brain_mask_to_standard__t1_0" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_tgng_run-2/collect_transforms_functional_brain_mask_to_standard__t1_0".
201113-04:36:07,240 nipype.workflow INFO:
[Node] Running "collect_transforms_functional_brain_mask_to_standard__t1_0" ("nipype.interfaces.utility.base.Merge")
201113-04:36:07,470 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.collect_transforms_functional_brain_mask_to_standard__t1_0".
201113-04:36:07,471 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.check_transformsfunctional_brain_mask_to_standard__t1_0" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_tgng_run-2/check_transformsfunctional_brain_mask_to_standard__t1_0".
201113-04:36:07,476 nipype.workflow INFO:
[Node] Running "check_transformsfunctional_brain_mask_to_standard__t1_0" ("nipype.interfaces.utility.wrappers.Function")
201113-04:36:07,709 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.check_transformsfunctional_brain_mask_to_standard__t1_0".
201113-04:36:07,710 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.write_composite_xfm_functional_to_standard__t1_0" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_tgng_run-2/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/write_composite_xfm_functional_to_standard__t1_0".
201113-04:36:07,720 nipype.workflow INFO:
[Node] Running "write_composite_xfm_functional_to_standard__t1_0" ("nipype.interfaces.ants.resampling.ApplyTransforms"), a CommandLine Interface with command:
antsApplyTransforms --default-value 0 --dimensionality 3 --float 0 --input /outputs/tmp/resting_preproc_sub-018_ses-1/nuisance_regression_after-filt_0_0/_scan_tgng_run-2/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/nuisance_regression/residuals.nii.gz --input-image-type 3 --interpolation LanczosWindowedSinc --output [ func_to_standard_xfm.nii.gz, 1 ] --reference-image /usr/share/fsl/5.0/data/standard/MNI152_T1_2mm_brain.nii.gz --transform /outputs/tmp/resting_preproc_sub-018_ses-1/anat_mni_ants_register_0/calc_ants_warp/transform1Warp.nii.gz --transform /outputs/tmp/resting_preproc_sub-018_ses-1/anat_mni_ants_register_0/calc_ants_warp/transform0GenericAffine.mat --transform /outputs/tmp/resting_preproc_sub-018_ses-1/_scan_tgng_run-2/change_transform_type_0/updated_affine.txt
201113-04:47:57,368 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.write_composite_xfm_functional_to_standard__t1_0".
201113-04:47:57,370 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.sinker_0_functional_to_standard_xfm" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_tgng_run-2/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/sinker_0_functional_to_standard_xfm".
201113-04:47:57,379 nipype.workflow INFO:
[Node] Running "sinker_0_functional_to_standard_xfm" ("CPAC.utils.interfaces.datasink.DataSink")
201113-04:47:57,609 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.sinker_0_functional_to_standard_xfm".
201113-04:47:57,611 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.apply_ants_warp_functional_to_standard__t1_0" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_tgng_run-2/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/apply_ants_warp_functional_to_standard__t1_0".
201113-04:47:57,619 nipype.workflow INFO:
[Node] Running "apply_ants_warp_functional_to_standard__t1_0" ("nipype.interfaces.ants.resampling.ApplyTransforms"), a CommandLine Interface with command:
antsApplyTransforms --default-value 0 --dimensionality 3 --float 0 --input /outputs/tmp/resting_preproc_sub-018_ses-1/nuisance_regression_after-filt_0_0/_scan_tgng_run-2/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/nuisance_regression/residuals.nii.gz --input-image-type 3 --interpolation LanczosWindowedSinc --output residuals_antswarp.nii.gz --reference-image /usr/share/fsl/5.0/data/standard/MNI152_T1_2mm_brain.nii.gz --transform /outputs/tmp/resting_preproc_sub-018_ses-1/anat_mni_ants_register_0/calc_ants_warp/transform1Warp.nii.gz --transform /outputs/tmp/resting_preproc_sub-018_ses-1/anat_mni_ants_register_0/calc_ants_warp/transform0GenericAffine.mat --transform /outputs/tmp/resting_preproc_sub-018_ses-1/_scan_tgng_run-2/change_transform_type_0/updated_affine.txt
201113-05:00:05,392 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.apply_ants_warp_functional_to_standard__t1_0".
201113-05:00:05,395 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.resample_functional_roi_0" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_tgng_run-2/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/_mask_Yeo-7_space-MNI152NLin6_res-1x1x1_mask_file_..ndmg_atlases..label..Human..Yeo-7_space-MNI152NLin6_res-1x1x1.nii.gz/resample_functional_roi_0".
201113-05:00:05,407 nipype.workflow INFO:
[Node] Running "resample_functional_roi_0" ("CPAC.utils.interfaces.function.Function")
201113-05:00:05,861 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.resample_functional_roi_0".
201113-05:00:05,863 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.roi_timeseries_0.3dROIstats" in "/outputs/tmp/resting_preproc_sub-018_ses-1/roi_timeseries_0/_scan_tgng_run-2/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/_mask_Yeo-7_space-MNI152NLin6_res-1x1x1_mask_file_..ndmg_atlases..label..Human..Yeo-7_space-MNI152NLin6_res-1x1x1.nii.gz/3dROIstats".
201113-05:00:05,869 nipype.workflow INFO:
[Node] Running "3dROIstats" ("nipype.interfaces.afni.preprocess.ROIStats"), a CommandLine Interface with command:
3dROIstats -mask /outputs/tmp/resting_preproc_sub-018_ses-1/_scan_tgng_run-2/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/_mask_Yeo-7_space-MNI152NLin6_res-1x1x1_mask_file_..ndmg_atlases..label..Human..Yeo-7_space-MNI152NLin6_res-1x1x1.nii.gz/resample_functional_roi_0/Yeo-7_space-MNI152NLin6_res-1x1x1_resampled.nii.gz -1Dformat /outputs/tmp/resting_preproc_sub-018_ses-1/_scan_tgng_run-2/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/apply_ants_warp_functional_to_standard__t1_0/residuals_antswarp.nii.gz
201113-05:00:11,714 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.roi_timeseries_0.3dROIstats".
201113-05:00:11,716 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.roi_timeseries_0.clean_roi_csv" in "/outputs/tmp/resting_preproc_sub-018_ses-1/roi_timeseries_0/_scan_tgng_run-2/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/_mask_Yeo-7_space-MNI152NLin6_res-1x1x1_mask_file_..ndmg_atlases..label..Human..Yeo-7_space-MNI152NLin6_res-1x1x1.nii.gz/clean_roi_csv".
201113-05:00:11,720 nipype.workflow INFO:
[Node] Running "clean_roi_csv" ("nipype.interfaces.utility.wrappers.Function")
201113-05:00:11,966 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.roi_timeseries_0.clean_roi_csv".
201113-05:00:11,967 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.ndmg_graphs_0" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_tgng_run-2/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/_mask_Yeo-7_space-MNI152NLin6_res-1x1x1_mask_file_..ndmg_atlases..label..Human..Yeo-7_space-MNI152NLin6_res-1x1x1.nii.gz/ndmg_graphs_0".
201113-05:00:12,9 nipype.workflow INFO:
[Node] Setting-up "_ndmg_graphs_00" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_tgng_run-2/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/_mask_Yeo-7_space-MNI152NLin6_res-1x1x1_mask_file_..ndmg_atlases..label..Human..Yeo-7_space-MNI152NLin6_res-1x1x1.nii.gz/ndmg_graphs_0/mapflow/_ndmg_graphs_00".
201113-05:00:12,42 nipype.workflow INFO:
[Node] Running "_ndmg_graphs_00" ("CPAC.utils.interfaces.function.Function")
Estimating correlation matrix for 7 ROIs...
201113-05:00:12,590 nipype.workflow INFO:
[Node] Finished "_ndmg_graphs_00".
201113-05:00:12,594 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.ndmg_graphs_0".
201113-05:00:12,595 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.sinker_0_ndmg_graph" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_tgng_run-2/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/_mask_Yeo-7_space-MNI152NLin6_res-1x1x1_mask_file_..ndmg_atlases..label..Human..Yeo-7_space-MNI152NLin6_res-1x1x1.nii.gz/sinker_0_ndmg_graph".
201113-05:00:12,607 nipype.workflow INFO:
[Node] Running "sinker_0_ndmg_graph" ("CPAC.utils.interfaces.datasink.DataSink")
201113-05:00:12,841 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.sinker_0_ndmg_graph".
201113-05:00:12,843 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.roi_timeseries_0.write_roi_npz" in "/outputs/tmp/resting_preproc_sub-018_ses-1/roi_timeseries_0/_scan_tgng_run-2/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/_mask_Yeo-7_space-MNI152NLin6_res-1x1x1_mask_file_..ndmg_atlases..label..Human..Yeo-7_space-MNI152NLin6_res-1x1x1.nii.gz/write_roi_npz".
201113-05:00:12,847 nipype.workflow INFO:
[Node] Running "write_roi_npz" ("nipype.interfaces.utility.wrappers.Function")
201113-05:00:13,79 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.roi_timeseries_0.write_roi_npz".
201113-05:00:13,80 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.sinker_0_roi_timeseries" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_tgng_run-2/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/_mask_Yeo-7_space-MNI152NLin6_res-1x1x1_mask_file_..ndmg_atlases..label..Human..Yeo-7_space-MNI152NLin6_res-1x1x1.nii.gz/sinker_0_roi_timeseries".
201113-05:00:13,87 nipype.workflow INFO:
[Node] Running "sinker_0_roi_timeseries" ("CPAC.utils.interfaces.datasink.DataSink")
201113-05:00:13,317 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.sinker_0_roi_timeseries".
201113-05:00:13,319 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.resample_functional_roi_0" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_tgng_run-2/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/_mask_Yeo-7-liberal_space-MNI152NLin6_res-1x1x1_mask_file_..ndmg_atlases..label..Human..Yeo-7-liberal_space-MNI152NLin6_res-1x1x1.nii.gz/resample_functional_roi_0".
201113-05:00:13,348 nipype.workflow INFO:
[Node] Running "resample_functional_roi_0" ("CPAC.utils.interfaces.function.Function")
201113-05:00:13,792 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.resample_functional_roi_0".
201113-05:00:13,793 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.roi_timeseries_0.3dROIstats" in "/outputs/tmp/resting_preproc_sub-018_ses-1/roi_timeseries_0/_scan_tgng_run-2/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/_mask_Yeo-7-liberal_space-MNI152NLin6_res-1x1x1_mask_file_..ndmg_atlases..label..Human..Yeo-7-liberal_space-MNI152NLin6_res-1x1x1.nii.gz/3dROIstats".
201113-05:00:13,799 nipype.workflow INFO:
[Node] Running "3dROIstats" ("nipype.interfaces.afni.preprocess.ROIStats"), a CommandLine Interface with command:
3dROIstats -mask /outputs/tmp/resting_preproc_sub-018_ses-1/_scan_tgng_run-2/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/_mask_Yeo-7-liberal_space-MNI152NLin6_res-1x1x1_mask_file_..ndmg_atlases..label..Human..Yeo-7-liberal_space-MNI152NLin6_res-1x1x1.nii.gz/resample_functional_roi_0/Yeo-7-liberal_space-MNI152NLin6_res-1x1x1_resampled.nii.gz -1Dformat /outputs/tmp/resting_preproc_sub-018_ses-1/_scan_tgng_run-2/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/apply_ants_warp_functional_to_standard__t1_0/residuals_antswarp.nii.gz
201113-05:00:19,597 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.roi_timeseries_0.3dROIstats".
201113-05:00:19,598 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.roi_timeseries_0.clean_roi_csv" in "/outputs/tmp/resting_preproc_sub-018_ses-1/roi_timeseries_0/_scan_tgng_run-2/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/_mask_Yeo-7-liberal_space-MNI152NLin6_res-1x1x1_mask_file_..ndmg_atlases..label..Human..Yeo-7-liberal_space-MNI152NLin6_res-1x1x1.nii.gz/clean_roi_csv".
201113-05:00:19,602 nipype.workflow INFO:
[Node] Running "clean_roi_csv" ("nipype.interfaces.utility.wrappers.Function")
201113-05:00:19,850 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.roi_timeseries_0.clean_roi_csv".
201113-05:00:19,852 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.ndmg_graphs_0" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_tgng_run-2/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/_mask_Yeo-7-liberal_space-MNI152NLin6_res-1x1x1_mask_file_..ndmg_atlases..label..Human..Yeo-7-liberal_space-MNI152NLin6_res-1x1x1.nii.gz/ndmg_graphs_0".
201113-05:00:19,891 nipype.workflow INFO:
[Node] Setting-up "_ndmg_graphs_00" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_tgng_run-2/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/_mask_Yeo-7-liberal_space-MNI152NLin6_res-1x1x1_mask_file_..ndmg_atlases..label..Human..Yeo-7-liberal_space-MNI152NLin6_res-1x1x1.nii.gz/ndmg_graphs_0/mapflow/_ndmg_graphs_00".
201113-05:00:19,926 nipype.workflow INFO:
[Node] Running "_ndmg_graphs_00" ("CPAC.utils.interfaces.function.Function")
Estimating correlation matrix for 7 ROIs...
201113-05:00:20,450 nipype.workflow INFO:
[Node] Finished "_ndmg_graphs_00".
201113-05:00:20,454 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.ndmg_graphs_0".
201113-05:00:20,455 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.sinker_0_ndmg_graph" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_tgng_run-2/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/_mask_Yeo-7-liberal_space-MNI152NLin6_res-1x1x1_mask_file_..ndmg_atlases..label..Human..Yeo-7-liberal_space-MNI152NLin6_res-1x1x1.nii.gz/sinker_0_ndmg_graph".
201113-05:00:20,462 nipype.workflow INFO:
[Node] Running "sinker_0_ndmg_graph" ("CPAC.utils.interfaces.datasink.DataSink")
201113-05:00:20,696 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.sinker_0_ndmg_graph".
201113-05:00:20,698 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.roi_timeseries_0.write_roi_npz" in "/outputs/tmp/resting_preproc_sub-018_ses-1/roi_timeseries_0/_scan_tgng_run-2/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/_mask_Yeo-7-liberal_space-MNI152NLin6_res-1x1x1_mask_file_..ndmg_atlases..label..Human..Yeo-7-liberal_space-MNI152NLin6_res-1x1x1.nii.gz/write_roi_npz".
201113-05:00:20,703 nipype.workflow INFO:
[Node] Running "write_roi_npz" ("nipype.interfaces.utility.wrappers.Function")
201113-05:00:20,938 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.roi_timeseries_0.write_roi_npz".
201113-05:00:20,940 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.sinker_0_roi_timeseries" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_tgng_run-2/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/_mask_Yeo-7-liberal_space-MNI152NLin6_res-1x1x1_mask_file_..ndmg_atlases..label..Human..Yeo-7-liberal_space-MNI152NLin6_res-1x1x1.nii.gz/sinker_0_roi_timeseries".
201113-05:00:20,947 nipype.workflow INFO:
[Node] Running "sinker_0_roi_timeseries" ("CPAC.utils.interfaces.datasink.DataSink")
201113-05:00:21,179 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.sinker_0_roi_timeseries".
201113-05:00:21,181 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.sinker_0_functional_to_standard" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_tgng_run-2/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/sinker_0_functional_to_standard".
201113-05:00:21,189 nipype.workflow INFO:
[Node] Running "sinker_0_functional_to_standard" ("CPAC.utils.interfaces.datasink.DataSink")
201113-05:00:21,420 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.sinker_0_functional_to_standard".
201113-05:00:21,422 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.apply_ants_warp_functional_freq_filtered_to_standard__t1_0" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_tgng_run-2/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/apply_ants_warp_functional_freq_filtered_to_standard__t1_0".
201113-05:00:21,432 nipype.workflow INFO:
[Node] Running "apply_ants_warp_functional_freq_filtered_to_standard__t1_0" ("nipype.interfaces.ants.resampling.ApplyTransforms"), a CommandLine Interface with command:
antsApplyTransforms --default-value 0 --dimensionality 3 --float 0 --input /outputs/tmp/resting_preproc_sub-018_ses-1/frequency_filtering_0_0/_scan_tgng_run-2/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/frequency_filter/bandpassed_demeaned_filtered.nii.gz --input-image-type 0 --interpolation LanczosWindowedSinc --output bandpassed_demeaned_filtered_antswarp.nii.gz --reference-image /usr/share/fsl/5.0/data/standard/MNI152_T1_2mm_brain.nii.gz --transform /outputs/tmp/resting_preproc_sub-018_ses-1/anat_mni_ants_register_0/calc_ants_warp/transform1Warp.nii.gz --transform /outputs/tmp/resting_preproc_sub-018_ses-1/anat_mni_ants_register_0/calc_ants_warp/transform0GenericAffine.mat --transform /outputs/tmp/resting_preproc_sub-018_ses-1/_scan_tgng_run-2/change_transform_type_0/updated_affine.txt
201113-05:00:24,128 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.apply_ants_warp_functional_freq_filtered_to_standard__t1_0".
201113-05:00:24,130 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.apply_ants_warp_functional_nuisance_residuals_to_standard__t1_0" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_tgng_run-2/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/apply_ants_warp_functional_nuisance_residuals_to_standard__t1_0".
201113-05:00:24,137 nipype.workflow INFO:
[Node] Running "apply_ants_warp_functional_nuisance_residuals_to_standard__t1_0" ("nipype.interfaces.ants.resampling.ApplyTransforms"), a CommandLine Interface with command:
antsApplyTransforms --default-value 0 --dimensionality 3 --float 0 --input /outputs/tmp/resting_preproc_sub-018_ses-1/nuisance_regression_after-filt_0_0/_scan_tgng_run-2/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/nuisance_regression/residuals.nii.gz --input-image-type 0 --interpolation LanczosWindowedSinc --output residuals_antswarp.nii.gz --reference-image /usr/share/fsl/5.0/data/standard/MNI152_T1_2mm_brain.nii.gz --transform /outputs/tmp/resting_preproc_sub-018_ses-1/anat_mni_ants_register_0/calc_ants_warp/transform1Warp.nii.gz --transform /outputs/tmp/resting_preproc_sub-018_ses-1/anat_mni_ants_register_0/calc_ants_warp/transform0GenericAffine.mat --transform /outputs/tmp/resting_preproc_sub-018_ses-1/_scan_tgng_run-2/change_transform_type_0/updated_affine.txt
201113-05:00:26,840 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.apply_ants_warp_functional_nuisance_residuals_to_standard__t1_0".
201113-05:00:26,841 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.apply_ants_warp_motion_correct_to_standard__t1_0" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_tgng_run-2/apply_ants_warp_motion_correct_to_standard__t1_0".
201113-05:00:26,976 nipype.workflow INFO:
[Node] Running "apply_ants_warp_motion_correct_to_standard__t1_0" ("nipype.interfaces.ants.resampling.ApplyTransforms"), a CommandLine Interface with command:
antsApplyTransforms --default-value 0 --dimensionality 3 --float 0 --input /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/_scan_tgng_run-2/func_motion_correct_mcflirt/sub-018_ses-1_task-tgng_run-2_bold_calc_despike_tshift_resample_mcf.nii.gz --input-image-type 3 --interpolation LanczosWindowedSinc --output sub-018_ses-1_task-tgng_run-2_bold_calc_despike_tshift_resample_mcf_antswarp.nii.gz --reference-image /usr/share/fsl/5.0/data/standard/MNI152_T1_2mm_brain.nii.gz --transform /outputs/tmp/resting_preproc_sub-018_ses-1/anat_mni_ants_register_0/calc_ants_warp/transform1Warp.nii.gz --transform /outputs/tmp/resting_preproc_sub-018_ses-1/anat_mni_ants_register_0/calc_ants_warp/transform0GenericAffine.mat --transform /outputs/tmp/resting_preproc_sub-018_ses-1/_scan_tgng_run-2/change_transform_type_0/updated_affine.txt
201113-05:12:46,66 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.apply_ants_warp_motion_correct_to_standard__t1_0".
201113-05:12:46,69 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.sinker_0_motion_correct_to_standard" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_tgng_run-2/sinker_0_motion_correct_to_standard".
201113-05:12:46,77 nipype.workflow INFO:
[Node] Running "sinker_0_motion_correct_to_standard" ("CPAC.utils.interfaces.datasink.DataSink")
201113-05:12:46,306 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.sinker_0_motion_correct_to_standard".
201113-05:12:46,307 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.apply_ants_warp_mean_functional_to_standard_derivative__t1_0" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_tgng_run-2/apply_ants_warp_mean_functional_to_standard_derivative__t1_0".
201113-05:12:46,336 nipype.workflow INFO:
[Node] Running "apply_ants_warp_mean_functional_to_standard_derivative__t1_0" ("nipype.interfaces.ants.resampling.ApplyTransforms"), a CommandLine Interface with command:
antsApplyTransforms --default-value 0 --dimensionality 3 --float 0 --input /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/_scan_tgng_run-2/func_mean/sub-018_ses-1_task-tgng_run-2_bold_calc_despike_tshift_resample_mcf_calc_tstat.nii.gz --input-image-type 0 --interpolation LanczosWindowedSinc --output sub-018_ses-1_task-tgng_run-2_bold_calc_despike_tshift_resample_mcf_calc_tstat_antswarp.nii.gz --reference-image /usr/share/fsl/5.0/data/standard/MNI152_T1_2mm_brain.nii.gz --transform /outputs/tmp/resting_preproc_sub-018_ses-1/anat_mni_ants_register_0/calc_ants_warp/transform1Warp.nii.gz --transform /outputs/tmp/resting_preproc_sub-018_ses-1/anat_mni_ants_register_0/calc_ants_warp/transform0GenericAffine.mat --transform /outputs/tmp/resting_preproc_sub-018_ses-1/_scan_tgng_run-2/change_transform_type_0/updated_affine.txt
201113-05:12:54,38 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.apply_ants_warp_mean_functional_to_standard_derivative__t1_0".
201113-05:12:54,40 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.apply_ants_warp_mean_functional_to_standard__t1_0" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_tgng_run-2/apply_ants_warp_mean_functional_to_standard__t1_0".
201113-05:12:54,48 nipype.workflow INFO:
[Node] Running "apply_ants_warp_mean_functional_to_standard__t1_0" ("nipype.interfaces.ants.resampling.ApplyTransforms"), a CommandLine Interface with command:
antsApplyTransforms --default-value 0 --dimensionality 3 --float 0 --input /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/_scan_tgng_run-2/func_mean/sub-018_ses-1_task-tgng_run-2_bold_calc_despike_tshift_resample_mcf_calc_tstat.nii.gz --input-image-type 0 --interpolation LanczosWindowedSinc --output sub-018_ses-1_task-tgng_run-2_bold_calc_despike_tshift_resample_mcf_calc_tstat_antswarp.nii.gz --reference-image /usr/share/fsl/5.0/data/standard/MNI152_T1_2mm_brain.nii.gz --transform /outputs/tmp/resting_preproc_sub-018_ses-1/anat_mni_ants_register_0/calc_ants_warp/transform1Warp.nii.gz --transform /outputs/tmp/resting_preproc_sub-018_ses-1/anat_mni_ants_register_0/calc_ants_warp/transform0GenericAffine.mat --transform /outputs/tmp/resting_preproc_sub-018_ses-1/_scan_tgng_run-2/change_transform_type_0/updated_affine.txt
201113-05:13:01,690 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.apply_ants_warp_mean_functional_to_standard__t1_0".
201113-05:13:01,691 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.montage_mfi_0.resample_u" in "/outputs/tmp/resting_preproc_sub-018_ses-1/montage_mfi_0/_scan_tgng_run-2/resample_u".
201113-05:13:01,697 nipype.workflow INFO:
[Node] Running "resample_u" ("CPAC.utils.interfaces.function.Function")
201113-05:13:02,433 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.montage_mfi_0.resample_u".
201113-05:13:02,434 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.montage_mfi_0.montage_s" in "/outputs/tmp/resting_preproc_sub-018_ses-1/montage_mfi_0/_scan_tgng_run-2/montage_s".
201113-05:13:02,441 nipype.workflow INFO:
[Node] Setting-up "_montage_s0" in "/outputs/tmp/resting_preproc_sub-018_ses-1/montage_mfi_0/_scan_tgng_run-2/montage_s/mapflow/_montage_s0".
201113-05:13:02,446 nipype.workflow INFO:
[Node] Running "_montage_s0" ("CPAC.utils.interfaces.function.Function")
201113-05:13:04,219 nipype.workflow INFO:
[Node] Finished "_montage_s0".
201113-05:13:04,222 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.montage_mfi_0.montage_s".
201113-05:13:04,223 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.sinker_0_qc___mean_func_with_mni_edge_s" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_tgng_run-2/sinker_0_qc___mean_func_with_mni_edge_s".
201113-05:13:04,230 nipype.workflow INFO:
[Node] Running "sinker_0_qc___mean_func_with_mni_edge_s" ("CPAC.utils.interfaces.datasink.DataSink")
201113-05:13:04,439 nipype.interface INFO:
sub: /outputs/output/pipeline_cpac_fmriprep-options/sub-018_ses-1/qc___mean_func_with_mni_edge_s/_scan_tgng_run-2/_montage_s0/MNI_edge_on_mean_func_mni_s.png -> /outputs/output/pipeline_cpac_fmriprep-options/sub-018_ses-1/qc/mean_func_with_mni_edge_s/_scan_tgng_run-2/_montage_s0/MNI_edge_on_mean_func_mni_s.png
201113-05:13:04,458 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.sinker_0_qc___mean_func_with_mni_edge_s".
201113-05:13:04,459 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.montage_mfi_0.montage_a" in "/outputs/tmp/resting_preproc_sub-018_ses-1/montage_mfi_0/_scan_tgng_run-2/montage_a".
201113-05:13:04,464 nipype.workflow INFO:
[Node] Setting-up "_montage_a0" in "/outputs/tmp/resting_preproc_sub-018_ses-1/montage_mfi_0/_scan_tgng_run-2/montage_a/mapflow/_montage_a0".
201113-05:13:04,468 nipype.workflow INFO:
[Node] Running "_montage_a0" ("CPAC.utils.interfaces.function.Function")
201113-05:13:06,472 nipype.workflow INFO:
[Node] Finished "_montage_a0".
201113-05:13:06,475 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.montage_mfi_0.montage_a".
201113-05:13:06,476 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.sinker_0_qc___mean_func_with_mni_edge_a" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_tgng_run-2/sinker_0_qc___mean_func_with_mni_edge_a".
201113-05:13:06,483 nipype.workflow INFO:
[Node] Running "sinker_0_qc___mean_func_with_mni_edge_a" ("CPAC.utils.interfaces.datasink.DataSink")
201113-05:13:06,696 nipype.interface INFO:
sub: /outputs/output/pipeline_cpac_fmriprep-options/sub-018_ses-1/qc___mean_func_with_mni_edge_a/_scan_tgng_run-2/_montage_a0/MNI_edge_on_mean_func_mni_a.png -> /outputs/output/pipeline_cpac_fmriprep-options/sub-018_ses-1/qc/mean_func_with_mni_edge_a/_scan_tgng_run-2/_montage_a0/MNI_edge_on_mean_func_mni_a.png
201113-05:13:06,714 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.sinker_0_qc___mean_func_with_mni_edge_a".
201113-05:13:06,715 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.carpet_seg_0.csf_resample" in "/outputs/tmp/resting_preproc_sub-018_ses-1/carpet_seg_0/_scan_tgng_run-2/csf_resample".
201113-05:13:06,723 nipype.workflow INFO:
[Node] Running "csf_resample" ("nipype.interfaces.afni.utils.Resample"), a CommandLine Interface with command:
3dresample -master /outputs/tmp/resting_preproc_sub-018_ses-1/_scan_tgng_run-2/apply_ants_warp_mean_functional_to_standard__t1_0/sub-018_ses-1_task-tgng_run-2_bold_calc_despike_tshift_resample_mcf_calc_tstat_antswarp.nii.gz -prefix avg152T1_csf_bin_resample.nii -inset /outputs/tmp/resting_preproc_sub-018_ses-1/carpet_seg_0/_scan_tgng_run-2/csf_resample/avg152T1_csf_bin.nii.gz
201113-05:13:06,977 nipype.interface INFO:
stderr 2020-11-13T05:13:06.977229:** AFNI converts NIFTI_datatype=64 (FLOAT64) in file /outputs/tmp/resting_preproc_sub-018_ses-1/_scan_tgng_run-2/apply_ants_warp_mean_functional_to_standard__t1_0/sub-018_ses-1_task-tgng_run-2_bold_calc_despike_tshift_resample_mcf_calc_tstat_antswarp.nii.gz to FLOAT32
201113-05:13:06,977 nipype.interface INFO:
stderr 2020-11-13T05:13:06.977620: Warnings of this type will be muted for this session.
201113-05:13:06,977 nipype.interface INFO:
stderr 2020-11-13T05:13:06.977620: Set AFNI_NIFTI_TYPE_WARN to YES to see them all, NO to see none.
201113-05:13:07,213 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.carpet_seg_0.csf_resample".
201113-05:13:07,214 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.carpet_seg_0.csf_mask" in "/outputs/tmp/resting_preproc_sub-018_ses-1/carpet_seg_0/_scan_tgng_run-2/csf_mask".
201113-05:13:07,219 nipype.workflow INFO:
[Node] Running "csf_mask" ("nipype.interfaces.afni.utils.Calc"), a CommandLine Interface with command:
3dcalc -a /outputs/tmp/resting_preproc_sub-018_ses-1/carpet_seg_0/_scan_tgng_run-2/csf_resample/avg152T1_csf_bin_resample.nii -expr "astep(a, 0.5)" -prefix avg152T1_csf_bin_resample_calc.nii
201113-05:13:07,466 nipype.interface INFO:
stderr 2020-11-13T05:13:07.466321:++ 3dcalc: AFNI version=AFNI_20.2.19 (Sep 27 2020) [64-bit]
201113-05:13:07,466 nipype.interface INFO:
stderr 2020-11-13T05:13:07.466924:++ Authored by: A cast of thousands
201113-05:13:07,587 nipype.interface INFO:
stderr 2020-11-13T05:13:07.587418:++ Output dataset ./avg152T1_csf_bin_resample_calc.nii
201113-05:13:07,746 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.carpet_seg_0.csf_mask".
201113-05:13:07,747 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.carpet_seg_0.wm_resample" in "/outputs/tmp/resting_preproc_sub-018_ses-1/carpet_seg_0/_scan_tgng_run-2/wm_resample".
201113-05:13:07,756 nipype.workflow INFO:
[Node] Running "wm_resample" ("nipype.interfaces.afni.utils.Resample"), a CommandLine Interface with command:
3dresample -master /outputs/tmp/resting_preproc_sub-018_ses-1/_scan_tgng_run-2/apply_ants_warp_mean_functional_to_standard__t1_0/sub-018_ses-1_task-tgng_run-2_bold_calc_despike_tshift_resample_mcf_calc_tstat_antswarp.nii.gz -prefix avg152T1_white_bin_resample.nii -inset /outputs/tmp/resting_preproc_sub-018_ses-1/carpet_seg_0/_scan_tgng_run-2/wm_resample/avg152T1_white_bin.nii.gz
201113-05:13:08,5 nipype.interface INFO:
stderr 2020-11-13T05:13:08.005782:** AFNI converts NIFTI_datatype=64 (FLOAT64) in file /outputs/tmp/resting_preproc_sub-018_ses-1/_scan_tgng_run-2/apply_ants_warp_mean_functional_to_standard__t1_0/sub-018_ses-1_task-tgng_run-2_bold_calc_despike_tshift_resample_mcf_calc_tstat_antswarp.nii.gz to FLOAT32
201113-05:13:08,6 nipype.interface INFO:
stderr 2020-11-13T05:13:08.006147: Warnings of this type will be muted for this session.
201113-05:13:08,6 nipype.interface INFO:
stderr 2020-11-13T05:13:08.006147: Set AFNI_NIFTI_TYPE_WARN to YES to see them all, NO to see none.
201113-05:13:08,214 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.carpet_seg_0.wm_resample".
201113-05:13:08,216 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.carpet_seg_0.wm_mask" in "/outputs/tmp/resting_preproc_sub-018_ses-1/carpet_seg_0/_scan_tgng_run-2/wm_mask".
201113-05:13:08,221 nipype.workflow INFO:
[Node] Running "wm_mask" ("nipype.interfaces.afni.utils.Calc"), a CommandLine Interface with command:
3dcalc -a /outputs/tmp/resting_preproc_sub-018_ses-1/carpet_seg_0/_scan_tgng_run-2/wm_resample/avg152T1_white_bin_resample.nii -expr "astep(a, 0.5)" -prefix avg152T1_white_bin_resample_calc.nii
201113-05:13:08,466 nipype.interface INFO:
stderr 2020-11-13T05:13:08.466503:++ 3dcalc: AFNI version=AFNI_20.2.19 (Sep 27 2020) [64-bit]
201113-05:13:08,466 nipype.interface INFO:
stderr 2020-11-13T05:13:08.466867:++ Authored by: A cast of thousands
201113-05:13:08,585 nipype.interface INFO:
stderr 2020-11-13T05:13:08.585378:++ Output dataset ./avg152T1_white_bin_resample_calc.nii
201113-05:13:08,742 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.carpet_seg_0.wm_mask".
201113-05:13:08,743 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.carpet_seg_0.gm_resample" in "/outputs/tmp/resting_preproc_sub-018_ses-1/carpet_seg_0/_scan_tgng_run-2/gm_resample".
201113-05:13:08,750 nipype.workflow INFO:
[Node] Running "gm_resample" ("nipype.interfaces.afni.utils.Resample"), a CommandLine Interface with command:
3dresample -master /outputs/tmp/resting_preproc_sub-018_ses-1/_scan_tgng_run-2/apply_ants_warp_mean_functional_to_standard__t1_0/sub-018_ses-1_task-tgng_run-2_bold_calc_despike_tshift_resample_mcf_calc_tstat_antswarp.nii.gz -prefix avg152T1_gray_bin_resample.nii -inset /outputs/tmp/resting_preproc_sub-018_ses-1/carpet_seg_0/_scan_tgng_run-2/gm_resample/avg152T1_gray_bin.nii.gz
201113-05:13:08,999 nipype.interface INFO:
stderr 2020-11-13T05:13:08.999092:** AFNI converts NIFTI_datatype=64 (FLOAT64) in file /outputs/tmp/resting_preproc_sub-018_ses-1/_scan_tgng_run-2/apply_ants_warp_mean_functional_to_standard__t1_0/sub-018_ses-1_task-tgng_run-2_bold_calc_despike_tshift_resample_mcf_calc_tstat_antswarp.nii.gz to FLOAT32
201113-05:13:08,999 nipype.interface INFO:
stderr 2020-11-13T05:13:08.999454: Warnings of this type will be muted for this session.
201113-05:13:08,999 nipype.interface INFO:
stderr 2020-11-13T05:13:08.999454: Set AFNI_NIFTI_TYPE_WARN to YES to see them all, NO to see none.
201113-05:13:09,221 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.carpet_seg_0.gm_resample".
201113-05:13:09,223 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.carpet_seg_0.gm_mask" in "/outputs/tmp/resting_preproc_sub-018_ses-1/carpet_seg_0/_scan_tgng_run-2/gm_mask".
201113-05:13:09,228 nipype.workflow INFO:
[Node] Running "gm_mask" ("nipype.interfaces.afni.utils.Calc"), a CommandLine Interface with command:
3dcalc -a /outputs/tmp/resting_preproc_sub-018_ses-1/carpet_seg_0/_scan_tgng_run-2/gm_resample/avg152T1_gray_bin_resample.nii -expr "astep(a, 0.5)" -prefix avg152T1_gray_bin_resample_calc.nii
201113-05:13:09,475 nipype.interface INFO:
stderr 2020-11-13T05:13:09.475591:++ 3dcalc: AFNI version=AFNI_20.2.19 (Sep 27 2020) [64-bit]
201113-05:13:09,475 nipype.interface INFO:
stderr 2020-11-13T05:13:09.475958:++ Authored by: A cast of thousands
201113-05:13:09,601 nipype.interface INFO:
stderr 2020-11-13T05:13:09.601626:++ Output dataset ./avg152T1_gray_bin_resample_calc.nii
201113-05:13:09,761 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.carpet_seg_0.gm_mask".
201113-05:13:09,762 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.carpet_seg_0.carpet_plot" in "/outputs/tmp/resting_preproc_sub-018_ses-1/carpet_seg_0/_scan_tgng_run-2/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/carpet_plot".
201113-05:13:09,769 nipype.workflow INFO:
[Node] Running "carpet_plot" ("CPAC.utils.interfaces.function.Function")
201113-05:13:15,445 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.carpet_seg_0.carpet_plot".
201113-05:13:15,447 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.sinker_0_qc___carpet" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_tgng_run-2/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/sinker_0_qc___carpet".
201113-05:13:15,454 nipype.workflow INFO:
[Node] Running "sinker_0_qc___carpet" ("CPAC.utils.interfaces.datasink.DataSink")
201113-05:13:15,666 nipype.interface INFO:
sub: /outputs/output/pipeline_cpac_fmriprep-options/sub-018_ses-1/qc___carpet/_scan_tgng_run-2/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/carpet_seg.png -> /outputs/output/pipeline_cpac_fmriprep-options/sub-018_ses-1/qc/carpet/_scan_tgng_run-2/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/carpet_seg.png
201113-05:13:15,686 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.sinker_0_qc___carpet".
201113-05:13:15,687 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.sinker_0_mean_functional_to_standard" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_tgng_run-2/sinker_0_mean_functional_to_standard".
201113-05:13:15,694 nipype.workflow INFO:
[Node] Running "sinker_0_mean_functional_to_standard" ("CPAC.utils.interfaces.datasink.DataSink")
201113-05:13:15,925 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.sinker_0_mean_functional_to_standard".
201113-05:13:15,927 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.apply_ants_warp_functional_brain_mask_to_standard_derivative__t1_0" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_tgng_run-2/apply_ants_warp_functional_brain_mask_to_standard_derivative__t1_0".
201113-05:13:15,936 nipype.workflow INFO:
[Node] Running "apply_ants_warp_functional_brain_mask_to_standard_derivative__t1_0" ("nipype.interfaces.ants.resampling.ApplyTransforms"), a CommandLine Interface with command:
antsApplyTransforms --default-value 0 --dimensionality 3 --float 0 --input /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/func_preproc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_tgng_run-2/combine_masks/sub-018_ses-1_task-tgng_run-2_bold_calc_despike_tshift_resample_mcf_tstat_brain_mask_maths.nii.gz --input-image-type 0 --interpolation NearestNeighbor --output sub-018_ses-1_task-tgng_run-2_bold_calc_despike_tshift_resample_mcf_tstat_brain_mask_maths_antswarp.nii.gz --reference-image /outputs/tmp/resting_preproc_sub-018_ses-1/resampled_template_skull_for_func_derivative/template_skull_for_func_derivative/tpl-MNI152NLin2009cAsym_res-02_T1w_reference_resample.nii.gz --transform /outputs/tmp/resting_preproc_sub-018_ses-1/anat_mni_ants_register_0/calc_ants_warp/transform1Warp.nii.gz --transform /outputs/tmp/resting_preproc_sub-018_ses-1/anat_mni_ants_register_0/calc_ants_warp/transform0GenericAffine.mat --transform /outputs/tmp/resting_preproc_sub-018_ses-1/_scan_tgng_run-2/change_transform_type_0/updated_affine.txt
201113-05:13:18,403 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.apply_ants_warp_functional_brain_mask_to_standard_derivative__t1_0".
201113-05:13:18,405 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.apply_ants_warp_functional_brain_mask_to_standard__t1_0" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_tgng_run-2/apply_ants_warp_functional_brain_mask_to_standard__t1_0".
201113-05:13:18,413 nipype.workflow INFO:
[Node] Running "apply_ants_warp_functional_brain_mask_to_standard__t1_0" ("nipype.interfaces.ants.resampling.ApplyTransforms"), a CommandLine Interface with command:
antsApplyTransforms --default-value 0 --dimensionality 3 --float 0 --input /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/func_preproc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_tgng_run-2/combine_masks/sub-018_ses-1_task-tgng_run-2_bold_calc_despike_tshift_resample_mcf_tstat_brain_mask_maths.nii.gz --input-image-type 0 --interpolation NearestNeighbor --output sub-018_ses-1_task-tgng_run-2_bold_calc_despike_tshift_resample_mcf_tstat_brain_mask_maths_antswarp.nii.gz --reference-image /outputs/tmp/resting_preproc_sub-018_ses-1/resampled_template_skull_for_func_preproc/template_skull_for_func_preproc/tpl-MNI152NLin2009cAsym_res-02_T1w_reference_resample.nii.gz --transform /outputs/tmp/resting_preproc_sub-018_ses-1/anat_mni_ants_register_0/calc_ants_warp/transform1Warp.nii.gz --transform /outputs/tmp/resting_preproc_sub-018_ses-1/anat_mni_ants_register_0/calc_ants_warp/transform0GenericAffine.mat --transform /outputs/tmp/resting_preproc_sub-018_ses-1/_scan_tgng_run-2/change_transform_type_0/updated_affine.txt
201113-05:13:20,869 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.apply_ants_warp_functional_brain_mask_to_standard__t1_0".
201113-05:13:20,871 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.sinker_0_functional_brain_mask_to_standard" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_tgng_run-2/sinker_0_functional_brain_mask_to_standard".
201113-05:13:20,878 nipype.workflow INFO:
[Node] Running "sinker_0_functional_brain_mask_to_standard" ("CPAC.utils.interfaces.datasink.DataSink")
201113-05:13:21,106 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.sinker_0_functional_brain_mask_to_standard".
201113-05:13:21,108 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.inverse_transform_flags_functional_brain_mask_to_standard__t1_0" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_tgng_run-2/inverse_transform_flags_functional_brain_mask_to_standard__t1_0".
201113-05:13:21,112 nipype.workflow INFO:
[Node] Running "inverse_transform_flags_functional_brain_mask_to_standard__t1_0" ("nipype.interfaces.utility.wrappers.Function")
201113-05:13:21,343 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.inverse_transform_flags_functional_brain_mask_to_standard__t1_0".
201113-05:13:21,345 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.collect_transforms_functional_brain_mask_to_standard__t1_0" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_tgng_run-1/collect_transforms_functional_brain_mask_to_standard__t1_0".
201113-05:13:21,381 nipype.workflow INFO:
[Node] Running "collect_transforms_functional_brain_mask_to_standard__t1_0" ("nipype.interfaces.utility.base.Merge")
201113-05:13:21,611 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.collect_transforms_functional_brain_mask_to_standard__t1_0".
201113-05:13:21,613 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.check_transformsfunctional_brain_mask_to_standard__t1_0" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_tgng_run-1/check_transformsfunctional_brain_mask_to_standard__t1_0".
201113-05:13:21,618 nipype.workflow INFO:
[Node] Running "check_transformsfunctional_brain_mask_to_standard__t1_0" ("nipype.interfaces.utility.wrappers.Function")
201113-05:13:21,848 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.check_transformsfunctional_brain_mask_to_standard__t1_0".
201113-05:13:21,850 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.write_composite_xfm_functional_to_standard__t1_0" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_tgng_run-1/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/write_composite_xfm_functional_to_standard__t1_0".
201113-05:13:21,859 nipype.workflow INFO:
[Node] Running "write_composite_xfm_functional_to_standard__t1_0" ("nipype.interfaces.ants.resampling.ApplyTransforms"), a CommandLine Interface with command:
antsApplyTransforms --default-value 0 --dimensionality 3 --float 0 --input /outputs/tmp/resting_preproc_sub-018_ses-1/nuisance_regression_after-filt_0_0/_scan_tgng_run-1/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/nuisance_regression/residuals.nii.gz --input-image-type 3 --interpolation LanczosWindowedSinc --output [ func_to_standard_xfm.nii.gz, 1 ] --reference-image /usr/share/fsl/5.0/data/standard/MNI152_T1_2mm_brain.nii.gz --transform /outputs/tmp/resting_preproc_sub-018_ses-1/anat_mni_ants_register_0/calc_ants_warp/transform1Warp.nii.gz --transform /outputs/tmp/resting_preproc_sub-018_ses-1/anat_mni_ants_register_0/calc_ants_warp/transform0GenericAffine.mat --transform /outputs/tmp/resting_preproc_sub-018_ses-1/_scan_tgng_run-1/change_transform_type_0/updated_affine.txt
201113-05:25:11,217 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.write_composite_xfm_functional_to_standard__t1_0".
201113-05:25:11,220 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.sinker_0_functional_to_standard_xfm" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_tgng_run-1/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/sinker_0_functional_to_standard_xfm".
201113-05:25:11,229 nipype.workflow INFO:
[Node] Running "sinker_0_functional_to_standard_xfm" ("CPAC.utils.interfaces.datasink.DataSink")
201113-05:25:11,457 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.sinker_0_functional_to_standard_xfm".
201113-05:25:11,459 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.apply_ants_warp_functional_to_standard__t1_0" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_tgng_run-1/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/apply_ants_warp_functional_to_standard__t1_0".
201113-05:25:11,466 nipype.workflow INFO:
[Node] Running "apply_ants_warp_functional_to_standard__t1_0" ("nipype.interfaces.ants.resampling.ApplyTransforms"), a CommandLine Interface with command:
antsApplyTransforms --default-value 0 --dimensionality 3 --float 0 --input /outputs/tmp/resting_preproc_sub-018_ses-1/nuisance_regression_after-filt_0_0/_scan_tgng_run-1/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/nuisance_regression/residuals.nii.gz --input-image-type 3 --interpolation LanczosWindowedSinc --output residuals_antswarp.nii.gz --reference-image /usr/share/fsl/5.0/data/standard/MNI152_T1_2mm_brain.nii.gz --transform /outputs/tmp/resting_preproc_sub-018_ses-1/anat_mni_ants_register_0/calc_ants_warp/transform1Warp.nii.gz --transform /outputs/tmp/resting_preproc_sub-018_ses-1/anat_mni_ants_register_0/calc_ants_warp/transform0GenericAffine.mat --transform /outputs/tmp/resting_preproc_sub-018_ses-1/_scan_tgng_run-1/change_transform_type_0/updated_affine.txt
201113-05:37:20,716 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.apply_ants_warp_functional_to_standard__t1_0".
201113-05:37:20,719 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.resample_functional_roi_0" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_tgng_run-1/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/_mask_Yeo-7_space-MNI152NLin6_res-1x1x1_mask_file_..ndmg_atlases..label..Human..Yeo-7_space-MNI152NLin6_res-1x1x1.nii.gz/resample_functional_roi_0".
201113-05:37:20,726 nipype.workflow INFO:
[Node] Running "resample_functional_roi_0" ("CPAC.utils.interfaces.function.Function")
201113-05:37:21,174 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.resample_functional_roi_0".
201113-05:37:21,176 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.roi_timeseries_0.3dROIstats" in "/outputs/tmp/resting_preproc_sub-018_ses-1/roi_timeseries_0/_scan_tgng_run-1/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/_mask_Yeo-7_space-MNI152NLin6_res-1x1x1_mask_file_..ndmg_atlases..label..Human..Yeo-7_space-MNI152NLin6_res-1x1x1.nii.gz/3dROIstats".
201113-05:37:21,182 nipype.workflow INFO:
[Node] Running "3dROIstats" ("nipype.interfaces.afni.preprocess.ROIStats"), a CommandLine Interface with command:
3dROIstats -mask /outputs/tmp/resting_preproc_sub-018_ses-1/_scan_tgng_run-1/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/_mask_Yeo-7_space-MNI152NLin6_res-1x1x1_mask_file_..ndmg_atlases..label..Human..Yeo-7_space-MNI152NLin6_res-1x1x1.nii.gz/resample_functional_roi_0/Yeo-7_space-MNI152NLin6_res-1x1x1_resampled.nii.gz -1Dformat /outputs/tmp/resting_preproc_sub-018_ses-1/_scan_tgng_run-1/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/apply_ants_warp_functional_to_standard__t1_0/residuals_antswarp.nii.gz
201113-05:37:26,965 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.roi_timeseries_0.3dROIstats".
201113-05:37:26,966 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.roi_timeseries_0.clean_roi_csv" in "/outputs/tmp/resting_preproc_sub-018_ses-1/roi_timeseries_0/_scan_tgng_run-1/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/_mask_Yeo-7_space-MNI152NLin6_res-1x1x1_mask_file_..ndmg_atlases..label..Human..Yeo-7_space-MNI152NLin6_res-1x1x1.nii.gz/clean_roi_csv".
201113-05:37:26,971 nipype.workflow INFO:
[Node] Running "clean_roi_csv" ("nipype.interfaces.utility.wrappers.Function")
201113-05:37:27,210 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.roi_timeseries_0.clean_roi_csv".
201113-05:37:27,211 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.ndmg_graphs_0" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_tgng_run-1/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/_mask_Yeo-7_space-MNI152NLin6_res-1x1x1_mask_file_..ndmg_atlases..label..Human..Yeo-7_space-MNI152NLin6_res-1x1x1.nii.gz/ndmg_graphs_0".
201113-05:37:27,253 nipype.workflow INFO:
[Node] Setting-up "_ndmg_graphs_00" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_tgng_run-1/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/_mask_Yeo-7_space-MNI152NLin6_res-1x1x1_mask_file_..ndmg_atlases..label..Human..Yeo-7_space-MNI152NLin6_res-1x1x1.nii.gz/ndmg_graphs_0/mapflow/_ndmg_graphs_00".
201113-05:37:27,286 nipype.workflow INFO:
[Node] Running "_ndmg_graphs_00" ("CPAC.utils.interfaces.function.Function")
Estimating correlation matrix for 7 ROIs...
201113-05:37:27,816 nipype.workflow INFO:
[Node] Finished "_ndmg_graphs_00".
201113-05:37:27,820 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.ndmg_graphs_0".
201113-05:37:27,820 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.sinker_0_ndmg_graph" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_tgng_run-1/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/_mask_Yeo-7_space-MNI152NLin6_res-1x1x1_mask_file_..ndmg_atlases..label..Human..Yeo-7_space-MNI152NLin6_res-1x1x1.nii.gz/sinker_0_ndmg_graph".
201113-05:37:27,828 nipype.workflow INFO:
[Node] Running "sinker_0_ndmg_graph" ("CPAC.utils.interfaces.datasink.DataSink")
201113-05:37:28,58 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.sinker_0_ndmg_graph".
201113-05:37:28,60 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.roi_timeseries_0.write_roi_npz" in "/outputs/tmp/resting_preproc_sub-018_ses-1/roi_timeseries_0/_scan_tgng_run-1/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/_mask_Yeo-7_space-MNI152NLin6_res-1x1x1_mask_file_..ndmg_atlases..label..Human..Yeo-7_space-MNI152NLin6_res-1x1x1.nii.gz/write_roi_npz".
201113-05:37:28,64 nipype.workflow INFO:
[Node] Running "write_roi_npz" ("nipype.interfaces.utility.wrappers.Function")
201113-05:37:28,295 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.roi_timeseries_0.write_roi_npz".
201113-05:37:28,297 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.sinker_0_roi_timeseries" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_tgng_run-1/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/_mask_Yeo-7_space-MNI152NLin6_res-1x1x1_mask_file_..ndmg_atlases..label..Human..Yeo-7_space-MNI152NLin6_res-1x1x1.nii.gz/sinker_0_roi_timeseries".
201113-05:37:28,304 nipype.workflow INFO:
[Node] Running "sinker_0_roi_timeseries" ("CPAC.utils.interfaces.datasink.DataSink")
201113-05:37:28,535 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.sinker_0_roi_timeseries".
201113-05:37:28,537 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.resample_functional_roi_0" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_tgng_run-1/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/_mask_Yeo-7-liberal_space-MNI152NLin6_res-1x1x1_mask_file_..ndmg_atlases..label..Human..Yeo-7-liberal_space-MNI152NLin6_res-1x1x1.nii.gz/resample_functional_roi_0".
201113-05:37:28,543 nipype.workflow INFO:
[Node] Running "resample_functional_roi_0" ("CPAC.utils.interfaces.function.Function")
201113-05:37:28,988 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.resample_functional_roi_0".
201113-05:37:28,990 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.roi_timeseries_0.3dROIstats" in "/outputs/tmp/resting_preproc_sub-018_ses-1/roi_timeseries_0/_scan_tgng_run-1/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/_mask_Yeo-7-liberal_space-MNI152NLin6_res-1x1x1_mask_file_..ndmg_atlases..label..Human..Yeo-7-liberal_space-MNI152NLin6_res-1x1x1.nii.gz/3dROIstats".
201113-05:37:28,995 nipype.workflow INFO:
[Node] Running "3dROIstats" ("nipype.interfaces.afni.preprocess.ROIStats"), a CommandLine Interface with command:
3dROIstats -mask /outputs/tmp/resting_preproc_sub-018_ses-1/_scan_tgng_run-1/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/_mask_Yeo-7-liberal_space-MNI152NLin6_res-1x1x1_mask_file_..ndmg_atlases..label..Human..Yeo-7-liberal_space-MNI152NLin6_res-1x1x1.nii.gz/resample_functional_roi_0/Yeo-7-liberal_space-MNI152NLin6_res-1x1x1_resampled.nii.gz -1Dformat /outputs/tmp/resting_preproc_sub-018_ses-1/_scan_tgng_run-1/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/apply_ants_warp_functional_to_standard__t1_0/residuals_antswarp.nii.gz
201113-05:37:34,751 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.roi_timeseries_0.3dROIstats".
201113-05:37:34,753 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.roi_timeseries_0.clean_roi_csv" in "/outputs/tmp/resting_preproc_sub-018_ses-1/roi_timeseries_0/_scan_tgng_run-1/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/_mask_Yeo-7-liberal_space-MNI152NLin6_res-1x1x1_mask_file_..ndmg_atlases..label..Human..Yeo-7-liberal_space-MNI152NLin6_res-1x1x1.nii.gz/clean_roi_csv".
201113-05:37:34,757 nipype.workflow INFO:
[Node] Running "clean_roi_csv" ("nipype.interfaces.utility.wrappers.Function")
201113-05:37:34,998 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.roi_timeseries_0.clean_roi_csv".
201113-05:37:34,999 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.ndmg_graphs_0" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_tgng_run-1/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/_mask_Yeo-7-liberal_space-MNI152NLin6_res-1x1x1_mask_file_..ndmg_atlases..label..Human..Yeo-7-liberal_space-MNI152NLin6_res-1x1x1.nii.gz/ndmg_graphs_0".
201113-05:37:35,39 nipype.workflow INFO:
[Node] Setting-up "_ndmg_graphs_00" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_tgng_run-1/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/_mask_Yeo-7-liberal_space-MNI152NLin6_res-1x1x1_mask_file_..ndmg_atlases..label..Human..Yeo-7-liberal_space-MNI152NLin6_res-1x1x1.nii.gz/ndmg_graphs_0/mapflow/_ndmg_graphs_00".
201113-05:37:35,72 nipype.workflow INFO:
[Node] Running "_ndmg_graphs_00" ("CPAC.utils.interfaces.function.Function")
Estimating correlation matrix for 7 ROIs...
201113-05:37:35,595 nipype.workflow INFO:
[Node] Finished "_ndmg_graphs_00".
201113-05:37:35,599 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.ndmg_graphs_0".
201113-05:37:35,599 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.sinker_0_ndmg_graph" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_tgng_run-1/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/_mask_Yeo-7-liberal_space-MNI152NLin6_res-1x1x1_mask_file_..ndmg_atlases..label..Human..Yeo-7-liberal_space-MNI152NLin6_res-1x1x1.nii.gz/sinker_0_ndmg_graph".
201113-05:37:35,605 nipype.workflow INFO:
[Node] Running "sinker_0_ndmg_graph" ("CPAC.utils.interfaces.datasink.DataSink")
201113-05:37:35,838 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.sinker_0_ndmg_graph".
201113-05:37:35,840 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.roi_timeseries_0.write_roi_npz" in "/outputs/tmp/resting_preproc_sub-018_ses-1/roi_timeseries_0/_scan_tgng_run-1/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/_mask_Yeo-7-liberal_space-MNI152NLin6_res-1x1x1_mask_file_..ndmg_atlases..label..Human..Yeo-7-liberal_space-MNI152NLin6_res-1x1x1.nii.gz/write_roi_npz".
201113-05:37:35,845 nipype.workflow INFO:
[Node] Running "write_roi_npz" ("nipype.interfaces.utility.wrappers.Function")
201113-05:37:36,80 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.roi_timeseries_0.write_roi_npz".
201113-05:37:36,81 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.sinker_0_roi_timeseries" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_tgng_run-1/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/_mask_Yeo-7-liberal_space-MNI152NLin6_res-1x1x1_mask_file_..ndmg_atlases..label..Human..Yeo-7-liberal_space-MNI152NLin6_res-1x1x1.nii.gz/sinker_0_roi_timeseries".
201113-05:37:36,90 nipype.workflow INFO:
[Node] Running "sinker_0_roi_timeseries" ("CPAC.utils.interfaces.datasink.DataSink")
201113-05:37:36,319 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.sinker_0_roi_timeseries".
201113-05:37:36,321 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.sinker_0_functional_to_standard" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_tgng_run-1/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/sinker_0_functional_to_standard".
201113-05:37:36,329 nipype.workflow INFO:
[Node] Running "sinker_0_functional_to_standard" ("CPAC.utils.interfaces.datasink.DataSink")
201113-05:37:36,562 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.sinker_0_functional_to_standard".
201113-05:37:36,563 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.apply_ants_warp_functional_freq_filtered_to_standard__t1_0" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_tgng_run-1/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/apply_ants_warp_functional_freq_filtered_to_standard__t1_0".
201113-05:37:36,573 nipype.workflow INFO:
[Node] Running "apply_ants_warp_functional_freq_filtered_to_standard__t1_0" ("nipype.interfaces.ants.resampling.ApplyTransforms"), a CommandLine Interface with command:
antsApplyTransforms --default-value 0 --dimensionality 3 --float 0 --input /outputs/tmp/resting_preproc_sub-018_ses-1/frequency_filtering_0_0/_scan_tgng_run-1/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/frequency_filter/bandpassed_demeaned_filtered.nii.gz --input-image-type 0 --interpolation LanczosWindowedSinc --output bandpassed_demeaned_filtered_antswarp.nii.gz --reference-image /usr/share/fsl/5.0/data/standard/MNI152_T1_2mm_brain.nii.gz --transform /outputs/tmp/resting_preproc_sub-018_ses-1/anat_mni_ants_register_0/calc_ants_warp/transform1Warp.nii.gz --transform /outputs/tmp/resting_preproc_sub-018_ses-1/anat_mni_ants_register_0/calc_ants_warp/transform0GenericAffine.mat --transform /outputs/tmp/resting_preproc_sub-018_ses-1/_scan_tgng_run-1/change_transform_type_0/updated_affine.txt
201113-05:37:39,270 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.apply_ants_warp_functional_freq_filtered_to_standard__t1_0".
201113-05:37:39,272 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.apply_ants_warp_functional_nuisance_residuals_to_standard__t1_0" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_tgng_run-1/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/apply_ants_warp_functional_nuisance_residuals_to_standard__t1_0".
201113-05:37:39,280 nipype.workflow INFO:
[Node] Running "apply_ants_warp_functional_nuisance_residuals_to_standard__t1_0" ("nipype.interfaces.ants.resampling.ApplyTransforms"), a CommandLine Interface with command:
antsApplyTransforms --default-value 0 --dimensionality 3 --float 0 --input /outputs/tmp/resting_preproc_sub-018_ses-1/nuisance_regression_after-filt_0_0/_scan_tgng_run-1/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/nuisance_regression/residuals.nii.gz --input-image-type 0 --interpolation LanczosWindowedSinc --output residuals_antswarp.nii.gz --reference-image /usr/share/fsl/5.0/data/standard/MNI152_T1_2mm_brain.nii.gz --transform /outputs/tmp/resting_preproc_sub-018_ses-1/anat_mni_ants_register_0/calc_ants_warp/transform1Warp.nii.gz --transform /outputs/tmp/resting_preproc_sub-018_ses-1/anat_mni_ants_register_0/calc_ants_warp/transform0GenericAffine.mat --transform /outputs/tmp/resting_preproc_sub-018_ses-1/_scan_tgng_run-1/change_transform_type_0/updated_affine.txt
201113-05:37:41,958 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.apply_ants_warp_functional_nuisance_residuals_to_standard__t1_0".
201113-05:37:41,960 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.apply_ants_warp_motion_correct_to_standard__t1_0" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_tgng_run-1/apply_ants_warp_motion_correct_to_standard__t1_0".
201113-05:37:42,96 nipype.workflow INFO:
[Node] Running "apply_ants_warp_motion_correct_to_standard__t1_0" ("nipype.interfaces.ants.resampling.ApplyTransforms"), a CommandLine Interface with command:
antsApplyTransforms --default-value 0 --dimensionality 3 --float 0 --input /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/_scan_tgng_run-1/func_motion_correct_mcflirt/sub-018_ses-1_task-tgng_run-1_bold_calc_despike_tshift_resample_mcf.nii.gz --input-image-type 3 --interpolation LanczosWindowedSinc --output sub-018_ses-1_task-tgng_run-1_bold_calc_despike_tshift_resample_mcf_antswarp.nii.gz --reference-image /usr/share/fsl/5.0/data/standard/MNI152_T1_2mm_brain.nii.gz --transform /outputs/tmp/resting_preproc_sub-018_ses-1/anat_mni_ants_register_0/calc_ants_warp/transform1Warp.nii.gz --transform /outputs/tmp/resting_preproc_sub-018_ses-1/anat_mni_ants_register_0/calc_ants_warp/transform0GenericAffine.mat --transform /outputs/tmp/resting_preproc_sub-018_ses-1/_scan_tgng_run-1/change_transform_type_0/updated_affine.txt
201113-05:50:00,567 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.apply_ants_warp_motion_correct_to_standard__t1_0".
201113-05:50:00,569 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.sinker_0_motion_correct_to_standard" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_tgng_run-1/sinker_0_motion_correct_to_standard".
201113-05:50:00,579 nipype.workflow INFO:
[Node] Running "sinker_0_motion_correct_to_standard" ("CPAC.utils.interfaces.datasink.DataSink")
201113-05:50:00,806 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.sinker_0_motion_correct_to_standard".
201113-05:50:00,807 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.apply_ants_warp_mean_functional_to_standard_derivative__t1_0" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_tgng_run-1/apply_ants_warp_mean_functional_to_standard_derivative__t1_0".
201113-05:50:00,817 nipype.workflow INFO:
[Node] Running "apply_ants_warp_mean_functional_to_standard_derivative__t1_0" ("nipype.interfaces.ants.resampling.ApplyTransforms"), a CommandLine Interface with command:
antsApplyTransforms --default-value 0 --dimensionality 3 --float 0 --input /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/_scan_tgng_run-1/func_mean/sub-018_ses-1_task-tgng_run-1_bold_calc_despike_tshift_resample_mcf_calc_tstat.nii.gz --input-image-type 0 --interpolation LanczosWindowedSinc --output sub-018_ses-1_task-tgng_run-1_bold_calc_despike_tshift_resample_mcf_calc_tstat_antswarp.nii.gz --reference-image /usr/share/fsl/5.0/data/standard/MNI152_T1_2mm_brain.nii.gz --transform /outputs/tmp/resting_preproc_sub-018_ses-1/anat_mni_ants_register_0/calc_ants_warp/transform1Warp.nii.gz --transform /outputs/tmp/resting_preproc_sub-018_ses-1/anat_mni_ants_register_0/calc_ants_warp/transform0GenericAffine.mat --transform /outputs/tmp/resting_preproc_sub-018_ses-1/_scan_tgng_run-1/change_transform_type_0/updated_affine.txt
201113-05:50:08,540 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.apply_ants_warp_mean_functional_to_standard_derivative__t1_0".
201113-05:50:08,542 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.apply_ants_warp_mean_functional_to_standard__t1_0" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_tgng_run-1/apply_ants_warp_mean_functional_to_standard__t1_0".
201113-05:50:08,550 nipype.workflow INFO:
[Node] Running "apply_ants_warp_mean_functional_to_standard__t1_0" ("nipype.interfaces.ants.resampling.ApplyTransforms"), a CommandLine Interface with command:
antsApplyTransforms --default-value 0 --dimensionality 3 --float 0 --input /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/_scan_tgng_run-1/func_mean/sub-018_ses-1_task-tgng_run-1_bold_calc_despike_tshift_resample_mcf_calc_tstat.nii.gz --input-image-type 0 --interpolation LanczosWindowedSinc --output sub-018_ses-1_task-tgng_run-1_bold_calc_despike_tshift_resample_mcf_calc_tstat_antswarp.nii.gz --reference-image /usr/share/fsl/5.0/data/standard/MNI152_T1_2mm_brain.nii.gz --transform /outputs/tmp/resting_preproc_sub-018_ses-1/anat_mni_ants_register_0/calc_ants_warp/transform1Warp.nii.gz --transform /outputs/tmp/resting_preproc_sub-018_ses-1/anat_mni_ants_register_0/calc_ants_warp/transform0GenericAffine.mat --transform /outputs/tmp/resting_preproc_sub-018_ses-1/_scan_tgng_run-1/change_transform_type_0/updated_affine.txt
201113-05:50:16,193 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.apply_ants_warp_mean_functional_to_standard__t1_0".
201113-05:50:16,195 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.montage_mfi_0.resample_u" in "/outputs/tmp/resting_preproc_sub-018_ses-1/montage_mfi_0/_scan_tgng_run-1/resample_u".
201113-05:50:16,200 nipype.workflow INFO:
[Node] Running "resample_u" ("CPAC.utils.interfaces.function.Function")
201113-05:50:16,929 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.montage_mfi_0.resample_u".
201113-05:50:16,930 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.montage_mfi_0.montage_s" in "/outputs/tmp/resting_preproc_sub-018_ses-1/montage_mfi_0/_scan_tgng_run-1/montage_s".
201113-05:50:16,936 nipype.workflow INFO:
[Node] Setting-up "_montage_s0" in "/outputs/tmp/resting_preproc_sub-018_ses-1/montage_mfi_0/_scan_tgng_run-1/montage_s/mapflow/_montage_s0".
201113-05:50:16,940 nipype.workflow INFO:
[Node] Running "_montage_s0" ("CPAC.utils.interfaces.function.Function")
201113-05:50:18,705 nipype.workflow INFO:
[Node] Finished "_montage_s0".
201113-05:50:18,708 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.montage_mfi_0.montage_s".
201113-05:50:18,709 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.sinker_0_qc___mean_func_with_mni_edge_s" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_tgng_run-1/sinker_0_qc___mean_func_with_mni_edge_s".
201113-05:50:18,717 nipype.workflow INFO:
[Node] Running "sinker_0_qc___mean_func_with_mni_edge_s" ("CPAC.utils.interfaces.datasink.DataSink")
201113-05:50:18,927 nipype.interface INFO:
sub: /outputs/output/pipeline_cpac_fmriprep-options/sub-018_ses-1/qc___mean_func_with_mni_edge_s/_scan_tgng_run-1/_montage_s0/MNI_edge_on_mean_func_mni_s.png -> /outputs/output/pipeline_cpac_fmriprep-options/sub-018_ses-1/qc/mean_func_with_mni_edge_s/_scan_tgng_run-1/_montage_s0/MNI_edge_on_mean_func_mni_s.png
201113-05:50:18,944 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.sinker_0_qc___mean_func_with_mni_edge_s".
201113-05:50:18,946 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.montage_mfi_0.montage_a" in "/outputs/tmp/resting_preproc_sub-018_ses-1/montage_mfi_0/_scan_tgng_run-1/montage_a".
201113-05:50:18,953 nipype.workflow INFO:
[Node] Setting-up "_montage_a0" in "/outputs/tmp/resting_preproc_sub-018_ses-1/montage_mfi_0/_scan_tgng_run-1/montage_a/mapflow/_montage_a0".
201113-05:50:18,958 nipype.workflow INFO:
[Node] Running "_montage_a0" ("CPAC.utils.interfaces.function.Function")
201113-05:50:20,947 nipype.workflow INFO:
[Node] Finished "_montage_a0".
201113-05:50:20,951 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.montage_mfi_0.montage_a".
201113-05:50:20,952 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.sinker_0_qc___mean_func_with_mni_edge_a" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_tgng_run-1/sinker_0_qc___mean_func_with_mni_edge_a".
201113-05:50:20,961 nipype.workflow INFO:
[Node] Running "sinker_0_qc___mean_func_with_mni_edge_a" ("CPAC.utils.interfaces.datasink.DataSink")
201113-05:50:21,175 nipype.interface INFO:
sub: /outputs/output/pipeline_cpac_fmriprep-options/sub-018_ses-1/qc___mean_func_with_mni_edge_a/_scan_tgng_run-1/_montage_a0/MNI_edge_on_mean_func_mni_a.png -> /outputs/output/pipeline_cpac_fmriprep-options/sub-018_ses-1/qc/mean_func_with_mni_edge_a/_scan_tgng_run-1/_montage_a0/MNI_edge_on_mean_func_mni_a.png
201113-05:50:21,192 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.sinker_0_qc___mean_func_with_mni_edge_a".
201113-05:50:21,194 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.carpet_seg_0.csf_resample" in "/outputs/tmp/resting_preproc_sub-018_ses-1/carpet_seg_0/_scan_tgng_run-1/csf_resample".
201113-05:50:21,200 nipype.workflow INFO:
[Node] Running "csf_resample" ("nipype.interfaces.afni.utils.Resample"), a CommandLine Interface with command:
3dresample -master /outputs/tmp/resting_preproc_sub-018_ses-1/_scan_tgng_run-1/apply_ants_warp_mean_functional_to_standard__t1_0/sub-018_ses-1_task-tgng_run-1_bold_calc_despike_tshift_resample_mcf_calc_tstat_antswarp.nii.gz -prefix avg152T1_csf_bin_resample.nii -inset /outputs/tmp/resting_preproc_sub-018_ses-1/carpet_seg_0/_scan_tgng_run-1/csf_resample/avg152T1_csf_bin.nii.gz
201113-05:50:21,446 nipype.interface INFO:
stderr 2020-11-13T05:50:21.446161:** AFNI converts NIFTI_datatype=64 (FLOAT64) in file /outputs/tmp/resting_preproc_sub-018_ses-1/_scan_tgng_run-1/apply_ants_warp_mean_functional_to_standard__t1_0/sub-018_ses-1_task-tgng_run-1_bold_calc_despike_tshift_resample_mcf_calc_tstat_antswarp.nii.gz to FLOAT32
201113-05:50:21,446 nipype.interface INFO:
stderr 2020-11-13T05:50:21.446549: Warnings of this type will be muted for this session.
201113-05:50:21,446 nipype.interface INFO:
stderr 2020-11-13T05:50:21.446549: Set AFNI_NIFTI_TYPE_WARN to YES to see them all, NO to see none.
201113-05:50:21,667 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.carpet_seg_0.csf_resample".
201113-05:50:21,669 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.carpet_seg_0.csf_mask" in "/outputs/tmp/resting_preproc_sub-018_ses-1/carpet_seg_0/_scan_tgng_run-1/csf_mask".
201113-05:50:21,674 nipype.workflow INFO:
[Node] Running "csf_mask" ("nipype.interfaces.afni.utils.Calc"), a CommandLine Interface with command:
3dcalc -a /outputs/tmp/resting_preproc_sub-018_ses-1/carpet_seg_0/_scan_tgng_run-1/csf_resample/avg152T1_csf_bin_resample.nii -expr "astep(a, 0.5)" -prefix avg152T1_csf_bin_resample_calc.nii
201113-05:50:21,926 nipype.interface INFO:
stderr 2020-11-13T05:50:21.926614:++ 3dcalc: AFNI version=AFNI_20.2.19 (Sep 27 2020) [64-bit]
201113-05:50:21,927 nipype.interface INFO:
stderr 2020-11-13T05:50:21.927007:++ Authored by: A cast of thousands
201113-05:50:22,23 nipype.interface INFO:
stderr 2020-11-13T05:50:22.023345:++ Output dataset ./avg152T1_csf_bin_resample_calc.nii
201113-05:50:22,187 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.carpet_seg_0.csf_mask".
201113-05:50:22,189 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.carpet_seg_0.wm_resample" in "/outputs/tmp/resting_preproc_sub-018_ses-1/carpet_seg_0/_scan_tgng_run-1/wm_resample".
201113-05:50:22,197 nipype.workflow INFO:
[Node] Running "wm_resample" ("nipype.interfaces.afni.utils.Resample"), a CommandLine Interface with command:
3dresample -master /outputs/tmp/resting_preproc_sub-018_ses-1/_scan_tgng_run-1/apply_ants_warp_mean_functional_to_standard__t1_0/sub-018_ses-1_task-tgng_run-1_bold_calc_despike_tshift_resample_mcf_calc_tstat_antswarp.nii.gz -prefix avg152T1_white_bin_resample.nii -inset /outputs/tmp/resting_preproc_sub-018_ses-1/carpet_seg_0/_scan_tgng_run-1/wm_resample/avg152T1_white_bin.nii.gz
201113-05:50:22,445 nipype.interface INFO:
stderr 2020-11-13T05:50:22.445133:** AFNI converts NIFTI_datatype=64 (FLOAT64) in file /outputs/tmp/resting_preproc_sub-018_ses-1/_scan_tgng_run-1/apply_ants_warp_mean_functional_to_standard__t1_0/sub-018_ses-1_task-tgng_run-1_bold_calc_despike_tshift_resample_mcf_calc_tstat_antswarp.nii.gz to FLOAT32
201113-05:50:22,445 nipype.interface INFO:
stderr 2020-11-13T05:50:22.445512: Warnings of this type will be muted for this session.
201113-05:50:22,445 nipype.interface INFO:
stderr 2020-11-13T05:50:22.445512: Set AFNI_NIFTI_TYPE_WARN to YES to see them all, NO to see none.
201113-05:50:22,663 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.carpet_seg_0.wm_resample".
201113-05:50:22,664 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.carpet_seg_0.wm_mask" in "/outputs/tmp/resting_preproc_sub-018_ses-1/carpet_seg_0/_scan_tgng_run-1/wm_mask".
201113-05:50:22,669 nipype.workflow INFO:
[Node] Running "wm_mask" ("nipype.interfaces.afni.utils.Calc"), a CommandLine Interface with command:
3dcalc -a /outputs/tmp/resting_preproc_sub-018_ses-1/carpet_seg_0/_scan_tgng_run-1/wm_resample/avg152T1_white_bin_resample.nii -expr "astep(a, 0.5)" -prefix avg152T1_white_bin_resample_calc.nii
201113-05:50:22,916 nipype.interface INFO:
stderr 2020-11-13T05:50:22.916611:++ 3dcalc: AFNI version=AFNI_20.2.19 (Sep 27 2020) [64-bit]
201113-05:50:22,916 nipype.interface INFO:
stderr 2020-11-13T05:50:22.916976:++ Authored by: A cast of thousands
201113-05:50:23,44 nipype.interface INFO:
stderr 2020-11-13T05:50:23.044268:++ Output dataset ./avg152T1_white_bin_resample_calc.nii
201113-05:50:23,203 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.carpet_seg_0.wm_mask".
201113-05:50:23,204 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.carpet_seg_0.gm_resample" in "/outputs/tmp/resting_preproc_sub-018_ses-1/carpet_seg_0/_scan_tgng_run-1/gm_resample".
201113-05:50:23,211 nipype.workflow INFO:
[Node] Running "gm_resample" ("nipype.interfaces.afni.utils.Resample"), a CommandLine Interface with command:
3dresample -master /outputs/tmp/resting_preproc_sub-018_ses-1/_scan_tgng_run-1/apply_ants_warp_mean_functional_to_standard__t1_0/sub-018_ses-1_task-tgng_run-1_bold_calc_despike_tshift_resample_mcf_calc_tstat_antswarp.nii.gz -prefix avg152T1_gray_bin_resample.nii -inset /outputs/tmp/resting_preproc_sub-018_ses-1/carpet_seg_0/_scan_tgng_run-1/gm_resample/avg152T1_gray_bin.nii.gz
201113-05:50:23,460 nipype.interface INFO:
stderr 2020-11-13T05:50:23.460181:** AFNI converts NIFTI_datatype=64 (FLOAT64) in file /outputs/tmp/resting_preproc_sub-018_ses-1/_scan_tgng_run-1/apply_ants_warp_mean_functional_to_standard__t1_0/sub-018_ses-1_task-tgng_run-1_bold_calc_despike_tshift_resample_mcf_calc_tstat_antswarp.nii.gz to FLOAT32
201113-05:50:23,460 nipype.interface INFO:
stderr 2020-11-13T05:50:23.460723: Warnings of this type will be muted for this session.
201113-05:50:23,460 nipype.interface INFO:
stderr 2020-11-13T05:50:23.460723: Set AFNI_NIFTI_TYPE_WARN to YES to see them all, NO to see none.
201113-05:50:23,677 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.carpet_seg_0.gm_resample".
201113-05:50:23,678 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.carpet_seg_0.gm_mask" in "/outputs/tmp/resting_preproc_sub-018_ses-1/carpet_seg_0/_scan_tgng_run-1/gm_mask".
201113-05:50:23,683 nipype.workflow INFO:
[Node] Running "gm_mask" ("nipype.interfaces.afni.utils.Calc"), a CommandLine Interface with command:
3dcalc -a /outputs/tmp/resting_preproc_sub-018_ses-1/carpet_seg_0/_scan_tgng_run-1/gm_resample/avg152T1_gray_bin_resample.nii -expr "astep(a, 0.5)" -prefix avg152T1_gray_bin_resample_calc.nii
201113-05:50:23,931 nipype.interface INFO:
stderr 2020-11-13T05:50:23.931377:++ 3dcalc: AFNI version=AFNI_20.2.19 (Sep 27 2020) [64-bit]
201113-05:50:23,931 nipype.interface INFO:
stderr 2020-11-13T05:50:23.931964:++ Authored by: A cast of thousands
201113-05:50:24,26 nipype.interface INFO:
stderr 2020-11-13T05:50:24.026680:++ Output dataset ./avg152T1_gray_bin_resample_calc.nii
201113-05:50:24,188 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.carpet_seg_0.gm_mask".
201113-05:50:24,190 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.carpet_seg_0.carpet_plot" in "/outputs/tmp/resting_preproc_sub-018_ses-1/carpet_seg_0/_scan_tgng_run-1/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/carpet_plot".
201113-05:50:24,197 nipype.workflow INFO:
[Node] Running "carpet_plot" ("CPAC.utils.interfaces.function.Function")
201113-05:50:29,875 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.carpet_seg_0.carpet_plot".
201113-05:50:29,877 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.sinker_0_qc___carpet" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_tgng_run-1/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/sinker_0_qc___carpet".
201113-05:50:29,884 nipype.workflow INFO:
[Node] Running "sinker_0_qc___carpet" ("CPAC.utils.interfaces.datasink.DataSink")
201113-05:50:30,97 nipype.interface INFO:
sub: /outputs/output/pipeline_cpac_fmriprep-options/sub-018_ses-1/qc___carpet/_scan_tgng_run-1/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/carpet_seg.png -> /outputs/output/pipeline_cpac_fmriprep-options/sub-018_ses-1/qc/carpet/_scan_tgng_run-1/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/carpet_seg.png
201113-05:50:30,114 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.sinker_0_qc___carpet".
201113-05:50:30,116 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.sinker_0_mean_functional_to_standard" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_tgng_run-1/sinker_0_mean_functional_to_standard".
201113-05:50:30,123 nipype.workflow INFO:
[Node] Running "sinker_0_mean_functional_to_standard" ("CPAC.utils.interfaces.datasink.DataSink")
201113-05:50:30,352 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.sinker_0_mean_functional_to_standard".
201113-05:50:30,353 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.apply_ants_warp_functional_brain_mask_to_standard_derivative__t1_0" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_tgng_run-1/apply_ants_warp_functional_brain_mask_to_standard_derivative__t1_0".
201113-05:50:30,361 nipype.workflow INFO:
[Node] Running "apply_ants_warp_functional_brain_mask_to_standard_derivative__t1_0" ("nipype.interfaces.ants.resampling.ApplyTransforms"), a CommandLine Interface with command:
antsApplyTransforms --default-value 0 --dimensionality 3 --float 0 --input /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/func_preproc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_tgng_run-1/combine_masks/sub-018_ses-1_task-tgng_run-1_bold_calc_despike_tshift_resample_mcf_tstat_brain_mask_maths.nii.gz --input-image-type 0 --interpolation NearestNeighbor --output sub-018_ses-1_task-tgng_run-1_bold_calc_despike_tshift_resample_mcf_tstat_brain_mask_maths_antswarp.nii.gz --reference-image /outputs/tmp/resting_preproc_sub-018_ses-1/resampled_template_skull_for_func_derivative/template_skull_for_func_derivative/tpl-MNI152NLin2009cAsym_res-02_T1w_reference_resample.nii.gz --transform /outputs/tmp/resting_preproc_sub-018_ses-1/anat_mni_ants_register_0/calc_ants_warp/transform1Warp.nii.gz --transform /outputs/tmp/resting_preproc_sub-018_ses-1/anat_mni_ants_register_0/calc_ants_warp/transform0GenericAffine.mat --transform /outputs/tmp/resting_preproc_sub-018_ses-1/_scan_tgng_run-1/change_transform_type_0/updated_affine.txt
201113-05:50:32,863 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.apply_ants_warp_functional_brain_mask_to_standard_derivative__t1_0".
201113-05:50:32,866 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.apply_ants_warp_functional_brain_mask_to_standard__t1_0" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_tgng_run-1/apply_ants_warp_functional_brain_mask_to_standard__t1_0".
201113-05:50:32,875 nipype.workflow INFO:
[Node] Running "apply_ants_warp_functional_brain_mask_to_standard__t1_0" ("nipype.interfaces.ants.resampling.ApplyTransforms"), a CommandLine Interface with command:
antsApplyTransforms --default-value 0 --dimensionality 3 --float 0 --input /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/func_preproc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_tgng_run-1/combine_masks/sub-018_ses-1_task-tgng_run-1_bold_calc_despike_tshift_resample_mcf_tstat_brain_mask_maths.nii.gz --input-image-type 0 --interpolation NearestNeighbor --output sub-018_ses-1_task-tgng_run-1_bold_calc_despike_tshift_resample_mcf_tstat_brain_mask_maths_antswarp.nii.gz --reference-image /outputs/tmp/resting_preproc_sub-018_ses-1/resampled_template_skull_for_func_preproc/template_skull_for_func_preproc/tpl-MNI152NLin2009cAsym_res-02_T1w_reference_resample.nii.gz --transform /outputs/tmp/resting_preproc_sub-018_ses-1/anat_mni_ants_register_0/calc_ants_warp/transform1Warp.nii.gz --transform /outputs/tmp/resting_preproc_sub-018_ses-1/anat_mni_ants_register_0/calc_ants_warp/transform0GenericAffine.mat --transform /outputs/tmp/resting_preproc_sub-018_ses-1/_scan_tgng_run-1/change_transform_type_0/updated_affine.txt
201113-05:50:35,332 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.apply_ants_warp_functional_brain_mask_to_standard__t1_0".
201113-05:50:35,333 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.sinker_0_functional_brain_mask_to_standard" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_tgng_run-1/sinker_0_functional_brain_mask_to_standard".
201113-05:50:35,342 nipype.workflow INFO:
[Node] Running "sinker_0_functional_brain_mask_to_standard" ("CPAC.utils.interfaces.datasink.DataSink")
201113-05:50:35,573 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.sinker_0_functional_brain_mask_to_standard".
201113-05:50:35,574 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.inverse_transform_flags_functional_brain_mask_to_standard__t1_0" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_tgng_run-1/inverse_transform_flags_functional_brain_mask_to_standard__t1_0".
201113-05:50:35,579 nipype.workflow INFO:
[Node] Running "inverse_transform_flags_functional_brain_mask_to_standard__t1_0" ("nipype.interfaces.utility.wrappers.Function")
201113-05:50:35,805 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.inverse_transform_flags_functional_brain_mask_to_standard__t1_0".
201113-05:50:35,806 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.collect_transforms_functional_brain_mask_to_standard__t1_0" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_rest_run-1/collect_transforms_functional_brain_mask_to_standard__t1_0".
201113-05:50:35,816 nipype.workflow INFO:
[Node] Running "collect_transforms_functional_brain_mask_to_standard__t1_0" ("nipype.interfaces.utility.base.Merge")
201113-05:50:36,46 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.collect_transforms_functional_brain_mask_to_standard__t1_0".
201113-05:50:36,48 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.check_transformsfunctional_brain_mask_to_standard__t1_0" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_rest_run-1/check_transformsfunctional_brain_mask_to_standard__t1_0".
201113-05:50:36,54 nipype.workflow INFO:
[Node] Running "check_transformsfunctional_brain_mask_to_standard__t1_0" ("nipype.interfaces.utility.wrappers.Function")
201113-05:50:36,287 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.check_transformsfunctional_brain_mask_to_standard__t1_0".
201113-05:50:36,289 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.write_composite_xfm_functional_to_standard__t1_0" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_rest_run-1/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/write_composite_xfm_functional_to_standard__t1_0".
201113-05:50:36,321 nipype.workflow INFO:
[Node] Running "write_composite_xfm_functional_to_standard__t1_0" ("nipype.interfaces.ants.resampling.ApplyTransforms"), a CommandLine Interface with command:
antsApplyTransforms --default-value 0 --dimensionality 3 --float 0 --input /outputs/tmp/resting_preproc_sub-018_ses-1/nuisance_regression_after-filt_0_0/_scan_rest_run-1/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/nuisance_regression/residuals.nii.gz --input-image-type 3 --interpolation LanczosWindowedSinc --output [ func_to_standard_xfm.nii.gz, 1 ] --reference-image /usr/share/fsl/5.0/data/standard/MNI152_T1_2mm_brain.nii.gz --transform /outputs/tmp/resting_preproc_sub-018_ses-1/anat_mni_ants_register_0/calc_ants_warp/transform1Warp.nii.gz --transform /outputs/tmp/resting_preproc_sub-018_ses-1/anat_mni_ants_register_0/calc_ants_warp/transform0GenericAffine.mat --transform /outputs/tmp/resting_preproc_sub-018_ses-1/_scan_rest_run-1/change_transform_type_0/updated_affine.txt
201113-06:07:47,891 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.write_composite_xfm_functional_to_standard__t1_0".
201113-06:07:47,894 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.sinker_0_functional_to_standard_xfm" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_rest_run-1/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/sinker_0_functional_to_standard_xfm".
201113-06:07:47,902 nipype.workflow INFO:
[Node] Running "sinker_0_functional_to_standard_xfm" ("CPAC.utils.interfaces.datasink.DataSink")
201113-06:07:48,132 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.sinker_0_functional_to_standard_xfm".
201113-06:07:48,134 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.apply_ants_warp_functional_to_standard__t1_0" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_rest_run-1/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/apply_ants_warp_functional_to_standard__t1_0".
201113-06:07:48,142 nipype.workflow INFO:
[Node] Running "apply_ants_warp_functional_to_standard__t1_0" ("nipype.interfaces.ants.resampling.ApplyTransforms"), a CommandLine Interface with command:
antsApplyTransforms --default-value 0 --dimensionality 3 --float 0 --input /outputs/tmp/resting_preproc_sub-018_ses-1/nuisance_regression_after-filt_0_0/_scan_rest_run-1/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/nuisance_regression/residuals.nii.gz --input-image-type 3 --interpolation LanczosWindowedSinc --output residuals_antswarp.nii.gz --reference-image /usr/share/fsl/5.0/data/standard/MNI152_T1_2mm_brain.nii.gz --transform /outputs/tmp/resting_preproc_sub-018_ses-1/anat_mni_ants_register_0/calc_ants_warp/transform1Warp.nii.gz --transform /outputs/tmp/resting_preproc_sub-018_ses-1/anat_mni_ants_register_0/calc_ants_warp/transform0GenericAffine.mat --transform /outputs/tmp/resting_preproc_sub-018_ses-1/_scan_rest_run-1/change_transform_type_0/updated_affine.txt
201113-06:25:35,173 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.apply_ants_warp_functional_to_standard__t1_0".
201113-06:25:35,177 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.resample_functional_roi_0" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_rest_run-1/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/_mask_Yeo-7_space-MNI152NLin6_res-1x1x1_mask_file_..ndmg_atlases..label..Human..Yeo-7_space-MNI152NLin6_res-1x1x1.nii.gz/resample_functional_roi_0".
201113-06:25:35,184 nipype.workflow INFO:
[Node] Running "resample_functional_roi_0" ("CPAC.utils.interfaces.function.Function")
201113-06:25:35,635 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.resample_functional_roi_0".
201113-06:25:35,637 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.roi_timeseries_0.3dROIstats" in "/outputs/tmp/resting_preproc_sub-018_ses-1/roi_timeseries_0/_scan_rest_run-1/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/_mask_Yeo-7_space-MNI152NLin6_res-1x1x1_mask_file_..ndmg_atlases..label..Human..Yeo-7_space-MNI152NLin6_res-1x1x1.nii.gz/3dROIstats".
201113-06:25:35,643 nipype.workflow INFO:
[Node] Running "3dROIstats" ("nipype.interfaces.afni.preprocess.ROIStats"), a CommandLine Interface with command:
3dROIstats -mask /outputs/tmp/resting_preproc_sub-018_ses-1/_scan_rest_run-1/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/_mask_Yeo-7_space-MNI152NLin6_res-1x1x1_mask_file_..ndmg_atlases..label..Human..Yeo-7_space-MNI152NLin6_res-1x1x1.nii.gz/resample_functional_roi_0/Yeo-7_space-MNI152NLin6_res-1x1x1_resampled.nii.gz -1Dformat /outputs/tmp/resting_preproc_sub-018_ses-1/_scan_rest_run-1/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/apply_ants_warp_functional_to_standard__t1_0/residuals_antswarp.nii.gz
201113-06:25:43,679 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.roi_timeseries_0.3dROIstats".
201113-06:25:43,681 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.roi_timeseries_0.clean_roi_csv" in "/outputs/tmp/resting_preproc_sub-018_ses-1/roi_timeseries_0/_scan_rest_run-1/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/_mask_Yeo-7_space-MNI152NLin6_res-1x1x1_mask_file_..ndmg_atlases..label..Human..Yeo-7_space-MNI152NLin6_res-1x1x1.nii.gz/clean_roi_csv".
201113-06:25:43,686 nipype.workflow INFO:
[Node] Running "clean_roi_csv" ("nipype.interfaces.utility.wrappers.Function")
201113-06:25:43,922 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.roi_timeseries_0.clean_roi_csv".
201113-06:25:43,923 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.ndmg_graphs_0" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_rest_run-1/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/_mask_Yeo-7_space-MNI152NLin6_res-1x1x1_mask_file_..ndmg_atlases..label..Human..Yeo-7_space-MNI152NLin6_res-1x1x1.nii.gz/ndmg_graphs_0".
201113-06:25:43,933 nipype.workflow INFO:
[Node] Setting-up "_ndmg_graphs_00" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_rest_run-1/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/_mask_Yeo-7_space-MNI152NLin6_res-1x1x1_mask_file_..ndmg_atlases..label..Human..Yeo-7_space-MNI152NLin6_res-1x1x1.nii.gz/ndmg_graphs_0/mapflow/_ndmg_graphs_00".
201113-06:25:43,941 nipype.workflow INFO:
[Node] Running "_ndmg_graphs_00" ("CPAC.utils.interfaces.function.Function")
Estimating correlation matrix for 7 ROIs...
201113-06:25:44,455 nipype.workflow INFO:
[Node] Finished "_ndmg_graphs_00".
201113-06:25:44,459 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.ndmg_graphs_0".
201113-06:25:44,459 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.sinker_0_ndmg_graph" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_rest_run-1/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/_mask_Yeo-7_space-MNI152NLin6_res-1x1x1_mask_file_..ndmg_atlases..label..Human..Yeo-7_space-MNI152NLin6_res-1x1x1.nii.gz/sinker_0_ndmg_graph".
201113-06:25:44,466 nipype.workflow INFO:
[Node] Running "sinker_0_ndmg_graph" ("CPAC.utils.interfaces.datasink.DataSink")
201113-06:25:44,698 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.sinker_0_ndmg_graph".
201113-06:25:44,699 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.roi_timeseries_0.write_roi_npz" in "/outputs/tmp/resting_preproc_sub-018_ses-1/roi_timeseries_0/_scan_rest_run-1/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/_mask_Yeo-7_space-MNI152NLin6_res-1x1x1_mask_file_..ndmg_atlases..label..Human..Yeo-7_space-MNI152NLin6_res-1x1x1.nii.gz/write_roi_npz".
201113-06:25:44,703 nipype.workflow INFO:
[Node] Running "write_roi_npz" ("nipype.interfaces.utility.wrappers.Function")
201113-06:25:44,937 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.roi_timeseries_0.write_roi_npz".
201113-06:25:44,938 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.sinker_0_roi_timeseries" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_rest_run-1/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/_mask_Yeo-7_space-MNI152NLin6_res-1x1x1_mask_file_..ndmg_atlases..label..Human..Yeo-7_space-MNI152NLin6_res-1x1x1.nii.gz/sinker_0_roi_timeseries".
201113-06:25:44,945 nipype.workflow INFO:
[Node] Running "sinker_0_roi_timeseries" ("CPAC.utils.interfaces.datasink.DataSink")
201113-06:25:45,177 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.sinker_0_roi_timeseries".
201113-06:25:45,178 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.resample_functional_roi_0" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_rest_run-1/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/_mask_Yeo-7-liberal_space-MNI152NLin6_res-1x1x1_mask_file_..ndmg_atlases..label..Human..Yeo-7-liberal_space-MNI152NLin6_res-1x1x1.nii.gz/resample_functional_roi_0".
201113-06:25:45,185 nipype.workflow INFO:
[Node] Running "resample_functional_roi_0" ("CPAC.utils.interfaces.function.Function")
201113-06:25:45,635 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.resample_functional_roi_0".
201113-06:25:45,637 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.roi_timeseries_0.3dROIstats" in "/outputs/tmp/resting_preproc_sub-018_ses-1/roi_timeseries_0/_scan_rest_run-1/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/_mask_Yeo-7-liberal_space-MNI152NLin6_res-1x1x1_mask_file_..ndmg_atlases..label..Human..Yeo-7-liberal_space-MNI152NLin6_res-1x1x1.nii.gz/3dROIstats".
201113-06:25:45,643 nipype.workflow INFO:
[Node] Running "3dROIstats" ("nipype.interfaces.afni.preprocess.ROIStats"), a CommandLine Interface with command:
3dROIstats -mask /outputs/tmp/resting_preproc_sub-018_ses-1/_scan_rest_run-1/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/_mask_Yeo-7-liberal_space-MNI152NLin6_res-1x1x1_mask_file_..ndmg_atlases..label..Human..Yeo-7-liberal_space-MNI152NLin6_res-1x1x1.nii.gz/resample_functional_roi_0/Yeo-7-liberal_space-MNI152NLin6_res-1x1x1_resampled.nii.gz -1Dformat /outputs/tmp/resting_preproc_sub-018_ses-1/_scan_rest_run-1/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/apply_ants_warp_functional_to_standard__t1_0/residuals_antswarp.nii.gz
201113-06:25:53,631 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.roi_timeseries_0.3dROIstats".
201113-06:25:53,633 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.roi_timeseries_0.clean_roi_csv" in "/outputs/tmp/resting_preproc_sub-018_ses-1/roi_timeseries_0/_scan_rest_run-1/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/_mask_Yeo-7-liberal_space-MNI152NLin6_res-1x1x1_mask_file_..ndmg_atlases..label..Human..Yeo-7-liberal_space-MNI152NLin6_res-1x1x1.nii.gz/clean_roi_csv".
201113-06:25:53,638 nipype.workflow INFO:
[Node] Running "clean_roi_csv" ("nipype.interfaces.utility.wrappers.Function")
201113-06:25:53,872 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.roi_timeseries_0.clean_roi_csv".
201113-06:25:53,873 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.ndmg_graphs_0" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_rest_run-1/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/_mask_Yeo-7-liberal_space-MNI152NLin6_res-1x1x1_mask_file_..ndmg_atlases..label..Human..Yeo-7-liberal_space-MNI152NLin6_res-1x1x1.nii.gz/ndmg_graphs_0".
201113-06:25:53,883 nipype.workflow INFO:
[Node] Setting-up "_ndmg_graphs_00" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_rest_run-1/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/_mask_Yeo-7-liberal_space-MNI152NLin6_res-1x1x1_mask_file_..ndmg_atlases..label..Human..Yeo-7-liberal_space-MNI152NLin6_res-1x1x1.nii.gz/ndmg_graphs_0/mapflow/_ndmg_graphs_00".
201113-06:25:53,890 nipype.workflow INFO:
[Node] Running "_ndmg_graphs_00" ("CPAC.utils.interfaces.function.Function")
Estimating correlation matrix for 7 ROIs...
201113-06:25:54,403 nipype.workflow INFO:
[Node] Finished "_ndmg_graphs_00".
201113-06:25:54,407 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.ndmg_graphs_0".
201113-06:25:54,407 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.sinker_0_ndmg_graph" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_rest_run-1/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/_mask_Yeo-7-liberal_space-MNI152NLin6_res-1x1x1_mask_file_..ndmg_atlases..label..Human..Yeo-7-liberal_space-MNI152NLin6_res-1x1x1.nii.gz/sinker_0_ndmg_graph".
201113-06:25:54,414 nipype.workflow INFO:
[Node] Running "sinker_0_ndmg_graph" ("CPAC.utils.interfaces.datasink.DataSink")
201113-06:25:54,645 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.sinker_0_ndmg_graph".
201113-06:25:54,647 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.roi_timeseries_0.write_roi_npz" in "/outputs/tmp/resting_preproc_sub-018_ses-1/roi_timeseries_0/_scan_rest_run-1/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/_mask_Yeo-7-liberal_space-MNI152NLin6_res-1x1x1_mask_file_..ndmg_atlases..label..Human..Yeo-7-liberal_space-MNI152NLin6_res-1x1x1.nii.gz/write_roi_npz".
201113-06:25:54,652 nipype.workflow INFO:
[Node] Running "write_roi_npz" ("nipype.interfaces.utility.wrappers.Function")
201113-06:25:54,885 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.roi_timeseries_0.write_roi_npz".
201113-06:25:54,887 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.sinker_0_roi_timeseries" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_rest_run-1/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/_mask_Yeo-7-liberal_space-MNI152NLin6_res-1x1x1_mask_file_..ndmg_atlases..label..Human..Yeo-7-liberal_space-MNI152NLin6_res-1x1x1.nii.gz/sinker_0_roi_timeseries".
201113-06:25:54,894 nipype.workflow INFO:
[Node] Running "sinker_0_roi_timeseries" ("CPAC.utils.interfaces.datasink.DataSink")
201113-06:25:55,125 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.sinker_0_roi_timeseries".
201113-06:25:55,127 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.sinker_0_functional_to_standard" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_rest_run-1/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/sinker_0_functional_to_standard".
201113-06:25:55,135 nipype.workflow INFO:
[Node] Running "sinker_0_functional_to_standard" ("CPAC.utils.interfaces.datasink.DataSink")
201113-06:25:55,365 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.sinker_0_functional_to_standard".
201113-06:25:55,367 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.apply_ants_warp_functional_freq_filtered_to_standard__t1_0" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_rest_run-1/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/apply_ants_warp_functional_freq_filtered_to_standard__t1_0".
201113-06:25:55,377 nipype.workflow INFO:
[Node] Running "apply_ants_warp_functional_freq_filtered_to_standard__t1_0" ("nipype.interfaces.ants.resampling.ApplyTransforms"), a CommandLine Interface with command:
antsApplyTransforms --default-value 0 --dimensionality 3 --float 0 --input /outputs/tmp/resting_preproc_sub-018_ses-1/frequency_filtering_0_0/_scan_rest_run-1/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/frequency_filter/bandpassed_demeaned_filtered.nii.gz --input-image-type 0 --interpolation LanczosWindowedSinc --output bandpassed_demeaned_filtered_antswarp.nii.gz --reference-image /usr/share/fsl/5.0/data/standard/MNI152_T1_2mm_brain.nii.gz --transform /outputs/tmp/resting_preproc_sub-018_ses-1/anat_mni_ants_register_0/calc_ants_warp/transform1Warp.nii.gz --transform /outputs/tmp/resting_preproc_sub-018_ses-1/anat_mni_ants_register_0/calc_ants_warp/transform0GenericAffine.mat --transform /outputs/tmp/resting_preproc_sub-018_ses-1/_scan_rest_run-1/change_transform_type_0/updated_affine.txt
201113-06:25:57,970 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.apply_ants_warp_functional_freq_filtered_to_standard__t1_0".
201113-06:25:57,972 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.apply_ants_warp_functional_nuisance_residuals_to_standard__t1_0" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_rest_run-1/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/apply_ants_warp_functional_nuisance_residuals_to_standard__t1_0".
201113-06:25:57,979 nipype.workflow INFO:
[Node] Running "apply_ants_warp_functional_nuisance_residuals_to_standard__t1_0" ("nipype.interfaces.ants.resampling.ApplyTransforms"), a CommandLine Interface with command:
antsApplyTransforms --default-value 0 --dimensionality 3 --float 0 --input /outputs/tmp/resting_preproc_sub-018_ses-1/nuisance_regression_after-filt_0_0/_scan_rest_run-1/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/nuisance_regression/residuals.nii.gz --input-image-type 0 --interpolation LanczosWindowedSinc --output residuals_antswarp.nii.gz --reference-image /usr/share/fsl/5.0/data/standard/MNI152_T1_2mm_brain.nii.gz --transform /outputs/tmp/resting_preproc_sub-018_ses-1/anat_mni_ants_register_0/calc_ants_warp/transform1Warp.nii.gz --transform /outputs/tmp/resting_preproc_sub-018_ses-1/anat_mni_ants_register_0/calc_ants_warp/transform0GenericAffine.mat --transform /outputs/tmp/resting_preproc_sub-018_ses-1/_scan_rest_run-1/change_transform_type_0/updated_affine.txt
201113-06:26:00,422 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.apply_ants_warp_functional_nuisance_residuals_to_standard__t1_0".
201113-06:26:00,424 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.apply_ants_warp_motion_correct_to_standard__t1_0" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_rest_run-1/apply_ants_warp_motion_correct_to_standard__t1_0".
201113-06:26:00,590 nipype.workflow INFO:
[Node] Running "apply_ants_warp_motion_correct_to_standard__t1_0" ("nipype.interfaces.ants.resampling.ApplyTransforms"), a CommandLine Interface with command:
antsApplyTransforms --default-value 0 --dimensionality 3 --float 0 --input /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/_scan_rest_run-1/func_motion_correct_mcflirt/sub-018_ses-1_task-rest_run-1_bold_calc_despike_tshift_resample_mcf.nii.gz --input-image-type 3 --interpolation LanczosWindowedSinc --output sub-018_ses-1_task-rest_run-1_bold_calc_despike_tshift_resample_mcf_antswarp.nii.gz --reference-image /usr/share/fsl/5.0/data/standard/MNI152_T1_2mm_brain.nii.gz --transform /outputs/tmp/resting_preproc_sub-018_ses-1/anat_mni_ants_register_0/calc_ants_warp/transform1Warp.nii.gz --transform /outputs/tmp/resting_preproc_sub-018_ses-1/anat_mni_ants_register_0/calc_ants_warp/transform0GenericAffine.mat --transform /outputs/tmp/resting_preproc_sub-018_ses-1/_scan_rest_run-1/change_transform_type_0/updated_affine.txt
201113-06:43:58,144 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.apply_ants_warp_motion_correct_to_standard__t1_0".
201113-06:43:58,147 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.sinker_0_motion_correct_to_standard" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_rest_run-1/sinker_0_motion_correct_to_standard".
201113-06:43:58,155 nipype.workflow INFO:
[Node] Running "sinker_0_motion_correct_to_standard" ("CPAC.utils.interfaces.datasink.DataSink")
201113-06:43:58,385 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.sinker_0_motion_correct_to_standard".
201113-06:43:58,387 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.apply_ants_warp_mean_functional_to_standard_derivative__t1_0" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_rest_run-1/apply_ants_warp_mean_functional_to_standard_derivative__t1_0".
201113-06:43:58,397 nipype.workflow INFO:
[Node] Running "apply_ants_warp_mean_functional_to_standard_derivative__t1_0" ("nipype.interfaces.ants.resampling.ApplyTransforms"), a CommandLine Interface with command:
antsApplyTransforms --default-value 0 --dimensionality 3 --float 0 --input /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/_scan_rest_run-1/func_mean/sub-018_ses-1_task-rest_run-1_bold_calc_despike_tshift_resample_mcf_calc_tstat.nii.gz --input-image-type 0 --interpolation LanczosWindowedSinc --output sub-018_ses-1_task-rest_run-1_bold_calc_despike_tshift_resample_mcf_calc_tstat_antswarp.nii.gz --reference-image /usr/share/fsl/5.0/data/standard/MNI152_T1_2mm_brain.nii.gz --transform /outputs/tmp/resting_preproc_sub-018_ses-1/anat_mni_ants_register_0/calc_ants_warp/transform1Warp.nii.gz --transform /outputs/tmp/resting_preproc_sub-018_ses-1/anat_mni_ants_register_0/calc_ants_warp/transform0GenericAffine.mat --transform /outputs/tmp/resting_preproc_sub-018_ses-1/_scan_rest_run-1/change_transform_type_0/updated_affine.txt
201113-06:44:06,419 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.apply_ants_warp_mean_functional_to_standard_derivative__t1_0".
201113-06:44:06,421 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.apply_ants_warp_mean_functional_to_standard__t1_0" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_rest_run-1/apply_ants_warp_mean_functional_to_standard__t1_0".
201113-06:44:06,429 nipype.workflow INFO:
[Node] Running "apply_ants_warp_mean_functional_to_standard__t1_0" ("nipype.interfaces.ants.resampling.ApplyTransforms"), a CommandLine Interface with command:
antsApplyTransforms --default-value 0 --dimensionality 3 --float 0 --input /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/_scan_rest_run-1/func_mean/sub-018_ses-1_task-rest_run-1_bold_calc_despike_tshift_resample_mcf_calc_tstat.nii.gz --input-image-type 0 --interpolation LanczosWindowedSinc --output sub-018_ses-1_task-rest_run-1_bold_calc_despike_tshift_resample_mcf_calc_tstat_antswarp.nii.gz --reference-image /usr/share/fsl/5.0/data/standard/MNI152_T1_2mm_brain.nii.gz --transform /outputs/tmp/resting_preproc_sub-018_ses-1/anat_mni_ants_register_0/calc_ants_warp/transform1Warp.nii.gz --transform /outputs/tmp/resting_preproc_sub-018_ses-1/anat_mni_ants_register_0/calc_ants_warp/transform0GenericAffine.mat --transform /outputs/tmp/resting_preproc_sub-018_ses-1/_scan_rest_run-1/change_transform_type_0/updated_affine.txt
201113-06:44:14,416 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.apply_ants_warp_mean_functional_to_standard__t1_0".
201113-06:44:14,418 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.montage_mfi_0.resample_u" in "/outputs/tmp/resting_preproc_sub-018_ses-1/montage_mfi_0/_scan_rest_run-1/resample_u".
201113-06:44:14,423 nipype.workflow INFO:
[Node] Running "resample_u" ("CPAC.utils.interfaces.function.Function")
201113-06:44:15,171 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.montage_mfi_0.resample_u".
201113-06:44:15,172 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.montage_mfi_0.montage_s" in "/outputs/tmp/resting_preproc_sub-018_ses-1/montage_mfi_0/_scan_rest_run-1/montage_s".
201113-06:44:15,179 nipype.workflow INFO:
[Node] Setting-up "_montage_s0" in "/outputs/tmp/resting_preproc_sub-018_ses-1/montage_mfi_0/_scan_rest_run-1/montage_s/mapflow/_montage_s0".
201113-06:44:15,183 nipype.workflow INFO:
[Node] Running "_montage_s0" ("CPAC.utils.interfaces.function.Function")
201113-06:44:16,946 nipype.workflow INFO:
[Node] Finished "_montage_s0".
201113-06:44:16,949 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.montage_mfi_0.montage_s".
201113-06:44:16,950 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.sinker_0_qc___mean_func_with_mni_edge_s" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_rest_run-1/sinker_0_qc___mean_func_with_mni_edge_s".
201113-06:44:16,957 nipype.workflow INFO:
[Node] Running "sinker_0_qc___mean_func_with_mni_edge_s" ("CPAC.utils.interfaces.datasink.DataSink")
201113-06:44:17,168 nipype.interface INFO:
sub: /outputs/output/pipeline_cpac_fmriprep-options/sub-018_ses-1/qc___mean_func_with_mni_edge_s/_scan_rest_run-1/_montage_s0/MNI_edge_on_mean_func_mni_s.png -> /outputs/output/pipeline_cpac_fmriprep-options/sub-018_ses-1/qc/mean_func_with_mni_edge_s/_scan_rest_run-1/_montage_s0/MNI_edge_on_mean_func_mni_s.png
201113-06:44:17,185 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.sinker_0_qc___mean_func_with_mni_edge_s".
201113-06:44:17,186 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.montage_mfi_0.montage_a" in "/outputs/tmp/resting_preproc_sub-018_ses-1/montage_mfi_0/_scan_rest_run-1/montage_a".
201113-06:44:17,193 nipype.workflow INFO:
[Node] Setting-up "_montage_a0" in "/outputs/tmp/resting_preproc_sub-018_ses-1/montage_mfi_0/_scan_rest_run-1/montage_a/mapflow/_montage_a0".
201113-06:44:17,197 nipype.workflow INFO:
[Node] Running "_montage_a0" ("CPAC.utils.interfaces.function.Function")
201113-06:44:19,189 nipype.workflow INFO:
[Node] Finished "_montage_a0".
201113-06:44:19,192 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.montage_mfi_0.montage_a".
201113-06:44:19,193 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.sinker_0_qc___mean_func_with_mni_edge_a" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_rest_run-1/sinker_0_qc___mean_func_with_mni_edge_a".
201113-06:44:19,199 nipype.workflow INFO:
[Node] Running "sinker_0_qc___mean_func_with_mni_edge_a" ("CPAC.utils.interfaces.datasink.DataSink")
201113-06:44:19,409 nipype.interface INFO:
sub: /outputs/output/pipeline_cpac_fmriprep-options/sub-018_ses-1/qc___mean_func_with_mni_edge_a/_scan_rest_run-1/_montage_a0/MNI_edge_on_mean_func_mni_a.png -> /outputs/output/pipeline_cpac_fmriprep-options/sub-018_ses-1/qc/mean_func_with_mni_edge_a/_scan_rest_run-1/_montage_a0/MNI_edge_on_mean_func_mni_a.png
201113-06:44:19,426 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.sinker_0_qc___mean_func_with_mni_edge_a".
201113-06:44:19,427 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.carpet_seg_0.csf_resample" in "/outputs/tmp/resting_preproc_sub-018_ses-1/carpet_seg_0/_scan_rest_run-1/csf_resample".
201113-06:44:19,434 nipype.workflow INFO:
[Node] Running "csf_resample" ("nipype.interfaces.afni.utils.Resample"), a CommandLine Interface with command:
3dresample -master /outputs/tmp/resting_preproc_sub-018_ses-1/_scan_rest_run-1/apply_ants_warp_mean_functional_to_standard__t1_0/sub-018_ses-1_task-rest_run-1_bold_calc_despike_tshift_resample_mcf_calc_tstat_antswarp.nii.gz -prefix avg152T1_csf_bin_resample.nii -inset /outputs/tmp/resting_preproc_sub-018_ses-1/carpet_seg_0/_scan_rest_run-1/csf_resample/avg152T1_csf_bin.nii.gz
201113-06:44:19,687 nipype.interface INFO:
stderr 2020-11-13T06:44:19.687482:** AFNI converts NIFTI_datatype=64 (FLOAT64) in file /outputs/tmp/resting_preproc_sub-018_ses-1/_scan_rest_run-1/apply_ants_warp_mean_functional_to_standard__t1_0/sub-018_ses-1_task-rest_run-1_bold_calc_despike_tshift_resample_mcf_calc_tstat_antswarp.nii.gz to FLOAT32
201113-06:44:19,687 nipype.interface INFO:
stderr 2020-11-13T06:44:19.687863: Warnings of this type will be muted for this session.
201113-06:44:19,688 nipype.interface INFO:
stderr 2020-11-13T06:44:19.687863: Set AFNI_NIFTI_TYPE_WARN to YES to see them all, NO to see none.
201113-06:44:19,939 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.carpet_seg_0.csf_resample".
201113-06:44:19,941 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.carpet_seg_0.csf_mask" in "/outputs/tmp/resting_preproc_sub-018_ses-1/carpet_seg_0/_scan_rest_run-1/csf_mask".
201113-06:44:19,946 nipype.workflow INFO:
[Node] Running "csf_mask" ("nipype.interfaces.afni.utils.Calc"), a CommandLine Interface with command:
3dcalc -a /outputs/tmp/resting_preproc_sub-018_ses-1/carpet_seg_0/_scan_rest_run-1/csf_resample/avg152T1_csf_bin_resample.nii -expr "astep(a, 0.5)" -prefix avg152T1_csf_bin_resample_calc.nii
201113-06:44:20,194 nipype.interface INFO:
stderr 2020-11-13T06:44:20.194592:++ 3dcalc: AFNI version=AFNI_20.2.19 (Sep 27 2020) [64-bit]
201113-06:44:20,194 nipype.interface INFO:
stderr 2020-11-13T06:44:20.194964:++ Authored by: A cast of thousands
201113-06:44:20,288 nipype.interface INFO:
stderr 2020-11-13T06:44:20.288794:++ Output dataset ./avg152T1_csf_bin_resample_calc.nii
201113-06:44:20,454 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.carpet_seg_0.csf_mask".
201113-06:44:20,455 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.carpet_seg_0.wm_resample" in "/outputs/tmp/resting_preproc_sub-018_ses-1/carpet_seg_0/_scan_rest_run-1/wm_resample".
201113-06:44:20,463 nipype.workflow INFO:
[Node] Running "wm_resample" ("nipype.interfaces.afni.utils.Resample"), a CommandLine Interface with command:
3dresample -master /outputs/tmp/resting_preproc_sub-018_ses-1/_scan_rest_run-1/apply_ants_warp_mean_functional_to_standard__t1_0/sub-018_ses-1_task-rest_run-1_bold_calc_despike_tshift_resample_mcf_calc_tstat_antswarp.nii.gz -prefix avg152T1_white_bin_resample.nii -inset /outputs/tmp/resting_preproc_sub-018_ses-1/carpet_seg_0/_scan_rest_run-1/wm_resample/avg152T1_white_bin.nii.gz
201113-06:44:20,715 nipype.interface INFO:
stderr 2020-11-13T06:44:20.715465:** AFNI converts NIFTI_datatype=64 (FLOAT64) in file /outputs/tmp/resting_preproc_sub-018_ses-1/_scan_rest_run-1/apply_ants_warp_mean_functional_to_standard__t1_0/sub-018_ses-1_task-rest_run-1_bold_calc_despike_tshift_resample_mcf_calc_tstat_antswarp.nii.gz to FLOAT32
201113-06:44:20,715 nipype.interface INFO:
stderr 2020-11-13T06:44:20.715840: Warnings of this type will be muted for this session.
201113-06:44:20,715 nipype.interface INFO:
stderr 2020-11-13T06:44:20.715840: Set AFNI_NIFTI_TYPE_WARN to YES to see them all, NO to see none.
201113-06:44:20,910 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.carpet_seg_0.wm_resample".
201113-06:44:20,911 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.carpet_seg_0.wm_mask" in "/outputs/tmp/resting_preproc_sub-018_ses-1/carpet_seg_0/_scan_rest_run-1/wm_mask".
201113-06:44:20,916 nipype.workflow INFO:
[Node] Running "wm_mask" ("nipype.interfaces.afni.utils.Calc"), a CommandLine Interface with command:
3dcalc -a /outputs/tmp/resting_preproc_sub-018_ses-1/carpet_seg_0/_scan_rest_run-1/wm_resample/avg152T1_white_bin_resample.nii -expr "astep(a, 0.5)" -prefix avg152T1_white_bin_resample_calc.nii
201113-06:44:21,165 nipype.interface INFO:
stderr 2020-11-13T06:44:21.165787:++ 3dcalc: AFNI version=AFNI_20.2.19 (Sep 27 2020) [64-bit]
201113-06:44:21,166 nipype.interface INFO:
stderr 2020-11-13T06:44:21.166154:++ Authored by: A cast of thousands
201113-06:44:21,287 nipype.interface INFO:
stderr 2020-11-13T06:44:21.287553:++ Output dataset ./avg152T1_white_bin_resample_calc.nii
201113-06:44:21,448 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.carpet_seg_0.wm_mask".
201113-06:44:21,450 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.carpet_seg_0.gm_resample" in "/outputs/tmp/resting_preproc_sub-018_ses-1/carpet_seg_0/_scan_rest_run-1/gm_resample".
201113-06:44:21,455 nipype.workflow INFO:
[Node] Running "gm_resample" ("nipype.interfaces.afni.utils.Resample"), a CommandLine Interface with command:
3dresample -master /outputs/tmp/resting_preproc_sub-018_ses-1/_scan_rest_run-1/apply_ants_warp_mean_functional_to_standard__t1_0/sub-018_ses-1_task-rest_run-1_bold_calc_despike_tshift_resample_mcf_calc_tstat_antswarp.nii.gz -prefix avg152T1_gray_bin_resample.nii -inset /outputs/tmp/resting_preproc_sub-018_ses-1/carpet_seg_0/_scan_rest_run-1/gm_resample/avg152T1_gray_bin.nii.gz
201113-06:44:21,711 nipype.interface INFO:
stderr 2020-11-13T06:44:21.711094:** AFNI converts NIFTI_datatype=64 (FLOAT64) in file /outputs/tmp/resting_preproc_sub-018_ses-1/_scan_rest_run-1/apply_ants_warp_mean_functional_to_standard__t1_0/sub-018_ses-1_task-rest_run-1_bold_calc_despike_tshift_resample_mcf_calc_tstat_antswarp.nii.gz to FLOAT32
201113-06:44:21,711 nipype.interface INFO:
stderr 2020-11-13T06:44:21.711481: Warnings of this type will be muted for this session.
201113-06:44:21,711 nipype.interface INFO:
stderr 2020-11-13T06:44:21.711481: Set AFNI_NIFTI_TYPE_WARN to YES to see them all, NO to see none.
201113-06:44:21,933 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.carpet_seg_0.gm_resample".
201113-06:44:21,934 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.carpet_seg_0.gm_mask" in "/outputs/tmp/resting_preproc_sub-018_ses-1/carpet_seg_0/_scan_rest_run-1/gm_mask".
201113-06:44:21,940 nipype.workflow INFO:
[Node] Running "gm_mask" ("nipype.interfaces.afni.utils.Calc"), a CommandLine Interface with command:
3dcalc -a /outputs/tmp/resting_preproc_sub-018_ses-1/carpet_seg_0/_scan_rest_run-1/gm_resample/avg152T1_gray_bin_resample.nii -expr "astep(a, 0.5)" -prefix avg152T1_gray_bin_resample_calc.nii
201113-06:44:22,187 nipype.interface INFO:
stderr 2020-11-13T06:44:22.187447:++ 3dcalc: AFNI version=AFNI_20.2.19 (Sep 27 2020) [64-bit]
201113-06:44:22,187 nipype.interface INFO:
stderr 2020-11-13T06:44:22.187823:++ Authored by: A cast of thousands
201113-06:44:22,311 nipype.interface INFO:
stderr 2020-11-13T06:44:22.311325:++ Output dataset ./avg152T1_gray_bin_resample_calc.nii
201113-06:44:22,477 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.carpet_seg_0.gm_mask".
201113-06:44:22,479 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.carpet_seg_0.carpet_plot" in "/outputs/tmp/resting_preproc_sub-018_ses-1/carpet_seg_0/_scan_rest_run-1/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/carpet_plot".
201113-06:44:22,486 nipype.workflow INFO:
[Node] Running "carpet_plot" ("CPAC.utils.interfaces.function.Function")
201113-06:44:30,429 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.carpet_seg_0.carpet_plot".
201113-06:44:30,430 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.sinker_0_qc___carpet" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_rest_run-1/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/sinker_0_qc___carpet".
201113-06:44:30,437 nipype.workflow INFO:
[Node] Running "sinker_0_qc___carpet" ("CPAC.utils.interfaces.datasink.DataSink")
201113-06:44:30,649 nipype.interface INFO:
sub: /outputs/output/pipeline_cpac_fmriprep-options/sub-018_ses-1/qc___carpet/_scan_rest_run-1/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/carpet_seg.png -> /outputs/output/pipeline_cpac_fmriprep-options/sub-018_ses-1/qc/carpet/_scan_rest_run-1/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/carpet_seg.png
201113-06:44:30,669 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.sinker_0_qc___carpet".
201113-06:44:30,671 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.sinker_0_mean_functional_to_standard" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_rest_run-1/sinker_0_mean_functional_to_standard".
201113-06:44:30,678 nipype.workflow INFO:
[Node] Running "sinker_0_mean_functional_to_standard" ("CPAC.utils.interfaces.datasink.DataSink")
201113-06:44:30,909 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.sinker_0_mean_functional_to_standard".
201113-06:44:30,911 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.apply_ants_warp_functional_brain_mask_to_standard_derivative__t1_0" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_rest_run-1/apply_ants_warp_functional_brain_mask_to_standard_derivative__t1_0".
201113-06:44:30,921 nipype.workflow INFO:
[Node] Running "apply_ants_warp_functional_brain_mask_to_standard_derivative__t1_0" ("nipype.interfaces.ants.resampling.ApplyTransforms"), a CommandLine Interface with command:
antsApplyTransforms --default-value 0 --dimensionality 3 --float 0 --input /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/func_preproc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_rest_run-1/combine_masks/sub-018_ses-1_task-rest_run-1_bold_calc_despike_tshift_resample_mcf_tstat_brain_mask_maths.nii.gz --input-image-type 0 --interpolation NearestNeighbor --output sub-018_ses-1_task-rest_run-1_bold_calc_despike_tshift_resample_mcf_tstat_brain_mask_maths_antswarp.nii.gz --reference-image /outputs/tmp/resting_preproc_sub-018_ses-1/resampled_template_skull_for_func_derivative/template_skull_for_func_derivative/tpl-MNI152NLin2009cAsym_res-02_T1w_reference_resample.nii.gz --transform /outputs/tmp/resting_preproc_sub-018_ses-1/anat_mni_ants_register_0/calc_ants_warp/transform1Warp.nii.gz --transform /outputs/tmp/resting_preproc_sub-018_ses-1/anat_mni_ants_register_0/calc_ants_warp/transform0GenericAffine.mat --transform /outputs/tmp/resting_preproc_sub-018_ses-1/_scan_rest_run-1/change_transform_type_0/updated_affine.txt
201113-06:44:33,484 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.apply_ants_warp_functional_brain_mask_to_standard_derivative__t1_0".
201113-06:44:33,486 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.apply_ants_warp_functional_brain_mask_to_standard__t1_0" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_rest_run-1/apply_ants_warp_functional_brain_mask_to_standard__t1_0".
201113-06:44:33,496 nipype.workflow INFO:
[Node] Running "apply_ants_warp_functional_brain_mask_to_standard__t1_0" ("nipype.interfaces.ants.resampling.ApplyTransforms"), a CommandLine Interface with command:
antsApplyTransforms --default-value 0 --dimensionality 3 --float 0 --input /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/func_preproc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_rest_run-1/combine_masks/sub-018_ses-1_task-rest_run-1_bold_calc_despike_tshift_resample_mcf_tstat_brain_mask_maths.nii.gz --input-image-type 0 --interpolation NearestNeighbor --output sub-018_ses-1_task-rest_run-1_bold_calc_despike_tshift_resample_mcf_tstat_brain_mask_maths_antswarp.nii.gz --reference-image /outputs/tmp/resting_preproc_sub-018_ses-1/resampled_template_skull_for_func_preproc/template_skull_for_func_preproc/tpl-MNI152NLin2009cAsym_res-02_T1w_reference_resample.nii.gz --transform /outputs/tmp/resting_preproc_sub-018_ses-1/anat_mni_ants_register_0/calc_ants_warp/transform1Warp.nii.gz --transform /outputs/tmp/resting_preproc_sub-018_ses-1/anat_mni_ants_register_0/calc_ants_warp/transform0GenericAffine.mat --transform /outputs/tmp/resting_preproc_sub-018_ses-1/_scan_rest_run-1/change_transform_type_0/updated_affine.txt
201113-06:44:36,0 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.apply_ants_warp_functional_brain_mask_to_standard__t1_0".
201113-06:44:36,2 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.sinker_0_functional_brain_mask_to_standard" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_rest_run-1/sinker_0_functional_brain_mask_to_standard".
201113-06:44:36,10 nipype.workflow INFO:
[Node] Running "sinker_0_functional_brain_mask_to_standard" ("CPAC.utils.interfaces.datasink.DataSink")
201113-06:44:36,236 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.sinker_0_functional_brain_mask_to_standard".
201113-06:44:36,238 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.inverse_transform_flags_functional_brain_mask_to_standard__t1_0" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_rest_run-1/inverse_transform_flags_functional_brain_mask_to_standard__t1_0".
201113-06:44:36,242 nipype.workflow INFO:
[Node] Running "inverse_transform_flags_functional_brain_mask_to_standard__t1_0" ("nipype.interfaces.utility.wrappers.Function")
201113-06:44:36,472 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.inverse_transform_flags_functional_brain_mask_to_standard__t1_0".
201113-06:44:36,473 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.collect_transforms_functional_brain_mask_to_standard__t1_0" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_ms_run-1/collect_transforms_functional_brain_mask_to_standard__t1_0".
201113-06:44:36,513 nipype.workflow INFO:
[Node] Running "collect_transforms_functional_brain_mask_to_standard__t1_0" ("nipype.interfaces.utility.base.Merge")
201113-06:44:36,747 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.collect_transforms_functional_brain_mask_to_standard__t1_0".
201113-06:44:36,749 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.check_transformsfunctional_brain_mask_to_standard__t1_0" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_ms_run-1/check_transformsfunctional_brain_mask_to_standard__t1_0".
201113-06:44:36,753 nipype.workflow INFO:
[Node] Running "check_transformsfunctional_brain_mask_to_standard__t1_0" ("nipype.interfaces.utility.wrappers.Function")
201113-06:44:36,987 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.check_transformsfunctional_brain_mask_to_standard__t1_0".
201113-06:44:36,989 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.write_composite_xfm_functional_to_standard__t1_0" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_ms_run-1/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/write_composite_xfm_functional_to_standard__t1_0".
201113-06:44:37,1 nipype.workflow INFO:
[Node] Running "write_composite_xfm_functional_to_standard__t1_0" ("nipype.interfaces.ants.resampling.ApplyTransforms"), a CommandLine Interface with command:
antsApplyTransforms --default-value 0 --dimensionality 3 --float 0 --input /outputs/tmp/resting_preproc_sub-018_ses-1/nuisance_regression_after-filt_0_0/_scan_ms_run-1/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/nuisance_regression/residuals.nii.gz --input-image-type 3 --interpolation LanczosWindowedSinc --output [ func_to_standard_xfm.nii.gz, 1 ] --reference-image /usr/share/fsl/5.0/data/standard/MNI152_T1_2mm_brain.nii.gz --transform /outputs/tmp/resting_preproc_sub-018_ses-1/anat_mni_ants_register_0/calc_ants_warp/transform1Warp.nii.gz --transform /outputs/tmp/resting_preproc_sub-018_ses-1/anat_mni_ants_register_0/calc_ants_warp/transform0GenericAffine.mat --transform /outputs/tmp/resting_preproc_sub-018_ses-1/_scan_ms_run-1/change_transform_type_0/updated_affine.txt
201113-06:57:16,497 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.write_composite_xfm_functional_to_standard__t1_0".
201113-06:57:16,500 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.sinker_0_functional_to_standard_xfm" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_ms_run-1/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/sinker_0_functional_to_standard_xfm".
201113-06:57:16,509 nipype.workflow INFO:
[Node] Running "sinker_0_functional_to_standard_xfm" ("CPAC.utils.interfaces.datasink.DataSink")
201113-06:57:16,737 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.sinker_0_functional_to_standard_xfm".
201113-06:57:16,739 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.apply_ants_warp_functional_to_standard__t1_0" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_ms_run-1/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/apply_ants_warp_functional_to_standard__t1_0".
201113-06:57:16,747 nipype.workflow INFO:
[Node] Running "apply_ants_warp_functional_to_standard__t1_0" ("nipype.interfaces.ants.resampling.ApplyTransforms"), a CommandLine Interface with command:
antsApplyTransforms --default-value 0 --dimensionality 3 --float 0 --input /outputs/tmp/resting_preproc_sub-018_ses-1/nuisance_regression_after-filt_0_0/_scan_ms_run-1/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/nuisance_regression/residuals.nii.gz --input-image-type 3 --interpolation LanczosWindowedSinc --output residuals_antswarp.nii.gz --reference-image /usr/share/fsl/5.0/data/standard/MNI152_T1_2mm_brain.nii.gz --transform /outputs/tmp/resting_preproc_sub-018_ses-1/anat_mni_ants_register_0/calc_ants_warp/transform1Warp.nii.gz --transform /outputs/tmp/resting_preproc_sub-018_ses-1/anat_mni_ants_register_0/calc_ants_warp/transform0GenericAffine.mat --transform /outputs/tmp/resting_preproc_sub-018_ses-1/_scan_ms_run-1/change_transform_type_0/updated_affine.txt
201113-07:10:19,527 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.apply_ants_warp_functional_to_standard__t1_0".
201113-07:10:19,530 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.resample_functional_roi_0" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_ms_run-1/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/_mask_Yeo-7_space-MNI152NLin6_res-1x1x1_mask_file_..ndmg_atlases..label..Human..Yeo-7_space-MNI152NLin6_res-1x1x1.nii.gz/resample_functional_roi_0".
201113-07:10:19,538 nipype.workflow INFO:
[Node] Running "resample_functional_roi_0" ("CPAC.utils.interfaces.function.Function")
201113-07:10:19,989 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.resample_functional_roi_0".
201113-07:10:19,991 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.roi_timeseries_0.3dROIstats" in "/outputs/tmp/resting_preproc_sub-018_ses-1/roi_timeseries_0/_scan_ms_run-1/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/_mask_Yeo-7_space-MNI152NLin6_res-1x1x1_mask_file_..ndmg_atlases..label..Human..Yeo-7_space-MNI152NLin6_res-1x1x1.nii.gz/3dROIstats".
201113-07:10:19,996 nipype.workflow INFO:
[Node] Running "3dROIstats" ("nipype.interfaces.afni.preprocess.ROIStats"), a CommandLine Interface with command:
3dROIstats -mask /outputs/tmp/resting_preproc_sub-018_ses-1/_scan_ms_run-1/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/_mask_Yeo-7_space-MNI152NLin6_res-1x1x1_mask_file_..ndmg_atlases..label..Human..Yeo-7_space-MNI152NLin6_res-1x1x1.nii.gz/resample_functional_roi_0/Yeo-7_space-MNI152NLin6_res-1x1x1_resampled.nii.gz -1Dformat /outputs/tmp/resting_preproc_sub-018_ses-1/_scan_ms_run-1/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/apply_ants_warp_functional_to_standard__t1_0/residuals_antswarp.nii.gz
201113-07:10:26,343 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.roi_timeseries_0.3dROIstats".
201113-07:10:26,345 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.roi_timeseries_0.clean_roi_csv" in "/outputs/tmp/resting_preproc_sub-018_ses-1/roi_timeseries_0/_scan_ms_run-1/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/_mask_Yeo-7_space-MNI152NLin6_res-1x1x1_mask_file_..ndmg_atlases..label..Human..Yeo-7_space-MNI152NLin6_res-1x1x1.nii.gz/clean_roi_csv".
201113-07:10:26,350 nipype.workflow INFO:
[Node] Running "clean_roi_csv" ("nipype.interfaces.utility.wrappers.Function")
201113-07:10:26,592 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.roi_timeseries_0.clean_roi_csv".
201113-07:10:26,593 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.ndmg_graphs_0" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_ms_run-1/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/_mask_Yeo-7_space-MNI152NLin6_res-1x1x1_mask_file_..ndmg_atlases..label..Human..Yeo-7_space-MNI152NLin6_res-1x1x1.nii.gz/ndmg_graphs_0".
201113-07:10:26,638 nipype.workflow INFO:
[Node] Setting-up "_ndmg_graphs_00" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_ms_run-1/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/_mask_Yeo-7_space-MNI152NLin6_res-1x1x1_mask_file_..ndmg_atlases..label..Human..Yeo-7_space-MNI152NLin6_res-1x1x1.nii.gz/ndmg_graphs_0/mapflow/_ndmg_graphs_00".
201113-07:10:26,671 nipype.workflow INFO:
[Node] Running "_ndmg_graphs_00" ("CPAC.utils.interfaces.function.Function")
Estimating correlation matrix for 7 ROIs...
201113-07:10:27,193 nipype.workflow INFO:
[Node] Finished "_ndmg_graphs_00".
201113-07:10:27,197 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.ndmg_graphs_0".
201113-07:10:27,198 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.sinker_0_ndmg_graph" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_ms_run-1/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/_mask_Yeo-7_space-MNI152NLin6_res-1x1x1_mask_file_..ndmg_atlases..label..Human..Yeo-7_space-MNI152NLin6_res-1x1x1.nii.gz/sinker_0_ndmg_graph".
201113-07:10:27,205 nipype.workflow INFO:
[Node] Running "sinker_0_ndmg_graph" ("CPAC.utils.interfaces.datasink.DataSink")
201113-07:10:27,437 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.sinker_0_ndmg_graph".
201113-07:10:27,439 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.roi_timeseries_0.write_roi_npz" in "/outputs/tmp/resting_preproc_sub-018_ses-1/roi_timeseries_0/_scan_ms_run-1/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/_mask_Yeo-7_space-MNI152NLin6_res-1x1x1_mask_file_..ndmg_atlases..label..Human..Yeo-7_space-MNI152NLin6_res-1x1x1.nii.gz/write_roi_npz".
201113-07:10:27,443 nipype.workflow INFO:
[Node] Running "write_roi_npz" ("nipype.interfaces.utility.wrappers.Function")
201113-07:10:27,679 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.roi_timeseries_0.write_roi_npz".
201113-07:10:27,680 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.sinker_0_roi_timeseries" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_ms_run-1/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/_mask_Yeo-7_space-MNI152NLin6_res-1x1x1_mask_file_..ndmg_atlases..label..Human..Yeo-7_space-MNI152NLin6_res-1x1x1.nii.gz/sinker_0_roi_timeseries".
201113-07:10:27,687 nipype.workflow INFO:
[Node] Running "sinker_0_roi_timeseries" ("CPAC.utils.interfaces.datasink.DataSink")
201113-07:10:27,919 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.sinker_0_roi_timeseries".
201113-07:10:27,921 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.resample_functional_roi_0" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_ms_run-1/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/_mask_Yeo-7-liberal_space-MNI152NLin6_res-1x1x1_mask_file_..ndmg_atlases..label..Human..Yeo-7-liberal_space-MNI152NLin6_res-1x1x1.nii.gz/resample_functional_roi_0".
201113-07:10:27,927 nipype.workflow INFO:
[Node] Running "resample_functional_roi_0" ("CPAC.utils.interfaces.function.Function")
201113-07:10:28,384 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.resample_functional_roi_0".
201113-07:10:28,386 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.roi_timeseries_0.3dROIstats" in "/outputs/tmp/resting_preproc_sub-018_ses-1/roi_timeseries_0/_scan_ms_run-1/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/_mask_Yeo-7-liberal_space-MNI152NLin6_res-1x1x1_mask_file_..ndmg_atlases..label..Human..Yeo-7-liberal_space-MNI152NLin6_res-1x1x1.nii.gz/3dROIstats".
201113-07:10:28,393 nipype.workflow INFO:
[Node] Running "3dROIstats" ("nipype.interfaces.afni.preprocess.ROIStats"), a CommandLine Interface with command:
3dROIstats -mask /outputs/tmp/resting_preproc_sub-018_ses-1/_scan_ms_run-1/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/_mask_Yeo-7-liberal_space-MNI152NLin6_res-1x1x1_mask_file_..ndmg_atlases..label..Human..Yeo-7-liberal_space-MNI152NLin6_res-1x1x1.nii.gz/resample_functional_roi_0/Yeo-7-liberal_space-MNI152NLin6_res-1x1x1_resampled.nii.gz -1Dformat /outputs/tmp/resting_preproc_sub-018_ses-1/_scan_ms_run-1/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/apply_ants_warp_functional_to_standard__t1_0/residuals_antswarp.nii.gz
201113-07:10:34,703 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.roi_timeseries_0.3dROIstats".
201113-07:10:34,705 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.roi_timeseries_0.clean_roi_csv" in "/outputs/tmp/resting_preproc_sub-018_ses-1/roi_timeseries_0/_scan_ms_run-1/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/_mask_Yeo-7-liberal_space-MNI152NLin6_res-1x1x1_mask_file_..ndmg_atlases..label..Human..Yeo-7-liberal_space-MNI152NLin6_res-1x1x1.nii.gz/clean_roi_csv".
201113-07:10:34,710 nipype.workflow INFO:
[Node] Running "clean_roi_csv" ("nipype.interfaces.utility.wrappers.Function")
201113-07:10:34,951 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.roi_timeseries_0.clean_roi_csv".
201113-07:10:34,952 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.ndmg_graphs_0" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_ms_run-1/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/_mask_Yeo-7-liberal_space-MNI152NLin6_res-1x1x1_mask_file_..ndmg_atlases..label..Human..Yeo-7-liberal_space-MNI152NLin6_res-1x1x1.nii.gz/ndmg_graphs_0".
201113-07:10:34,997 nipype.workflow INFO:
[Node] Setting-up "_ndmg_graphs_00" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_ms_run-1/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/_mask_Yeo-7-liberal_space-MNI152NLin6_res-1x1x1_mask_file_..ndmg_atlases..label..Human..Yeo-7-liberal_space-MNI152NLin6_res-1x1x1.nii.gz/ndmg_graphs_0/mapflow/_ndmg_graphs_00".
201113-07:10:35,34 nipype.workflow INFO:
[Node] Running "_ndmg_graphs_00" ("CPAC.utils.interfaces.function.Function")
Estimating correlation matrix for 7 ROIs...
201113-07:10:35,557 nipype.workflow INFO:
[Node] Finished "_ndmg_graphs_00".
201113-07:10:35,561 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.ndmg_graphs_0".
201113-07:10:35,561 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.sinker_0_ndmg_graph" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_ms_run-1/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/_mask_Yeo-7-liberal_space-MNI152NLin6_res-1x1x1_mask_file_..ndmg_atlases..label..Human..Yeo-7-liberal_space-MNI152NLin6_res-1x1x1.nii.gz/sinker_0_ndmg_graph".
201113-07:10:35,568 nipype.workflow INFO:
[Node] Running "sinker_0_ndmg_graph" ("CPAC.utils.interfaces.datasink.DataSink")
201113-07:10:35,799 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.sinker_0_ndmg_graph".
201113-07:10:35,801 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.roi_timeseries_0.write_roi_npz" in "/outputs/tmp/resting_preproc_sub-018_ses-1/roi_timeseries_0/_scan_ms_run-1/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/_mask_Yeo-7-liberal_space-MNI152NLin6_res-1x1x1_mask_file_..ndmg_atlases..label..Human..Yeo-7-liberal_space-MNI152NLin6_res-1x1x1.nii.gz/write_roi_npz".
201113-07:10:35,805 nipype.workflow INFO:
[Node] Running "write_roi_npz" ("nipype.interfaces.utility.wrappers.Function")
201113-07:10:36,38 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.roi_timeseries_0.write_roi_npz".
201113-07:10:36,39 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.sinker_0_roi_timeseries" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_ms_run-1/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/_mask_Yeo-7-liberal_space-MNI152NLin6_res-1x1x1_mask_file_..ndmg_atlases..label..Human..Yeo-7-liberal_space-MNI152NLin6_res-1x1x1.nii.gz/sinker_0_roi_timeseries".
201113-07:10:36,46 nipype.workflow INFO:
[Node] Running "sinker_0_roi_timeseries" ("CPAC.utils.interfaces.datasink.DataSink")
201113-07:10:36,277 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.sinker_0_roi_timeseries".
201113-07:10:36,279 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.sinker_0_functional_to_standard" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_ms_run-1/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/sinker_0_functional_to_standard".
201113-07:10:36,286 nipype.workflow INFO:
[Node] Running "sinker_0_functional_to_standard" ("CPAC.utils.interfaces.datasink.DataSink")
201113-07:10:36,518 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.sinker_0_functional_to_standard".
201113-07:10:36,520 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.apply_ants_warp_functional_freq_filtered_to_standard__t1_0" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_ms_run-1/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/apply_ants_warp_functional_freq_filtered_to_standard__t1_0".
201113-07:10:36,549 nipype.workflow INFO:
[Node] Running "apply_ants_warp_functional_freq_filtered_to_standard__t1_0" ("nipype.interfaces.ants.resampling.ApplyTransforms"), a CommandLine Interface with command:
antsApplyTransforms --default-value 0 --dimensionality 3 --float 0 --input /outputs/tmp/resting_preproc_sub-018_ses-1/frequency_filtering_0_0/_scan_ms_run-1/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/frequency_filter/bandpassed_demeaned_filtered.nii.gz --input-image-type 0 --interpolation LanczosWindowedSinc --output bandpassed_demeaned_filtered_antswarp.nii.gz --reference-image /usr/share/fsl/5.0/data/standard/MNI152_T1_2mm_brain.nii.gz --transform /outputs/tmp/resting_preproc_sub-018_ses-1/anat_mni_ants_register_0/calc_ants_warp/transform1Warp.nii.gz --transform /outputs/tmp/resting_preproc_sub-018_ses-1/anat_mni_ants_register_0/calc_ants_warp/transform0GenericAffine.mat --transform /outputs/tmp/resting_preproc_sub-018_ses-1/_scan_ms_run-1/change_transform_type_0/updated_affine.txt
201113-07:10:39,291 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.apply_ants_warp_functional_freq_filtered_to_standard__t1_0".
201113-07:10:39,293 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.apply_ants_warp_functional_nuisance_residuals_to_standard__t1_0" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_ms_run-1/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/apply_ants_warp_functional_nuisance_residuals_to_standard__t1_0".
201113-07:10:39,300 nipype.workflow INFO:
[Node] Running "apply_ants_warp_functional_nuisance_residuals_to_standard__t1_0" ("nipype.interfaces.ants.resampling.ApplyTransforms"), a CommandLine Interface with command:
antsApplyTransforms --default-value 0 --dimensionality 3 --float 0 --input /outputs/tmp/resting_preproc_sub-018_ses-1/nuisance_regression_after-filt_0_0/_scan_ms_run-1/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/nuisance_regression/residuals.nii.gz --input-image-type 0 --interpolation LanczosWindowedSinc --output residuals_antswarp.nii.gz --reference-image /usr/share/fsl/5.0/data/standard/MNI152_T1_2mm_brain.nii.gz --transform /outputs/tmp/resting_preproc_sub-018_ses-1/anat_mni_ants_register_0/calc_ants_warp/transform1Warp.nii.gz --transform /outputs/tmp/resting_preproc_sub-018_ses-1/anat_mni_ants_register_0/calc_ants_warp/transform0GenericAffine.mat --transform /outputs/tmp/resting_preproc_sub-018_ses-1/_scan_ms_run-1/change_transform_type_0/updated_affine.txt
201113-07:10:41,968 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.apply_ants_warp_functional_nuisance_residuals_to_standard__t1_0".
201113-07:10:41,970 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.apply_ants_warp_motion_correct_to_standard__t1_0" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_ms_run-1/apply_ants_warp_motion_correct_to_standard__t1_0".
201113-07:10:42,111 nipype.workflow INFO:
[Node] Running "apply_ants_warp_motion_correct_to_standard__t1_0" ("nipype.interfaces.ants.resampling.ApplyTransforms"), a CommandLine Interface with command:
antsApplyTransforms --default-value 0 --dimensionality 3 --float 0 --input /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/_scan_ms_run-1/func_motion_correct_mcflirt/sub-018_ses-1_task-ms_run-1_bold_calc_despike_tshift_resample_mcf.nii.gz --input-image-type 3 --interpolation LanczosWindowedSinc --output sub-018_ses-1_task-ms_run-1_bold_calc_despike_tshift_resample_mcf_antswarp.nii.gz --reference-image /usr/share/fsl/5.0/data/standard/MNI152_T1_2mm_brain.nii.gz --transform /outputs/tmp/resting_preproc_sub-018_ses-1/anat_mni_ants_register_0/calc_ants_warp/transform1Warp.nii.gz --transform /outputs/tmp/resting_preproc_sub-018_ses-1/anat_mni_ants_register_0/calc_ants_warp/transform0GenericAffine.mat --transform /outputs/tmp/resting_preproc_sub-018_ses-1/_scan_ms_run-1/change_transform_type_0/updated_affine.txt
201113-07:23:54,906 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.apply_ants_warp_motion_correct_to_standard__t1_0".
201113-07:23:54,909 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.sinker_0_motion_correct_to_standard" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_ms_run-1/sinker_0_motion_correct_to_standard".
201113-07:23:54,918 nipype.workflow INFO:
[Node] Running "sinker_0_motion_correct_to_standard" ("CPAC.utils.interfaces.datasink.DataSink")
201113-07:23:55,147 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.sinker_0_motion_correct_to_standard".
201113-07:23:55,148 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.apply_ants_warp_mean_functional_to_standard_derivative__t1_0" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_ms_run-1/apply_ants_warp_mean_functional_to_standard_derivative__t1_0".
201113-07:23:55,179 nipype.workflow INFO:
[Node] Running "apply_ants_warp_mean_functional_to_standard_derivative__t1_0" ("nipype.interfaces.ants.resampling.ApplyTransforms"), a CommandLine Interface with command:
antsApplyTransforms --default-value 0 --dimensionality 3 --float 0 --input /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/_scan_ms_run-1/func_mean/sub-018_ses-1_task-ms_run-1_bold_calc_despike_tshift_resample_mcf_calc_tstat.nii.gz --input-image-type 0 --interpolation LanczosWindowedSinc --output sub-018_ses-1_task-ms_run-1_bold_calc_despike_tshift_resample_mcf_calc_tstat_antswarp.nii.gz --reference-image /usr/share/fsl/5.0/data/standard/MNI152_T1_2mm_brain.nii.gz --transform /outputs/tmp/resting_preproc_sub-018_ses-1/anat_mni_ants_register_0/calc_ants_warp/transform1Warp.nii.gz --transform /outputs/tmp/resting_preproc_sub-018_ses-1/anat_mni_ants_register_0/calc_ants_warp/transform0GenericAffine.mat --transform /outputs/tmp/resting_preproc_sub-018_ses-1/_scan_ms_run-1/change_transform_type_0/updated_affine.txt
201113-07:24:02,817 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.apply_ants_warp_mean_functional_to_standard_derivative__t1_0".
201113-07:24:02,819 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.apply_ants_warp_mean_functional_to_standard__t1_0" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_ms_run-1/apply_ants_warp_mean_functional_to_standard__t1_0".
201113-07:24:02,827 nipype.workflow INFO:
[Node] Running "apply_ants_warp_mean_functional_to_standard__t1_0" ("nipype.interfaces.ants.resampling.ApplyTransforms"), a CommandLine Interface with command:
antsApplyTransforms --default-value 0 --dimensionality 3 --float 0 --input /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/_scan_ms_run-1/func_mean/sub-018_ses-1_task-ms_run-1_bold_calc_despike_tshift_resample_mcf_calc_tstat.nii.gz --input-image-type 0 --interpolation LanczosWindowedSinc --output sub-018_ses-1_task-ms_run-1_bold_calc_despike_tshift_resample_mcf_calc_tstat_antswarp.nii.gz --reference-image /usr/share/fsl/5.0/data/standard/MNI152_T1_2mm_brain.nii.gz --transform /outputs/tmp/resting_preproc_sub-018_ses-1/anat_mni_ants_register_0/calc_ants_warp/transform1Warp.nii.gz --transform /outputs/tmp/resting_preproc_sub-018_ses-1/anat_mni_ants_register_0/calc_ants_warp/transform0GenericAffine.mat --transform /outputs/tmp/resting_preproc_sub-018_ses-1/_scan_ms_run-1/change_transform_type_0/updated_affine.txt
201113-07:24:10,387 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.apply_ants_warp_mean_functional_to_standard__t1_0".
201113-07:24:10,389 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.montage_mfi_0.resample_u" in "/outputs/tmp/resting_preproc_sub-018_ses-1/montage_mfi_0/_scan_ms_run-1/resample_u".
201113-07:24:10,394 nipype.workflow INFO:
[Node] Running "resample_u" ("CPAC.utils.interfaces.function.Function")
201113-07:24:11,131 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.montage_mfi_0.resample_u".
201113-07:24:11,133 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.montage_mfi_0.montage_s" in "/outputs/tmp/resting_preproc_sub-018_ses-1/montage_mfi_0/_scan_ms_run-1/montage_s".
201113-07:24:11,139 nipype.workflow INFO:
[Node] Setting-up "_montage_s0" in "/outputs/tmp/resting_preproc_sub-018_ses-1/montage_mfi_0/_scan_ms_run-1/montage_s/mapflow/_montage_s0".
201113-07:24:11,144 nipype.workflow INFO:
[Node] Running "_montage_s0" ("CPAC.utils.interfaces.function.Function")
201113-07:24:12,925 nipype.workflow INFO:
[Node] Finished "_montage_s0".
201113-07:24:12,929 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.montage_mfi_0.montage_s".
201113-07:24:12,929 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.sinker_0_qc___mean_func_with_mni_edge_s" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_ms_run-1/sinker_0_qc___mean_func_with_mni_edge_s".
201113-07:24:12,936 nipype.workflow INFO:
[Node] Running "sinker_0_qc___mean_func_with_mni_edge_s" ("CPAC.utils.interfaces.datasink.DataSink")
201113-07:24:13,147 nipype.interface INFO:
sub: /outputs/output/pipeline_cpac_fmriprep-options/sub-018_ses-1/qc___mean_func_with_mni_edge_s/_scan_ms_run-1/_montage_s0/MNI_edge_on_mean_func_mni_s.png -> /outputs/output/pipeline_cpac_fmriprep-options/sub-018_ses-1/qc/mean_func_with_mni_edge_s/_scan_ms_run-1/_montage_s0/MNI_edge_on_mean_func_mni_s.png
201113-07:24:13,165 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.sinker_0_qc___mean_func_with_mni_edge_s".
201113-07:24:13,167 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.montage_mfi_0.montage_a" in "/outputs/tmp/resting_preproc_sub-018_ses-1/montage_mfi_0/_scan_ms_run-1/montage_a".
201113-07:24:13,174 nipype.workflow INFO:
[Node] Setting-up "_montage_a0" in "/outputs/tmp/resting_preproc_sub-018_ses-1/montage_mfi_0/_scan_ms_run-1/montage_a/mapflow/_montage_a0".
201113-07:24:13,178 nipype.workflow INFO:
[Node] Running "_montage_a0" ("CPAC.utils.interfaces.function.Function")
201113-07:24:15,182 nipype.workflow INFO:
[Node] Finished "_montage_a0".
201113-07:24:15,185 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.montage_mfi_0.montage_a".
201113-07:24:15,186 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.sinker_0_qc___mean_func_with_mni_edge_a" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_ms_run-1/sinker_0_qc___mean_func_with_mni_edge_a".
201113-07:24:15,193 nipype.workflow INFO:
[Node] Running "sinker_0_qc___mean_func_with_mni_edge_a" ("CPAC.utils.interfaces.datasink.DataSink")
201113-07:24:15,407 nipype.interface INFO:
sub: /outputs/output/pipeline_cpac_fmriprep-options/sub-018_ses-1/qc___mean_func_with_mni_edge_a/_scan_ms_run-1/_montage_a0/MNI_edge_on_mean_func_mni_a.png -> /outputs/output/pipeline_cpac_fmriprep-options/sub-018_ses-1/qc/mean_func_with_mni_edge_a/_scan_ms_run-1/_montage_a0/MNI_edge_on_mean_func_mni_a.png
201113-07:24:15,424 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.sinker_0_qc___mean_func_with_mni_edge_a".
201113-07:24:15,426 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.carpet_seg_0.csf_resample" in "/outputs/tmp/resting_preproc_sub-018_ses-1/carpet_seg_0/_scan_ms_run-1/csf_resample".
201113-07:24:15,433 nipype.workflow INFO:
[Node] Running "csf_resample" ("nipype.interfaces.afni.utils.Resample"), a CommandLine Interface with command:
3dresample -master /outputs/tmp/resting_preproc_sub-018_ses-1/_scan_ms_run-1/apply_ants_warp_mean_functional_to_standard__t1_0/sub-018_ses-1_task-ms_run-1_bold_calc_despike_tshift_resample_mcf_calc_tstat_antswarp.nii.gz -prefix avg152T1_csf_bin_resample.nii -inset /outputs/tmp/resting_preproc_sub-018_ses-1/carpet_seg_0/_scan_ms_run-1/csf_resample/avg152T1_csf_bin.nii.gz
201113-07:24:15,685 nipype.interface INFO:
stderr 2020-11-13T07:24:15.685438:** AFNI converts NIFTI_datatype=64 (FLOAT64) in file /outputs/tmp/resting_preproc_sub-018_ses-1/_scan_ms_run-1/apply_ants_warp_mean_functional_to_standard__t1_0/sub-018_ses-1_task-ms_run-1_bold_calc_despike_tshift_resample_mcf_calc_tstat_antswarp.nii.gz to FLOAT32
201113-07:24:15,685 nipype.interface INFO:
stderr 2020-11-13T07:24:15.685894: Warnings of this type will be muted for this session.
201113-07:24:15,686 nipype.interface INFO:
stderr 2020-11-13T07:24:15.685894: Set AFNI_NIFTI_TYPE_WARN to YES to see them all, NO to see none.
201113-07:24:15,956 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.carpet_seg_0.csf_resample".
201113-07:24:15,957 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.carpet_seg_0.csf_mask" in "/outputs/tmp/resting_preproc_sub-018_ses-1/carpet_seg_0/_scan_ms_run-1/csf_mask".
201113-07:24:15,963 nipype.workflow INFO:
[Node] Running "csf_mask" ("nipype.interfaces.afni.utils.Calc"), a CommandLine Interface with command:
3dcalc -a /outputs/tmp/resting_preproc_sub-018_ses-1/carpet_seg_0/_scan_ms_run-1/csf_resample/avg152T1_csf_bin_resample.nii -expr "astep(a, 0.5)" -prefix avg152T1_csf_bin_resample_calc.nii
201113-07:24:16,210 nipype.interface INFO:
stderr 2020-11-13T07:24:16.210573:++ 3dcalc: AFNI version=AFNI_20.2.19 (Sep 27 2020) [64-bit]
201113-07:24:16,210 nipype.interface INFO:
stderr 2020-11-13T07:24:16.210903:++ Authored by: A cast of thousands
201113-07:24:16,337 nipype.interface INFO:
stderr 2020-11-13T07:24:16.337679:++ Output dataset ./avg152T1_csf_bin_resample_calc.nii
201113-07:24:16,501 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.carpet_seg_0.csf_mask".
201113-07:24:16,502 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.carpet_seg_0.wm_resample" in "/outputs/tmp/resting_preproc_sub-018_ses-1/carpet_seg_0/_scan_ms_run-1/wm_resample".
201113-07:24:16,509 nipype.workflow INFO:
[Node] Running "wm_resample" ("nipype.interfaces.afni.utils.Resample"), a CommandLine Interface with command:
3dresample -master /outputs/tmp/resting_preproc_sub-018_ses-1/_scan_ms_run-1/apply_ants_warp_mean_functional_to_standard__t1_0/sub-018_ses-1_task-ms_run-1_bold_calc_despike_tshift_resample_mcf_calc_tstat_antswarp.nii.gz -prefix avg152T1_white_bin_resample.nii -inset /outputs/tmp/resting_preproc_sub-018_ses-1/carpet_seg_0/_scan_ms_run-1/wm_resample/avg152T1_white_bin.nii.gz
201113-07:24:16,756 nipype.interface INFO:
stderr 2020-11-13T07:24:16.755991:** AFNI converts NIFTI_datatype=64 (FLOAT64) in file /outputs/tmp/resting_preproc_sub-018_ses-1/_scan_ms_run-1/apply_ants_warp_mean_functional_to_standard__t1_0/sub-018_ses-1_task-ms_run-1_bold_calc_despike_tshift_resample_mcf_calc_tstat_antswarp.nii.gz to FLOAT32
201113-07:24:16,756 nipype.interface INFO:
stderr 2020-11-13T07:24:16.756424: Warnings of this type will be muted for this session.
201113-07:24:16,756 nipype.interface INFO:
stderr 2020-11-13T07:24:16.756424: Set AFNI_NIFTI_TYPE_WARN to YES to see them all, NO to see none.
201113-07:24:16,981 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.carpet_seg_0.wm_resample".
201113-07:24:16,982 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.carpet_seg_0.wm_mask" in "/outputs/tmp/resting_preproc_sub-018_ses-1/carpet_seg_0/_scan_ms_run-1/wm_mask".
201113-07:24:16,987 nipype.workflow INFO:
[Node] Running "wm_mask" ("nipype.interfaces.afni.utils.Calc"), a CommandLine Interface with command:
3dcalc -a /outputs/tmp/resting_preproc_sub-018_ses-1/carpet_seg_0/_scan_ms_run-1/wm_resample/avg152T1_white_bin_resample.nii -expr "astep(a, 0.5)" -prefix avg152T1_white_bin_resample_calc.nii
201113-07:24:17,232 nipype.interface INFO:
stderr 2020-11-13T07:24:17.232336:++ 3dcalc: AFNI version=AFNI_20.2.19 (Sep 27 2020) [64-bit]
201113-07:24:17,232 nipype.interface INFO:
stderr 2020-11-13T07:24:17.232890:++ Authored by: A cast of thousands
201113-07:24:17,324 nipype.interface INFO:
stderr 2020-11-13T07:24:17.324831:++ Output dataset ./avg152T1_white_bin_resample_calc.nii
201113-07:24:17,487 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.carpet_seg_0.wm_mask".
201113-07:24:17,489 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.carpet_seg_0.gm_resample" in "/outputs/tmp/resting_preproc_sub-018_ses-1/carpet_seg_0/_scan_ms_run-1/gm_resample".
201113-07:24:17,497 nipype.workflow INFO:
[Node] Running "gm_resample" ("nipype.interfaces.afni.utils.Resample"), a CommandLine Interface with command:
3dresample -master /outputs/tmp/resting_preproc_sub-018_ses-1/_scan_ms_run-1/apply_ants_warp_mean_functional_to_standard__t1_0/sub-018_ses-1_task-ms_run-1_bold_calc_despike_tshift_resample_mcf_calc_tstat_antswarp.nii.gz -prefix avg152T1_gray_bin_resample.nii -inset /outputs/tmp/resting_preproc_sub-018_ses-1/carpet_seg_0/_scan_ms_run-1/gm_resample/avg152T1_gray_bin.nii.gz
201113-07:24:17,742 nipype.interface INFO:
stderr 2020-11-13T07:24:17.742011:** AFNI converts NIFTI_datatype=64 (FLOAT64) in file /outputs/tmp/resting_preproc_sub-018_ses-1/_scan_ms_run-1/apply_ants_warp_mean_functional_to_standard__t1_0/sub-018_ses-1_task-ms_run-1_bold_calc_despike_tshift_resample_mcf_calc_tstat_antswarp.nii.gz to FLOAT32
201113-07:24:17,742 nipype.interface INFO:
stderr 2020-11-13T07:24:17.742333: Warnings of this type will be muted for this session.
201113-07:24:17,742 nipype.interface INFO:
stderr 2020-11-13T07:24:17.742333: Set AFNI_NIFTI_TYPE_WARN to YES to see them all, NO to see none.
201113-07:24:17,939 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.carpet_seg_0.gm_resample".
201113-07:24:17,940 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.carpet_seg_0.gm_mask" in "/outputs/tmp/resting_preproc_sub-018_ses-1/carpet_seg_0/_scan_ms_run-1/gm_mask".
201113-07:24:17,946 nipype.workflow INFO:
[Node] Running "gm_mask" ("nipype.interfaces.afni.utils.Calc"), a CommandLine Interface with command:
3dcalc -a /outputs/tmp/resting_preproc_sub-018_ses-1/carpet_seg_0/_scan_ms_run-1/gm_resample/avg152T1_gray_bin_resample.nii -expr "astep(a, 0.5)" -prefix avg152T1_gray_bin_resample_calc.nii
201113-07:24:18,190 nipype.interface INFO:
stderr 2020-11-13T07:24:18.190852:++ 3dcalc: AFNI version=AFNI_20.2.19 (Sep 27 2020) [64-bit]
201113-07:24:18,191 nipype.interface INFO:
stderr 2020-11-13T07:24:18.191172:++ Authored by: A cast of thousands
201113-07:24:18,308 nipype.interface INFO:
stderr 2020-11-13T07:24:18.308509:++ Output dataset ./avg152T1_gray_bin_resample_calc.nii
201113-07:24:18,468 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.carpet_seg_0.gm_mask".
201113-07:24:18,470 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.carpet_seg_0.carpet_plot" in "/outputs/tmp/resting_preproc_sub-018_ses-1/carpet_seg_0/_scan_ms_run-1/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/carpet_plot".
201113-07:24:18,477 nipype.workflow INFO:
[Node] Running "carpet_plot" ("CPAC.utils.interfaces.function.Function")
201113-07:24:24,731 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.carpet_seg_0.carpet_plot".
201113-07:24:24,732 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.sinker_0_qc___carpet" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_ms_run-1/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/sinker_0_qc___carpet".
201113-07:24:24,739 nipype.workflow INFO:
[Node] Running "sinker_0_qc___carpet" ("CPAC.utils.interfaces.datasink.DataSink")
201113-07:24:24,949 nipype.interface INFO:
sub: /outputs/output/pipeline_cpac_fmriprep-options/sub-018_ses-1/qc___carpet/_scan_ms_run-1/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/carpet_seg.png -> /outputs/output/pipeline_cpac_fmriprep-options/sub-018_ses-1/qc/carpet/_scan_ms_run-1/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/carpet_seg.png
201113-07:24:24,967 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.sinker_0_qc___carpet".
201113-07:24:24,969 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.sinker_0_mean_functional_to_standard" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_ms_run-1/sinker_0_mean_functional_to_standard".
201113-07:24:24,976 nipype.workflow INFO:
[Node] Running "sinker_0_mean_functional_to_standard" ("CPAC.utils.interfaces.datasink.DataSink")
201113-07:24:25,205 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.sinker_0_mean_functional_to_standard".
201113-07:24:25,207 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.apply_ants_warp_functional_brain_mask_to_standard_derivative__t1_0" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_ms_run-1/apply_ants_warp_functional_brain_mask_to_standard_derivative__t1_0".
201113-07:24:25,234 nipype.workflow INFO:
[Node] Running "apply_ants_warp_functional_brain_mask_to_standard_derivative__t1_0" ("nipype.interfaces.ants.resampling.ApplyTransforms"), a CommandLine Interface with command:
antsApplyTransforms --default-value 0 --dimensionality 3 --float 0 --input /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/func_preproc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_ms_run-1/combine_masks/sub-018_ses-1_task-ms_run-1_bold_calc_despike_tshift_resample_mcf_tstat_brain_mask_maths.nii.gz --input-image-type 0 --interpolation NearestNeighbor --output sub-018_ses-1_task-ms_run-1_bold_calc_despike_tshift_resample_mcf_tstat_brain_mask_maths_antswarp.nii.gz --reference-image /outputs/tmp/resting_preproc_sub-018_ses-1/resampled_template_skull_for_func_derivative/template_skull_for_func_derivative/tpl-MNI152NLin2009cAsym_res-02_T1w_reference_resample.nii.gz --transform /outputs/tmp/resting_preproc_sub-018_ses-1/anat_mni_ants_register_0/calc_ants_warp/transform1Warp.nii.gz --transform /outputs/tmp/resting_preproc_sub-018_ses-1/anat_mni_ants_register_0/calc_ants_warp/transform0GenericAffine.mat --transform /outputs/tmp/resting_preproc_sub-018_ses-1/_scan_ms_run-1/change_transform_type_0/updated_affine.txt
201113-07:24:27,753 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.apply_ants_warp_functional_brain_mask_to_standard_derivative__t1_0".
201113-07:24:27,755 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.apply_ants_warp_functional_brain_mask_to_standard__t1_0" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_ms_run-1/apply_ants_warp_functional_brain_mask_to_standard__t1_0".
201113-07:24:27,762 nipype.workflow INFO:
[Node] Running "apply_ants_warp_functional_brain_mask_to_standard__t1_0" ("nipype.interfaces.ants.resampling.ApplyTransforms"), a CommandLine Interface with command:
antsApplyTransforms --default-value 0 --dimensionality 3 --float 0 --input /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/func_preproc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_ms_run-1/combine_masks/sub-018_ses-1_task-ms_run-1_bold_calc_despike_tshift_resample_mcf_tstat_brain_mask_maths.nii.gz --input-image-type 0 --interpolation NearestNeighbor --output sub-018_ses-1_task-ms_run-1_bold_calc_despike_tshift_resample_mcf_tstat_brain_mask_maths_antswarp.nii.gz --reference-image /outputs/tmp/resting_preproc_sub-018_ses-1/resampled_template_skull_for_func_preproc/template_skull_for_func_preproc/tpl-MNI152NLin2009cAsym_res-02_T1w_reference_resample.nii.gz --transform /outputs/tmp/resting_preproc_sub-018_ses-1/anat_mni_ants_register_0/calc_ants_warp/transform1Warp.nii.gz --transform /outputs/tmp/resting_preproc_sub-018_ses-1/anat_mni_ants_register_0/calc_ants_warp/transform0GenericAffine.mat --transform /outputs/tmp/resting_preproc_sub-018_ses-1/_scan_ms_run-1/change_transform_type_0/updated_affine.txt
201113-07:24:30,266 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.apply_ants_warp_functional_brain_mask_to_standard__t1_0".
201113-07:24:30,268 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.sinker_0_functional_brain_mask_to_standard" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_ms_run-1/sinker_0_functional_brain_mask_to_standard".
201113-07:24:30,275 nipype.workflow INFO:
[Node] Running "sinker_0_functional_brain_mask_to_standard" ("CPAC.utils.interfaces.datasink.DataSink")
201113-07:24:30,506 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.sinker_0_functional_brain_mask_to_standard".
201113-07:24:30,507 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.inverse_transform_flags_functional_brain_mask_to_standard__t1_0" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_ms_run-1/inverse_transform_flags_functional_brain_mask_to_standard__t1_0".
201113-07:24:30,512 nipype.workflow INFO:
[Node] Running "inverse_transform_flags_functional_brain_mask_to_standard__t1_0" ("nipype.interfaces.utility.wrappers.Function")
201113-07:24:30,745 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.inverse_transform_flags_functional_brain_mask_to_standard__t1_0".
201113-07:24:30,747 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.collect_transforms_functional_brain_mask_to_standard__t1_0" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_matching_run-3/collect_transforms_functional_brain_mask_to_standard__t1_0".
201113-07:24:30,779 nipype.workflow INFO:
[Node] Running "collect_transforms_functional_brain_mask_to_standard__t1_0" ("nipype.interfaces.utility.base.Merge")
201113-07:24:31,10 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.collect_transforms_functional_brain_mask_to_standard__t1_0".
201113-07:24:31,11 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.check_transformsfunctional_brain_mask_to_standard__t1_0" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_matching_run-3/check_transformsfunctional_brain_mask_to_standard__t1_0".
201113-07:24:31,18 nipype.workflow INFO:
[Node] Running "check_transformsfunctional_brain_mask_to_standard__t1_0" ("nipype.interfaces.utility.wrappers.Function")
201113-07:24:31,249 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.check_transformsfunctional_brain_mask_to_standard__t1_0".
201113-07:24:31,250 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.write_composite_xfm_functional_to_standard__t1_0" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_matching_run-3/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/write_composite_xfm_functional_to_standard__t1_0".
201113-07:24:31,288 nipype.workflow INFO:
[Node] Running "write_composite_xfm_functional_to_standard__t1_0" ("nipype.interfaces.ants.resampling.ApplyTransforms"), a CommandLine Interface with command:
antsApplyTransforms --default-value 0 --dimensionality 3 --float 0 --input /outputs/tmp/resting_preproc_sub-018_ses-1/nuisance_regression_after-filt_0_0/_scan_matching_run-3/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/nuisance_regression/residuals.nii.gz --input-image-type 3 --interpolation LanczosWindowedSinc --output [ func_to_standard_xfm.nii.gz, 1 ] --reference-image /usr/share/fsl/5.0/data/standard/MNI152_T1_2mm_brain.nii.gz --transform /outputs/tmp/resting_preproc_sub-018_ses-1/anat_mni_ants_register_0/calc_ants_warp/transform1Warp.nii.gz --transform /outputs/tmp/resting_preproc_sub-018_ses-1/anat_mni_ants_register_0/calc_ants_warp/transform0GenericAffine.mat --transform /outputs/tmp/resting_preproc_sub-018_ses-1/_scan_matching_run-3/change_transform_type_0/updated_affine.txt
201113-07:33:22,264 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.write_composite_xfm_functional_to_standard__t1_0".
201113-07:33:22,267 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.sinker_0_functional_to_standard_xfm" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_matching_run-3/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/sinker_0_functional_to_standard_xfm".
201113-07:33:22,275 nipype.workflow INFO:
[Node] Running "sinker_0_functional_to_standard_xfm" ("CPAC.utils.interfaces.datasink.DataSink")
201113-07:33:22,503 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.sinker_0_functional_to_standard_xfm".
201113-07:33:22,505 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.apply_ants_warp_functional_to_standard__t1_0" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_matching_run-3/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/apply_ants_warp_functional_to_standard__t1_0".
201113-07:33:22,513 nipype.workflow INFO:
[Node] Running "apply_ants_warp_functional_to_standard__t1_0" ("nipype.interfaces.ants.resampling.ApplyTransforms"), a CommandLine Interface with command:
antsApplyTransforms --default-value 0 --dimensionality 3 --float 0 --input /outputs/tmp/resting_preproc_sub-018_ses-1/nuisance_regression_after-filt_0_0/_scan_matching_run-3/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/nuisance_regression/residuals.nii.gz --input-image-type 3 --interpolation LanczosWindowedSinc --output residuals_antswarp.nii.gz --reference-image /usr/share/fsl/5.0/data/standard/MNI152_T1_2mm_brain.nii.gz --transform /outputs/tmp/resting_preproc_sub-018_ses-1/anat_mni_ants_register_0/calc_ants_warp/transform1Warp.nii.gz --transform /outputs/tmp/resting_preproc_sub-018_ses-1/anat_mni_ants_register_0/calc_ants_warp/transform0GenericAffine.mat --transform /outputs/tmp/resting_preproc_sub-018_ses-1/_scan_matching_run-3/change_transform_type_0/updated_affine.txt
201113-07:42:28,77 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.apply_ants_warp_functional_to_standard__t1_0".
201113-07:42:28,80 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.resample_functional_roi_0" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_matching_run-3/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/_mask_Yeo-7_space-MNI152NLin6_res-1x1x1_mask_file_..ndmg_atlases..label..Human..Yeo-7_space-MNI152NLin6_res-1x1x1.nii.gz/resample_functional_roi_0".
201113-07:42:28,88 nipype.workflow INFO:
[Node] Running "resample_functional_roi_0" ("CPAC.utils.interfaces.function.Function")
201113-07:42:28,536 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.resample_functional_roi_0".
201113-07:42:28,538 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.roi_timeseries_0.3dROIstats" in "/outputs/tmp/resting_preproc_sub-018_ses-1/roi_timeseries_0/_scan_matching_run-3/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/_mask_Yeo-7_space-MNI152NLin6_res-1x1x1_mask_file_..ndmg_atlases..label..Human..Yeo-7_space-MNI152NLin6_res-1x1x1.nii.gz/3dROIstats".
201113-07:42:28,544 nipype.workflow INFO:
[Node] Running "3dROIstats" ("nipype.interfaces.afni.preprocess.ROIStats"), a CommandLine Interface with command:
3dROIstats -mask /outputs/tmp/resting_preproc_sub-018_ses-1/_scan_matching_run-3/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/_mask_Yeo-7_space-MNI152NLin6_res-1x1x1_mask_file_..ndmg_atlases..label..Human..Yeo-7_space-MNI152NLin6_res-1x1x1.nii.gz/resample_functional_roi_0/Yeo-7_space-MNI152NLin6_res-1x1x1_resampled.nii.gz -1Dformat /outputs/tmp/resting_preproc_sub-018_ses-1/_scan_matching_run-3/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/apply_ants_warp_functional_to_standard__t1_0/residuals_antswarp.nii.gz
201113-07:42:33,34 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.roi_timeseries_0.3dROIstats".
201113-07:42:33,36 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.roi_timeseries_0.clean_roi_csv" in "/outputs/tmp/resting_preproc_sub-018_ses-1/roi_timeseries_0/_scan_matching_run-3/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/_mask_Yeo-7_space-MNI152NLin6_res-1x1x1_mask_file_..ndmg_atlases..label..Human..Yeo-7_space-MNI152NLin6_res-1x1x1.nii.gz/clean_roi_csv".
201113-07:42:33,40 nipype.workflow INFO:
[Node] Running "clean_roi_csv" ("nipype.interfaces.utility.wrappers.Function")
201113-07:42:33,278 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.roi_timeseries_0.clean_roi_csv".
201113-07:42:33,279 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.ndmg_graphs_0" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_matching_run-3/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/_mask_Yeo-7_space-MNI152NLin6_res-1x1x1_mask_file_..ndmg_atlases..label..Human..Yeo-7_space-MNI152NLin6_res-1x1x1.nii.gz/ndmg_graphs_0".
201113-07:42:33,315 nipype.workflow INFO:
[Node] Setting-up "_ndmg_graphs_00" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_matching_run-3/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/_mask_Yeo-7_space-MNI152NLin6_res-1x1x1_mask_file_..ndmg_atlases..label..Human..Yeo-7_space-MNI152NLin6_res-1x1x1.nii.gz/ndmg_graphs_0/mapflow/_ndmg_graphs_00".
201113-07:42:33,342 nipype.workflow INFO:
[Node] Running "_ndmg_graphs_00" ("CPAC.utils.interfaces.function.Function")
Estimating correlation matrix for 7 ROIs...
201113-07:42:33,866 nipype.workflow INFO:
[Node] Finished "_ndmg_graphs_00".
201113-07:42:33,870 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.ndmg_graphs_0".
201113-07:42:33,870 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.sinker_0_ndmg_graph" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_matching_run-3/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/_mask_Yeo-7_space-MNI152NLin6_res-1x1x1_mask_file_..ndmg_atlases..label..Human..Yeo-7_space-MNI152NLin6_res-1x1x1.nii.gz/sinker_0_ndmg_graph".
201113-07:42:33,878 nipype.workflow INFO:
[Node] Running "sinker_0_ndmg_graph" ("CPAC.utils.interfaces.datasink.DataSink")
201113-07:42:34,107 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.sinker_0_ndmg_graph".
201113-07:42:34,108 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.roi_timeseries_0.write_roi_npz" in "/outputs/tmp/resting_preproc_sub-018_ses-1/roi_timeseries_0/_scan_matching_run-3/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/_mask_Yeo-7_space-MNI152NLin6_res-1x1x1_mask_file_..ndmg_atlases..label..Human..Yeo-7_space-MNI152NLin6_res-1x1x1.nii.gz/write_roi_npz".
201113-07:42:34,113 nipype.workflow INFO:
[Node] Running "write_roi_npz" ("nipype.interfaces.utility.wrappers.Function")
201113-07:42:34,348 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.roi_timeseries_0.write_roi_npz".
201113-07:42:34,350 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.sinker_0_roi_timeseries" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_matching_run-3/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/_mask_Yeo-7_space-MNI152NLin6_res-1x1x1_mask_file_..ndmg_atlases..label..Human..Yeo-7_space-MNI152NLin6_res-1x1x1.nii.gz/sinker_0_roi_timeseries".
201113-07:42:34,357 nipype.workflow INFO:
[Node] Running "sinker_0_roi_timeseries" ("CPAC.utils.interfaces.datasink.DataSink")
201113-07:42:34,589 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.sinker_0_roi_timeseries".
201113-07:42:34,591 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.resample_functional_roi_0" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_matching_run-3/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/_mask_Yeo-7-liberal_space-MNI152NLin6_res-1x1x1_mask_file_..ndmg_atlases..label..Human..Yeo-7-liberal_space-MNI152NLin6_res-1x1x1.nii.gz/resample_functional_roi_0".
201113-07:42:34,598 nipype.workflow INFO:
[Node] Running "resample_functional_roi_0" ("CPAC.utils.interfaces.function.Function")
201113-07:42:35,50 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.resample_functional_roi_0".
201113-07:42:35,52 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.roi_timeseries_0.3dROIstats" in "/outputs/tmp/resting_preproc_sub-018_ses-1/roi_timeseries_0/_scan_matching_run-3/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/_mask_Yeo-7-liberal_space-MNI152NLin6_res-1x1x1_mask_file_..ndmg_atlases..label..Human..Yeo-7-liberal_space-MNI152NLin6_res-1x1x1.nii.gz/3dROIstats".
201113-07:42:35,58 nipype.workflow INFO:
[Node] Running "3dROIstats" ("nipype.interfaces.afni.preprocess.ROIStats"), a CommandLine Interface with command:
3dROIstats -mask /outputs/tmp/resting_preproc_sub-018_ses-1/_scan_matching_run-3/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/_mask_Yeo-7-liberal_space-MNI152NLin6_res-1x1x1_mask_file_..ndmg_atlases..label..Human..Yeo-7-liberal_space-MNI152NLin6_res-1x1x1.nii.gz/resample_functional_roi_0/Yeo-7-liberal_space-MNI152NLin6_res-1x1x1_resampled.nii.gz -1Dformat /outputs/tmp/resting_preproc_sub-018_ses-1/_scan_matching_run-3/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/apply_ants_warp_functional_to_standard__t1_0/residuals_antswarp.nii.gz
201113-07:42:39,599 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.roi_timeseries_0.3dROIstats".
201113-07:42:39,600 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.roi_timeseries_0.clean_roi_csv" in "/outputs/tmp/resting_preproc_sub-018_ses-1/roi_timeseries_0/_scan_matching_run-3/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/_mask_Yeo-7-liberal_space-MNI152NLin6_res-1x1x1_mask_file_..ndmg_atlases..label..Human..Yeo-7-liberal_space-MNI152NLin6_res-1x1x1.nii.gz/clean_roi_csv".
201113-07:42:39,606 nipype.workflow INFO:
[Node] Running "clean_roi_csv" ("nipype.interfaces.utility.wrappers.Function")
201113-07:42:39,846 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.roi_timeseries_0.clean_roi_csv".
201113-07:42:39,847 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.ndmg_graphs_0" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_matching_run-3/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/_mask_Yeo-7-liberal_space-MNI152NLin6_res-1x1x1_mask_file_..ndmg_atlases..label..Human..Yeo-7-liberal_space-MNI152NLin6_res-1x1x1.nii.gz/ndmg_graphs_0".
201113-07:42:39,879 nipype.workflow INFO:
[Node] Setting-up "_ndmg_graphs_00" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_matching_run-3/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/_mask_Yeo-7-liberal_space-MNI152NLin6_res-1x1x1_mask_file_..ndmg_atlases..label..Human..Yeo-7-liberal_space-MNI152NLin6_res-1x1x1.nii.gz/ndmg_graphs_0/mapflow/_ndmg_graphs_00".
201113-07:42:39,909 nipype.workflow INFO:
[Node] Running "_ndmg_graphs_00" ("CPAC.utils.interfaces.function.Function")
Estimating correlation matrix for 7 ROIs...
201113-07:42:40,428 nipype.workflow INFO:
[Node] Finished "_ndmg_graphs_00".
201113-07:42:40,431 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.ndmg_graphs_0".
201113-07:42:40,432 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.sinker_0_ndmg_graph" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_matching_run-3/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/_mask_Yeo-7-liberal_space-MNI152NLin6_res-1x1x1_mask_file_..ndmg_atlases..label..Human..Yeo-7-liberal_space-MNI152NLin6_res-1x1x1.nii.gz/sinker_0_ndmg_graph".
201113-07:42:40,439 nipype.workflow INFO:
[Node] Running "sinker_0_ndmg_graph" ("CPAC.utils.interfaces.datasink.DataSink")
201113-07:42:40,667 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.sinker_0_ndmg_graph".
201113-07:42:40,669 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.roi_timeseries_0.write_roi_npz" in "/outputs/tmp/resting_preproc_sub-018_ses-1/roi_timeseries_0/_scan_matching_run-3/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/_mask_Yeo-7-liberal_space-MNI152NLin6_res-1x1x1_mask_file_..ndmg_atlases..label..Human..Yeo-7-liberal_space-MNI152NLin6_res-1x1x1.nii.gz/write_roi_npz".
201113-07:42:40,673 nipype.workflow INFO:
[Node] Running "write_roi_npz" ("nipype.interfaces.utility.wrappers.Function")
201113-07:42:40,906 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.roi_timeseries_0.write_roi_npz".
201113-07:42:40,908 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.sinker_0_roi_timeseries" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_matching_run-3/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/_mask_Yeo-7-liberal_space-MNI152NLin6_res-1x1x1_mask_file_..ndmg_atlases..label..Human..Yeo-7-liberal_space-MNI152NLin6_res-1x1x1.nii.gz/sinker_0_roi_timeseries".
201113-07:42:40,914 nipype.workflow INFO:
[Node] Running "sinker_0_roi_timeseries" ("CPAC.utils.interfaces.datasink.DataSink")
201113-07:42:41,146 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.sinker_0_roi_timeseries".
201113-07:42:41,148 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.sinker_0_functional_to_standard" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_matching_run-3/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/sinker_0_functional_to_standard".
201113-07:42:41,155 nipype.workflow INFO:
[Node] Running "sinker_0_functional_to_standard" ("CPAC.utils.interfaces.datasink.DataSink")
201113-07:42:41,385 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.sinker_0_functional_to_standard".
201113-07:42:41,387 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.apply_ants_warp_functional_freq_filtered_to_standard__t1_0" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_matching_run-3/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/apply_ants_warp_functional_freq_filtered_to_standard__t1_0".
201113-07:42:41,425 nipype.workflow INFO:
[Node] Running "apply_ants_warp_functional_freq_filtered_to_standard__t1_0" ("nipype.interfaces.ants.resampling.ApplyTransforms"), a CommandLine Interface with command:
antsApplyTransforms --default-value 0 --dimensionality 3 --float 0 --input /outputs/tmp/resting_preproc_sub-018_ses-1/frequency_filtering_0_0/_scan_matching_run-3/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/frequency_filter/bandpassed_demeaned_filtered.nii.gz --input-image-type 0 --interpolation LanczosWindowedSinc --output bandpassed_demeaned_filtered_antswarp.nii.gz --reference-image /usr/share/fsl/5.0/data/standard/MNI152_T1_2mm_brain.nii.gz --transform /outputs/tmp/resting_preproc_sub-018_ses-1/anat_mni_ants_register_0/calc_ants_warp/transform1Warp.nii.gz --transform /outputs/tmp/resting_preproc_sub-018_ses-1/anat_mni_ants_register_0/calc_ants_warp/transform0GenericAffine.mat --transform /outputs/tmp/resting_preproc_sub-018_ses-1/_scan_matching_run-3/change_transform_type_0/updated_affine.txt
201113-07:42:44,139 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.apply_ants_warp_functional_freq_filtered_to_standard__t1_0".
201113-07:42:44,142 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.apply_ants_warp_functional_nuisance_residuals_to_standard__t1_0" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_matching_run-3/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/apply_ants_warp_functional_nuisance_residuals_to_standard__t1_0".
201113-07:42:44,150 nipype.workflow INFO:
[Node] Running "apply_ants_warp_functional_nuisance_residuals_to_standard__t1_0" ("nipype.interfaces.ants.resampling.ApplyTransforms"), a CommandLine Interface with command:
antsApplyTransforms --default-value 0 --dimensionality 3 --float 0 --input /outputs/tmp/resting_preproc_sub-018_ses-1/nuisance_regression_after-filt_0_0/_scan_matching_run-3/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/nuisance_regression/residuals.nii.gz --input-image-type 0 --interpolation LanczosWindowedSinc --output residuals_antswarp.nii.gz --reference-image /usr/share/fsl/5.0/data/standard/MNI152_T1_2mm_brain.nii.gz --transform /outputs/tmp/resting_preproc_sub-018_ses-1/anat_mni_ants_register_0/calc_ants_warp/transform1Warp.nii.gz --transform /outputs/tmp/resting_preproc_sub-018_ses-1/anat_mni_ants_register_0/calc_ants_warp/transform0GenericAffine.mat --transform /outputs/tmp/resting_preproc_sub-018_ses-1/_scan_matching_run-3/change_transform_type_0/updated_affine.txt
201113-07:42:46,836 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.apply_ants_warp_functional_nuisance_residuals_to_standard__t1_0".
201113-07:42:46,838 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.apply_ants_warp_motion_correct_to_standard__t1_0" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_matching_run-3/apply_ants_warp_motion_correct_to_standard__t1_0".
201113-07:42:46,940 nipype.workflow INFO:
[Node] Running "apply_ants_warp_motion_correct_to_standard__t1_0" ("nipype.interfaces.ants.resampling.ApplyTransforms"), a CommandLine Interface with command:
antsApplyTransforms --default-value 0 --dimensionality 3 --float 0 --input /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/_scan_matching_run-3/func_motion_correct_mcflirt/sub-018_ses-1_task-matching_run-3_bold_calc_despike_tshift_resample_mcf.nii.gz --input-image-type 3 --interpolation LanczosWindowedSinc --output sub-018_ses-1_task-matching_run-3_bold_calc_despike_tshift_resample_mcf_antswarp.nii.gz --reference-image /usr/share/fsl/5.0/data/standard/MNI152_T1_2mm_brain.nii.gz --transform /outputs/tmp/resting_preproc_sub-018_ses-1/anat_mni_ants_register_0/calc_ants_warp/transform1Warp.nii.gz --transform /outputs/tmp/resting_preproc_sub-018_ses-1/anat_mni_ants_register_0/calc_ants_warp/transform0GenericAffine.mat --transform /outputs/tmp/resting_preproc_sub-018_ses-1/_scan_matching_run-3/change_transform_type_0/updated_affine.txt
201113-07:51:59,112 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.apply_ants_warp_motion_correct_to_standard__t1_0".
201113-07:51:59,115 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.sinker_0_motion_correct_to_standard" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_matching_run-3/sinker_0_motion_correct_to_standard".
201113-07:51:59,124 nipype.workflow INFO:
[Node] Running "sinker_0_motion_correct_to_standard" ("CPAC.utils.interfaces.datasink.DataSink")
201113-07:51:59,356 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.sinker_0_motion_correct_to_standard".
201113-07:51:59,358 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.apply_ants_warp_mean_functional_to_standard_derivative__t1_0" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_matching_run-3/apply_ants_warp_mean_functional_to_standard_derivative__t1_0".
201113-07:51:59,393 nipype.workflow INFO:
[Node] Running "apply_ants_warp_mean_functional_to_standard_derivative__t1_0" ("nipype.interfaces.ants.resampling.ApplyTransforms"), a CommandLine Interface with command:
antsApplyTransforms --default-value 0 --dimensionality 3 --float 0 --input /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/_scan_matching_run-3/func_mean/sub-018_ses-1_task-matching_run-3_bold_calc_despike_tshift_resample_mcf_calc_tstat.nii.gz --input-image-type 0 --interpolation LanczosWindowedSinc --output sub-018_ses-1_task-matching_run-3_bold_calc_despike_tshift_resample_mcf_calc_tstat_antswarp.nii.gz --reference-image /usr/share/fsl/5.0/data/standard/MNI152_T1_2mm_brain.nii.gz --transform /outputs/tmp/resting_preproc_sub-018_ses-1/anat_mni_ants_register_0/calc_ants_warp/transform1Warp.nii.gz --transform /outputs/tmp/resting_preproc_sub-018_ses-1/anat_mni_ants_register_0/calc_ants_warp/transform0GenericAffine.mat --transform /outputs/tmp/resting_preproc_sub-018_ses-1/_scan_matching_run-3/change_transform_type_0/updated_affine.txt
201113-07:52:07,7 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.apply_ants_warp_mean_functional_to_standard_derivative__t1_0".
201113-07:52:07,9 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.apply_ants_warp_mean_functional_to_standard__t1_0" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_matching_run-3/apply_ants_warp_mean_functional_to_standard__t1_0".
201113-07:52:07,17 nipype.workflow INFO:
[Node] Running "apply_ants_warp_mean_functional_to_standard__t1_0" ("nipype.interfaces.ants.resampling.ApplyTransforms"), a CommandLine Interface with command:
antsApplyTransforms --default-value 0 --dimensionality 3 --float 0 --input /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/_scan_matching_run-3/func_mean/sub-018_ses-1_task-matching_run-3_bold_calc_despike_tshift_resample_mcf_calc_tstat.nii.gz --input-image-type 0 --interpolation LanczosWindowedSinc --output sub-018_ses-1_task-matching_run-3_bold_calc_despike_tshift_resample_mcf_calc_tstat_antswarp.nii.gz --reference-image /usr/share/fsl/5.0/data/standard/MNI152_T1_2mm_brain.nii.gz --transform /outputs/tmp/resting_preproc_sub-018_ses-1/anat_mni_ants_register_0/calc_ants_warp/transform1Warp.nii.gz --transform /outputs/tmp/resting_preproc_sub-018_ses-1/anat_mni_ants_register_0/calc_ants_warp/transform0GenericAffine.mat --transform /outputs/tmp/resting_preproc_sub-018_ses-1/_scan_matching_run-3/change_transform_type_0/updated_affine.txt
201113-07:52:14,558 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.apply_ants_warp_mean_functional_to_standard__t1_0".
201113-07:52:14,560 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.montage_mfi_0.resample_u" in "/outputs/tmp/resting_preproc_sub-018_ses-1/montage_mfi_0/_scan_matching_run-3/resample_u".
201113-07:52:14,565 nipype.workflow INFO:
[Node] Running "resample_u" ("CPAC.utils.interfaces.function.Function")
201113-07:52:15,291 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.montage_mfi_0.resample_u".
201113-07:52:15,292 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.montage_mfi_0.montage_s" in "/outputs/tmp/resting_preproc_sub-018_ses-1/montage_mfi_0/_scan_matching_run-3/montage_s".
201113-07:52:15,299 nipype.workflow INFO:
[Node] Setting-up "_montage_s0" in "/outputs/tmp/resting_preproc_sub-018_ses-1/montage_mfi_0/_scan_matching_run-3/montage_s/mapflow/_montage_s0".
201113-07:52:15,303 nipype.workflow INFO:
[Node] Running "_montage_s0" ("CPAC.utils.interfaces.function.Function")
201113-07:52:17,76 nipype.workflow INFO:
[Node] Finished "_montage_s0".
201113-07:52:17,80 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.montage_mfi_0.montage_s".
201113-07:52:17,80 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.sinker_0_qc___mean_func_with_mni_edge_s" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_matching_run-3/sinker_0_qc___mean_func_with_mni_edge_s".
201113-07:52:17,88 nipype.workflow INFO:
[Node] Running "sinker_0_qc___mean_func_with_mni_edge_s" ("CPAC.utils.interfaces.datasink.DataSink")
201113-07:52:17,299 nipype.interface INFO:
sub: /outputs/output/pipeline_cpac_fmriprep-options/sub-018_ses-1/qc___mean_func_with_mni_edge_s/_scan_matching_run-3/_montage_s0/MNI_edge_on_mean_func_mni_s.png -> /outputs/output/pipeline_cpac_fmriprep-options/sub-018_ses-1/qc/mean_func_with_mni_edge_s/_scan_matching_run-3/_montage_s0/MNI_edge_on_mean_func_mni_s.png
201113-07:52:17,318 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.sinker_0_qc___mean_func_with_mni_edge_s".
201113-07:52:17,319 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.montage_mfi_0.montage_a" in "/outputs/tmp/resting_preproc_sub-018_ses-1/montage_mfi_0/_scan_matching_run-3/montage_a".
201113-07:52:17,326 nipype.workflow INFO:
[Node] Setting-up "_montage_a0" in "/outputs/tmp/resting_preproc_sub-018_ses-1/montage_mfi_0/_scan_matching_run-3/montage_a/mapflow/_montage_a0".
201113-07:52:17,330 nipype.workflow INFO:
[Node] Running "_montage_a0" ("CPAC.utils.interfaces.function.Function")
201113-07:52:19,337 nipype.workflow INFO:
[Node] Finished "_montage_a0".
201113-07:52:19,341 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.montage_mfi_0.montage_a".
201113-07:52:19,341 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.sinker_0_qc___mean_func_with_mni_edge_a" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_matching_run-3/sinker_0_qc___mean_func_with_mni_edge_a".
201113-07:52:19,348 nipype.workflow INFO:
[Node] Running "sinker_0_qc___mean_func_with_mni_edge_a" ("CPAC.utils.interfaces.datasink.DataSink")
201113-07:52:19,558 nipype.interface INFO:
sub: /outputs/output/pipeline_cpac_fmriprep-options/sub-018_ses-1/qc___mean_func_with_mni_edge_a/_scan_matching_run-3/_montage_a0/MNI_edge_on_mean_func_mni_a.png -> /outputs/output/pipeline_cpac_fmriprep-options/sub-018_ses-1/qc/mean_func_with_mni_edge_a/_scan_matching_run-3/_montage_a0/MNI_edge_on_mean_func_mni_a.png
201113-07:52:19,576 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.sinker_0_qc___mean_func_with_mni_edge_a".
201113-07:52:19,577 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.carpet_seg_0.csf_resample" in "/outputs/tmp/resting_preproc_sub-018_ses-1/carpet_seg_0/_scan_matching_run-3/csf_resample".
201113-07:52:19,584 nipype.workflow INFO:
[Node] Running "csf_resample" ("nipype.interfaces.afni.utils.Resample"), a CommandLine Interface with command:
3dresample -master /outputs/tmp/resting_preproc_sub-018_ses-1/_scan_matching_run-3/apply_ants_warp_mean_functional_to_standard__t1_0/sub-018_ses-1_task-matching_run-3_bold_calc_despike_tshift_resample_mcf_calc_tstat_antswarp.nii.gz -prefix avg152T1_csf_bin_resample.nii -inset /outputs/tmp/resting_preproc_sub-018_ses-1/carpet_seg_0/_scan_matching_run-3/csf_resample/avg152T1_csf_bin.nii.gz
201113-07:52:19,834 nipype.interface INFO:
stderr 2020-11-13T07:52:19.834865:** AFNI converts NIFTI_datatype=64 (FLOAT64) in file /outputs/tmp/resting_preproc_sub-018_ses-1/_scan_matching_run-3/apply_ants_warp_mean_functional_to_standard__t1_0/sub-018_ses-1_task-matching_run-3_bold_calc_despike_tshift_resample_mcf_calc_tstat_antswarp.nii.gz to FLOAT32
201113-07:52:19,835 nipype.interface INFO:
stderr 2020-11-13T07:52:19.835238: Warnings of this type will be muted for this session.
201113-07:52:19,835 nipype.interface INFO:
stderr 2020-11-13T07:52:19.835238: Set AFNI_NIFTI_TYPE_WARN to YES to see them all, NO to see none.
201113-07:52:20,80 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.carpet_seg_0.csf_resample".
201113-07:52:20,82 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.carpet_seg_0.csf_mask" in "/outputs/tmp/resting_preproc_sub-018_ses-1/carpet_seg_0/_scan_matching_run-3/csf_mask".
201113-07:52:20,88 nipype.workflow INFO:
[Node] Running "csf_mask" ("nipype.interfaces.afni.utils.Calc"), a CommandLine Interface with command:
3dcalc -a /outputs/tmp/resting_preproc_sub-018_ses-1/carpet_seg_0/_scan_matching_run-3/csf_resample/avg152T1_csf_bin_resample.nii -expr "astep(a, 0.5)" -prefix avg152T1_csf_bin_resample_calc.nii
201113-07:52:20,338 nipype.interface INFO:
stderr 2020-11-13T07:52:20.337950:++ 3dcalc: AFNI version=AFNI_20.2.19 (Sep 27 2020) [64-bit]
201113-07:52:20,338 nipype.interface INFO:
stderr 2020-11-13T07:52:20.338312:++ Authored by: A cast of thousands
201113-07:52:20,453 nipype.interface INFO:
stderr 2020-11-13T07:52:20.453798:++ Output dataset ./avg152T1_csf_bin_resample_calc.nii
201113-07:52:20,610 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.carpet_seg_0.csf_mask".
201113-07:52:20,611 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.carpet_seg_0.wm_resample" in "/outputs/tmp/resting_preproc_sub-018_ses-1/carpet_seg_0/_scan_matching_run-3/wm_resample".
201113-07:52:20,618 nipype.workflow INFO:
[Node] Running "wm_resample" ("nipype.interfaces.afni.utils.Resample"), a CommandLine Interface with command:
3dresample -master /outputs/tmp/resting_preproc_sub-018_ses-1/_scan_matching_run-3/apply_ants_warp_mean_functional_to_standard__t1_0/sub-018_ses-1_task-matching_run-3_bold_calc_despike_tshift_resample_mcf_calc_tstat_antswarp.nii.gz -prefix avg152T1_white_bin_resample.nii -inset /outputs/tmp/resting_preproc_sub-018_ses-1/carpet_seg_0/_scan_matching_run-3/wm_resample/avg152T1_white_bin.nii.gz
201113-07:52:20,862 nipype.interface INFO:
stderr 2020-11-13T07:52:20.862377:** AFNI converts NIFTI_datatype=64 (FLOAT64) in file /outputs/tmp/resting_preproc_sub-018_ses-1/_scan_matching_run-3/apply_ants_warp_mean_functional_to_standard__t1_0/sub-018_ses-1_task-matching_run-3_bold_calc_despike_tshift_resample_mcf_calc_tstat_antswarp.nii.gz to FLOAT32
201113-07:52:20,862 nipype.interface INFO:
stderr 2020-11-13T07:52:20.862742: Warnings of this type will be muted for this session.
201113-07:52:20,862 nipype.interface INFO:
stderr 2020-11-13T07:52:20.862742: Set AFNI_NIFTI_TYPE_WARN to YES to see them all, NO to see none.
201113-07:52:21,85 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.carpet_seg_0.wm_resample".
201113-07:52:21,87 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.carpet_seg_0.wm_mask" in "/outputs/tmp/resting_preproc_sub-018_ses-1/carpet_seg_0/_scan_matching_run-3/wm_mask".
201113-07:52:21,92 nipype.workflow INFO:
[Node] Running "wm_mask" ("nipype.interfaces.afni.utils.Calc"), a CommandLine Interface with command:
3dcalc -a /outputs/tmp/resting_preproc_sub-018_ses-1/carpet_seg_0/_scan_matching_run-3/wm_resample/avg152T1_white_bin_resample.nii -expr "astep(a, 0.5)" -prefix avg152T1_white_bin_resample_calc.nii
201113-07:52:21,340 nipype.interface INFO:
stderr 2020-11-13T07:52:21.340328:++ 3dcalc: AFNI version=AFNI_20.2.19 (Sep 27 2020) [64-bit]
201113-07:52:21,340 nipype.interface INFO:
stderr 2020-11-13T07:52:21.340668:++ Authored by: A cast of thousands
201113-07:52:21,434 nipype.interface INFO:
stderr 2020-11-13T07:52:21.434121:++ Output dataset ./avg152T1_white_bin_resample_calc.nii
201113-07:52:21,593 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.carpet_seg_0.wm_mask".
201113-07:52:21,595 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.carpet_seg_0.gm_resample" in "/outputs/tmp/resting_preproc_sub-018_ses-1/carpet_seg_0/_scan_matching_run-3/gm_resample".
201113-07:52:21,602 nipype.workflow INFO:
[Node] Running "gm_resample" ("nipype.interfaces.afni.utils.Resample"), a CommandLine Interface with command:
3dresample -master /outputs/tmp/resting_preproc_sub-018_ses-1/_scan_matching_run-3/apply_ants_warp_mean_functional_to_standard__t1_0/sub-018_ses-1_task-matching_run-3_bold_calc_despike_tshift_resample_mcf_calc_tstat_antswarp.nii.gz -prefix avg152T1_gray_bin_resample.nii -inset /outputs/tmp/resting_preproc_sub-018_ses-1/carpet_seg_0/_scan_matching_run-3/gm_resample/avg152T1_gray_bin.nii.gz
201113-07:52:21,850 nipype.interface INFO:
stderr 2020-11-13T07:52:21.850165:** AFNI converts NIFTI_datatype=64 (FLOAT64) in file /outputs/tmp/resting_preproc_sub-018_ses-1/_scan_matching_run-3/apply_ants_warp_mean_functional_to_standard__t1_0/sub-018_ses-1_task-matching_run-3_bold_calc_despike_tshift_resample_mcf_calc_tstat_antswarp.nii.gz to FLOAT32
201113-07:52:21,850 nipype.interface INFO:
stderr 2020-11-13T07:52:21.850509: Warnings of this type will be muted for this session.
201113-07:52:21,850 nipype.interface INFO:
stderr 2020-11-13T07:52:21.850509: Set AFNI_NIFTI_TYPE_WARN to YES to see them all, NO to see none.
201113-07:52:22,70 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.carpet_seg_0.gm_resample".
201113-07:52:22,71 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.carpet_seg_0.gm_mask" in "/outputs/tmp/resting_preproc_sub-018_ses-1/carpet_seg_0/_scan_matching_run-3/gm_mask".
201113-07:52:22,77 nipype.workflow INFO:
[Node] Running "gm_mask" ("nipype.interfaces.afni.utils.Calc"), a CommandLine Interface with command:
3dcalc -a /outputs/tmp/resting_preproc_sub-018_ses-1/carpet_seg_0/_scan_matching_run-3/gm_resample/avg152T1_gray_bin_resample.nii -expr "astep(a, 0.5)" -prefix avg152T1_gray_bin_resample_calc.nii
201113-07:52:22,323 nipype.interface INFO:
stderr 2020-11-13T07:52:22.323341:++ 3dcalc: AFNI version=AFNI_20.2.19 (Sep 27 2020) [64-bit]
201113-07:52:22,323 nipype.interface INFO:
stderr 2020-11-13T07:52:22.323914:++ Authored by: A cast of thousands
201113-07:52:22,445 nipype.interface INFO:
stderr 2020-11-13T07:52:22.445167:++ Output dataset ./avg152T1_gray_bin_resample_calc.nii
201113-07:52:22,607 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.carpet_seg_0.gm_mask".
201113-07:52:22,608 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.carpet_seg_0.carpet_plot" in "/outputs/tmp/resting_preproc_sub-018_ses-1/carpet_seg_0/_scan_matching_run-3/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/carpet_plot".
201113-07:52:22,615 nipype.workflow INFO:
[Node] Running "carpet_plot" ("CPAC.utils.interfaces.function.Function")
201113-07:52:27,106 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.carpet_seg_0.carpet_plot".
201113-07:52:27,108 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.sinker_0_qc___carpet" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_matching_run-3/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/sinker_0_qc___carpet".
201113-07:52:27,115 nipype.workflow INFO:
[Node] Running "sinker_0_qc___carpet" ("CPAC.utils.interfaces.datasink.DataSink")
201113-07:52:27,327 nipype.interface INFO:
sub: /outputs/output/pipeline_cpac_fmriprep-options/sub-018_ses-1/qc___carpet/_scan_matching_run-3/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/carpet_seg.png -> /outputs/output/pipeline_cpac_fmriprep-options/sub-018_ses-1/qc/carpet/_scan_matching_run-3/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/carpet_seg.png
201113-07:52:27,344 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.sinker_0_qc___carpet".
201113-07:52:27,346 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.sinker_0_mean_functional_to_standard" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_matching_run-3/sinker_0_mean_functional_to_standard".
201113-07:52:27,353 nipype.workflow INFO:
[Node] Running "sinker_0_mean_functional_to_standard" ("CPAC.utils.interfaces.datasink.DataSink")
201113-07:52:27,583 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.sinker_0_mean_functional_to_standard".
201113-07:52:27,584 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.apply_ants_warp_functional_brain_mask_to_standard_derivative__t1_0" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_matching_run-3/apply_ants_warp_functional_brain_mask_to_standard_derivative__t1_0".
201113-07:52:27,620 nipype.workflow INFO:
[Node] Running "apply_ants_warp_functional_brain_mask_to_standard_derivative__t1_0" ("nipype.interfaces.ants.resampling.ApplyTransforms"), a CommandLine Interface with command:
antsApplyTransforms --default-value 0 --dimensionality 3 --float 0 --input /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/func_preproc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_matching_run-3/combine_masks/sub-018_ses-1_task-matching_run-3_bold_calc_despike_tshift_resample_mcf_tstat_brain_mask_maths.nii.gz --input-image-type 0 --interpolation NearestNeighbor --output sub-018_ses-1_task-matching_run-3_bold_calc_despike_tshift_resample_mcf_tstat_brain_mask_maths_antswarp.nii.gz --reference-image /outputs/tmp/resting_preproc_sub-018_ses-1/resampled_template_skull_for_func_derivative/template_skull_for_func_derivative/tpl-MNI152NLin2009cAsym_res-02_T1w_reference_resample.nii.gz --transform /outputs/tmp/resting_preproc_sub-018_ses-1/anat_mni_ants_register_0/calc_ants_warp/transform1Warp.nii.gz --transform /outputs/tmp/resting_preproc_sub-018_ses-1/anat_mni_ants_register_0/calc_ants_warp/transform0GenericAffine.mat --transform /outputs/tmp/resting_preproc_sub-018_ses-1/_scan_matching_run-3/change_transform_type_0/updated_affine.txt
201113-07:52:30,154 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.apply_ants_warp_functional_brain_mask_to_standard_derivative__t1_0".
201113-07:52:30,157 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.apply_ants_warp_functional_brain_mask_to_standard__t1_0" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_matching_run-3/apply_ants_warp_functional_brain_mask_to_standard__t1_0".
201113-07:52:30,166 nipype.workflow INFO:
[Node] Running "apply_ants_warp_functional_brain_mask_to_standard__t1_0" ("nipype.interfaces.ants.resampling.ApplyTransforms"), a CommandLine Interface with command:
antsApplyTransforms --default-value 0 --dimensionality 3 --float 0 --input /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/func_preproc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_matching_run-3/combine_masks/sub-018_ses-1_task-matching_run-3_bold_calc_despike_tshift_resample_mcf_tstat_brain_mask_maths.nii.gz --input-image-type 0 --interpolation NearestNeighbor --output sub-018_ses-1_task-matching_run-3_bold_calc_despike_tshift_resample_mcf_tstat_brain_mask_maths_antswarp.nii.gz --reference-image /outputs/tmp/resting_preproc_sub-018_ses-1/resampled_template_skull_for_func_preproc/template_skull_for_func_preproc/tpl-MNI152NLin2009cAsym_res-02_T1w_reference_resample.nii.gz --transform /outputs/tmp/resting_preproc_sub-018_ses-1/anat_mni_ants_register_0/calc_ants_warp/transform1Warp.nii.gz --transform /outputs/tmp/resting_preproc_sub-018_ses-1/anat_mni_ants_register_0/calc_ants_warp/transform0GenericAffine.mat --transform /outputs/tmp/resting_preproc_sub-018_ses-1/_scan_matching_run-3/change_transform_type_0/updated_affine.txt
201113-07:52:32,671 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.apply_ants_warp_functional_brain_mask_to_standard__t1_0".
201113-07:52:32,673 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.sinker_0_functional_brain_mask_to_standard" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_matching_run-3/sinker_0_functional_brain_mask_to_standard".
201113-07:52:32,681 nipype.workflow INFO:
[Node] Running "sinker_0_functional_brain_mask_to_standard" ("CPAC.utils.interfaces.datasink.DataSink")
201113-07:52:32,906 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.sinker_0_functional_brain_mask_to_standard".
201113-07:52:32,908 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.inverse_transform_flags_functional_brain_mask_to_standard__t1_0" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_matching_run-3/inverse_transform_flags_functional_brain_mask_to_standard__t1_0".
201113-07:52:32,913 nipype.workflow INFO:
[Node] Running "inverse_transform_flags_functional_brain_mask_to_standard__t1_0" ("nipype.interfaces.utility.wrappers.Function")
201113-07:52:33,143 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.inverse_transform_flags_functional_brain_mask_to_standard__t1_0".
201113-07:52:33,145 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.collect_transforms_functional_brain_mask_to_standard__t1_0" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_matching_run-2/collect_transforms_functional_brain_mask_to_standard__t1_0".
201113-07:52:33,168 nipype.workflow INFO:
[Node] Running "collect_transforms_functional_brain_mask_to_standard__t1_0" ("nipype.interfaces.utility.base.Merge")
201113-07:52:33,398 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.collect_transforms_functional_brain_mask_to_standard__t1_0".
201113-07:52:33,399 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.check_transformsfunctional_brain_mask_to_standard__t1_0" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_matching_run-2/check_transformsfunctional_brain_mask_to_standard__t1_0".
201113-07:52:33,404 nipype.workflow INFO:
[Node] Running "check_transformsfunctional_brain_mask_to_standard__t1_0" ("nipype.interfaces.utility.wrappers.Function")
201113-07:52:33,638 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.check_transformsfunctional_brain_mask_to_standard__t1_0".
201113-07:52:33,640 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.write_composite_xfm_functional_to_standard__t1_0" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_matching_run-2/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/write_composite_xfm_functional_to_standard__t1_0".
201113-07:52:33,652 nipype.workflow INFO:
[Node] Running "write_composite_xfm_functional_to_standard__t1_0" ("nipype.interfaces.ants.resampling.ApplyTransforms"), a CommandLine Interface with command:
antsApplyTransforms --default-value 0 --dimensionality 3 --float 0 --input /outputs/tmp/resting_preproc_sub-018_ses-1/nuisance_regression_after-filt_0_0/_scan_matching_run-2/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/nuisance_regression/residuals.nii.gz --input-image-type 3 --interpolation LanczosWindowedSinc --output [ func_to_standard_xfm.nii.gz, 1 ] --reference-image /usr/share/fsl/5.0/data/standard/MNI152_T1_2mm_brain.nii.gz --transform /outputs/tmp/resting_preproc_sub-018_ses-1/anat_mni_ants_register_0/calc_ants_warp/transform1Warp.nii.gz --transform /outputs/tmp/resting_preproc_sub-018_ses-1/anat_mni_ants_register_0/calc_ants_warp/transform0GenericAffine.mat --transform /outputs/tmp/resting_preproc_sub-018_ses-1/_scan_matching_run-2/change_transform_type_0/updated_affine.txt
201113-08:01:20,918 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.write_composite_xfm_functional_to_standard__t1_0".
201113-08:01:20,920 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.sinker_0_functional_to_standard_xfm" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_matching_run-2/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/sinker_0_functional_to_standard_xfm".
201113-08:01:20,929 nipype.workflow INFO:
[Node] Running "sinker_0_functional_to_standard_xfm" ("CPAC.utils.interfaces.datasink.DataSink")
201113-08:01:21,159 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.sinker_0_functional_to_standard_xfm".
201113-08:01:21,160 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.apply_ants_warp_functional_to_standard__t1_0" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_matching_run-2/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/apply_ants_warp_functional_to_standard__t1_0".
201113-08:01:21,167 nipype.workflow INFO:
[Node] Running "apply_ants_warp_functional_to_standard__t1_0" ("nipype.interfaces.ants.resampling.ApplyTransforms"), a CommandLine Interface with command:
antsApplyTransforms --default-value 0 --dimensionality 3 --float 0 --input /outputs/tmp/resting_preproc_sub-018_ses-1/nuisance_regression_after-filt_0_0/_scan_matching_run-2/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/nuisance_regression/residuals.nii.gz --input-image-type 3 --interpolation LanczosWindowedSinc --output residuals_antswarp.nii.gz --reference-image /usr/share/fsl/5.0/data/standard/MNI152_T1_2mm_brain.nii.gz --transform /outputs/tmp/resting_preproc_sub-018_ses-1/anat_mni_ants_register_0/calc_ants_warp/transform1Warp.nii.gz --transform /outputs/tmp/resting_preproc_sub-018_ses-1/anat_mni_ants_register_0/calc_ants_warp/transform0GenericAffine.mat --transform /outputs/tmp/resting_preproc_sub-018_ses-1/_scan_matching_run-2/change_transform_type_0/updated_affine.txt
201113-08:10:23,549 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.apply_ants_warp_functional_to_standard__t1_0".
201113-08:10:23,552 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.resample_functional_roi_0" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_matching_run-2/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/_mask_Yeo-7_space-MNI152NLin6_res-1x1x1_mask_file_..ndmg_atlases..label..Human..Yeo-7_space-MNI152NLin6_res-1x1x1.nii.gz/resample_functional_roi_0".
201113-08:10:23,559 nipype.workflow INFO:
[Node] Running "resample_functional_roi_0" ("CPAC.utils.interfaces.function.Function")
201113-08:10:24,5 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.resample_functional_roi_0".
201113-08:10:24,7 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.roi_timeseries_0.3dROIstats" in "/outputs/tmp/resting_preproc_sub-018_ses-1/roi_timeseries_0/_scan_matching_run-2/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/_mask_Yeo-7_space-MNI152NLin6_res-1x1x1_mask_file_..ndmg_atlases..label..Human..Yeo-7_space-MNI152NLin6_res-1x1x1.nii.gz/3dROIstats".
201113-08:10:24,13 nipype.workflow INFO:
[Node] Running "3dROIstats" ("nipype.interfaces.afni.preprocess.ROIStats"), a CommandLine Interface with command:
3dROIstats -mask /outputs/tmp/resting_preproc_sub-018_ses-1/_scan_matching_run-2/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/_mask_Yeo-7_space-MNI152NLin6_res-1x1x1_mask_file_..ndmg_atlases..label..Human..Yeo-7_space-MNI152NLin6_res-1x1x1.nii.gz/resample_functional_roi_0/Yeo-7_space-MNI152NLin6_res-1x1x1_resampled.nii.gz -1Dformat /outputs/tmp/resting_preproc_sub-018_ses-1/_scan_matching_run-2/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/apply_ants_warp_functional_to_standard__t1_0/residuals_antswarp.nii.gz
201113-08:10:28,536 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.roi_timeseries_0.3dROIstats".
201113-08:10:28,538 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.roi_timeseries_0.clean_roi_csv" in "/outputs/tmp/resting_preproc_sub-018_ses-1/roi_timeseries_0/_scan_matching_run-2/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/_mask_Yeo-7_space-MNI152NLin6_res-1x1x1_mask_file_..ndmg_atlases..label..Human..Yeo-7_space-MNI152NLin6_res-1x1x1.nii.gz/clean_roi_csv".
201113-08:10:28,542 nipype.workflow INFO:
[Node] Running "clean_roi_csv" ("nipype.interfaces.utility.wrappers.Function")
201113-08:10:28,784 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.roi_timeseries_0.clean_roi_csv".
201113-08:10:28,786 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.ndmg_graphs_0" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_matching_run-2/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/_mask_Yeo-7_space-MNI152NLin6_res-1x1x1_mask_file_..ndmg_atlases..label..Human..Yeo-7_space-MNI152NLin6_res-1x1x1.nii.gz/ndmg_graphs_0".
201113-08:10:28,818 nipype.workflow INFO:
[Node] Setting-up "_ndmg_graphs_00" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_matching_run-2/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/_mask_Yeo-7_space-MNI152NLin6_res-1x1x1_mask_file_..ndmg_atlases..label..Human..Yeo-7_space-MNI152NLin6_res-1x1x1.nii.gz/ndmg_graphs_0/mapflow/_ndmg_graphs_00".
201113-08:10:28,847 nipype.workflow INFO:
[Node] Running "_ndmg_graphs_00" ("CPAC.utils.interfaces.function.Function")
Estimating correlation matrix for 7 ROIs...
201113-08:10:29,369 nipype.workflow INFO:
[Node] Finished "_ndmg_graphs_00".
201113-08:10:29,373 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.ndmg_graphs_0".
201113-08:10:29,374 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.sinker_0_ndmg_graph" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_matching_run-2/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/_mask_Yeo-7_space-MNI152NLin6_res-1x1x1_mask_file_..ndmg_atlases..label..Human..Yeo-7_space-MNI152NLin6_res-1x1x1.nii.gz/sinker_0_ndmg_graph".
201113-08:10:29,381 nipype.workflow INFO:
[Node] Running "sinker_0_ndmg_graph" ("CPAC.utils.interfaces.datasink.DataSink")
201113-08:10:29,612 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.sinker_0_ndmg_graph".
201113-08:10:29,614 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.roi_timeseries_0.write_roi_npz" in "/outputs/tmp/resting_preproc_sub-018_ses-1/roi_timeseries_0/_scan_matching_run-2/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/_mask_Yeo-7_space-MNI152NLin6_res-1x1x1_mask_file_..ndmg_atlases..label..Human..Yeo-7_space-MNI152NLin6_res-1x1x1.nii.gz/write_roi_npz".
201113-08:10:29,618 nipype.workflow INFO:
[Node] Running "write_roi_npz" ("nipype.interfaces.utility.wrappers.Function")
201113-08:10:29,850 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.roi_timeseries_0.write_roi_npz".
201113-08:10:29,851 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.sinker_0_roi_timeseries" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_matching_run-2/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/_mask_Yeo-7_space-MNI152NLin6_res-1x1x1_mask_file_..ndmg_atlases..label..Human..Yeo-7_space-MNI152NLin6_res-1x1x1.nii.gz/sinker_0_roi_timeseries".
201113-08:10:29,858 nipype.workflow INFO:
[Node] Running "sinker_0_roi_timeseries" ("CPAC.utils.interfaces.datasink.DataSink")
201113-08:10:30,95 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.sinker_0_roi_timeseries".
201113-08:10:30,97 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.resample_functional_roi_0" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_matching_run-2/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/_mask_Yeo-7-liberal_space-MNI152NLin6_res-1x1x1_mask_file_..ndmg_atlases..label..Human..Yeo-7-liberal_space-MNI152NLin6_res-1x1x1.nii.gz/resample_functional_roi_0".
201113-08:10:30,104 nipype.workflow INFO:
[Node] Running "resample_functional_roi_0" ("CPAC.utils.interfaces.function.Function")
201113-08:10:30,565 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.resample_functional_roi_0".
201113-08:10:30,567 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.roi_timeseries_0.3dROIstats" in "/outputs/tmp/resting_preproc_sub-018_ses-1/roi_timeseries_0/_scan_matching_run-2/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/_mask_Yeo-7-liberal_space-MNI152NLin6_res-1x1x1_mask_file_..ndmg_atlases..label..Human..Yeo-7-liberal_space-MNI152NLin6_res-1x1x1.nii.gz/3dROIstats".
201113-08:10:30,573 nipype.workflow INFO:
[Node] Running "3dROIstats" ("nipype.interfaces.afni.preprocess.ROIStats"), a CommandLine Interface with command:
3dROIstats -mask /outputs/tmp/resting_preproc_sub-018_ses-1/_scan_matching_run-2/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/_mask_Yeo-7-liberal_space-MNI152NLin6_res-1x1x1_mask_file_..ndmg_atlases..label..Human..Yeo-7-liberal_space-MNI152NLin6_res-1x1x1.nii.gz/resample_functional_roi_0/Yeo-7-liberal_space-MNI152NLin6_res-1x1x1_resampled.nii.gz -1Dformat /outputs/tmp/resting_preproc_sub-018_ses-1/_scan_matching_run-2/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/apply_ants_warp_functional_to_standard__t1_0/residuals_antswarp.nii.gz
201113-08:10:35,70 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.roi_timeseries_0.3dROIstats".
201113-08:10:35,71 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.roi_timeseries_0.clean_roi_csv" in "/outputs/tmp/resting_preproc_sub-018_ses-1/roi_timeseries_0/_scan_matching_run-2/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/_mask_Yeo-7-liberal_space-MNI152NLin6_res-1x1x1_mask_file_..ndmg_atlases..label..Human..Yeo-7-liberal_space-MNI152NLin6_res-1x1x1.nii.gz/clean_roi_csv".
201113-08:10:35,77 nipype.workflow INFO:
[Node] Running "clean_roi_csv" ("nipype.interfaces.utility.wrappers.Function")
201113-08:10:35,316 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.roi_timeseries_0.clean_roi_csv".
201113-08:10:35,318 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.ndmg_graphs_0" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_matching_run-2/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/_mask_Yeo-7-liberal_space-MNI152NLin6_res-1x1x1_mask_file_..ndmg_atlases..label..Human..Yeo-7-liberal_space-MNI152NLin6_res-1x1x1.nii.gz/ndmg_graphs_0".
201113-08:10:35,353 nipype.workflow INFO:
[Node] Setting-up "_ndmg_graphs_00" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_matching_run-2/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/_mask_Yeo-7-liberal_space-MNI152NLin6_res-1x1x1_mask_file_..ndmg_atlases..label..Human..Yeo-7-liberal_space-MNI152NLin6_res-1x1x1.nii.gz/ndmg_graphs_0/mapflow/_ndmg_graphs_00".
201113-08:10:35,381 nipype.workflow INFO:
[Node] Running "_ndmg_graphs_00" ("CPAC.utils.interfaces.function.Function")
Estimating correlation matrix for 7 ROIs...
201113-08:10:35,898 nipype.workflow INFO:
[Node] Finished "_ndmg_graphs_00".
201113-08:10:35,902 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.ndmg_graphs_0".
201113-08:10:35,902 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.sinker_0_ndmg_graph" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_matching_run-2/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/_mask_Yeo-7-liberal_space-MNI152NLin6_res-1x1x1_mask_file_..ndmg_atlases..label..Human..Yeo-7-liberal_space-MNI152NLin6_res-1x1x1.nii.gz/sinker_0_ndmg_graph".
201113-08:10:35,910 nipype.workflow INFO:
[Node] Running "sinker_0_ndmg_graph" ("CPAC.utils.interfaces.datasink.DataSink")
201113-08:10:36,138 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.sinker_0_ndmg_graph".
201113-08:10:36,140 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.roi_timeseries_0.write_roi_npz" in "/outputs/tmp/resting_preproc_sub-018_ses-1/roi_timeseries_0/_scan_matching_run-2/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/_mask_Yeo-7-liberal_space-MNI152NLin6_res-1x1x1_mask_file_..ndmg_atlases..label..Human..Yeo-7-liberal_space-MNI152NLin6_res-1x1x1.nii.gz/write_roi_npz".
201113-08:10:36,146 nipype.workflow INFO:
[Node] Running "write_roi_npz" ("nipype.interfaces.utility.wrappers.Function")
201113-08:10:36,376 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.roi_timeseries_0.write_roi_npz".
201113-08:10:36,377 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.sinker_0_roi_timeseries" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_matching_run-2/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/_mask_Yeo-7-liberal_space-MNI152NLin6_res-1x1x1_mask_file_..ndmg_atlases..label..Human..Yeo-7-liberal_space-MNI152NLin6_res-1x1x1.nii.gz/sinker_0_roi_timeseries".
201113-08:10:36,384 nipype.workflow INFO:
[Node] Running "sinker_0_roi_timeseries" ("CPAC.utils.interfaces.datasink.DataSink")
201113-08:10:36,615 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.sinker_0_roi_timeseries".
201113-08:10:36,617 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.sinker_0_functional_to_standard" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_matching_run-2/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/sinker_0_functional_to_standard".
201113-08:10:36,624 nipype.workflow INFO:
[Node] Running "sinker_0_functional_to_standard" ("CPAC.utils.interfaces.datasink.DataSink")
201113-08:10:36,855 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.sinker_0_functional_to_standard".
201113-08:10:36,857 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.apply_ants_warp_functional_freq_filtered_to_standard__t1_0" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_matching_run-2/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/apply_ants_warp_functional_freq_filtered_to_standard__t1_0".
201113-08:10:36,870 nipype.workflow INFO:
[Node] Running "apply_ants_warp_functional_freq_filtered_to_standard__t1_0" ("nipype.interfaces.ants.resampling.ApplyTransforms"), a CommandLine Interface with command:
antsApplyTransforms --default-value 0 --dimensionality 3 --float 0 --input /outputs/tmp/resting_preproc_sub-018_ses-1/frequency_filtering_0_0/_scan_matching_run-2/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/frequency_filter/bandpassed_demeaned_filtered.nii.gz --input-image-type 0 --interpolation LanczosWindowedSinc --output bandpassed_demeaned_filtered_antswarp.nii.gz --reference-image /usr/share/fsl/5.0/data/standard/MNI152_T1_2mm_brain.nii.gz --transform /outputs/tmp/resting_preproc_sub-018_ses-1/anat_mni_ants_register_0/calc_ants_warp/transform1Warp.nii.gz --transform /outputs/tmp/resting_preproc_sub-018_ses-1/anat_mni_ants_register_0/calc_ants_warp/transform0GenericAffine.mat --transform /outputs/tmp/resting_preproc_sub-018_ses-1/_scan_matching_run-2/change_transform_type_0/updated_affine.txt
201113-08:10:39,569 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.apply_ants_warp_functional_freq_filtered_to_standard__t1_0".
201113-08:10:39,570 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.apply_ants_warp_functional_nuisance_residuals_to_standard__t1_0" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_matching_run-2/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/apply_ants_warp_functional_nuisance_residuals_to_standard__t1_0".
201113-08:10:39,579 nipype.workflow INFO:
[Node] Running "apply_ants_warp_functional_nuisance_residuals_to_standard__t1_0" ("nipype.interfaces.ants.resampling.ApplyTransforms"), a CommandLine Interface with command:
antsApplyTransforms --default-value 0 --dimensionality 3 --float 0 --input /outputs/tmp/resting_preproc_sub-018_ses-1/nuisance_regression_after-filt_0_0/_scan_matching_run-2/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/nuisance_regression/residuals.nii.gz --input-image-type 0 --interpolation LanczosWindowedSinc --output residuals_antswarp.nii.gz --reference-image /usr/share/fsl/5.0/data/standard/MNI152_T1_2mm_brain.nii.gz --transform /outputs/tmp/resting_preproc_sub-018_ses-1/anat_mni_ants_register_0/calc_ants_warp/transform1Warp.nii.gz --transform /outputs/tmp/resting_preproc_sub-018_ses-1/anat_mni_ants_register_0/calc_ants_warp/transform0GenericAffine.mat --transform /outputs/tmp/resting_preproc_sub-018_ses-1/_scan_matching_run-2/change_transform_type_0/updated_affine.txt
201113-08:10:42,241 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.apply_ants_warp_functional_nuisance_residuals_to_standard__t1_0".
201113-08:10:42,243 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.apply_ants_warp_motion_correct_to_standard__t1_0" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_matching_run-2/apply_ants_warp_motion_correct_to_standard__t1_0".
201113-08:10:42,354 nipype.workflow INFO:
[Node] Running "apply_ants_warp_motion_correct_to_standard__t1_0" ("nipype.interfaces.ants.resampling.ApplyTransforms"), a CommandLine Interface with command:
antsApplyTransforms --default-value 0 --dimensionality 3 --float 0 --input /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/_scan_matching_run-2/func_motion_correct_mcflirt/sub-018_ses-1_task-matching_run-2_bold_calc_despike_tshift_resample_mcf.nii.gz --input-image-type 3 --interpolation LanczosWindowedSinc --output sub-018_ses-1_task-matching_run-2_bold_calc_despike_tshift_resample_mcf_antswarp.nii.gz --reference-image /usr/share/fsl/5.0/data/standard/MNI152_T1_2mm_brain.nii.gz --transform /outputs/tmp/resting_preproc_sub-018_ses-1/anat_mni_ants_register_0/calc_ants_warp/transform1Warp.nii.gz --transform /outputs/tmp/resting_preproc_sub-018_ses-1/anat_mni_ants_register_0/calc_ants_warp/transform0GenericAffine.mat --transform /outputs/tmp/resting_preproc_sub-018_ses-1/_scan_matching_run-2/change_transform_type_0/updated_affine.txt
201113-08:19:51,243 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.apply_ants_warp_motion_correct_to_standard__t1_0".
201113-08:19:51,246 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.sinker_0_motion_correct_to_standard" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_matching_run-2/sinker_0_motion_correct_to_standard".
201113-08:19:51,255 nipype.workflow INFO:
[Node] Running "sinker_0_motion_correct_to_standard" ("CPAC.utils.interfaces.datasink.DataSink")
201113-08:19:51,484 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.sinker_0_motion_correct_to_standard".
201113-08:19:51,486 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.apply_ants_warp_mean_functional_to_standard_derivative__t1_0" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_matching_run-2/apply_ants_warp_mean_functional_to_standard_derivative__t1_0".
201113-08:19:51,512 nipype.workflow INFO:
[Node] Running "apply_ants_warp_mean_functional_to_standard_derivative__t1_0" ("nipype.interfaces.ants.resampling.ApplyTransforms"), a CommandLine Interface with command:
antsApplyTransforms --default-value 0 --dimensionality 3 --float 0 --input /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/_scan_matching_run-2/func_mean/sub-018_ses-1_task-matching_run-2_bold_calc_despike_tshift_resample_mcf_calc_tstat.nii.gz --input-image-type 0 --interpolation LanczosWindowedSinc --output sub-018_ses-1_task-matching_run-2_bold_calc_despike_tshift_resample_mcf_calc_tstat_antswarp.nii.gz --reference-image /usr/share/fsl/5.0/data/standard/MNI152_T1_2mm_brain.nii.gz --transform /outputs/tmp/resting_preproc_sub-018_ses-1/anat_mni_ants_register_0/calc_ants_warp/transform1Warp.nii.gz --transform /outputs/tmp/resting_preproc_sub-018_ses-1/anat_mni_ants_register_0/calc_ants_warp/transform0GenericAffine.mat --transform /outputs/tmp/resting_preproc_sub-018_ses-1/_scan_matching_run-2/change_transform_type_0/updated_affine.txt
201113-08:19:59,68 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.apply_ants_warp_mean_functional_to_standard_derivative__t1_0".
201113-08:19:59,71 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.apply_ants_warp_mean_functional_to_standard__t1_0" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_matching_run-2/apply_ants_warp_mean_functional_to_standard__t1_0".
201113-08:19:59,79 nipype.workflow INFO:
[Node] Running "apply_ants_warp_mean_functional_to_standard__t1_0" ("nipype.interfaces.ants.resampling.ApplyTransforms"), a CommandLine Interface with command:
antsApplyTransforms --default-value 0 --dimensionality 3 --float 0 --input /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/_scan_matching_run-2/func_mean/sub-018_ses-1_task-matching_run-2_bold_calc_despike_tshift_resample_mcf_calc_tstat.nii.gz --input-image-type 0 --interpolation LanczosWindowedSinc --output sub-018_ses-1_task-matching_run-2_bold_calc_despike_tshift_resample_mcf_calc_tstat_antswarp.nii.gz --reference-image /usr/share/fsl/5.0/data/standard/MNI152_T1_2mm_brain.nii.gz --transform /outputs/tmp/resting_preproc_sub-018_ses-1/anat_mni_ants_register_0/calc_ants_warp/transform1Warp.nii.gz --transform /outputs/tmp/resting_preproc_sub-018_ses-1/anat_mni_ants_register_0/calc_ants_warp/transform0GenericAffine.mat --transform /outputs/tmp/resting_preproc_sub-018_ses-1/_scan_matching_run-2/change_transform_type_0/updated_affine.txt
201113-08:20:06,638 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.apply_ants_warp_mean_functional_to_standard__t1_0".
201113-08:20:06,640 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.montage_mfi_0.resample_u" in "/outputs/tmp/resting_preproc_sub-018_ses-1/montage_mfi_0/_scan_matching_run-2/resample_u".
201113-08:20:06,645 nipype.workflow INFO:
[Node] Running "resample_u" ("CPAC.utils.interfaces.function.Function")
201113-08:20:07,368 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.montage_mfi_0.resample_u".
201113-08:20:07,369 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.montage_mfi_0.montage_s" in "/outputs/tmp/resting_preproc_sub-018_ses-1/montage_mfi_0/_scan_matching_run-2/montage_s".
201113-08:20:07,376 nipype.workflow INFO:
[Node] Setting-up "_montage_s0" in "/outputs/tmp/resting_preproc_sub-018_ses-1/montage_mfi_0/_scan_matching_run-2/montage_s/mapflow/_montage_s0".
201113-08:20:07,380 nipype.workflow INFO:
[Node] Running "_montage_s0" ("CPAC.utils.interfaces.function.Function")
201113-08:20:09,158 nipype.workflow INFO:
[Node] Finished "_montage_s0".
201113-08:20:09,161 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.montage_mfi_0.montage_s".
201113-08:20:09,162 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.sinker_0_qc___mean_func_with_mni_edge_s" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_matching_run-2/sinker_0_qc___mean_func_with_mni_edge_s".
201113-08:20:09,169 nipype.workflow INFO:
[Node] Running "sinker_0_qc___mean_func_with_mni_edge_s" ("CPAC.utils.interfaces.datasink.DataSink")
201113-08:20:09,379 nipype.interface INFO:
sub: /outputs/output/pipeline_cpac_fmriprep-options/sub-018_ses-1/qc___mean_func_with_mni_edge_s/_scan_matching_run-2/_montage_s0/MNI_edge_on_mean_func_mni_s.png -> /outputs/output/pipeline_cpac_fmriprep-options/sub-018_ses-1/qc/mean_func_with_mni_edge_s/_scan_matching_run-2/_montage_s0/MNI_edge_on_mean_func_mni_s.png
201113-08:20:09,398 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.sinker_0_qc___mean_func_with_mni_edge_s".
201113-08:20:09,400 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.montage_mfi_0.montage_a" in "/outputs/tmp/resting_preproc_sub-018_ses-1/montage_mfi_0/_scan_matching_run-2/montage_a".
201113-08:20:09,406 nipype.workflow INFO:
[Node] Setting-up "_montage_a0" in "/outputs/tmp/resting_preproc_sub-018_ses-1/montage_mfi_0/_scan_matching_run-2/montage_a/mapflow/_montage_a0".
201113-08:20:09,410 nipype.workflow INFO:
[Node] Running "_montage_a0" ("CPAC.utils.interfaces.function.Function")
201113-08:20:11,412 nipype.workflow INFO:
[Node] Finished "_montage_a0".
201113-08:20:11,415 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.montage_mfi_0.montage_a".
201113-08:20:11,415 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.sinker_0_qc___mean_func_with_mni_edge_a" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_matching_run-2/sinker_0_qc___mean_func_with_mni_edge_a".
201113-08:20:11,423 nipype.workflow INFO:
[Node] Running "sinker_0_qc___mean_func_with_mni_edge_a" ("CPAC.utils.interfaces.datasink.DataSink")
201113-08:20:11,637 nipype.interface INFO:
sub: /outputs/output/pipeline_cpac_fmriprep-options/sub-018_ses-1/qc___mean_func_with_mni_edge_a/_scan_matching_run-2/_montage_a0/MNI_edge_on_mean_func_mni_a.png -> /outputs/output/pipeline_cpac_fmriprep-options/sub-018_ses-1/qc/mean_func_with_mni_edge_a/_scan_matching_run-2/_montage_a0/MNI_edge_on_mean_func_mni_a.png
201113-08:20:11,653 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.sinker_0_qc___mean_func_with_mni_edge_a".
201113-08:20:11,655 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.carpet_seg_0.csf_resample" in "/outputs/tmp/resting_preproc_sub-018_ses-1/carpet_seg_0/_scan_matching_run-2/csf_resample".
201113-08:20:11,662 nipype.workflow INFO:
[Node] Running "csf_resample" ("nipype.interfaces.afni.utils.Resample"), a CommandLine Interface with command:
3dresample -master /outputs/tmp/resting_preproc_sub-018_ses-1/_scan_matching_run-2/apply_ants_warp_mean_functional_to_standard__t1_0/sub-018_ses-1_task-matching_run-2_bold_calc_despike_tshift_resample_mcf_calc_tstat_antswarp.nii.gz -prefix avg152T1_csf_bin_resample.nii -inset /outputs/tmp/resting_preproc_sub-018_ses-1/carpet_seg_0/_scan_matching_run-2/csf_resample/avg152T1_csf_bin.nii.gz
201113-08:20:11,925 nipype.interface INFO:
stderr 2020-11-13T08:20:11.924964:** AFNI converts NIFTI_datatype=64 (FLOAT64) in file /outputs/tmp/resting_preproc_sub-018_ses-1/_scan_matching_run-2/apply_ants_warp_mean_functional_to_standard__t1_0/sub-018_ses-1_task-matching_run-2_bold_calc_despike_tshift_resample_mcf_calc_tstat_antswarp.nii.gz to FLOAT32
201113-08:20:11,925 nipype.interface INFO:
stderr 2020-11-13T08:20:11.925566: Warnings of this type will be muted for this session.
201113-08:20:11,925 nipype.interface INFO:
stderr 2020-11-13T08:20:11.925566: Set AFNI_NIFTI_TYPE_WARN to YES to see them all, NO to see none.
201113-08:20:12,156 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.carpet_seg_0.csf_resample".
201113-08:20:12,158 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.carpet_seg_0.csf_mask" in "/outputs/tmp/resting_preproc_sub-018_ses-1/carpet_seg_0/_scan_matching_run-2/csf_mask".
201113-08:20:12,164 nipype.workflow INFO:
[Node] Running "csf_mask" ("nipype.interfaces.afni.utils.Calc"), a CommandLine Interface with command:
3dcalc -a /outputs/tmp/resting_preproc_sub-018_ses-1/carpet_seg_0/_scan_matching_run-2/csf_resample/avg152T1_csf_bin_resample.nii -expr "astep(a, 0.5)" -prefix avg152T1_csf_bin_resample_calc.nii
201113-08:20:12,415 nipype.interface INFO:
stderr 2020-11-13T08:20:12.415541:++ 3dcalc: AFNI version=AFNI_20.2.19 (Sep 27 2020) [64-bit]
201113-08:20:12,415 nipype.interface INFO:
stderr 2020-11-13T08:20:12.415927:++ Authored by: A cast of thousands
201113-08:20:12,535 nipype.interface INFO:
stderr 2020-11-13T08:20:12.535421:++ Output dataset ./avg152T1_csf_bin_resample_calc.nii
201113-08:20:12,698 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.carpet_seg_0.csf_mask".
201113-08:20:12,699 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.carpet_seg_0.wm_resample" in "/outputs/tmp/resting_preproc_sub-018_ses-1/carpet_seg_0/_scan_matching_run-2/wm_resample".
201113-08:20:12,707 nipype.workflow INFO:
[Node] Running "wm_resample" ("nipype.interfaces.afni.utils.Resample"), a CommandLine Interface with command:
3dresample -master /outputs/tmp/resting_preproc_sub-018_ses-1/_scan_matching_run-2/apply_ants_warp_mean_functional_to_standard__t1_0/sub-018_ses-1_task-matching_run-2_bold_calc_despike_tshift_resample_mcf_calc_tstat_antswarp.nii.gz -prefix avg152T1_white_bin_resample.nii -inset /outputs/tmp/resting_preproc_sub-018_ses-1/carpet_seg_0/_scan_matching_run-2/wm_resample/avg152T1_white_bin.nii.gz
201113-08:20:12,954 nipype.interface INFO:
stderr 2020-11-13T08:20:12.954908:** AFNI converts NIFTI_datatype=64 (FLOAT64) in file /outputs/tmp/resting_preproc_sub-018_ses-1/_scan_matching_run-2/apply_ants_warp_mean_functional_to_standard__t1_0/sub-018_ses-1_task-matching_run-2_bold_calc_despike_tshift_resample_mcf_calc_tstat_antswarp.nii.gz to FLOAT32
201113-08:20:12,955 nipype.interface INFO:
stderr 2020-11-13T08:20:12.955286: Warnings of this type will be muted for this session.
201113-08:20:12,955 nipype.interface INFO:
stderr 2020-11-13T08:20:12.955286: Set AFNI_NIFTI_TYPE_WARN to YES to see them all, NO to see none.
201113-08:20:13,174 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.carpet_seg_0.wm_resample".
201113-08:20:13,176 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.carpet_seg_0.wm_mask" in "/outputs/tmp/resting_preproc_sub-018_ses-1/carpet_seg_0/_scan_matching_run-2/wm_mask".
201113-08:20:13,182 nipype.workflow INFO:
[Node] Running "wm_mask" ("nipype.interfaces.afni.utils.Calc"), a CommandLine Interface with command:
3dcalc -a /outputs/tmp/resting_preproc_sub-018_ses-1/carpet_seg_0/_scan_matching_run-2/wm_resample/avg152T1_white_bin_resample.nii -expr "astep(a, 0.5)" -prefix avg152T1_white_bin_resample_calc.nii
201113-08:20:13,432 nipype.interface INFO:
stderr 2020-11-13T08:20:13.432283:++ 3dcalc: AFNI version=AFNI_20.2.19 (Sep 27 2020) [64-bit]
201113-08:20:13,432 nipype.interface INFO:
stderr 2020-11-13T08:20:13.432658:++ Authored by: A cast of thousands
201113-08:20:13,544 nipype.interface INFO:
stderr 2020-11-13T08:20:13.544305:++ Output dataset ./avg152T1_white_bin_resample_calc.nii
201113-08:20:13,707 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.carpet_seg_0.wm_mask".
201113-08:20:13,709 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.carpet_seg_0.gm_resample" in "/outputs/tmp/resting_preproc_sub-018_ses-1/carpet_seg_0/_scan_matching_run-2/gm_resample".
201113-08:20:13,715 nipype.workflow INFO:
[Node] Running "gm_resample" ("nipype.interfaces.afni.utils.Resample"), a CommandLine Interface with command:
3dresample -master /outputs/tmp/resting_preproc_sub-018_ses-1/_scan_matching_run-2/apply_ants_warp_mean_functional_to_standard__t1_0/sub-018_ses-1_task-matching_run-2_bold_calc_despike_tshift_resample_mcf_calc_tstat_antswarp.nii.gz -prefix avg152T1_gray_bin_resample.nii -inset /outputs/tmp/resting_preproc_sub-018_ses-1/carpet_seg_0/_scan_matching_run-2/gm_resample/avg152T1_gray_bin.nii.gz
201113-08:20:13,964 nipype.interface INFO:
stderr 2020-11-13T08:20:13.964361:** AFNI converts NIFTI_datatype=64 (FLOAT64) in file /outputs/tmp/resting_preproc_sub-018_ses-1/_scan_matching_run-2/apply_ants_warp_mean_functional_to_standard__t1_0/sub-018_ses-1_task-matching_run-2_bold_calc_despike_tshift_resample_mcf_calc_tstat_antswarp.nii.gz to FLOAT32
201113-08:20:13,964 nipype.interface INFO:
stderr 2020-11-13T08:20:13.964732: Warnings of this type will be muted for this session.
201113-08:20:13,964 nipype.interface INFO:
stderr 2020-11-13T08:20:13.964732: Set AFNI_NIFTI_TYPE_WARN to YES to see them all, NO to see none.
201113-08:20:14,186 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.carpet_seg_0.gm_resample".
201113-08:20:14,187 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.carpet_seg_0.gm_mask" in "/outputs/tmp/resting_preproc_sub-018_ses-1/carpet_seg_0/_scan_matching_run-2/gm_mask".
201113-08:20:14,193 nipype.workflow INFO:
[Node] Running "gm_mask" ("nipype.interfaces.afni.utils.Calc"), a CommandLine Interface with command:
3dcalc -a /outputs/tmp/resting_preproc_sub-018_ses-1/carpet_seg_0/_scan_matching_run-2/gm_resample/avg152T1_gray_bin_resample.nii -expr "astep(a, 0.5)" -prefix avg152T1_gray_bin_resample_calc.nii
201113-08:20:14,442 nipype.interface INFO:
stderr 2020-11-13T08:20:14.442535:++ 3dcalc: AFNI version=AFNI_20.2.19 (Sep 27 2020) [64-bit]
201113-08:20:14,442 nipype.interface INFO:
stderr 2020-11-13T08:20:14.442899:++ Authored by: A cast of thousands
201113-08:20:14,548 nipype.interface INFO:
stderr 2020-11-13T08:20:14.548840:++ Output dataset ./avg152T1_gray_bin_resample_calc.nii
201113-08:20:14,708 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.carpet_seg_0.gm_mask".
201113-08:20:14,709 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.carpet_seg_0.carpet_plot" in "/outputs/tmp/resting_preproc_sub-018_ses-1/carpet_seg_0/_scan_matching_run-2/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/carpet_plot".
201113-08:20:14,716 nipype.workflow INFO:
[Node] Running "carpet_plot" ("CPAC.utils.interfaces.function.Function")
201113-08:20:19,195 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.carpet_seg_0.carpet_plot".
201113-08:20:19,197 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.sinker_0_qc___carpet" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_matching_run-2/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/sinker_0_qc___carpet".
201113-08:20:19,204 nipype.workflow INFO:
[Node] Running "sinker_0_qc___carpet" ("CPAC.utils.interfaces.datasink.DataSink")
201113-08:20:19,416 nipype.interface INFO:
sub: /outputs/output/pipeline_cpac_fmriprep-options/sub-018_ses-1/qc___carpet/_scan_matching_run-2/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/carpet_seg.png -> /outputs/output/pipeline_cpac_fmriprep-options/sub-018_ses-1/qc/carpet/_scan_matching_run-2/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/carpet_seg.png
201113-08:20:19,435 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.sinker_0_qc___carpet".
201113-08:20:19,436 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.sinker_0_mean_functional_to_standard" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_matching_run-2/sinker_0_mean_functional_to_standard".
201113-08:20:19,443 nipype.workflow INFO:
[Node] Running "sinker_0_mean_functional_to_standard" ("CPAC.utils.interfaces.datasink.DataSink")
201113-08:20:19,675 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.sinker_0_mean_functional_to_standard".
201113-08:20:19,677 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.apply_ants_warp_functional_brain_mask_to_standard_derivative__t1_0" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_matching_run-2/apply_ants_warp_functional_brain_mask_to_standard_derivative__t1_0".
201113-08:20:19,698 nipype.workflow INFO:
[Node] Running "apply_ants_warp_functional_brain_mask_to_standard_derivative__t1_0" ("nipype.interfaces.ants.resampling.ApplyTransforms"), a CommandLine Interface with command:
antsApplyTransforms --default-value 0 --dimensionality 3 --float 0 --input /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/func_preproc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_matching_run-2/combine_masks/sub-018_ses-1_task-matching_run-2_bold_calc_despike_tshift_resample_mcf_tstat_brain_mask_maths.nii.gz --input-image-type 0 --interpolation NearestNeighbor --output sub-018_ses-1_task-matching_run-2_bold_calc_despike_tshift_resample_mcf_tstat_brain_mask_maths_antswarp.nii.gz --reference-image /outputs/tmp/resting_preproc_sub-018_ses-1/resampled_template_skull_for_func_derivative/template_skull_for_func_derivative/tpl-MNI152NLin2009cAsym_res-02_T1w_reference_resample.nii.gz --transform /outputs/tmp/resting_preproc_sub-018_ses-1/anat_mni_ants_register_0/calc_ants_warp/transform1Warp.nii.gz --transform /outputs/tmp/resting_preproc_sub-018_ses-1/anat_mni_ants_register_0/calc_ants_warp/transform0GenericAffine.mat --transform /outputs/tmp/resting_preproc_sub-018_ses-1/_scan_matching_run-2/change_transform_type_0/updated_affine.txt
201113-08:20:22,210 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.apply_ants_warp_functional_brain_mask_to_standard_derivative__t1_0".
201113-08:20:22,211 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.apply_ants_warp_functional_brain_mask_to_standard__t1_0" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_matching_run-2/apply_ants_warp_functional_brain_mask_to_standard__t1_0".
201113-08:20:22,220 nipype.workflow INFO:
[Node] Running "apply_ants_warp_functional_brain_mask_to_standard__t1_0" ("nipype.interfaces.ants.resampling.ApplyTransforms"), a CommandLine Interface with command:
antsApplyTransforms --default-value 0 --dimensionality 3 --float 0 --input /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/func_preproc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_matching_run-2/combine_masks/sub-018_ses-1_task-matching_run-2_bold_calc_despike_tshift_resample_mcf_tstat_brain_mask_maths.nii.gz --input-image-type 0 --interpolation NearestNeighbor --output sub-018_ses-1_task-matching_run-2_bold_calc_despike_tshift_resample_mcf_tstat_brain_mask_maths_antswarp.nii.gz --reference-image /outputs/tmp/resting_preproc_sub-018_ses-1/resampled_template_skull_for_func_preproc/template_skull_for_func_preproc/tpl-MNI152NLin2009cAsym_res-02_T1w_reference_resample.nii.gz --transform /outputs/tmp/resting_preproc_sub-018_ses-1/anat_mni_ants_register_0/calc_ants_warp/transform1Warp.nii.gz --transform /outputs/tmp/resting_preproc_sub-018_ses-1/anat_mni_ants_register_0/calc_ants_warp/transform0GenericAffine.mat --transform /outputs/tmp/resting_preproc_sub-018_ses-1/_scan_matching_run-2/change_transform_type_0/updated_affine.txt
201113-08:20:24,687 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.apply_ants_warp_functional_brain_mask_to_standard__t1_0".
201113-08:20:24,690 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.sinker_0_functional_brain_mask_to_standard" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_matching_run-2/sinker_0_functional_brain_mask_to_standard".
201113-08:20:24,698 nipype.workflow INFO:
[Node] Running "sinker_0_functional_brain_mask_to_standard" ("CPAC.utils.interfaces.datasink.DataSink")
201113-08:20:24,926 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.sinker_0_functional_brain_mask_to_standard".
201113-08:20:24,928 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.inverse_transform_flags_functional_brain_mask_to_standard__t1_0" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_matching_run-2/inverse_transform_flags_functional_brain_mask_to_standard__t1_0".
201113-08:20:24,933 nipype.workflow INFO:
[Node] Running "inverse_transform_flags_functional_brain_mask_to_standard__t1_0" ("nipype.interfaces.utility.wrappers.Function")
201113-08:20:25,163 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.inverse_transform_flags_functional_brain_mask_to_standard__t1_0".
201113-08:20:25,164 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.collect_transforms_functional_brain_mask_to_standard__t1_0" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_matching_run-1/collect_transforms_functional_brain_mask_to_standard__t1_0".
201113-08:20:25,192 nipype.workflow INFO:
[Node] Running "collect_transforms_functional_brain_mask_to_standard__t1_0" ("nipype.interfaces.utility.base.Merge")
201113-08:20:25,428 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.collect_transforms_functional_brain_mask_to_standard__t1_0".
201113-08:20:25,430 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.check_transformsfunctional_brain_mask_to_standard__t1_0" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_matching_run-1/check_transformsfunctional_brain_mask_to_standard__t1_0".
201113-08:20:25,436 nipype.workflow INFO:
[Node] Running "check_transformsfunctional_brain_mask_to_standard__t1_0" ("nipype.interfaces.utility.wrappers.Function")
201113-08:20:25,669 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.check_transformsfunctional_brain_mask_to_standard__t1_0".
201113-08:20:25,671 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.write_composite_xfm_functional_to_standard__t1_0" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_matching_run-1/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/write_composite_xfm_functional_to_standard__t1_0".
201113-08:20:25,706 nipype.workflow INFO:
[Node] Running "write_composite_xfm_functional_to_standard__t1_0" ("nipype.interfaces.ants.resampling.ApplyTransforms"), a CommandLine Interface with command:
antsApplyTransforms --default-value 0 --dimensionality 3 --float 0 --input /outputs/tmp/resting_preproc_sub-018_ses-1/nuisance_regression_after-filt_0_0/_scan_matching_run-1/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/nuisance_regression/residuals.nii.gz --input-image-type 3 --interpolation LanczosWindowedSinc --output [ func_to_standard_xfm.nii.gz, 1 ] --reference-image /usr/share/fsl/5.0/data/standard/MNI152_T1_2mm_brain.nii.gz --transform /outputs/tmp/resting_preproc_sub-018_ses-1/anat_mni_ants_register_0/calc_ants_warp/transform1Warp.nii.gz --transform /outputs/tmp/resting_preproc_sub-018_ses-1/anat_mni_ants_register_0/calc_ants_warp/transform0GenericAffine.mat --transform /outputs/tmp/resting_preproc_sub-018_ses-1/_scan_matching_run-1/change_transform_type_0/updated_affine.txt
201113-08:29:14,235 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.write_composite_xfm_functional_to_standard__t1_0".
201113-08:29:14,238 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.sinker_0_functional_to_standard_xfm" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_matching_run-1/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/sinker_0_functional_to_standard_xfm".
201113-08:29:14,247 nipype.workflow INFO:
[Node] Running "sinker_0_functional_to_standard_xfm" ("CPAC.utils.interfaces.datasink.DataSink")
201113-08:29:14,476 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.sinker_0_functional_to_standard_xfm".
201113-08:29:14,477 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.apply_ants_warp_functional_to_standard__t1_0" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_matching_run-1/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/apply_ants_warp_functional_to_standard__t1_0".
201113-08:29:14,485 nipype.workflow INFO:
[Node] Running "apply_ants_warp_functional_to_standard__t1_0" ("nipype.interfaces.ants.resampling.ApplyTransforms"), a CommandLine Interface with command:
antsApplyTransforms --default-value 0 --dimensionality 3 --float 0 --input /outputs/tmp/resting_preproc_sub-018_ses-1/nuisance_regression_after-filt_0_0/_scan_matching_run-1/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/nuisance_regression/residuals.nii.gz --input-image-type 3 --interpolation LanczosWindowedSinc --output residuals_antswarp.nii.gz --reference-image /usr/share/fsl/5.0/data/standard/MNI152_T1_2mm_brain.nii.gz --transform /outputs/tmp/resting_preproc_sub-018_ses-1/anat_mni_ants_register_0/calc_ants_warp/transform1Warp.nii.gz --transform /outputs/tmp/resting_preproc_sub-018_ses-1/anat_mni_ants_register_0/calc_ants_warp/transform0GenericAffine.mat --transform /outputs/tmp/resting_preproc_sub-018_ses-1/_scan_matching_run-1/change_transform_type_0/updated_affine.txt
201113-08:38:18,559 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.apply_ants_warp_functional_to_standard__t1_0".
201113-08:38:18,561 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.resample_functional_roi_0" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_matching_run-1/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/_mask_Yeo-7_space-MNI152NLin6_res-1x1x1_mask_file_..ndmg_atlases..label..Human..Yeo-7_space-MNI152NLin6_res-1x1x1.nii.gz/resample_functional_roi_0".
201113-08:38:18,569 nipype.workflow INFO:
[Node] Running "resample_functional_roi_0" ("CPAC.utils.interfaces.function.Function")
201113-08:38:19,21 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.resample_functional_roi_0".
201113-08:38:19,23 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.roi_timeseries_0.3dROIstats" in "/outputs/tmp/resting_preproc_sub-018_ses-1/roi_timeseries_0/_scan_matching_run-1/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/_mask_Yeo-7_space-MNI152NLin6_res-1x1x1_mask_file_..ndmg_atlases..label..Human..Yeo-7_space-MNI152NLin6_res-1x1x1.nii.gz/3dROIstats".
201113-08:38:19,29 nipype.workflow INFO:
[Node] Running "3dROIstats" ("nipype.interfaces.afni.preprocess.ROIStats"), a CommandLine Interface with command:
3dROIstats -mask /outputs/tmp/resting_preproc_sub-018_ses-1/_scan_matching_run-1/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/_mask_Yeo-7_space-MNI152NLin6_res-1x1x1_mask_file_..ndmg_atlases..label..Human..Yeo-7_space-MNI152NLin6_res-1x1x1.nii.gz/resample_functional_roi_0/Yeo-7_space-MNI152NLin6_res-1x1x1_resampled.nii.gz -1Dformat /outputs/tmp/resting_preproc_sub-018_ses-1/_scan_matching_run-1/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/apply_ants_warp_functional_to_standard__t1_0/residuals_antswarp.nii.gz
201113-08:38:23,518 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.roi_timeseries_0.3dROIstats".
201113-08:38:23,519 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.roi_timeseries_0.clean_roi_csv" in "/outputs/tmp/resting_preproc_sub-018_ses-1/roi_timeseries_0/_scan_matching_run-1/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/_mask_Yeo-7_space-MNI152NLin6_res-1x1x1_mask_file_..ndmg_atlases..label..Human..Yeo-7_space-MNI152NLin6_res-1x1x1.nii.gz/clean_roi_csv".
201113-08:38:23,524 nipype.workflow INFO:
[Node] Running "clean_roi_csv" ("nipype.interfaces.utility.wrappers.Function")
201113-08:38:23,764 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.roi_timeseries_0.clean_roi_csv".
201113-08:38:23,765 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.ndmg_graphs_0" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_matching_run-1/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/_mask_Yeo-7_space-MNI152NLin6_res-1x1x1_mask_file_..ndmg_atlases..label..Human..Yeo-7_space-MNI152NLin6_res-1x1x1.nii.gz/ndmg_graphs_0".
201113-08:38:23,798 nipype.workflow INFO:
[Node] Setting-up "_ndmg_graphs_00" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_matching_run-1/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/_mask_Yeo-7_space-MNI152NLin6_res-1x1x1_mask_file_..ndmg_atlases..label..Human..Yeo-7_space-MNI152NLin6_res-1x1x1.nii.gz/ndmg_graphs_0/mapflow/_ndmg_graphs_00".
201113-08:38:23,827 nipype.workflow INFO:
[Node] Running "_ndmg_graphs_00" ("CPAC.utils.interfaces.function.Function")
Estimating correlation matrix for 7 ROIs...
201113-08:38:24,347 nipype.workflow INFO:
[Node] Finished "_ndmg_graphs_00".
201113-08:38:24,351 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.ndmg_graphs_0".
201113-08:38:24,351 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.sinker_0_ndmg_graph" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_matching_run-1/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/_mask_Yeo-7_space-MNI152NLin6_res-1x1x1_mask_file_..ndmg_atlases..label..Human..Yeo-7_space-MNI152NLin6_res-1x1x1.nii.gz/sinker_0_ndmg_graph".
201113-08:38:24,359 nipype.workflow INFO:
[Node] Running "sinker_0_ndmg_graph" ("CPAC.utils.interfaces.datasink.DataSink")
201113-08:38:24,590 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.sinker_0_ndmg_graph".
201113-08:38:24,591 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.roi_timeseries_0.write_roi_npz" in "/outputs/tmp/resting_preproc_sub-018_ses-1/roi_timeseries_0/_scan_matching_run-1/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/_mask_Yeo-7_space-MNI152NLin6_res-1x1x1_mask_file_..ndmg_atlases..label..Human..Yeo-7_space-MNI152NLin6_res-1x1x1.nii.gz/write_roi_npz".
201113-08:38:24,595 nipype.workflow INFO:
[Node] Running "write_roi_npz" ("nipype.interfaces.utility.wrappers.Function")
201113-08:38:24,828 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.roi_timeseries_0.write_roi_npz".
201113-08:38:24,830 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.sinker_0_roi_timeseries" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_matching_run-1/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/_mask_Yeo-7_space-MNI152NLin6_res-1x1x1_mask_file_..ndmg_atlases..label..Human..Yeo-7_space-MNI152NLin6_res-1x1x1.nii.gz/sinker_0_roi_timeseries".
201113-08:38:24,837 nipype.workflow INFO:
[Node] Running "sinker_0_roi_timeseries" ("CPAC.utils.interfaces.datasink.DataSink")
201113-08:38:25,68 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.sinker_0_roi_timeseries".
201113-08:38:25,70 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.resample_functional_roi_0" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_matching_run-1/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/_mask_Yeo-7-liberal_space-MNI152NLin6_res-1x1x1_mask_file_..ndmg_atlases..label..Human..Yeo-7-liberal_space-MNI152NLin6_res-1x1x1.nii.gz/resample_functional_roi_0".
201113-08:38:25,76 nipype.workflow INFO:
[Node] Running "resample_functional_roi_0" ("CPAC.utils.interfaces.function.Function")
201113-08:38:25,524 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.resample_functional_roi_0".
201113-08:38:25,526 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.roi_timeseries_0.3dROIstats" in "/outputs/tmp/resting_preproc_sub-018_ses-1/roi_timeseries_0/_scan_matching_run-1/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/_mask_Yeo-7-liberal_space-MNI152NLin6_res-1x1x1_mask_file_..ndmg_atlases..label..Human..Yeo-7-liberal_space-MNI152NLin6_res-1x1x1.nii.gz/3dROIstats".
201113-08:38:25,532 nipype.workflow INFO:
[Node] Running "3dROIstats" ("nipype.interfaces.afni.preprocess.ROIStats"), a CommandLine Interface with command:
3dROIstats -mask /outputs/tmp/resting_preproc_sub-018_ses-1/_scan_matching_run-1/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/_mask_Yeo-7-liberal_space-MNI152NLin6_res-1x1x1_mask_file_..ndmg_atlases..label..Human..Yeo-7-liberal_space-MNI152NLin6_res-1x1x1.nii.gz/resample_functional_roi_0/Yeo-7-liberal_space-MNI152NLin6_res-1x1x1_resampled.nii.gz -1Dformat /outputs/tmp/resting_preproc_sub-018_ses-1/_scan_matching_run-1/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/apply_ants_warp_functional_to_standard__t1_0/residuals_antswarp.nii.gz
201113-08:38:30,58 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.roi_timeseries_0.3dROIstats".
201113-08:38:30,59 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.roi_timeseries_0.clean_roi_csv" in "/outputs/tmp/resting_preproc_sub-018_ses-1/roi_timeseries_0/_scan_matching_run-1/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/_mask_Yeo-7-liberal_space-MNI152NLin6_res-1x1x1_mask_file_..ndmg_atlases..label..Human..Yeo-7-liberal_space-MNI152NLin6_res-1x1x1.nii.gz/clean_roi_csv".
201113-08:38:30,63 nipype.workflow INFO:
[Node] Running "clean_roi_csv" ("nipype.interfaces.utility.wrappers.Function")
201113-08:38:30,304 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.roi_timeseries_0.clean_roi_csv".
201113-08:38:30,305 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.ndmg_graphs_0" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_matching_run-1/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/_mask_Yeo-7-liberal_space-MNI152NLin6_res-1x1x1_mask_file_..ndmg_atlases..label..Human..Yeo-7-liberal_space-MNI152NLin6_res-1x1x1.nii.gz/ndmg_graphs_0".
201113-08:38:30,338 nipype.workflow INFO:
[Node] Setting-up "_ndmg_graphs_00" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_matching_run-1/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/_mask_Yeo-7-liberal_space-MNI152NLin6_res-1x1x1_mask_file_..ndmg_atlases..label..Human..Yeo-7-liberal_space-MNI152NLin6_res-1x1x1.nii.gz/ndmg_graphs_0/mapflow/_ndmg_graphs_00".
201113-08:38:30,365 nipype.workflow INFO:
[Node] Running "_ndmg_graphs_00" ("CPAC.utils.interfaces.function.Function")
Estimating correlation matrix for 7 ROIs...
201113-08:38:30,897 nipype.workflow INFO:
[Node] Finished "_ndmg_graphs_00".
201113-08:38:30,900 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.ndmg_graphs_0".
201113-08:38:30,901 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.sinker_0_ndmg_graph" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_matching_run-1/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/_mask_Yeo-7-liberal_space-MNI152NLin6_res-1x1x1_mask_file_..ndmg_atlases..label..Human..Yeo-7-liberal_space-MNI152NLin6_res-1x1x1.nii.gz/sinker_0_ndmg_graph".
201113-08:38:30,909 nipype.workflow INFO:
[Node] Running "sinker_0_ndmg_graph" ("CPAC.utils.interfaces.datasink.DataSink")
201113-08:38:31,138 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.sinker_0_ndmg_graph".
201113-08:38:31,140 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.roi_timeseries_0.write_roi_npz" in "/outputs/tmp/resting_preproc_sub-018_ses-1/roi_timeseries_0/_scan_matching_run-1/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/_mask_Yeo-7-liberal_space-MNI152NLin6_res-1x1x1_mask_file_..ndmg_atlases..label..Human..Yeo-7-liberal_space-MNI152NLin6_res-1x1x1.nii.gz/write_roi_npz".
201113-08:38:31,144 nipype.workflow INFO:
[Node] Running "write_roi_npz" ("nipype.interfaces.utility.wrappers.Function")
201113-08:38:31,377 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.roi_timeseries_0.write_roi_npz".
201113-08:38:31,378 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.sinker_0_roi_timeseries" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_matching_run-1/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/_mask_Yeo-7-liberal_space-MNI152NLin6_res-1x1x1_mask_file_..ndmg_atlases..label..Human..Yeo-7-liberal_space-MNI152NLin6_res-1x1x1.nii.gz/sinker_0_roi_timeseries".
201113-08:38:31,386 nipype.workflow INFO:
[Node] Running "sinker_0_roi_timeseries" ("CPAC.utils.interfaces.datasink.DataSink")
201113-08:38:31,617 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.sinker_0_roi_timeseries".
201113-08:38:31,619 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.sinker_0_functional_to_standard" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_matching_run-1/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/sinker_0_functional_to_standard".
201113-08:38:31,626 nipype.workflow INFO:
[Node] Running "sinker_0_functional_to_standard" ("CPAC.utils.interfaces.datasink.DataSink")
201113-08:38:31,858 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.sinker_0_functional_to_standard".
201113-08:38:31,859 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.apply_ants_warp_functional_freq_filtered_to_standard__t1_0" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_matching_run-1/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/apply_ants_warp_functional_freq_filtered_to_standard__t1_0".
201113-08:38:31,892 nipype.workflow INFO:
[Node] Running "apply_ants_warp_functional_freq_filtered_to_standard__t1_0" ("nipype.interfaces.ants.resampling.ApplyTransforms"), a CommandLine Interface with command:
antsApplyTransforms --default-value 0 --dimensionality 3 --float 0 --input /outputs/tmp/resting_preproc_sub-018_ses-1/frequency_filtering_0_0/_scan_matching_run-1/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/frequency_filter/bandpassed_demeaned_filtered.nii.gz --input-image-type 0 --interpolation LanczosWindowedSinc --output bandpassed_demeaned_filtered_antswarp.nii.gz --reference-image /usr/share/fsl/5.0/data/standard/MNI152_T1_2mm_brain.nii.gz --transform /outputs/tmp/resting_preproc_sub-018_ses-1/anat_mni_ants_register_0/calc_ants_warp/transform1Warp.nii.gz --transform /outputs/tmp/resting_preproc_sub-018_ses-1/anat_mni_ants_register_0/calc_ants_warp/transform0GenericAffine.mat --transform /outputs/tmp/resting_preproc_sub-018_ses-1/_scan_matching_run-1/change_transform_type_0/updated_affine.txt
201113-08:38:34,568 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.apply_ants_warp_functional_freq_filtered_to_standard__t1_0".
201113-08:38:34,570 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.apply_ants_warp_functional_nuisance_residuals_to_standard__t1_0" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_matching_run-1/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/apply_ants_warp_functional_nuisance_residuals_to_standard__t1_0".
201113-08:38:34,578 nipype.workflow INFO:
[Node] Running "apply_ants_warp_functional_nuisance_residuals_to_standard__t1_0" ("nipype.interfaces.ants.resampling.ApplyTransforms"), a CommandLine Interface with command:
antsApplyTransforms --default-value 0 --dimensionality 3 --float 0 --input /outputs/tmp/resting_preproc_sub-018_ses-1/nuisance_regression_after-filt_0_0/_scan_matching_run-1/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/nuisance_regression/residuals.nii.gz --input-image-type 0 --interpolation LanczosWindowedSinc --output residuals_antswarp.nii.gz --reference-image /usr/share/fsl/5.0/data/standard/MNI152_T1_2mm_brain.nii.gz --transform /outputs/tmp/resting_preproc_sub-018_ses-1/anat_mni_ants_register_0/calc_ants_warp/transform1Warp.nii.gz --transform /outputs/tmp/resting_preproc_sub-018_ses-1/anat_mni_ants_register_0/calc_ants_warp/transform0GenericAffine.mat --transform /outputs/tmp/resting_preproc_sub-018_ses-1/_scan_matching_run-1/change_transform_type_0/updated_affine.txt
201113-08:38:37,269 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.apply_ants_warp_functional_nuisance_residuals_to_standard__t1_0".
201113-08:38:37,271 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.apply_ants_warp_motion_correct_to_standard__t1_0" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_matching_run-1/apply_ants_warp_motion_correct_to_standard__t1_0".
201113-08:38:37,378 nipype.workflow INFO:
[Node] Running "apply_ants_warp_motion_correct_to_standard__t1_0" ("nipype.interfaces.ants.resampling.ApplyTransforms"), a CommandLine Interface with command:
antsApplyTransforms --default-value 0 --dimensionality 3 --float 0 --input /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/_scan_matching_run-1/func_motion_correct_mcflirt/sub-018_ses-1_task-matching_run-1_bold_calc_despike_tshift_resample_mcf.nii.gz --input-image-type 3 --interpolation LanczosWindowedSinc --output sub-018_ses-1_task-matching_run-1_bold_calc_despike_tshift_resample_mcf_antswarp.nii.gz --reference-image /usr/share/fsl/5.0/data/standard/MNI152_T1_2mm_brain.nii.gz --transform /outputs/tmp/resting_preproc_sub-018_ses-1/anat_mni_ants_register_0/calc_ants_warp/transform1Warp.nii.gz --transform /outputs/tmp/resting_preproc_sub-018_ses-1/anat_mni_ants_register_0/calc_ants_warp/transform0GenericAffine.mat --transform /outputs/tmp/resting_preproc_sub-018_ses-1/_scan_matching_run-1/change_transform_type_0/updated_affine.txt
201113-08:47:47,742 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.apply_ants_warp_motion_correct_to_standard__t1_0".
201113-08:47:47,744 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.sinker_0_motion_correct_to_standard" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_matching_run-1/sinker_0_motion_correct_to_standard".
201113-08:47:47,754 nipype.workflow INFO:
[Node] Running "sinker_0_motion_correct_to_standard" ("CPAC.utils.interfaces.datasink.DataSink")
201113-08:47:47,983 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.sinker_0_motion_correct_to_standard".
201113-08:47:47,985 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.apply_ants_warp_mean_functional_to_standard_derivative__t1_0" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_matching_run-1/apply_ants_warp_mean_functional_to_standard_derivative__t1_0".
201113-08:47:47,997 nipype.workflow INFO:
[Node] Running "apply_ants_warp_mean_functional_to_standard_derivative__t1_0" ("nipype.interfaces.ants.resampling.ApplyTransforms"), a CommandLine Interface with command:
antsApplyTransforms --default-value 0 --dimensionality 3 --float 0 --input /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/_scan_matching_run-1/func_mean/sub-018_ses-1_task-matching_run-1_bold_calc_despike_tshift_resample_mcf_calc_tstat.nii.gz --input-image-type 0 --interpolation LanczosWindowedSinc --output sub-018_ses-1_task-matching_run-1_bold_calc_despike_tshift_resample_mcf_calc_tstat_antswarp.nii.gz --reference-image /usr/share/fsl/5.0/data/standard/MNI152_T1_2mm_brain.nii.gz --transform /outputs/tmp/resting_preproc_sub-018_ses-1/anat_mni_ants_register_0/calc_ants_warp/transform1Warp.nii.gz --transform /outputs/tmp/resting_preproc_sub-018_ses-1/anat_mni_ants_register_0/calc_ants_warp/transform0GenericAffine.mat --transform /outputs/tmp/resting_preproc_sub-018_ses-1/_scan_matching_run-1/change_transform_type_0/updated_affine.txt
201113-08:47:55,566 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.apply_ants_warp_mean_functional_to_standard_derivative__t1_0".
201113-08:47:55,568 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.apply_ants_warp_mean_functional_to_standard__t1_0" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_matching_run-1/apply_ants_warp_mean_functional_to_standard__t1_0".
201113-08:47:55,577 nipype.workflow INFO:
[Node] Running "apply_ants_warp_mean_functional_to_standard__t1_0" ("nipype.interfaces.ants.resampling.ApplyTransforms"), a CommandLine Interface with command:
antsApplyTransforms --default-value 0 --dimensionality 3 --float 0 --input /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/_scan_matching_run-1/func_mean/sub-018_ses-1_task-matching_run-1_bold_calc_despike_tshift_resample_mcf_calc_tstat.nii.gz --input-image-type 0 --interpolation LanczosWindowedSinc --output sub-018_ses-1_task-matching_run-1_bold_calc_despike_tshift_resample_mcf_calc_tstat_antswarp.nii.gz --reference-image /usr/share/fsl/5.0/data/standard/MNI152_T1_2mm_brain.nii.gz --transform /outputs/tmp/resting_preproc_sub-018_ses-1/anat_mni_ants_register_0/calc_ants_warp/transform1Warp.nii.gz --transform /outputs/tmp/resting_preproc_sub-018_ses-1/anat_mni_ants_register_0/calc_ants_warp/transform0GenericAffine.mat --transform /outputs/tmp/resting_preproc_sub-018_ses-1/_scan_matching_run-1/change_transform_type_0/updated_affine.txt
201113-08:48:03,139 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.apply_ants_warp_mean_functional_to_standard__t1_0".
201113-08:48:03,140 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.montage_mfi_0.resample_u" in "/outputs/tmp/resting_preproc_sub-018_ses-1/montage_mfi_0/_scan_matching_run-1/resample_u".
201113-08:48:03,146 nipype.workflow INFO:
[Node] Running "resample_u" ("CPAC.utils.interfaces.function.Function")
201113-08:48:03,866 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.montage_mfi_0.resample_u".
201113-08:48:03,868 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.montage_mfi_0.montage_s" in "/outputs/tmp/resting_preproc_sub-018_ses-1/montage_mfi_0/_scan_matching_run-1/montage_s".
201113-08:48:03,874 nipype.workflow INFO:
[Node] Setting-up "_montage_s0" in "/outputs/tmp/resting_preproc_sub-018_ses-1/montage_mfi_0/_scan_matching_run-1/montage_s/mapflow/_montage_s0".
201113-08:48:03,879 nipype.workflow INFO:
[Node] Running "_montage_s0" ("CPAC.utils.interfaces.function.Function")
201113-08:48:05,640 nipype.workflow INFO:
[Node] Finished "_montage_s0".
201113-08:48:05,643 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.montage_mfi_0.montage_s".
201113-08:48:05,643 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.sinker_0_qc___mean_func_with_mni_edge_s" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_matching_run-1/sinker_0_qc___mean_func_with_mni_edge_s".
201113-08:48:05,651 nipype.workflow INFO:
[Node] Running "sinker_0_qc___mean_func_with_mni_edge_s" ("CPAC.utils.interfaces.datasink.DataSink")
201113-08:48:05,862 nipype.interface INFO:
sub: /outputs/output/pipeline_cpac_fmriprep-options/sub-018_ses-1/qc___mean_func_with_mni_edge_s/_scan_matching_run-1/_montage_s0/MNI_edge_on_mean_func_mni_s.png -> /outputs/output/pipeline_cpac_fmriprep-options/sub-018_ses-1/qc/mean_func_with_mni_edge_s/_scan_matching_run-1/_montage_s0/MNI_edge_on_mean_func_mni_s.png
201113-08:48:05,882 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.sinker_0_qc___mean_func_with_mni_edge_s".
201113-08:48:05,884 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.montage_mfi_0.montage_a" in "/outputs/tmp/resting_preproc_sub-018_ses-1/montage_mfi_0/_scan_matching_run-1/montage_a".
201113-08:48:05,891 nipype.workflow INFO:
[Node] Setting-up "_montage_a0" in "/outputs/tmp/resting_preproc_sub-018_ses-1/montage_mfi_0/_scan_matching_run-1/montage_a/mapflow/_montage_a0".
201113-08:48:05,895 nipype.workflow INFO:
[Node] Running "_montage_a0" ("CPAC.utils.interfaces.function.Function")
201113-08:48:07,900 nipype.workflow INFO:
[Node] Finished "_montage_a0".
201113-08:48:07,903 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.montage_mfi_0.montage_a".
201113-08:48:07,904 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.sinker_0_qc___mean_func_with_mni_edge_a" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_matching_run-1/sinker_0_qc___mean_func_with_mni_edge_a".
201113-08:48:07,911 nipype.workflow INFO:
[Node] Running "sinker_0_qc___mean_func_with_mni_edge_a" ("CPAC.utils.interfaces.datasink.DataSink")
201113-08:48:08,125 nipype.interface INFO:
sub: /outputs/output/pipeline_cpac_fmriprep-options/sub-018_ses-1/qc___mean_func_with_mni_edge_a/_scan_matching_run-1/_montage_a0/MNI_edge_on_mean_func_mni_a.png -> /outputs/output/pipeline_cpac_fmriprep-options/sub-018_ses-1/qc/mean_func_with_mni_edge_a/_scan_matching_run-1/_montage_a0/MNI_edge_on_mean_func_mni_a.png
201113-08:48:08,143 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.sinker_0_qc___mean_func_with_mni_edge_a".
201113-08:48:08,144 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.carpet_seg_0.csf_resample" in "/outputs/tmp/resting_preproc_sub-018_ses-1/carpet_seg_0/_scan_matching_run-1/csf_resample".
201113-08:48:08,151 nipype.workflow INFO:
[Node] Running "csf_resample" ("nipype.interfaces.afni.utils.Resample"), a CommandLine Interface with command:
3dresample -master /outputs/tmp/resting_preproc_sub-018_ses-1/_scan_matching_run-1/apply_ants_warp_mean_functional_to_standard__t1_0/sub-018_ses-1_task-matching_run-1_bold_calc_despike_tshift_resample_mcf_calc_tstat_antswarp.nii.gz -prefix avg152T1_csf_bin_resample.nii -inset /outputs/tmp/resting_preproc_sub-018_ses-1/carpet_seg_0/_scan_matching_run-1/csf_resample/avg152T1_csf_bin.nii.gz
201113-08:48:08,412 nipype.interface INFO:
stderr 2020-11-13T08:48:08.412024:** AFNI converts NIFTI_datatype=64 (FLOAT64) in file /outputs/tmp/resting_preproc_sub-018_ses-1/_scan_matching_run-1/apply_ants_warp_mean_functional_to_standard__t1_0/sub-018_ses-1_task-matching_run-1_bold_calc_despike_tshift_resample_mcf_calc_tstat_antswarp.nii.gz to FLOAT32
201113-08:48:08,412 nipype.interface INFO:
stderr 2020-11-13T08:48:08.412385: Warnings of this type will be muted for this session.
201113-08:48:08,412 nipype.interface INFO:
stderr 2020-11-13T08:48:08.412385: Set AFNI_NIFTI_TYPE_WARN to YES to see them all, NO to see none.
201113-08:48:08,659 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.carpet_seg_0.csf_resample".
201113-08:48:08,661 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.carpet_seg_0.csf_mask" in "/outputs/tmp/resting_preproc_sub-018_ses-1/carpet_seg_0/_scan_matching_run-1/csf_mask".
201113-08:48:08,667 nipype.workflow INFO:
[Node] Running "csf_mask" ("nipype.interfaces.afni.utils.Calc"), a CommandLine Interface with command:
3dcalc -a /outputs/tmp/resting_preproc_sub-018_ses-1/carpet_seg_0/_scan_matching_run-1/csf_resample/avg152T1_csf_bin_resample.nii -expr "astep(a, 0.5)" -prefix avg152T1_csf_bin_resample_calc.nii
201113-08:48:08,915 nipype.interface INFO:
stderr 2020-11-13T08:48:08.915266:++ 3dcalc: AFNI version=AFNI_20.2.19 (Sep 27 2020) [64-bit]
201113-08:48:08,915 nipype.interface INFO:
stderr 2020-11-13T08:48:08.915844:++ Authored by: A cast of thousands
201113-08:48:09,12 nipype.interface INFO:
stderr 2020-11-13T08:48:09.012287:++ Output dataset ./avg152T1_csf_bin_resample_calc.nii
201113-08:48:09,177 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.carpet_seg_0.csf_mask".
201113-08:48:09,179 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.carpet_seg_0.wm_resample" in "/outputs/tmp/resting_preproc_sub-018_ses-1/carpet_seg_0/_scan_matching_run-1/wm_resample".
201113-08:48:09,186 nipype.workflow INFO:
[Node] Running "wm_resample" ("nipype.interfaces.afni.utils.Resample"), a CommandLine Interface with command:
3dresample -master /outputs/tmp/resting_preproc_sub-018_ses-1/_scan_matching_run-1/apply_ants_warp_mean_functional_to_standard__t1_0/sub-018_ses-1_task-matching_run-1_bold_calc_despike_tshift_resample_mcf_calc_tstat_antswarp.nii.gz -prefix avg152T1_white_bin_resample.nii -inset /outputs/tmp/resting_preproc_sub-018_ses-1/carpet_seg_0/_scan_matching_run-1/wm_resample/avg152T1_white_bin.nii.gz
201113-08:48:09,434 nipype.interface INFO:
stderr 2020-11-13T08:48:09.434023:** AFNI converts NIFTI_datatype=64 (FLOAT64) in file /outputs/tmp/resting_preproc_sub-018_ses-1/_scan_matching_run-1/apply_ants_warp_mean_functional_to_standard__t1_0/sub-018_ses-1_task-matching_run-1_bold_calc_despike_tshift_resample_mcf_calc_tstat_antswarp.nii.gz to FLOAT32
201113-08:48:09,434 nipype.interface INFO:
stderr 2020-11-13T08:48:09.434366: Warnings of this type will be muted for this session.
201113-08:48:09,434 nipype.interface INFO:
stderr 2020-11-13T08:48:09.434366: Set AFNI_NIFTI_TYPE_WARN to YES to see them all, NO to see none.
201113-08:48:09,655 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.carpet_seg_0.wm_resample".
201113-08:48:09,656 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.carpet_seg_0.wm_mask" in "/outputs/tmp/resting_preproc_sub-018_ses-1/carpet_seg_0/_scan_matching_run-1/wm_mask".
201113-08:48:09,661 nipype.workflow INFO:
[Node] Running "wm_mask" ("nipype.interfaces.afni.utils.Calc"), a CommandLine Interface with command:
3dcalc -a /outputs/tmp/resting_preproc_sub-018_ses-1/carpet_seg_0/_scan_matching_run-1/wm_resample/avg152T1_white_bin_resample.nii -expr "astep(a, 0.5)" -prefix avg152T1_white_bin_resample_calc.nii
201113-08:48:09,913 nipype.interface INFO:
stderr 2020-11-13T08:48:09.913491:++ 3dcalc: AFNI version=AFNI_20.2.19 (Sep 27 2020) [64-bit]
201113-08:48:09,913 nipype.interface INFO:
stderr 2020-11-13T08:48:09.913855:++ Authored by: A cast of thousands
201113-08:48:10,32 nipype.interface INFO:
stderr 2020-11-13T08:48:10.032132:++ Output dataset ./avg152T1_white_bin_resample_calc.nii
201113-08:48:10,196 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.carpet_seg_0.wm_mask".
201113-08:48:10,197 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.carpet_seg_0.gm_resample" in "/outputs/tmp/resting_preproc_sub-018_ses-1/carpet_seg_0/_scan_matching_run-1/gm_resample".
201113-08:48:10,205 nipype.workflow INFO:
[Node] Running "gm_resample" ("nipype.interfaces.afni.utils.Resample"), a CommandLine Interface with command:
3dresample -master /outputs/tmp/resting_preproc_sub-018_ses-1/_scan_matching_run-1/apply_ants_warp_mean_functional_to_standard__t1_0/sub-018_ses-1_task-matching_run-1_bold_calc_despike_tshift_resample_mcf_calc_tstat_antswarp.nii.gz -prefix avg152T1_gray_bin_resample.nii -inset /outputs/tmp/resting_preproc_sub-018_ses-1/carpet_seg_0/_scan_matching_run-1/gm_resample/avg152T1_gray_bin.nii.gz
201113-08:48:10,453 nipype.interface INFO:
stderr 2020-11-13T08:48:10.453194:** AFNI converts NIFTI_datatype=64 (FLOAT64) in file /outputs/tmp/resting_preproc_sub-018_ses-1/_scan_matching_run-1/apply_ants_warp_mean_functional_to_standard__t1_0/sub-018_ses-1_task-matching_run-1_bold_calc_despike_tshift_resample_mcf_calc_tstat_antswarp.nii.gz to FLOAT32
201113-08:48:10,453 nipype.interface INFO:
stderr 2020-11-13T08:48:10.453550: Warnings of this type will be muted for this session.
201113-08:48:10,453 nipype.interface INFO:
stderr 2020-11-13T08:48:10.453550: Set AFNI_NIFTI_TYPE_WARN to YES to see them all, NO to see none.
201113-08:48:10,670 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.carpet_seg_0.gm_resample".
201113-08:48:10,672 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.carpet_seg_0.gm_mask" in "/outputs/tmp/resting_preproc_sub-018_ses-1/carpet_seg_0/_scan_matching_run-1/gm_mask".
201113-08:48:10,678 nipype.workflow INFO:
[Node] Running "gm_mask" ("nipype.interfaces.afni.utils.Calc"), a CommandLine Interface with command:
3dcalc -a /outputs/tmp/resting_preproc_sub-018_ses-1/carpet_seg_0/_scan_matching_run-1/gm_resample/avg152T1_gray_bin_resample.nii -expr "astep(a, 0.5)" -prefix avg152T1_gray_bin_resample_calc.nii
201113-08:48:10,924 nipype.interface INFO:
stderr 2020-11-13T08:48:10.924697:++ 3dcalc: AFNI version=AFNI_20.2.19 (Sep 27 2020) [64-bit]
201113-08:48:10,925 nipype.interface INFO:
stderr 2020-11-13T08:48:10.925065:++ Authored by: A cast of thousands
201113-08:48:11,43 nipype.interface INFO:
stderr 2020-11-13T08:48:11.043335:++ Output dataset ./avg152T1_gray_bin_resample_calc.nii
201113-08:48:11,212 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.carpet_seg_0.gm_mask".
201113-08:48:11,214 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.carpet_seg_0.carpet_plot" in "/outputs/tmp/resting_preproc_sub-018_ses-1/carpet_seg_0/_scan_matching_run-1/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/carpet_plot".
201113-08:48:11,221 nipype.workflow INFO:
[Node] Running "carpet_plot" ("CPAC.utils.interfaces.function.Function")
201113-08:48:15,707 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.carpet_seg_0.carpet_plot".
201113-08:48:15,709 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.sinker_0_qc___carpet" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_matching_run-1/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/sinker_0_qc___carpet".
201113-08:48:15,716 nipype.workflow INFO:
[Node] Running "sinker_0_qc___carpet" ("CPAC.utils.interfaces.datasink.DataSink")
201113-08:48:15,928 nipype.interface INFO:
sub: /outputs/output/pipeline_cpac_fmriprep-options/sub-018_ses-1/qc___carpet/_scan_matching_run-1/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/carpet_seg.png -> /outputs/output/pipeline_cpac_fmriprep-options/sub-018_ses-1/qc/carpet/_scan_matching_run-1/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/carpet_seg.png
201113-08:48:15,946 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.sinker_0_qc___carpet".
201113-08:48:15,947 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.sinker_0_mean_functional_to_standard" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_matching_run-1/sinker_0_mean_functional_to_standard".
201113-08:48:15,955 nipype.workflow INFO:
[Node] Running "sinker_0_mean_functional_to_standard" ("CPAC.utils.interfaces.datasink.DataSink")
201113-08:48:16,186 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.sinker_0_mean_functional_to_standard".
201113-08:48:16,188 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.apply_ants_warp_functional_brain_mask_to_standard_derivative__t1_0" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_matching_run-1/apply_ants_warp_functional_brain_mask_to_standard_derivative__t1_0".
201113-08:48:16,199 nipype.workflow INFO:
[Node] Running "apply_ants_warp_functional_brain_mask_to_standard_derivative__t1_0" ("nipype.interfaces.ants.resampling.ApplyTransforms"), a CommandLine Interface with command:
antsApplyTransforms --default-value 0 --dimensionality 3 --float 0 --input /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/func_preproc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_matching_run-1/combine_masks/sub-018_ses-1_task-matching_run-1_bold_calc_despike_tshift_resample_mcf_tstat_brain_mask_maths.nii.gz --input-image-type 0 --interpolation NearestNeighbor --output sub-018_ses-1_task-matching_run-1_bold_calc_despike_tshift_resample_mcf_tstat_brain_mask_maths_antswarp.nii.gz --reference-image /outputs/tmp/resting_preproc_sub-018_ses-1/resampled_template_skull_for_func_derivative/template_skull_for_func_derivative/tpl-MNI152NLin2009cAsym_res-02_T1w_reference_resample.nii.gz --transform /outputs/tmp/resting_preproc_sub-018_ses-1/anat_mni_ants_register_0/calc_ants_warp/transform1Warp.nii.gz --transform /outputs/tmp/resting_preproc_sub-018_ses-1/anat_mni_ants_register_0/calc_ants_warp/transform0GenericAffine.mat --transform /outputs/tmp/resting_preproc_sub-018_ses-1/_scan_matching_run-1/change_transform_type_0/updated_affine.txt
201113-08:48:18,684 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.apply_ants_warp_functional_brain_mask_to_standard_derivative__t1_0".
201113-08:48:18,687 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.apply_ants_warp_functional_brain_mask_to_standard__t1_0" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_matching_run-1/apply_ants_warp_functional_brain_mask_to_standard__t1_0".
201113-08:48:18,695 nipype.workflow INFO:
[Node] Running "apply_ants_warp_functional_brain_mask_to_standard__t1_0" ("nipype.interfaces.ants.resampling.ApplyTransforms"), a CommandLine Interface with command:
antsApplyTransforms --default-value 0 --dimensionality 3 --float 0 --input /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/func_preproc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_matching_run-1/combine_masks/sub-018_ses-1_task-matching_run-1_bold_calc_despike_tshift_resample_mcf_tstat_brain_mask_maths.nii.gz --input-image-type 0 --interpolation NearestNeighbor --output sub-018_ses-1_task-matching_run-1_bold_calc_despike_tshift_resample_mcf_tstat_brain_mask_maths_antswarp.nii.gz --reference-image /outputs/tmp/resting_preproc_sub-018_ses-1/resampled_template_skull_for_func_preproc/template_skull_for_func_preproc/tpl-MNI152NLin2009cAsym_res-02_T1w_reference_resample.nii.gz --transform /outputs/tmp/resting_preproc_sub-018_ses-1/anat_mni_ants_register_0/calc_ants_warp/transform1Warp.nii.gz --transform /outputs/tmp/resting_preproc_sub-018_ses-1/anat_mni_ants_register_0/calc_ants_warp/transform0GenericAffine.mat --transform /outputs/tmp/resting_preproc_sub-018_ses-1/_scan_matching_run-1/change_transform_type_0/updated_affine.txt
201113-08:48:21,167 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.apply_ants_warp_functional_brain_mask_to_standard__t1_0".
201113-08:48:21,169 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.sinker_0_functional_brain_mask_to_standard" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_matching_run-1/sinker_0_functional_brain_mask_to_standard".
201113-08:48:21,177 nipype.workflow INFO:
[Node] Running "sinker_0_functional_brain_mask_to_standard" ("CPAC.utils.interfaces.datasink.DataSink")
201113-08:48:21,408 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.sinker_0_functional_brain_mask_to_standard".
201113-08:48:21,410 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.inverse_transform_flags_functional_brain_mask_to_standard__t1_0" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_matching_run-1/inverse_transform_flags_functional_brain_mask_to_standard__t1_0".
201113-08:48:21,417 nipype.workflow INFO:
[Node] Running "inverse_transform_flags_functional_brain_mask_to_standard__t1_0" ("nipype.interfaces.utility.wrappers.Function")
201113-08:48:21,646 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.inverse_transform_flags_functional_brain_mask_to_standard__t1_0".
201113-08:48:21,647 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.collect_transforms_functional_brain_mask_to_standard__t1_0" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_conditioning_run-1/collect_transforms_functional_brain_mask_to_standard__t1_0".
201113-08:48:21,676 nipype.workflow INFO:
[Node] Running "collect_transforms_functional_brain_mask_to_standard__t1_0" ("nipype.interfaces.utility.base.Merge")
201113-08:48:21,906 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.collect_transforms_functional_brain_mask_to_standard__t1_0".
201113-08:48:21,908 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.check_transformsfunctional_brain_mask_to_standard__t1_0" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_conditioning_run-1/check_transformsfunctional_brain_mask_to_standard__t1_0".
201113-08:48:21,912 nipype.workflow INFO:
[Node] Running "check_transformsfunctional_brain_mask_to_standard__t1_0" ("nipype.interfaces.utility.wrappers.Function")
201113-08:48:22,148 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.check_transformsfunctional_brain_mask_to_standard__t1_0".
201113-08:48:22,150 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.write_composite_xfm_functional_to_standard__t1_0" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_conditioning_run-1/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/write_composite_xfm_functional_to_standard__t1_0".
201113-08:48:22,182 nipype.workflow INFO:
[Node] Running "write_composite_xfm_functional_to_standard__t1_0" ("nipype.interfaces.ants.resampling.ApplyTransforms"), a CommandLine Interface with command:
antsApplyTransforms --default-value 0 --dimensionality 3 --float 0 --input /outputs/tmp/resting_preproc_sub-018_ses-1/nuisance_regression_after-filt_0_0/_scan_conditioning_run-1/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/nuisance_regression/residuals.nii.gz --input-image-type 3 --interpolation LanczosWindowedSinc --output [ func_to_standard_xfm.nii.gz, 1 ] --reference-image /usr/share/fsl/5.0/data/standard/MNI152_T1_2mm_brain.nii.gz --transform /outputs/tmp/resting_preproc_sub-018_ses-1/anat_mni_ants_register_0/calc_ants_warp/transform1Warp.nii.gz --transform /outputs/tmp/resting_preproc_sub-018_ses-1/anat_mni_ants_register_0/calc_ants_warp/transform0GenericAffine.mat --transform /outputs/tmp/resting_preproc_sub-018_ses-1/_scan_conditioning_run-1/change_transform_type_0/updated_affine.txt
201113-09:01:45,204 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.write_composite_xfm_functional_to_standard__t1_0".
201113-09:01:45,207 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.sinker_0_functional_to_standard_xfm" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_conditioning_run-1/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/sinker_0_functional_to_standard_xfm".
201113-09:01:45,216 nipype.workflow INFO:
[Node] Running "sinker_0_functional_to_standard_xfm" ("CPAC.utils.interfaces.datasink.DataSink")
201113-09:01:45,446 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.sinker_0_functional_to_standard_xfm".
201113-09:01:45,448 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.apply_ants_warp_functional_to_standard__t1_0" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_conditioning_run-1/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/apply_ants_warp_functional_to_standard__t1_0".
201113-09:01:45,456 nipype.workflow INFO:
[Node] Running "apply_ants_warp_functional_to_standard__t1_0" ("nipype.interfaces.ants.resampling.ApplyTransforms"), a CommandLine Interface with command:
antsApplyTransforms --default-value 0 --dimensionality 3 --float 0 --input /outputs/tmp/resting_preproc_sub-018_ses-1/nuisance_regression_after-filt_0_0/_scan_conditioning_run-1/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/nuisance_regression/residuals.nii.gz --input-image-type 3 --interpolation LanczosWindowedSinc --output residuals_antswarp.nii.gz --reference-image /usr/share/fsl/5.0/data/standard/MNI152_T1_2mm_brain.nii.gz --transform /outputs/tmp/resting_preproc_sub-018_ses-1/anat_mni_ants_register_0/calc_ants_warp/transform1Warp.nii.gz --transform /outputs/tmp/resting_preproc_sub-018_ses-1/anat_mni_ants_register_0/calc_ants_warp/transform0GenericAffine.mat --transform /outputs/tmp/resting_preproc_sub-018_ses-1/_scan_conditioning_run-1/change_transform_type_0/updated_affine.txt
201113-09:15:27,799 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.apply_ants_warp_functional_to_standard__t1_0".
201113-09:15:27,801 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.resample_functional_roi_0" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_conditioning_run-1/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/_mask_Yeo-7_space-MNI152NLin6_res-1x1x1_mask_file_..ndmg_atlases..label..Human..Yeo-7_space-MNI152NLin6_res-1x1x1.nii.gz/resample_functional_roi_0".
201113-09:15:27,818 nipype.workflow INFO:
[Node] Running "resample_functional_roi_0" ("CPAC.utils.interfaces.function.Function")
201113-09:15:28,290 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.resample_functional_roi_0".
201113-09:15:28,291 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.roi_timeseries_0.3dROIstats" in "/outputs/tmp/resting_preproc_sub-018_ses-1/roi_timeseries_0/_scan_conditioning_run-1/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/_mask_Yeo-7_space-MNI152NLin6_res-1x1x1_mask_file_..ndmg_atlases..label..Human..Yeo-7_space-MNI152NLin6_res-1x1x1.nii.gz/3dROIstats".
201113-09:15:28,298 nipype.workflow INFO:
[Node] Running "3dROIstats" ("nipype.interfaces.afni.preprocess.ROIStats"), a CommandLine Interface with command:
3dROIstats -mask /outputs/tmp/resting_preproc_sub-018_ses-1/_scan_conditioning_run-1/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/_mask_Yeo-7_space-MNI152NLin6_res-1x1x1_mask_file_..ndmg_atlases..label..Human..Yeo-7_space-MNI152NLin6_res-1x1x1.nii.gz/resample_functional_roi_0/Yeo-7_space-MNI152NLin6_res-1x1x1_resampled.nii.gz -1Dformat /outputs/tmp/resting_preproc_sub-018_ses-1/_scan_conditioning_run-1/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/apply_ants_warp_functional_to_standard__t1_0/residuals_antswarp.nii.gz
201113-09:15:35,55 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.roi_timeseries_0.3dROIstats".
201113-09:15:35,56 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.roi_timeseries_0.clean_roi_csv" in "/outputs/tmp/resting_preproc_sub-018_ses-1/roi_timeseries_0/_scan_conditioning_run-1/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/_mask_Yeo-7_space-MNI152NLin6_res-1x1x1_mask_file_..ndmg_atlases..label..Human..Yeo-7_space-MNI152NLin6_res-1x1x1.nii.gz/clean_roi_csv".
201113-09:15:35,60 nipype.workflow INFO:
[Node] Running "clean_roi_csv" ("nipype.interfaces.utility.wrappers.Function")
201113-09:15:35,293 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.roi_timeseries_0.clean_roi_csv".
201113-09:15:35,295 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.ndmg_graphs_0" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_conditioning_run-1/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/_mask_Yeo-7_space-MNI152NLin6_res-1x1x1_mask_file_..ndmg_atlases..label..Human..Yeo-7_space-MNI152NLin6_res-1x1x1.nii.gz/ndmg_graphs_0".
201113-09:15:35,304 nipype.workflow INFO:
[Node] Setting-up "_ndmg_graphs_00" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_conditioning_run-1/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/_mask_Yeo-7_space-MNI152NLin6_res-1x1x1_mask_file_..ndmg_atlases..label..Human..Yeo-7_space-MNI152NLin6_res-1x1x1.nii.gz/ndmg_graphs_0/mapflow/_ndmg_graphs_00".
201113-09:15:35,311 nipype.workflow INFO:
[Node] Running "_ndmg_graphs_00" ("CPAC.utils.interfaces.function.Function")
Estimating correlation matrix for 7 ROIs...
201113-09:15:35,829 nipype.workflow INFO:
[Node] Finished "_ndmg_graphs_00".
201113-09:15:35,833 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.ndmg_graphs_0".
201113-09:15:35,833 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.sinker_0_ndmg_graph" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_conditioning_run-1/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/_mask_Yeo-7_space-MNI152NLin6_res-1x1x1_mask_file_..ndmg_atlases..label..Human..Yeo-7_space-MNI152NLin6_res-1x1x1.nii.gz/sinker_0_ndmg_graph".
201113-09:15:35,841 nipype.workflow INFO:
[Node] Running "sinker_0_ndmg_graph" ("CPAC.utils.interfaces.datasink.DataSink")
201113-09:15:36,70 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.sinker_0_ndmg_graph".
201113-09:15:36,71 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.roi_timeseries_0.write_roi_npz" in "/outputs/tmp/resting_preproc_sub-018_ses-1/roi_timeseries_0/_scan_conditioning_run-1/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/_mask_Yeo-7_space-MNI152NLin6_res-1x1x1_mask_file_..ndmg_atlases..label..Human..Yeo-7_space-MNI152NLin6_res-1x1x1.nii.gz/write_roi_npz".
201113-09:15:36,76 nipype.workflow INFO:
[Node] Running "write_roi_npz" ("nipype.interfaces.utility.wrappers.Function")
201113-09:15:36,308 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.roi_timeseries_0.write_roi_npz".
201113-09:15:36,310 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.sinker_0_roi_timeseries" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_conditioning_run-1/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/_mask_Yeo-7_space-MNI152NLin6_res-1x1x1_mask_file_..ndmg_atlases..label..Human..Yeo-7_space-MNI152NLin6_res-1x1x1.nii.gz/sinker_0_roi_timeseries".
201113-09:15:36,316 nipype.workflow INFO:
[Node] Running "sinker_0_roi_timeseries" ("CPAC.utils.interfaces.datasink.DataSink")
201113-09:15:36,546 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.sinker_0_roi_timeseries".
201113-09:15:36,548 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.resample_functional_roi_0" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_conditioning_run-1/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/_mask_Yeo-7-liberal_space-MNI152NLin6_res-1x1x1_mask_file_..ndmg_atlases..label..Human..Yeo-7-liberal_space-MNI152NLin6_res-1x1x1.nii.gz/resample_functional_roi_0".
201113-09:15:36,553 nipype.workflow INFO:
[Node] Running "resample_functional_roi_0" ("CPAC.utils.interfaces.function.Function")
201113-09:15:37,28 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.resample_functional_roi_0".
201113-09:15:37,29 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.roi_timeseries_0.3dROIstats" in "/outputs/tmp/resting_preproc_sub-018_ses-1/roi_timeseries_0/_scan_conditioning_run-1/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/_mask_Yeo-7-liberal_space-MNI152NLin6_res-1x1x1_mask_file_..ndmg_atlases..label..Human..Yeo-7-liberal_space-MNI152NLin6_res-1x1x1.nii.gz/3dROIstats".
201113-09:15:37,35 nipype.workflow INFO:
[Node] Running "3dROIstats" ("nipype.interfaces.afni.preprocess.ROIStats"), a CommandLine Interface with command:
3dROIstats -mask /outputs/tmp/resting_preproc_sub-018_ses-1/_scan_conditioning_run-1/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/_mask_Yeo-7-liberal_space-MNI152NLin6_res-1x1x1_mask_file_..ndmg_atlases..label..Human..Yeo-7-liberal_space-MNI152NLin6_res-1x1x1.nii.gz/resample_functional_roi_0/Yeo-7-liberal_space-MNI152NLin6_res-1x1x1_resampled.nii.gz -1Dformat /outputs/tmp/resting_preproc_sub-018_ses-1/_scan_conditioning_run-1/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/apply_ants_warp_functional_to_standard__t1_0/residuals_antswarp.nii.gz
201113-09:15:43,715 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.roi_timeseries_0.3dROIstats".
201113-09:15:43,716 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.roi_timeseries_0.clean_roi_csv" in "/outputs/tmp/resting_preproc_sub-018_ses-1/roi_timeseries_0/_scan_conditioning_run-1/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/_mask_Yeo-7-liberal_space-MNI152NLin6_res-1x1x1_mask_file_..ndmg_atlases..label..Human..Yeo-7-liberal_space-MNI152NLin6_res-1x1x1.nii.gz/clean_roi_csv".
201113-09:15:43,721 nipype.workflow INFO:
[Node] Running "clean_roi_csv" ("nipype.interfaces.utility.wrappers.Function")
201113-09:15:43,952 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.roi_timeseries_0.clean_roi_csv".
201113-09:15:43,954 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.ndmg_graphs_0" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_conditioning_run-1/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/_mask_Yeo-7-liberal_space-MNI152NLin6_res-1x1x1_mask_file_..ndmg_atlases..label..Human..Yeo-7-liberal_space-MNI152NLin6_res-1x1x1.nii.gz/ndmg_graphs_0".
201113-09:15:43,963 nipype.workflow INFO:
[Node] Setting-up "_ndmg_graphs_00" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_conditioning_run-1/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/_mask_Yeo-7-liberal_space-MNI152NLin6_res-1x1x1_mask_file_..ndmg_atlases..label..Human..Yeo-7-liberal_space-MNI152NLin6_res-1x1x1.nii.gz/ndmg_graphs_0/mapflow/_ndmg_graphs_00".
201113-09:15:43,970 nipype.workflow INFO:
[Node] Running "_ndmg_graphs_00" ("CPAC.utils.interfaces.function.Function")
Estimating correlation matrix for 7 ROIs...
201113-09:15:44,483 nipype.workflow INFO:
[Node] Finished "_ndmg_graphs_00".
201113-09:15:44,487 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.ndmg_graphs_0".
201113-09:15:44,487 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.sinker_0_ndmg_graph" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_conditioning_run-1/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/_mask_Yeo-7-liberal_space-MNI152NLin6_res-1x1x1_mask_file_..ndmg_atlases..label..Human..Yeo-7-liberal_space-MNI152NLin6_res-1x1x1.nii.gz/sinker_0_ndmg_graph".
201113-09:15:44,494 nipype.workflow INFO:
[Node] Running "sinker_0_ndmg_graph" ("CPAC.utils.interfaces.datasink.DataSink")
201113-09:15:44,726 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.sinker_0_ndmg_graph".
201113-09:15:44,728 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.roi_timeseries_0.write_roi_npz" in "/outputs/tmp/resting_preproc_sub-018_ses-1/roi_timeseries_0/_scan_conditioning_run-1/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/_mask_Yeo-7-liberal_space-MNI152NLin6_res-1x1x1_mask_file_..ndmg_atlases..label..Human..Yeo-7-liberal_space-MNI152NLin6_res-1x1x1.nii.gz/write_roi_npz".
201113-09:15:44,733 nipype.workflow INFO:
[Node] Running "write_roi_npz" ("nipype.interfaces.utility.wrappers.Function")
201113-09:15:44,966 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.roi_timeseries_0.write_roi_npz".
201113-09:15:44,968 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.sinker_0_roi_timeseries" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_conditioning_run-1/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/_mask_Yeo-7-liberal_space-MNI152NLin6_res-1x1x1_mask_file_..ndmg_atlases..label..Human..Yeo-7-liberal_space-MNI152NLin6_res-1x1x1.nii.gz/sinker_0_roi_timeseries".
201113-09:15:44,975 nipype.workflow INFO:
[Node] Running "sinker_0_roi_timeseries" ("CPAC.utils.interfaces.datasink.DataSink")
201113-09:15:45,207 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.sinker_0_roi_timeseries".
201113-09:15:45,209 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.sinker_0_functional_to_standard" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_conditioning_run-1/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/sinker_0_functional_to_standard".
201113-09:15:45,217 nipype.workflow INFO:
[Node] Running "sinker_0_functional_to_standard" ("CPAC.utils.interfaces.datasink.DataSink")
201113-09:15:45,448 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.sinker_0_functional_to_standard".
201113-09:15:45,449 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.apply_ants_warp_functional_freq_filtered_to_standard__t1_0" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_conditioning_run-1/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/apply_ants_warp_functional_freq_filtered_to_standard__t1_0".
201113-09:15:45,483 nipype.workflow INFO:
[Node] Running "apply_ants_warp_functional_freq_filtered_to_standard__t1_0" ("nipype.interfaces.ants.resampling.ApplyTransforms"), a CommandLine Interface with command:
antsApplyTransforms --default-value 0 --dimensionality 3 --float 0 --input /outputs/tmp/resting_preproc_sub-018_ses-1/frequency_filtering_0_0/_scan_conditioning_run-1/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/frequency_filter/bandpassed_demeaned_filtered.nii.gz --input-image-type 0 --interpolation LanczosWindowedSinc --output bandpassed_demeaned_filtered_antswarp.nii.gz --reference-image /usr/share/fsl/5.0/data/standard/MNI152_T1_2mm_brain.nii.gz --transform /outputs/tmp/resting_preproc_sub-018_ses-1/anat_mni_ants_register_0/calc_ants_warp/transform1Warp.nii.gz --transform /outputs/tmp/resting_preproc_sub-018_ses-1/anat_mni_ants_register_0/calc_ants_warp/transform0GenericAffine.mat --transform /outputs/tmp/resting_preproc_sub-018_ses-1/_scan_conditioning_run-1/change_transform_type_0/updated_affine.txt
201113-09:15:48,221 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.apply_ants_warp_functional_freq_filtered_to_standard__t1_0".
201113-09:15:48,223 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.apply_ants_warp_functional_nuisance_residuals_to_standard__t1_0" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_conditioning_run-1/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/apply_ants_warp_functional_nuisance_residuals_to_standard__t1_0".
201113-09:15:48,230 nipype.workflow INFO:
[Node] Running "apply_ants_warp_functional_nuisance_residuals_to_standard__t1_0" ("nipype.interfaces.ants.resampling.ApplyTransforms"), a CommandLine Interface with command:
antsApplyTransforms --default-value 0 --dimensionality 3 --float 0 --input /outputs/tmp/resting_preproc_sub-018_ses-1/nuisance_regression_after-filt_0_0/_scan_conditioning_run-1/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/nuisance_regression/residuals.nii.gz --input-image-type 0 --interpolation LanczosWindowedSinc --output residuals_antswarp.nii.gz --reference-image /usr/share/fsl/5.0/data/standard/MNI152_T1_2mm_brain.nii.gz --transform /outputs/tmp/resting_preproc_sub-018_ses-1/anat_mni_ants_register_0/calc_ants_warp/transform1Warp.nii.gz --transform /outputs/tmp/resting_preproc_sub-018_ses-1/anat_mni_ants_register_0/calc_ants_warp/transform0GenericAffine.mat --transform /outputs/tmp/resting_preproc_sub-018_ses-1/_scan_conditioning_run-1/change_transform_type_0/updated_affine.txt
201113-09:15:50,895 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.apply_ants_warp_functional_nuisance_residuals_to_standard__t1_0".
201113-09:15:50,897 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.apply_ants_warp_motion_correct_to_standard__t1_0" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_conditioning_run-1/apply_ants_warp_motion_correct_to_standard__t1_0".
201113-09:15:51,44 nipype.workflow INFO:
[Node] Running "apply_ants_warp_motion_correct_to_standard__t1_0" ("nipype.interfaces.ants.resampling.ApplyTransforms"), a CommandLine Interface with command:
antsApplyTransforms --default-value 0 --dimensionality 3 --float 0 --input /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/_scan_conditioning_run-1/func_motion_correct_mcflirt/sub-018_ses-1_task-conditioning_run-1_bold_calc_despike_tshift_resample_mcf.nii.gz --input-image-type 3 --interpolation LanczosWindowedSinc --output sub-018_ses-1_task-conditioning_run-1_bold_calc_despike_tshift_resample_mcf_antswarp.nii.gz --reference-image /usr/share/fsl/5.0/data/standard/MNI152_T1_2mm_brain.nii.gz --transform /outputs/tmp/resting_preproc_sub-018_ses-1/anat_mni_ants_register_0/calc_ants_warp/transform1Warp.nii.gz --transform /outputs/tmp/resting_preproc_sub-018_ses-1/anat_mni_ants_register_0/calc_ants_warp/transform0GenericAffine.mat --transform /outputs/tmp/resting_preproc_sub-018_ses-1/_scan_conditioning_run-1/change_transform_type_0/updated_affine.txt
201113-09:29:44,569 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.apply_ants_warp_motion_correct_to_standard__t1_0".
201113-09:29:44,572 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.sinker_0_motion_correct_to_standard" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_conditioning_run-1/sinker_0_motion_correct_to_standard".
201113-09:29:44,581 nipype.workflow INFO:
[Node] Running "sinker_0_motion_correct_to_standard" ("CPAC.utils.interfaces.datasink.DataSink")
201113-09:29:44,807 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.sinker_0_motion_correct_to_standard".
201113-09:29:44,808 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.apply_ants_warp_mean_functional_to_standard_derivative__t1_0" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_conditioning_run-1/apply_ants_warp_mean_functional_to_standard_derivative__t1_0".
201113-09:29:44,833 nipype.workflow INFO:
[Node] Running "apply_ants_warp_mean_functional_to_standard_derivative__t1_0" ("nipype.interfaces.ants.resampling.ApplyTransforms"), a CommandLine Interface with command:
antsApplyTransforms --default-value 0 --dimensionality 3 --float 0 --input /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/_scan_conditioning_run-1/func_mean/sub-018_ses-1_task-conditioning_run-1_bold_calc_despike_tshift_resample_mcf_calc_tstat.nii.gz --input-image-type 0 --interpolation LanczosWindowedSinc --output sub-018_ses-1_task-conditioning_run-1_bold_calc_despike_tshift_resample_mcf_calc_tstat_antswarp.nii.gz --reference-image /usr/share/fsl/5.0/data/standard/MNI152_T1_2mm_brain.nii.gz --transform /outputs/tmp/resting_preproc_sub-018_ses-1/anat_mni_ants_register_0/calc_ants_warp/transform1Warp.nii.gz --transform /outputs/tmp/resting_preproc_sub-018_ses-1/anat_mni_ants_register_0/calc_ants_warp/transform0GenericAffine.mat --transform /outputs/tmp/resting_preproc_sub-018_ses-1/_scan_conditioning_run-1/change_transform_type_0/updated_affine.txt
201113-09:29:52,394 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.apply_ants_warp_mean_functional_to_standard_derivative__t1_0".
201113-09:29:52,397 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.apply_ants_warp_mean_functional_to_standard__t1_0" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_conditioning_run-1/apply_ants_warp_mean_functional_to_standard__t1_0".
201113-09:29:52,405 nipype.workflow INFO:
[Node] Running "apply_ants_warp_mean_functional_to_standard__t1_0" ("nipype.interfaces.ants.resampling.ApplyTransforms"), a CommandLine Interface with command:
antsApplyTransforms --default-value 0 --dimensionality 3 --float 0 --input /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/_scan_conditioning_run-1/func_mean/sub-018_ses-1_task-conditioning_run-1_bold_calc_despike_tshift_resample_mcf_calc_tstat.nii.gz --input-image-type 0 --interpolation LanczosWindowedSinc --output sub-018_ses-1_task-conditioning_run-1_bold_calc_despike_tshift_resample_mcf_calc_tstat_antswarp.nii.gz --reference-image /usr/share/fsl/5.0/data/standard/MNI152_T1_2mm_brain.nii.gz --transform /outputs/tmp/resting_preproc_sub-018_ses-1/anat_mni_ants_register_0/calc_ants_warp/transform1Warp.nii.gz --transform /outputs/tmp/resting_preproc_sub-018_ses-1/anat_mni_ants_register_0/calc_ants_warp/transform0GenericAffine.mat --transform /outputs/tmp/resting_preproc_sub-018_ses-1/_scan_conditioning_run-1/change_transform_type_0/updated_affine.txt
201113-09:29:59,923 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.apply_ants_warp_mean_functional_to_standard__t1_0".
201113-09:29:59,925 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.montage_mfi_0.resample_u" in "/outputs/tmp/resting_preproc_sub-018_ses-1/montage_mfi_0/_scan_conditioning_run-1/resample_u".
201113-09:29:59,930 nipype.workflow INFO:
[Node] Running "resample_u" ("CPAC.utils.interfaces.function.Function")
201113-09:30:00,669 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.montage_mfi_0.resample_u".
201113-09:30:00,670 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.montage_mfi_0.montage_s" in "/outputs/tmp/resting_preproc_sub-018_ses-1/montage_mfi_0/_scan_conditioning_run-1/montage_s".
201113-09:30:00,677 nipype.workflow INFO:
[Node] Setting-up "_montage_s0" in "/outputs/tmp/resting_preproc_sub-018_ses-1/montage_mfi_0/_scan_conditioning_run-1/montage_s/mapflow/_montage_s0".
201113-09:30:00,681 nipype.workflow INFO:
[Node] Running "_montage_s0" ("CPAC.utils.interfaces.function.Function")
201113-09:30:02,460 nipype.workflow INFO:
[Node] Finished "_montage_s0".
201113-09:30:02,463 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.montage_mfi_0.montage_s".
201113-09:30:02,463 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.sinker_0_qc___mean_func_with_mni_edge_s" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_conditioning_run-1/sinker_0_qc___mean_func_with_mni_edge_s".
201113-09:30:02,471 nipype.workflow INFO:
[Node] Running "sinker_0_qc___mean_func_with_mni_edge_s" ("CPAC.utils.interfaces.datasink.DataSink")
201113-09:30:02,680 nipype.interface INFO:
sub: /outputs/output/pipeline_cpac_fmriprep-options/sub-018_ses-1/qc___mean_func_with_mni_edge_s/_scan_conditioning_run-1/_montage_s0/MNI_edge_on_mean_func_mni_s.png -> /outputs/output/pipeline_cpac_fmriprep-options/sub-018_ses-1/qc/mean_func_with_mni_edge_s/_scan_conditioning_run-1/_montage_s0/MNI_edge_on_mean_func_mni_s.png
201113-09:30:02,697 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.sinker_0_qc___mean_func_with_mni_edge_s".
201113-09:30:02,699 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.montage_mfi_0.montage_a" in "/outputs/tmp/resting_preproc_sub-018_ses-1/montage_mfi_0/_scan_conditioning_run-1/montage_a".
201113-09:30:02,706 nipype.workflow INFO:
[Node] Setting-up "_montage_a0" in "/outputs/tmp/resting_preproc_sub-018_ses-1/montage_mfi_0/_scan_conditioning_run-1/montage_a/mapflow/_montage_a0".
201113-09:30:02,711 nipype.workflow INFO:
[Node] Running "_montage_a0" ("CPAC.utils.interfaces.function.Function")
201113-09:30:04,715 nipype.workflow INFO:
[Node] Finished "_montage_a0".
201113-09:30:04,718 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.montage_mfi_0.montage_a".
201113-09:30:04,719 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.sinker_0_qc___mean_func_with_mni_edge_a" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_conditioning_run-1/sinker_0_qc___mean_func_with_mni_edge_a".
201113-09:30:04,726 nipype.workflow INFO:
[Node] Running "sinker_0_qc___mean_func_with_mni_edge_a" ("CPAC.utils.interfaces.datasink.DataSink")
201113-09:30:04,937 nipype.interface INFO:
sub: /outputs/output/pipeline_cpac_fmriprep-options/sub-018_ses-1/qc___mean_func_with_mni_edge_a/_scan_conditioning_run-1/_montage_a0/MNI_edge_on_mean_func_mni_a.png -> /outputs/output/pipeline_cpac_fmriprep-options/sub-018_ses-1/qc/mean_func_with_mni_edge_a/_scan_conditioning_run-1/_montage_a0/MNI_edge_on_mean_func_mni_a.png
201113-09:30:04,954 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.sinker_0_qc___mean_func_with_mni_edge_a".
201113-09:30:04,955 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.carpet_seg_0.csf_resample" in "/outputs/tmp/resting_preproc_sub-018_ses-1/carpet_seg_0/_scan_conditioning_run-1/csf_resample".
201113-09:30:04,962 nipype.workflow INFO:
[Node] Running "csf_resample" ("nipype.interfaces.afni.utils.Resample"), a CommandLine Interface with command:
3dresample -master /outputs/tmp/resting_preproc_sub-018_ses-1/_scan_conditioning_run-1/apply_ants_warp_mean_functional_to_standard__t1_0/sub-018_ses-1_task-conditioning_run-1_bold_calc_despike_tshift_resample_mcf_calc_tstat_antswarp.nii.gz -prefix avg152T1_csf_bin_resample.nii -inset /outputs/tmp/resting_preproc_sub-018_ses-1/carpet_seg_0/_scan_conditioning_run-1/csf_resample/avg152T1_csf_bin.nii.gz
201113-09:30:05,234 nipype.interface INFO:
stderr 2020-11-13T09:30:05.234058:** AFNI converts NIFTI_datatype=64 (FLOAT64) in file /outputs/tmp/resting_preproc_sub-018_ses-1/_scan_conditioning_run-1/apply_ants_warp_mean_functional_to_standard__t1_0/sub-018_ses-1_task-conditioning_run-1_bold_calc_despike_tshift_resample_mcf_calc_tstat_antswarp.nii.gz to FLOAT32
201113-09:30:05,234 nipype.interface INFO:
stderr 2020-11-13T09:30:05.234857: Warnings of this type will be muted for this session.
201113-09:30:05,235 nipype.interface INFO:
stderr 2020-11-13T09:30:05.234857: Set AFNI_NIFTI_TYPE_WARN to YES to see them all, NO to see none.
201113-09:30:05,482 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.carpet_seg_0.csf_resample".
201113-09:30:05,483 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.carpet_seg_0.csf_mask" in "/outputs/tmp/resting_preproc_sub-018_ses-1/carpet_seg_0/_scan_conditioning_run-1/csf_mask".
201113-09:30:05,489 nipype.workflow INFO:
[Node] Running "csf_mask" ("nipype.interfaces.afni.utils.Calc"), a CommandLine Interface with command:
3dcalc -a /outputs/tmp/resting_preproc_sub-018_ses-1/carpet_seg_0/_scan_conditioning_run-1/csf_resample/avg152T1_csf_bin_resample.nii -expr "astep(a, 0.5)" -prefix avg152T1_csf_bin_resample_calc.nii
201113-09:30:05,740 nipype.interface INFO:
stderr 2020-11-13T09:30:05.740416:++ 3dcalc: AFNI version=AFNI_20.2.19 (Sep 27 2020) [64-bit]
201113-09:30:05,740 nipype.interface INFO:
stderr 2020-11-13T09:30:05.740782:++ Authored by: A cast of thousands
201113-09:30:05,837 nipype.interface INFO:
stderr 2020-11-13T09:30:05.837760:++ Output dataset ./avg152T1_csf_bin_resample_calc.nii
201113-09:30:06,16 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.carpet_seg_0.csf_mask".
201113-09:30:06,17 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.carpet_seg_0.wm_resample" in "/outputs/tmp/resting_preproc_sub-018_ses-1/carpet_seg_0/_scan_conditioning_run-1/wm_resample".
201113-09:30:06,25 nipype.workflow INFO:
[Node] Running "wm_resample" ("nipype.interfaces.afni.utils.Resample"), a CommandLine Interface with command:
3dresample -master /outputs/tmp/resting_preproc_sub-018_ses-1/_scan_conditioning_run-1/apply_ants_warp_mean_functional_to_standard__t1_0/sub-018_ses-1_task-conditioning_run-1_bold_calc_despike_tshift_resample_mcf_calc_tstat_antswarp.nii.gz -prefix avg152T1_white_bin_resample.nii -inset /outputs/tmp/resting_preproc_sub-018_ses-1/carpet_seg_0/_scan_conditioning_run-1/wm_resample/avg152T1_white_bin.nii.gz
201113-09:30:06,279 nipype.interface INFO:
stderr 2020-11-13T09:30:06.279079:** AFNI converts NIFTI_datatype=64 (FLOAT64) in file /outputs/tmp/resting_preproc_sub-018_ses-1/_scan_conditioning_run-1/apply_ants_warp_mean_functional_to_standard__t1_0/sub-018_ses-1_task-conditioning_run-1_bold_calc_despike_tshift_resample_mcf_calc_tstat_antswarp.nii.gz to FLOAT32
201113-09:30:06,279 nipype.interface INFO:
stderr 2020-11-13T09:30:06.279454: Warnings of this type will be muted for this session.
201113-09:30:06,279 nipype.interface INFO:
stderr 2020-11-13T09:30:06.279454: Set AFNI_NIFTI_TYPE_WARN to YES to see them all, NO to see none.
201113-09:30:06,537 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.carpet_seg_0.wm_resample".
201113-09:30:06,538 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.carpet_seg_0.wm_mask" in "/outputs/tmp/resting_preproc_sub-018_ses-1/carpet_seg_0/_scan_conditioning_run-1/wm_mask".
201113-09:30:06,543 nipype.workflow INFO:
[Node] Running "wm_mask" ("nipype.interfaces.afni.utils.Calc"), a CommandLine Interface with command:
3dcalc -a /outputs/tmp/resting_preproc_sub-018_ses-1/carpet_seg_0/_scan_conditioning_run-1/wm_resample/avg152T1_white_bin_resample.nii -expr "astep(a, 0.5)" -prefix avg152T1_white_bin_resample_calc.nii
201113-09:30:06,792 nipype.interface INFO:
stderr 2020-11-13T09:30:06.792920:++ 3dcalc: AFNI version=AFNI_20.2.19 (Sep 27 2020) [64-bit]
201113-09:30:06,793 nipype.interface INFO:
stderr 2020-11-13T09:30:06.793268:++ Authored by: A cast of thousands
201113-09:30:06,884 nipype.interface INFO:
stderr 2020-11-13T09:30:06.884868:++ Output dataset ./avg152T1_white_bin_resample_calc.nii
201113-09:30:07,49 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.carpet_seg_0.wm_mask".
201113-09:30:07,50 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.carpet_seg_0.gm_resample" in "/outputs/tmp/resting_preproc_sub-018_ses-1/carpet_seg_0/_scan_conditioning_run-1/gm_resample".
201113-09:30:07,57 nipype.workflow INFO:
[Node] Running "gm_resample" ("nipype.interfaces.afni.utils.Resample"), a CommandLine Interface with command:
3dresample -master /outputs/tmp/resting_preproc_sub-018_ses-1/_scan_conditioning_run-1/apply_ants_warp_mean_functional_to_standard__t1_0/sub-018_ses-1_task-conditioning_run-1_bold_calc_despike_tshift_resample_mcf_calc_tstat_antswarp.nii.gz -prefix avg152T1_gray_bin_resample.nii -inset /outputs/tmp/resting_preproc_sub-018_ses-1/carpet_seg_0/_scan_conditioning_run-1/gm_resample/avg152T1_gray_bin.nii.gz
201113-09:30:07,315 nipype.interface INFO:
stderr 2020-11-13T09:30:07.315031:** AFNI converts NIFTI_datatype=64 (FLOAT64) in file /outputs/tmp/resting_preproc_sub-018_ses-1/_scan_conditioning_run-1/apply_ants_warp_mean_functional_to_standard__t1_0/sub-018_ses-1_task-conditioning_run-1_bold_calc_despike_tshift_resample_mcf_calc_tstat_antswarp.nii.gz to FLOAT32
201113-09:30:07,315 nipype.interface INFO:
stderr 2020-11-13T09:30:07.315663: Warnings of this type will be muted for this session.
201113-09:30:07,315 nipype.interface INFO:
stderr 2020-11-13T09:30:07.315663: Set AFNI_NIFTI_TYPE_WARN to YES to see them all, NO to see none.
201113-09:30:07,522 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.carpet_seg_0.gm_resample".
201113-09:30:07,523 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.carpet_seg_0.gm_mask" in "/outputs/tmp/resting_preproc_sub-018_ses-1/carpet_seg_0/_scan_conditioning_run-1/gm_mask".
201113-09:30:07,530 nipype.workflow INFO:
[Node] Running "gm_mask" ("nipype.interfaces.afni.utils.Calc"), a CommandLine Interface with command:
3dcalc -a /outputs/tmp/resting_preproc_sub-018_ses-1/carpet_seg_0/_scan_conditioning_run-1/gm_resample/avg152T1_gray_bin_resample.nii -expr "astep(a, 0.5)" -prefix avg152T1_gray_bin_resample_calc.nii
201113-09:30:07,782 nipype.interface INFO:
stderr 2020-11-13T09:30:07.782778:++ 3dcalc: AFNI version=AFNI_20.2.19 (Sep 27 2020) [64-bit]
201113-09:30:07,783 nipype.interface INFO:
stderr 2020-11-13T09:30:07.783145:++ Authored by: A cast of thousands
201113-09:30:07,878 nipype.interface INFO:
stderr 2020-11-13T09:30:07.878124:++ Output dataset ./avg152T1_gray_bin_resample_calc.nii
201113-09:30:08,41 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.carpet_seg_0.gm_mask".
201113-09:30:08,42 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.carpet_seg_0.carpet_plot" in "/outputs/tmp/resting_preproc_sub-018_ses-1/carpet_seg_0/_scan_conditioning_run-1/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/carpet_plot".
201113-09:30:08,50 nipype.workflow INFO:
[Node] Running "carpet_plot" ("CPAC.utils.interfaces.function.Function")
201113-09:30:14,663 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.carpet_seg_0.carpet_plot".
201113-09:30:14,665 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.sinker_0_qc___carpet" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_conditioning_run-1/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/sinker_0_qc___carpet".
201113-09:30:14,672 nipype.workflow INFO:
[Node] Running "sinker_0_qc___carpet" ("CPAC.utils.interfaces.datasink.DataSink")
201113-09:30:14,886 nipype.interface INFO:
sub: /outputs/output/pipeline_cpac_fmriprep-options/sub-018_ses-1/qc___carpet/_scan_conditioning_run-1/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/carpet_seg.png -> /outputs/output/pipeline_cpac_fmriprep-options/sub-018_ses-1/qc/carpet/_scan_conditioning_run-1/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/carpet_seg.png
201113-09:30:14,905 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.sinker_0_qc___carpet".
201113-09:30:14,907 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.sinker_0_mean_functional_to_standard" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_conditioning_run-1/sinker_0_mean_functional_to_standard".
201113-09:30:14,914 nipype.workflow INFO:
[Node] Running "sinker_0_mean_functional_to_standard" ("CPAC.utils.interfaces.datasink.DataSink")
201113-09:30:15,147 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.sinker_0_mean_functional_to_standard".
201113-09:30:15,148 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.apply_ants_warp_functional_brain_mask_to_standard_derivative__t1_0" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_conditioning_run-1/apply_ants_warp_functional_brain_mask_to_standard_derivative__t1_0".
201113-09:30:15,181 nipype.workflow INFO:
[Node] Running "apply_ants_warp_functional_brain_mask_to_standard_derivative__t1_0" ("nipype.interfaces.ants.resampling.ApplyTransforms"), a CommandLine Interface with command:
antsApplyTransforms --default-value 0 --dimensionality 3 --float 0 --input /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/func_preproc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_conditioning_run-1/combine_masks/sub-018_ses-1_task-conditioning_run-1_bold_calc_despike_tshift_resample_mcf_tstat_brain_mask_maths.nii.gz --input-image-type 0 --interpolation NearestNeighbor --output sub-018_ses-1_task-conditioning_run-1_bold_calc_despike_tshift_resample_mcf_tstat_brain_mask_maths_antswarp.nii.gz --reference-image /outputs/tmp/resting_preproc_sub-018_ses-1/resampled_template_skull_for_func_derivative/template_skull_for_func_derivative/tpl-MNI152NLin2009cAsym_res-02_T1w_reference_resample.nii.gz --transform /outputs/tmp/resting_preproc_sub-018_ses-1/anat_mni_ants_register_0/calc_ants_warp/transform1Warp.nii.gz --transform /outputs/tmp/resting_preproc_sub-018_ses-1/anat_mni_ants_register_0/calc_ants_warp/transform0GenericAffine.mat --transform /outputs/tmp/resting_preproc_sub-018_ses-1/_scan_conditioning_run-1/change_transform_type_0/updated_affine.txt
201113-09:30:17,690 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.apply_ants_warp_functional_brain_mask_to_standard_derivative__t1_0".
201113-09:30:17,692 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.apply_ants_warp_functional_brain_mask_to_standard__t1_0" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_conditioning_run-1/apply_ants_warp_functional_brain_mask_to_standard__t1_0".
201113-09:30:17,701 nipype.workflow INFO:
[Node] Running "apply_ants_warp_functional_brain_mask_to_standard__t1_0" ("nipype.interfaces.ants.resampling.ApplyTransforms"), a CommandLine Interface with command:
antsApplyTransforms --default-value 0 --dimensionality 3 --float 0 --input /outputs/tmp/resting_preproc_sub-018_ses-1/func_preproc_fsl_afni_mean_mcflirt_0/func_preproc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_conditioning_run-1/combine_masks/sub-018_ses-1_task-conditioning_run-1_bold_calc_despike_tshift_resample_mcf_tstat_brain_mask_maths.nii.gz --input-image-type 0 --interpolation NearestNeighbor --output sub-018_ses-1_task-conditioning_run-1_bold_calc_despike_tshift_resample_mcf_tstat_brain_mask_maths_antswarp.nii.gz --reference-image /outputs/tmp/resting_preproc_sub-018_ses-1/resampled_template_skull_for_func_preproc/template_skull_for_func_preproc/tpl-MNI152NLin2009cAsym_res-02_T1w_reference_resample.nii.gz --transform /outputs/tmp/resting_preproc_sub-018_ses-1/anat_mni_ants_register_0/calc_ants_warp/transform1Warp.nii.gz --transform /outputs/tmp/resting_preproc_sub-018_ses-1/anat_mni_ants_register_0/calc_ants_warp/transform0GenericAffine.mat --transform /outputs/tmp/resting_preproc_sub-018_ses-1/_scan_conditioning_run-1/change_transform_type_0/updated_affine.txt
201113-09:30:20,169 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.apply_ants_warp_functional_brain_mask_to_standard__t1_0".
201113-09:30:20,171 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.sinker_0_functional_brain_mask_to_standard" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_conditioning_run-1/sinker_0_functional_brain_mask_to_standard".
201113-09:30:20,179 nipype.workflow INFO:
[Node] Running "sinker_0_functional_brain_mask_to_standard" ("CPAC.utils.interfaces.datasink.DataSink")
201113-09:30:20,406 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.sinker_0_functional_brain_mask_to_standard".
201113-09:30:20,408 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.inverse_transform_flags_functional_brain_mask_to_standard__t1_0" in "/outputs/tmp/resting_preproc_sub-018_ses-1/_scan_conditioning_run-1/inverse_transform_flags_functional_brain_mask_to_standard__t1_0".
201113-09:30:20,412 nipype.workflow INFO:
[Node] Running "inverse_transform_flags_functional_brain_mask_to_standard__t1_0" ("nipype.interfaces.utility.wrappers.Function")
201113-09:30:20,642 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.inverse_transform_flags_functional_brain_mask_to_standard__t1_0".
201113-09:30:20,643 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.seg_preproc_0.GM.GM_collect_linear_transforms" in "/outputs/tmp/resting_preproc_sub-018_ses-1/seg_preproc_0/GM/GM_collect_linear_transforms".
201113-09:30:20,651 nipype.workflow INFO:
[Node] Running "GM_collect_linear_transforms" ("nipype.interfaces.utility.base.Merge")
201113-09:30:20,877 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.seg_preproc_0.GM.GM_collect_linear_transforms".
201113-09:30:20,878 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.seg_preproc_0.GM.GM_check_transforms" in "/outputs/tmp/resting_preproc_sub-018_ses-1/seg_preproc_0/GM/GM_check_transforms".
201113-09:30:20,883 nipype.workflow INFO:
[Node] Running "GM_check_transforms" ("nipype.interfaces.utility.wrappers.Function")
201113-09:30:21,114 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.seg_preproc_0.GM.GM_check_transforms".
201113-09:30:21,116 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.seg_preproc_0.GM.GM_inverse_transform_flags" in "/outputs/tmp/resting_preproc_sub-018_ses-1/seg_preproc_0/GM/GM_inverse_transform_flags".
201113-09:30:21,120 nipype.workflow INFO:
[Node] Running "GM_inverse_transform_flags" ("nipype.interfaces.utility.wrappers.Function")
201113-09:30:21,349 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.seg_preproc_0.GM.GM_inverse_transform_flags".
201113-09:30:21,350 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.seg_preproc_0.GM.GM_prior_mni_to_t1" in "/outputs/tmp/resting_preproc_sub-018_ses-1/seg_preproc_0/GM/GM_prior_mni_to_t1".
201113-09:30:21,387 nipype.workflow INFO:
[Node] Running "GM_prior_mni_to_t1" ("nipype.interfaces.ants.resampling.ApplyTransforms"), a CommandLine Interface with command:
antsApplyTransforms --default-value 0 --float 0 --input /usr/share/fsl/5.0/data/standard/tissuepriors/2mm/avg152T1_gray_bin.nii.gz --interpolation NearestNeighbor --output avg152T1_gray_bin_trans.nii.gz --reference-image /outputs/tmp/resting_preproc_sub-018_ses-1/anat_preproc_niworkflows_ants_0/anat_preproc_niworkflows_ants_0_skullstrip/anat_skullstrip_ants/copy_xform/sub-018_ses-1_T1w_resample_corrected_masked_xform.nii.gz --transform [ /outputs/tmp/resting_preproc_sub-018_ses-1/anat_mni_ants_register_0/calc_ants_warp/transform0GenericAffine.mat, 1 ]
201113-09:30:22,823 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.seg_preproc_0.GM.GM_prior_mni_to_t1".
201113-09:30:22,825 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.seg_preproc_0.WM.WM_collect_linear_transforms" in "/outputs/tmp/resting_preproc_sub-018_ses-1/seg_preproc_0/WM/WM_collect_linear_transforms".
201113-09:30:22,832 nipype.workflow INFO:
[Node] Running "WM_collect_linear_transforms" ("nipype.interfaces.utility.base.Merge")
201113-09:30:23,62 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.seg_preproc_0.WM.WM_collect_linear_transforms".
201113-09:30:23,63 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.seg_preproc_0.WM.WM_check_transforms" in "/outputs/tmp/resting_preproc_sub-018_ses-1/seg_preproc_0/WM/WM_check_transforms".
201113-09:30:23,68 nipype.workflow INFO:
[Node] Running "WM_check_transforms" ("nipype.interfaces.utility.wrappers.Function")
201113-09:30:23,295 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.seg_preproc_0.WM.WM_check_transforms".
201113-09:30:23,296 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.seg_preproc_0.WM.WM_inverse_transform_flags" in "/outputs/tmp/resting_preproc_sub-018_ses-1/seg_preproc_0/WM/WM_inverse_transform_flags".
201113-09:30:23,300 nipype.workflow INFO:
[Node] Running "WM_inverse_transform_flags" ("nipype.interfaces.utility.wrappers.Function")
201113-09:30:23,527 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.seg_preproc_0.WM.WM_inverse_transform_flags".
201113-09:30:23,529 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.seg_preproc_0.WM.WM_prior_mni_to_t1" in "/outputs/tmp/resting_preproc_sub-018_ses-1/seg_preproc_0/WM/WM_prior_mni_to_t1".
201113-09:30:23,536 nipype.workflow INFO:
[Node] Running "WM_prior_mni_to_t1" ("nipype.interfaces.ants.resampling.ApplyTransforms"), a CommandLine Interface with command:
antsApplyTransforms --default-value 0 --float 0 --input /usr/share/fsl/5.0/data/standard/tissuepriors/2mm/avg152T1_white_bin.nii.gz --interpolation NearestNeighbor --output avg152T1_white_bin_trans.nii.gz --reference-image /outputs/tmp/resting_preproc_sub-018_ses-1/anat_preproc_niworkflows_ants_0/anat_preproc_niworkflows_ants_0_skullstrip/anat_skullstrip_ants/copy_xform/sub-018_ses-1_T1w_resample_corrected_masked_xform.nii.gz --transform [ /outputs/tmp/resting_preproc_sub-018_ses-1/anat_mni_ants_register_0/calc_ants_warp/transform0GenericAffine.mat, 1 ]
201113-09:30:24,942 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.seg_preproc_0.WM.WM_prior_mni_to_t1".
201113-09:30:24,944 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.seg_preproc_0.CSF.CSF_collect_linear_transforms" in "/outputs/tmp/resting_preproc_sub-018_ses-1/seg_preproc_0/CSF/CSF_collect_linear_transforms".
201113-09:30:24,951 nipype.workflow INFO:
[Node] Running "CSF_collect_linear_transforms" ("nipype.interfaces.utility.base.Merge")
201113-09:30:25,177 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.seg_preproc_0.CSF.CSF_collect_linear_transforms".
201113-09:30:25,178 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.seg_preproc_0.CSF.CSF_check_transforms" in "/outputs/tmp/resting_preproc_sub-018_ses-1/seg_preproc_0/CSF/CSF_check_transforms".
201113-09:30:25,183 nipype.workflow INFO:
[Node] Running "CSF_check_transforms" ("nipype.interfaces.utility.wrappers.Function")
201113-09:30:25,414 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.seg_preproc_0.CSF.CSF_check_transforms".
201113-09:30:25,415 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.seg_preproc_0.CSF.CSF_inverse_transform_flags" in "/outputs/tmp/resting_preproc_sub-018_ses-1/seg_preproc_0/CSF/CSF_inverse_transform_flags".
201113-09:30:25,420 nipype.workflow INFO:
[Node] Running "CSF_inverse_transform_flags" ("nipype.interfaces.utility.wrappers.Function")
201113-09:30:25,648 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.seg_preproc_0.CSF.CSF_inverse_transform_flags".
201113-09:30:25,649 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.seg_preproc_0.CSF.CSF_prior_mni_to_t1" in "/outputs/tmp/resting_preproc_sub-018_ses-1/seg_preproc_0/CSF/CSF_prior_mni_to_t1".
201113-09:30:25,659 nipype.workflow INFO:
[Node] Running "CSF_prior_mni_to_t1" ("nipype.interfaces.ants.resampling.ApplyTransforms"), a CommandLine Interface with command:
antsApplyTransforms --default-value 0 --float 0 --input /usr/share/fsl/5.0/data/standard/tissuepriors/2mm/avg152T1_csf_bin.nii.gz --interpolation NearestNeighbor --output avg152T1_csf_bin_trans.nii.gz --reference-image /outputs/tmp/resting_preproc_sub-018_ses-1/anat_preproc_niworkflows_ants_0/anat_preproc_niworkflows_ants_0_skullstrip/anat_skullstrip_ants/copy_xform/sub-018_ses-1_T1w_resample_corrected_masked_xform.nii.gz --transform [ /outputs/tmp/resting_preproc_sub-018_ses-1/anat_mni_ants_register_0/calc_ants_warp/transform0GenericAffine.mat, 1 ]
201113-09:30:27,29 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.seg_preproc_0.CSF.CSF_prior_mni_to_t1".
201113-09:30:27,30 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.sinker_0_ants_initial_xfm" in "/outputs/tmp/resting_preproc_sub-018_ses-1/sinker_0_ants_initial_xfm".
201113-09:30:27,36 nipype.workflow INFO:
[Node] Running "sinker_0_ants_initial_xfm" ("CPAC.utils.interfaces.datasink.DataSink")
201113-09:30:27,265 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.sinker_0_ants_initial_xfm".
201113-09:30:27,267 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.anat_template_edge_0" in "/outputs/tmp/resting_preproc_sub-018_ses-1/anat_template_edge_0".
201113-09:30:27,287 nipype.workflow INFO:
[Node] Running "anat_template_edge_0" ("CPAC.utils.interfaces.function.Function")
201113-09:30:29,440 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.anat_template_edge_0".
201113-09:30:29,442 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.montage_mni_anat_0.resample_o" in "/outputs/tmp/resting_preproc_sub-018_ses-1/montage_mni_anat_0/resample_o".
201113-09:30:29,447 nipype.workflow INFO:
[Node] Running "resample_o" ("CPAC.utils.interfaces.function.Function")
201113-09:30:29,999 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.montage_mni_anat_0.resample_o".
201113-09:30:30,0 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.montage_mni_anat_0.montage_s" in "/outputs/tmp/resting_preproc_sub-018_ses-1/montage_mni_anat_0/montage_s".
201113-09:30:30,18 nipype.workflow INFO:
[Node] Setting-up "_montage_s0" in "/outputs/tmp/resting_preproc_sub-018_ses-1/montage_mni_anat_0/montage_s/mapflow/_montage_s0".
201113-09:30:30,22 nipype.workflow INFO:
[Node] Running "_montage_s0" ("CPAC.utils.interfaces.function.Function")
201113-09:30:32,18 nipype.workflow INFO:
[Node] Finished "_montage_s0".
201113-09:30:32,22 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.montage_mni_anat_0.montage_s".
201113-09:30:32,22 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.sinker_0_qc___mni_normalized_anatomical_s" in "/outputs/tmp/resting_preproc_sub-018_ses-1/sinker_0_qc___mni_normalized_anatomical_s".
201113-09:30:32,29 nipype.workflow INFO:
[Node] Running "sinker_0_qc___mni_normalized_anatomical_s" ("CPAC.utils.interfaces.datasink.DataSink")
201113-09:30:32,239 nipype.interface INFO:
sub: /outputs/output/pipeline_cpac_fmriprep-options/sub-018_ses-1/qc___mni_normalized_anatomical_s/_montage_s0/mni_anat_s.png -> /outputs/output/pipeline_cpac_fmriprep-options/sub-018_ses-1/qc/mni_normalized_anatomical_s/_montage_s0/mni_anat_s.png
201113-09:30:32,255 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.sinker_0_qc___mni_normalized_anatomical_s".
201113-09:30:32,257 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.montage_mni_anat_0.montage_a" in "/outputs/tmp/resting_preproc_sub-018_ses-1/montage_mni_anat_0/montage_a".
201113-09:30:32,263 nipype.workflow INFO:
[Node] Setting-up "_montage_a0" in "/outputs/tmp/resting_preproc_sub-018_ses-1/montage_mni_anat_0/montage_a/mapflow/_montage_a0".
201113-09:30:32,267 nipype.workflow INFO:
[Node] Running "_montage_a0" ("CPAC.utils.interfaces.function.Function")
201113-09:30:34,443 nipype.workflow INFO:
[Node] Finished "_montage_a0".
201113-09:30:34,447 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.montage_mni_anat_0.montage_a".
201113-09:30:34,447 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.sinker_0_qc___mni_normalized_anatomical_a" in "/outputs/tmp/resting_preproc_sub-018_ses-1/sinker_0_qc___mni_normalized_anatomical_a".
201113-09:30:34,455 nipype.workflow INFO:
[Node] Running "sinker_0_qc___mni_normalized_anatomical_a" ("CPAC.utils.interfaces.datasink.DataSink")
201113-09:30:34,667 nipype.interface INFO:
sub: /outputs/output/pipeline_cpac_fmriprep-options/sub-018_ses-1/qc___mni_normalized_anatomical_a/_montage_a0/mni_anat_a.png -> /outputs/output/pipeline_cpac_fmriprep-options/sub-018_ses-1/qc/mni_normalized_anatomical_a/_montage_a0/mni_anat_a.png
201113-09:30:34,686 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.sinker_0_qc___mni_normalized_anatomical_a".
201113-09:30:34,688 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.check_for_s3_acpc_template_brain" in "/outputs/tmp/resting_preproc_sub-018_ses-1/check_for_s3_acpc_template_brain".
201113-09:30:34,692 nipype.workflow INFO:
[Node] Running "check_for_s3_acpc_template_brain" ("CPAC.utils.interfaces.function.Function")
201113-09:30:34,924 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.check_for_s3_acpc_template_brain".
201113-09:30:34,925 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-1.check_for_s3_acpc_template_skull" in "/outputs/tmp/resting_preproc_sub-018_ses-1/check_for_s3_acpc_template_skull".
201113-09:30:34,929 nipype.workflow INFO:
[Node] Running "check_for_s3_acpc_template_skull" ("CPAC.utils.interfaces.function.Function")
201113-09:30:35,198 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-1.check_for_s3_acpc_template_skull".
201113-09:31:04,653 nipype.workflow INFO:
End of subject workflow resting_preproc_sub-018_ses-1
CPAC run complete:
Pipeline configuration: cpac_fmriprep-options
Subject workflow: resting_preproc_sub-018_ses-1
Elapsed run time (minutes): 684.6803916573524
Timing information saved in /outputs/log/cpac_individual_timing_cpac_fmriprep-options.csv
System time of start: 2020-11-12 22:06:29
System time of completion: 2020-11-13 09:31:04
201113-09:31:04,668 nipype.workflow INFO:
C-PAC version: 1.7.2
Setting maximum number of cores per participant to 1
Setting number of participants at once to 1
Setting OMP_NUM_THREADS to 1
Setting MKL_NUM_THREADS to 1
Setting ANTS/ITK thread usage to 1
Maximum potential number of cores that might be used during this run: 1
201113-09:31:06,958 nipype.workflow INFO:
Pipeline building completed.
201113-09:31:06,958 nipype.workflow INFO:
Strategy forks:
- cpac_fmriprep-options
201113-09:31:09,714 nipype.workflow INFO:
Workflow resting_preproc_sub-018_ses-2 settings: ['check', 'execution', 'logging', 'monitoring']
201113-09:31:10,837 nipype.workflow INFO:
Running serially.
201113-09:31:10,846 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-2.func_gather_0.select_scan_params" in "/outputs/tmp/resting_preproc_sub-018_ses-2/func_gather_0/_scan_vigilance_run-2/select_scan_params".
201113-09:31:10,877 nipype.workflow INFO:
[Node] Running "select_scan_params" ("CPAC.utils.interfaces.function.Function")
201113-09:31:11,112 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-2.func_gather_0.select_scan_params".
201113-09:31:11,123 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-2.func_gather_0.s3_scan_params" in "/outputs/tmp/resting_preproc_sub-018_ses-2/func_gather_0/_scan_vigilance_run-2/s3_scan_params".
201113-09:31:11,131 nipype.workflow INFO:
[Node] Running "s3_scan_params" ("CPAC.utils.interfaces.function.Function")
201113-09:31:11,361 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-2.func_gather_0.s3_scan_params".
201113-09:31:11,363 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-2.scan_params_0" in "/outputs/tmp/resting_preproc_sub-018_ses-2/_scan_vigilance_run-2/scan_params_0".
201113-09:31:11,371 nipype.workflow INFO:
[Node] Running "scan_params_0" ("CPAC.utils.interfaces.function.Function")
201113-09:31:11,598 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-2.scan_params_0".
201113-09:31:11,601 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-2.func_gather_0.selectrest" in "/outputs/tmp/resting_preproc_sub-018_ses-2/func_gather_0/_scan_vigilance_run-2/selectrest".
201113-09:31:11,633 nipype.workflow INFO:
[Node] Running "selectrest" ("CPAC.utils.interfaces.function.Function")
201113-09:31:11,869 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-2.func_gather_0.selectrest".
201113-09:31:11,879 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-2.func_gather_0.check_for_s3" in "/outputs/tmp/resting_preproc_sub-018_ses-2/func_gather_0/_scan_vigilance_run-2/check_for_s3".
201113-09:31:11,884 nipype.workflow INFO:
[Node] Running "check_for_s3" ("CPAC.utils.interfaces.function.Function")
201113-09:31:12,196 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-2.func_gather_0.check_for_s3".
201113-09:31:12,197 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-2.edit_func_0.func_get_idx" in "/outputs/tmp/resting_preproc_sub-018_ses-2/edit_func_0/_scan_vigilance_run-2/func_get_idx".
201113-09:31:12,204 nipype.workflow INFO:
[Node] Running "func_get_idx" ("nipype.interfaces.utility.wrappers.Function")
201113-09:31:12,438 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-2.edit_func_0.func_get_idx".
201113-09:31:12,440 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-2.edit_func_0.func_drop_trs" in "/outputs/tmp/resting_preproc_sub-018_ses-2/edit_func_0/_scan_vigilance_run-2/func_drop_trs".
201113-09:31:12,446 nipype.workflow INFO:
[Node] Running "func_drop_trs" ("nipype.interfaces.afni.utils.Calc"), a CommandLine Interface with command:
3dcalc -a /bids_dataset/sub-018/ses-2/func/sub-018_ses-2_task-vigilance_run-2_bold.nii.gz[0..68] -expr "a" -prefix sub-018_ses-2_task-vigilance_run-2_bold_calc.nii.gz
201113-09:31:12,700 nipype.interface INFO:
stderr 2020-11-13T09:31:12.700805:++ 3dcalc: AFNI version=AFNI_20.2.19 (Sep 27 2020) [64-bit]
201113-09:31:12,701 nipype.interface INFO:
stderr 2020-11-13T09:31:12.701469:++ Authored by: A cast of thousands
201113-09:31:15,848 nipype.interface INFO:
stderr 2020-11-13T09:31:15.848661:++ Output dataset ./sub-018_ses-2_task-vigilance_run-2_bold_calc.nii.gz
201113-09:31:16,35 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-2.edit_func_0.func_drop_trs".
201113-09:31:16,37 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-2.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_deoblique" in "/outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/_scan_vigilance_run-2/func_deoblique".
201113-09:31:16,65 nipype.workflow INFO:
[Node] Running "func_deoblique" ("nipype.interfaces.afni.utils.Refit"), a CommandLine Interface with command:
3drefit -deoblique /outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/_scan_vigilance_run-2/func_deoblique/sub-018_ses-2_task-vigilance_run-2_bold_calc.nii.gz
201113-09:31:16,316 nipype.interface INFO:
stderr 2020-11-13T09:31:16.316401:++ 3drefit: AFNI version=AFNI_20.2.19 (Sep 27 2020) [64-bit]
201113-09:31:16,316 nipype.interface INFO:
stderr 2020-11-13T09:31:16.316774:++ Authored by: RW Cox
201113-09:31:16,324 nipype.interface INFO:
stderr 2020-11-13T09:31:16.324413:++ Processing AFNI dataset /outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/_scan_vigilance_run-2/func_deoblique/sub-018_ses-2_task-vigilance_run-2_bold_calc.nii.gz
201113-09:31:16,325 nipype.interface INFO:
stderr 2020-11-13T09:31:16.325521: + deoblique
201113-09:31:16,325 nipype.interface INFO:
stderr 2020-11-13T09:31:16.325800: + loading and re-writing dataset /outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/_scan_vigilance_run-2/func_deoblique/sub-018_ses-2_task-vigilance_run-2_bold_calc.nii.gz (/outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/_scan_vigilance_run-2/func_deoblique/sub-018_ses-2_task-vigilance_run-2_bold_calc.nii.gz in NIFTI storage)
201113-09:31:18,368 nipype.interface INFO:
stderr 2020-11-13T09:31:18.368333:++ 3drefit processed 1 datasets
201113-09:31:18,577 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-2.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_deoblique".
201113-09:31:18,579 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-2.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_reorient" in "/outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/_scan_vigilance_run-2/func_reorient".
201113-09:31:18,585 nipype.workflow INFO:
[Node] Running "func_reorient" ("nipype.interfaces.afni.utils.Resample"), a CommandLine Interface with command:
3dresample -orient RPI -prefix sub-018_ses-2_task-vigilance_run-2_bold_calc_resample.nii.gz -inset /outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/_scan_vigilance_run-2/func_reorient/sub-018_ses-2_task-vigilance_run-2_bold_calc.nii.gz
201113-09:31:21,253 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-2.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_reorient".
201113-09:31:21,255 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-2.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_get_mean_RPI" in "/outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/_scan_vigilance_run-2/func_get_mean_RPI".
201113-09:31:21,262 nipype.workflow INFO:
[Node] Running "func_get_mean_RPI" ("nipype.interfaces.afni.utils.TStat"), a CommandLine Interface with command:
3dTstat -mean -prefix sub-018_ses-2_task-vigilance_run-2_bold_calc_resample_tstat.nii.gz /outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/_scan_vigilance_run-2/func_get_mean_RPI/sub-018_ses-2_task-vigilance_run-2_bold_calc_resample.nii.gz
201113-09:31:21,507 nipype.interface INFO:
stderr 2020-11-13T09:31:21.507250:++ 3dTstat: AFNI version=AFNI_20.2.19 (Sep 27 2020) [64-bit]
201113-09:31:21,507 nipype.interface INFO:
stderr 2020-11-13T09:31:21.507598:++ Authored by: KR Hammett & RW Cox
201113-09:31:21,779 nipype.interface INFO:
stderr 2020-11-13T09:31:21.779864:++ Output dataset ./sub-018_ses-2_task-vigilance_run-2_bold_calc_resample_tstat.nii.gz
201113-09:31:21,959 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-2.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_get_mean_RPI".
201113-09:31:21,960 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-2.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_generate_ref" in "/outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/_scan_vigilance_run-2/func_generate_ref".
201113-09:31:21,967 nipype.workflow INFO:
[Node] Running "func_generate_ref" ("nipype.interfaces.afni.preprocess.Volreg"), a CommandLine Interface with command:
3dvolreg -twopass -Fourier -1Dfile sub-018_ses-2_task-vigilance_run-2_bold_calc_resample.1D -1Dmatrix_save sub-018_ses-2_task-vigilance_run-2_bold_calc_resample.aff12.1D -prefix sub-018_ses-2_task-vigilance_run-2_bold_calc_resample_volreg.nii.gz -base /outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/_scan_vigilance_run-2/func_get_mean_RPI/sub-018_ses-2_task-vigilance_run-2_bold_calc_resample_tstat.nii.gz -zpad 4 -maxdisp1D sub-018_ses-2_task-vigilance_run-2_bold_calc_resample_md.1D /outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/_scan_vigilance_run-2/func_generate_ref/sub-018_ses-2_task-vigilance_run-2_bold_calc_resample.nii.gz
201113-09:31:22,213 nipype.interface INFO:
stderr 2020-11-13T09:31:22.213571:++ 3dvolreg: AFNI version=AFNI_20.2.19 (Sep 27 2020) [64-bit]
201113-09:31:22,213 nipype.interface INFO:
stderr 2020-11-13T09:31:22.213899:++ Authored by: RW Cox
201113-09:31:22,225 nipype.interface INFO:
stderr 2020-11-13T09:31:22.225922:++ Coarse del was 10, replaced with 3
201113-09:32:19,613 nipype.interface INFO:
stderr 2020-11-13T09:32:19.613417:++ Max displacement in automask = 1.13 (mm) at sub-brick 38
201113-09:32:19,614 nipype.interface INFO:
stderr 2020-11-13T09:32:19.614071:++ Max delta displ in automask = 0.95 (mm) at sub-brick 51
201113-09:32:21,732 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-2.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_generate_ref".
201113-09:32:21,733 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-2.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_get_mean_motion" in "/outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/_scan_vigilance_run-2/func_get_mean_motion".
201113-09:32:21,740 nipype.workflow INFO:
[Node] Running "func_get_mean_motion" ("nipype.interfaces.afni.utils.TStat"), a CommandLine Interface with command:
3dTstat -mean -prefix sub-018_ses-2_task-vigilance_run-2_bold_calc_resample_volreg_tstat.nii.gz /outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/_scan_vigilance_run-2/func_get_mean_motion/sub-018_ses-2_task-vigilance_run-2_bold_calc_resample_volreg.nii.gz
201113-09:32:21,992 nipype.interface INFO:
stderr 2020-11-13T09:32:21.992921:++ 3dTstat: AFNI version=AFNI_20.2.19 (Sep 27 2020) [64-bit]
201113-09:32:21,993 nipype.interface INFO:
stderr 2020-11-13T09:32:21.993254:++ Authored by: KR Hammett & RW Cox
201113-09:32:22,261 nipype.interface INFO:
stderr 2020-11-13T09:32:22.261894:++ Output dataset ./sub-018_ses-2_task-vigilance_run-2_bold_calc_resample_volreg_tstat.nii.gz
201113-09:32:22,445 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-2.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_get_mean_motion".
201113-09:32:22,446 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-2.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_motion_correct_mcflirt" in "/outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/_scan_vigilance_run-2/func_motion_correct_mcflirt".
201113-09:32:22,453 nipype.workflow INFO:
[Node] Running "func_motion_correct_mcflirt" ("nipype.interfaces.fsl.preprocess.MCFLIRT"), a CommandLine Interface with command:
mcflirt -in /outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/_scan_vigilance_run-2/func_reorient/sub-018_ses-2_task-vigilance_run-2_bold_calc_resample.nii.gz -out /outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/_scan_vigilance_run-2/func_motion_correct_mcflirt/sub-018_ses-2_task-vigilance_run-2_bold_calc_resample_mcf.nii.gz -reffile /outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/_scan_vigilance_run-2/func_get_mean_motion/sub-018_ses-2_task-vigilance_run-2_bold_calc_resample_volreg_tstat.nii.gz -mats -plots -rmsabs -rmsrel
201113-09:32:35,174 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-2.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_motion_correct_mcflirt".
201113-09:32:35,180 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-2.gen_motion_stats_before_stc_fsl_afni_mean_mcflirt_0.calculate_FDJ" in "/outputs/tmp/resting_preproc_sub-018_ses-2/gen_motion_stats_before_stc_fsl_afni_mean_mcflirt_0/_scan_vigilance_run-2/calculate_FDJ".
201113-09:32:35,186 nipype.workflow INFO:
[Node] Running "calculate_FDJ" ("CPAC.utils.interfaces.function.Function")
201113-09:32:35,416 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-2.gen_motion_stats_before_stc_fsl_afni_mean_mcflirt_0.calculate_FDJ".
201113-09:32:35,417 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-2.sinker_0_frame_wise_displacement_jenkinson" in "/outputs/tmp/resting_preproc_sub-018_ses-2/_scan_vigilance_run-2/sinker_0_frame_wise_displacement_jenkinson".
201113-09:32:35,424 nipype.workflow INFO:
[Node] Running "sinker_0_frame_wise_displacement_jenkinson" ("CPAC.utils.interfaces.datasink.DataSink")
201113-09:32:35,656 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-2.sinker_0_frame_wise_displacement_jenkinson".
201113-09:32:35,658 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-2.sinker_0_max_displacement" in "/outputs/tmp/resting_preproc_sub-018_ses-2/_scan_vigilance_run-2/sinker_0_max_displacement".
201113-09:32:35,666 nipype.workflow INFO:
[Node] Running "sinker_0_max_displacement" ("CPAC.utils.interfaces.datasink.DataSink")
201113-09:32:35,896 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-2.sinker_0_max_displacement".
201113-09:32:35,898 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-2.sinker_0_coordinate_transformation" in "/outputs/tmp/resting_preproc_sub-018_ses-2/_scan_vigilance_run-2/sinker_0_coordinate_transformation".
201113-09:32:35,910 nipype.workflow INFO:
[Node] Running "sinker_0_coordinate_transformation" ("CPAC.utils.interfaces.datasink.DataSink")
201113-09:32:36,155 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-2.sinker_0_coordinate_transformation".
201113-09:32:36,162 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-2.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip.func_mean_skull" in "/outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_vigilance_run-2/func_mean_skull".
201113-09:32:36,169 nipype.workflow INFO:
[Node] Running "func_mean_skull" ("nipype.interfaces.afni.utils.TStat"), a CommandLine Interface with command:
3dTstat -mean -prefix sub-018_ses-2_task-vigilance_run-2_bold_calc_resample_mcf_tstat.nii.gz /outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_vigilance_run-2/func_mean_skull/sub-018_ses-2_task-vigilance_run-2_bold_calc_resample_mcf.nii.gz
201113-09:32:36,426 nipype.interface INFO:
stderr 2020-11-13T09:32:36.426763:++ 3dTstat: AFNI version=AFNI_20.2.19 (Sep 27 2020) [64-bit]
201113-09:32:36,427 nipype.interface INFO:
stderr 2020-11-13T09:32:36.427129:++ Authored by: KR Hammett & RW Cox
201113-09:32:36,719 nipype.interface INFO:
stderr 2020-11-13T09:32:36.719663:++ Output dataset ./sub-018_ses-2_task-vigilance_run-2_bold_calc_resample_mcf_tstat.nii.gz
201113-09:32:36,905 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-2.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip.func_mean_skull".
201113-09:32:36,906 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-2.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip.skullstrip_first_pass" in "/outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_vigilance_run-2/skullstrip_first_pass".
201113-09:32:36,913 nipype.workflow INFO:
[Node] Running "skullstrip_first_pass" ("nipype.interfaces.fsl.preprocess.BET"), a CommandLine Interface with command:
bet /outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_vigilance_run-2/func_mean_skull/sub-018_ses-2_task-vigilance_run-2_bold_calc_resample_mcf_tstat.nii.gz /outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_vigilance_run-2/skullstrip_first_pass/sub-018_ses-2_task-vigilance_run-2_bold_calc_resample_mcf_tstat_brain.nii.gz -f 0.20 -m
201113-09:32:38,767 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-2.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip.skullstrip_first_pass".
201113-09:32:38,769 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-2.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip.skullstrip_first_dilate" in "/outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_vigilance_run-2/skullstrip_first_dilate".
201113-09:32:38,775 nipype.workflow INFO:
[Node] Running "skullstrip_first_dilate" ("nipype.interfaces.fsl.maths.DilateImage"), a CommandLine Interface with command:
fslmaths -dt char /outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_vigilance_run-2/skullstrip_first_pass/sub-018_ses-2_task-vigilance_run-2_bold_calc_resample_mcf_tstat_brain_mask.nii.gz -kernel sphere 6.0000 -dilF /outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_vigilance_run-2/skullstrip_first_dilate/sub-018_ses-2_task-vigilance_run-2_bold_calc_resample_mcf_tstat_brain_mask_dil.nii.gz
201113-09:32:39,476 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-2.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip.skullstrip_first_dilate".
201113-09:32:39,478 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-2.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip.skullstrip_first_mask" in "/outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_vigilance_run-2/skullstrip_first_mask".
201113-09:32:39,483 nipype.workflow INFO:
[Node] Running "skullstrip_first_mask" ("nipype.interfaces.fsl.maths.ApplyMask"), a CommandLine Interface with command:
fslmaths /outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_vigilance_run-2/skullstrip_first_pass/sub-018_ses-2_task-vigilance_run-2_bold_calc_resample_mcf_tstat_brain.nii.gz -mas /outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_vigilance_run-2/skullstrip_first_dilate/sub-018_ses-2_task-vigilance_run-2_bold_calc_resample_mcf_tstat_brain_mask_dil.nii.gz /outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_vigilance_run-2/skullstrip_first_mask/sub-018_ses-2_task-vigilance_run-2_bold_calc_resample_mcf_tstat_brain_masked.nii.gz
201113-09:32:39,935 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-2.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip.skullstrip_first_mask".
201113-09:32:39,936 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-2.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip.unifize" in "/outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_vigilance_run-2/unifize".
201113-09:32:39,943 nipype.workflow INFO:
[Node] Running "unifize" ("nipype.interfaces.afni.utils.Unifize"), a CommandLine Interface with command:
3dUnifize -clfrac 0.2 -rbt 18.3 65.0 90.0 -prefix uni.nii.gz -T2 -input /outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_vigilance_run-2/unifize/sub-018_ses-2_task-vigilance_run-2_bold_calc_resample_mcf_tstat_brain_masked.nii.gz
201113-09:32:40,199 nipype.interface INFO:
stderr 2020-11-13T09:32:40.199390:++ 3dUnifize: AFNI version=AFNI_20.2.19 (Sep 27 2020) [64-bit]
201113-09:33:52,71 nipype.interface INFO:
stderr 2020-11-13T09:33:52.071626: + Pre-processing: IAV..UW[s3787]Im
201113-09:33:52,87 nipype.interface INFO:
stderr 2020-11-13T09:33:52.087184:++ Output dataset ./uni.nii.gz
201113-09:33:52,87 nipype.interface INFO:
stderr 2020-11-13T09:33:52.087400:++ ===== Elapsed = 71.9 sec
201113-09:33:52,301 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-2.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip.unifize".
201113-09:33:52,303 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-2.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip.skullstrip_second_pass" in "/outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_vigilance_run-2/skullstrip_second_pass".
201113-09:33:52,309 nipype.workflow INFO:
[Node] Running "skullstrip_second_pass" ("nipype.interfaces.afni.preprocess.Automask"), a CommandLine Interface with command:
3dAutomask -apply_prefix uni_masked.nii.gz -dilate 1 -prefix uni_mask.nii.gz /outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_vigilance_run-2/skullstrip_second_pass/uni.nii.gz
201113-09:33:52,563 nipype.interface INFO:
stderr 2020-11-13T09:33:52.562910:++ 3dAutomask: AFNI version=AFNI_20.2.19 (Sep 27 2020) [64-bit]
201113-09:33:52,563 nipype.interface INFO:
stderr 2020-11-13T09:33:52.563438:++ Authored by: Emperor Zhark
201113-09:33:52,566 nipype.interface INFO:
stderr 2020-11-13T09:33:52.566261:++ Loading dataset /outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_vigilance_run-2/skullstrip_second_pass/uni.nii.gz
201113-09:33:52,571 nipype.interface INFO:
stderr 2020-11-13T09:33:52.571203:++ Forming automask
201113-09:33:52,573 nipype.interface INFO:
stderr 2020-11-13T09:33:52.573415: + Fixed clip level = 422.295319
201113-09:33:52,577 nipype.interface INFO:
stderr 2020-11-13T09:33:52.577528: + Used gradual clip level = 379.720825 .. 520.502075
201113-09:33:52,577 nipype.interface INFO:
stderr 2020-11-13T09:33:52.577735: + Number voxels above clip level = 28888
201113-09:33:52,577 nipype.interface INFO:
stderr 2020-11-13T09:33:52.577890: + Clustering voxels ...
201113-09:33:52,578 nipype.interface INFO:
stderr 2020-11-13T09:33:52.578975: + Largest cluster has 28886 voxels
201113-09:33:52,580 nipype.interface INFO:
stderr 2020-11-13T09:33:52.580533: + Clustering voxels ...
201113-09:33:52,581 nipype.interface INFO:
stderr 2020-11-13T09:33:52.581623: + Largest cluster has 28404 voxels
201113-09:33:52,585 nipype.interface INFO:
stderr 2020-11-13T09:33:52.584980: + Filled 617 voxels in small holes; now have 29021 voxels
201113-09:33:52,587 nipype.interface INFO:
stderr 2020-11-13T09:33:52.587185: + Filled 3 voxels in large holes; now have 29024 voxels
201113-09:33:52,588 nipype.interface INFO:
stderr 2020-11-13T09:33:52.588411: + Clustering voxels ...
201113-09:33:52,589 nipype.interface INFO:
stderr 2020-11-13T09:33:52.589473: + Largest cluster has 29024 voxels
201113-09:33:52,589 nipype.interface INFO:
stderr 2020-11-13T09:33:52.589703: + Clustering non-brain voxels ...
201113-09:33:52,589 nipype.interface INFO:
stderr 2020-11-13T09:33:52.589846: + Clustering voxels ...
201113-09:33:52,592 nipype.interface INFO:
stderr 2020-11-13T09:33:52.592779: + Largest cluster has 110216 voxels
201113-09:33:52,593 nipype.interface INFO:
stderr 2020-11-13T09:33:52.593106: + Mask now has 29048 voxels
201113-09:33:52,593 nipype.interface INFO:
stderr 2020-11-13T09:33:52.593255:++ Dilating automask
201113-09:33:52,599 nipype.interface INFO:
stderr 2020-11-13T09:33:52.599328: + Clustering voxels ...
201113-09:33:52,601 nipype.interface INFO:
stderr 2020-11-13T09:33:52.601971: + Largest cluster has 104594 voxels
201113-09:33:52,602 nipype.interface INFO:
stderr 2020-11-13T09:33:52.602305:++ 34670 voxels in the mask [out of 139264: 24.90%]
201113-09:33:52,602 nipype.interface INFO:
stderr 2020-11-13T09:33:52.602476:++ first 9 x-planes are zero [from R]
201113-09:33:52,602 nipype.interface INFO:
stderr 2020-11-13T09:33:52.602639:++ last 9 x-planes are zero [from L]
201113-09:33:52,602 nipype.interface INFO:
stderr 2020-11-13T09:33:52.602776:++ first 1 y-planes are zero [from P]
201113-09:33:52,602 nipype.interface INFO:
stderr 2020-11-13T09:33:52.602926:++ last 9 y-planes are zero [from A]
201113-09:33:52,603 nipype.interface INFO:
stderr 2020-11-13T09:33:52.603061:++ first 0 z-planes are zero [from I]
201113-09:33:52,603 nipype.interface INFO:
stderr 2020-11-13T09:33:52.603197:++ last 2 z-planes are zero [from S]
201113-09:33:52,607 nipype.interface INFO:
stderr 2020-11-13T09:33:52.607520:++ Output dataset ./uni_mask.nii.gz
201113-09:33:52,607 nipype.interface INFO:
stderr 2020-11-13T09:33:52.607731:++ applying mask to original data
201113-09:33:52,608 nipype.interface INFO:
stderr 2020-11-13T09:33:52.608593:++ Writing masked data
201113-09:33:52,623 nipype.interface INFO:
stderr 2020-11-13T09:33:52.623299:++ Output dataset ./uni_masked.nii.gz
201113-09:33:52,623 nipype.interface INFO:
stderr 2020-11-13T09:33:52.623638:++ CPU time = 0.000000 sec
201113-09:33:52,811 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-2.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip.skullstrip_second_pass".
201113-09:33:52,812 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-2.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip.combine_masks" in "/outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_vigilance_run-2/combine_masks".
201113-09:33:52,818 nipype.workflow INFO:
[Node] Running "combine_masks" ("nipype.interfaces.fsl.maths.BinaryMaths"), a CommandLine Interface with command:
fslmaths /outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_vigilance_run-2/skullstrip_first_pass/sub-018_ses-2_task-vigilance_run-2_bold_calc_resample_mcf_tstat_brain_mask.nii.gz -mul /outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_vigilance_run-2/skullstrip_second_pass/uni_mask.nii.gz /outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_vigilance_run-2/combine_masks/sub-018_ses-2_task-vigilance_run-2_bold_calc_resample_mcf_tstat_brain_mask_maths.nii.gz
201113-09:33:53,253 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-2.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip.combine_masks".
201113-09:33:53,255 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-2.gen_motion_stats_before_stc_fsl_afni_mean_mcflirt_0.cal_DVARS" in "/outputs/tmp/resting_preproc_sub-018_ses-2/gen_motion_stats_before_stc_fsl_afni_mean_mcflirt_0/_scan_vigilance_run-2/cal_DVARS".
201113-09:33:53,262 nipype.workflow INFO:
[Node] Running "cal_DVARS" ("CPAC.utils.interfaces.function.Function")
201113-09:33:53,718 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-2.gen_motion_stats_before_stc_fsl_afni_mean_mcflirt_0.cal_DVARS".
201113-09:33:53,720 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-2.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip.func_extract_brain" in "/outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_vigilance_run-2/func_extract_brain".
201113-09:33:53,727 nipype.workflow INFO:
[Node] Running "func_extract_brain" ("nipype.interfaces.afni.utils.Calc"), a CommandLine Interface with command:
3dcalc -a /outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/_scan_vigilance_run-2/func_motion_correct_mcflirt/sub-018_ses-2_task-vigilance_run-2_bold_calc_resample_mcf.nii.gz -b /outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_vigilance_run-2/combine_masks/sub-018_ses-2_task-vigilance_run-2_bold_calc_resample_mcf_tstat_brain_mask_maths.nii.gz -expr "a*b" -prefix sub-018_ses-2_task-vigilance_run-2_bold_calc_resample_mcf_calc.nii.gz
201113-09:33:53,974 nipype.interface INFO:
stderr 2020-11-13T09:33:53.974907:++ 3dcalc: AFNI version=AFNI_20.2.19 (Sep 27 2020) [64-bit]
201113-09:33:53,975 nipype.interface INFO:
stderr 2020-11-13T09:33:53.975258:++ Authored by: A cast of thousands
201113-09:33:55,428 nipype.interface INFO:
stderr 2020-11-13T09:33:55.428273:++ Output dataset ./sub-018_ses-2_task-vigilance_run-2_bold_calc_resample_mcf_calc.nii.gz
201113-09:33:55,611 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-2.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip.func_extract_brain".
201113-09:33:55,613 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-2.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_normalize" in "/outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/_scan_vigilance_run-2/func_normalize".
201113-09:33:55,618 nipype.workflow INFO:
[Node] Running "func_normalize" ("nipype.interfaces.fsl.utils.ImageMaths"), a CommandLine Interface with command:
fslmaths /outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_vigilance_run-2/func_extract_brain/sub-018_ses-2_task-vigilance_run-2_bold_calc_resample_mcf_calc.nii.gz -ing 10000 /outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/_scan_vigilance_run-2/func_normalize/sub-018_ses-2_task-vigilance_run-2_bold_calc_resample_mcf_calc_maths.nii.gz -odt float
201113-09:33:56,969 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-2.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_normalize".
201113-09:33:56,970 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-2.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_mask_normalize" in "/outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/_scan_vigilance_run-2/func_mask_normalize".
201113-09:33:56,976 nipype.workflow INFO:
[Node] Running "func_mask_normalize" ("nipype.interfaces.fsl.utils.ImageMaths"), a CommandLine Interface with command:
fslmaths /outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/_scan_vigilance_run-2/func_normalize/sub-018_ses-2_task-vigilance_run-2_bold_calc_resample_mcf_calc_maths.nii.gz -Tmin -bin /outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/_scan_vigilance_run-2/func_mask_normalize/sub-018_ses-2_task-vigilance_run-2_bold_calc_resample_mcf_calc_maths_maths.nii.gz -odt char
201113-09:33:57,744 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-2.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_mask_normalize".
201113-09:33:57,746 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-2.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_mean" in "/outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/_scan_vigilance_run-2/func_mean".
201113-09:33:57,752 nipype.workflow INFO:
[Node] Running "func_mean" ("nipype.interfaces.afni.utils.TStat"), a CommandLine Interface with command:
3dTstat -mean -prefix sub-018_ses-2_task-vigilance_run-2_bold_calc_resample_mcf_calc_tstat.nii.gz /outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/_scan_vigilance_run-2/func_mean/sub-018_ses-2_task-vigilance_run-2_bold_calc_resample_mcf_calc.nii.gz
201113-09:33:58,1 nipype.interface INFO:
stderr 2020-11-13T09:33:58.001070:++ 3dTstat: AFNI version=AFNI_20.2.19 (Sep 27 2020) [64-bit]
201113-09:33:58,1 nipype.interface INFO:
stderr 2020-11-13T09:33:58.001402:++ Authored by: KR Hammett & RW Cox
201113-09:33:58,169 nipype.interface INFO:
stderr 2020-11-13T09:33:58.169423:++ Output dataset ./sub-018_ses-2_task-vigilance_run-2_bold_calc_resample_mcf_calc_tstat.nii.gz
201113-09:33:58,352 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-2.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_mean".
201113-09:33:58,353 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-2.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.norm_motion_params" in "/outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/_scan_vigilance_run-2/norm_motion_params".
201113-09:33:58,358 nipype.workflow INFO:
[Node] Running "norm_motion_params" ("CPAC.utils.interfaces.function.Function")
201113-09:33:58,587 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-2.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.norm_motion_params".
201113-09:33:58,589 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-2.qc_motion_0.motion_plot" in "/outputs/tmp/resting_preproc_sub-018_ses-2/qc_motion_0/_scan_vigilance_run-2/motion_plot".
201113-09:33:58,593 nipype.workflow INFO:
[Node] Running "motion_plot" ("CPAC.utils.interfaces.function.Function")
201113-09:33:59,46 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-2.qc_motion_0.motion_plot".
201113-09:33:59,48 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-2.sinker_0_qc___movement_trans_plot" in "/outputs/tmp/resting_preproc_sub-018_ses-2/_scan_vigilance_run-2/sinker_0_qc___movement_trans_plot".
201113-09:33:59,54 nipype.workflow INFO:
[Node] Running "sinker_0_qc___movement_trans_plot" ("CPAC.utils.interfaces.datasink.DataSink")
201113-09:33:59,266 nipype.interface INFO:
sub: /outputs/output/pipeline_cpac_fmriprep-options/sub-018_ses-2/qc___movement_trans_plot/_scan_vigilance_run-2/motion_trans_plot.png -> /outputs/output/pipeline_cpac_fmriprep-options/sub-018_ses-2/qc/movement_trans_plot/_scan_vigilance_run-2/motion_trans_plot.png
201113-09:33:59,284 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-2.sinker_0_qc___movement_trans_plot".
201113-09:33:59,286 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-2.sinker_0_qc___movement_rot_plot" in "/outputs/tmp/resting_preproc_sub-018_ses-2/_scan_vigilance_run-2/sinker_0_qc___movement_rot_plot".
201113-09:33:59,294 nipype.workflow INFO:
[Node] Running "sinker_0_qc___movement_rot_plot" ("CPAC.utils.interfaces.datasink.DataSink")
201113-09:33:59,507 nipype.interface INFO:
sub: /outputs/output/pipeline_cpac_fmriprep-options/sub-018_ses-2/qc___movement_rot_plot/_scan_vigilance_run-2/motion_rot_plot.png -> /outputs/output/pipeline_cpac_fmriprep-options/sub-018_ses-2/qc/movement_rot_plot/_scan_vigilance_run-2/motion_rot_plot.png
201113-09:33:59,524 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-2.sinker_0_qc___movement_rot_plot".
201113-09:33:59,526 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-2.gen_motion_stats_before_stc_fsl_afni_mean_mcflirt_0.calc_motion_parameters" in "/outputs/tmp/resting_preproc_sub-018_ses-2/gen_motion_stats_before_stc_fsl_afni_mean_mcflirt_0/_scan_vigilance_run-2/calc_motion_parameters".
201113-09:33:59,532 nipype.workflow INFO:
[Node] Running "calc_motion_parameters" ("CPAC.utils.interfaces.function.Function")
201113-09:33:59,766 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-2.gen_motion_stats_before_stc_fsl_afni_mean_mcflirt_0.calc_motion_parameters".
201113-09:33:59,768 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-2.sinker_0_motion_params" in "/outputs/tmp/resting_preproc_sub-018_ses-2/_scan_vigilance_run-2/sinker_0_motion_params".
201113-09:33:59,775 nipype.workflow INFO:
[Node] Running "sinker_0_motion_params" ("CPAC.utils.interfaces.datasink.DataSink")
201113-09:34:00,6 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-2.sinker_0_motion_params".
201113-09:34:00,8 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-2.gen_motion_stats_before_stc_fsl_afni_mean_mcflirt_0.calculate_FD" in "/outputs/tmp/resting_preproc_sub-018_ses-2/gen_motion_stats_before_stc_fsl_afni_mean_mcflirt_0/_scan_vigilance_run-2/calculate_FD".
201113-09:34:00,12 nipype.workflow INFO:
[Node] Running "calculate_FD" ("CPAC.utils.interfaces.function.Function")
201113-09:34:00,249 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-2.gen_motion_stats_before_stc_fsl_afni_mean_mcflirt_0.calculate_FD".
201113-09:34:00,250 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-2.sinker_0_frame_wise_displacement_power" in "/outputs/tmp/resting_preproc_sub-018_ses-2/_scan_vigilance_run-2/sinker_0_frame_wise_displacement_power".
201113-09:34:00,257 nipype.workflow INFO:
[Node] Running "sinker_0_frame_wise_displacement_power" ("CPAC.utils.interfaces.datasink.DataSink")
201113-09:34:00,489 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-2.sinker_0_frame_wise_displacement_power".
201113-09:34:00,491 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-2.gen_motion_stats_before_stc_fsl_afni_mean_mcflirt_0.calc_power_parameters" in "/outputs/tmp/resting_preproc_sub-018_ses-2/gen_motion_stats_before_stc_fsl_afni_mean_mcflirt_0/_scan_vigilance_run-2/calc_power_parameters".
201113-09:34:00,496 nipype.workflow INFO:
[Node] Running "calc_power_parameters" ("CPAC.utils.interfaces.function.Function")
201113-09:34:00,731 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-2.gen_motion_stats_before_stc_fsl_afni_mean_mcflirt_0.calc_power_parameters".
201113-09:34:00,733 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-2.sinker_0_power_params" in "/outputs/tmp/resting_preproc_sub-018_ses-2/_scan_vigilance_run-2/sinker_0_power_params".
201113-09:34:00,740 nipype.workflow INFO:
[Node] Running "sinker_0_power_params" ("CPAC.utils.interfaces.datasink.DataSink")
201113-09:34:00,969 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-2.sinker_0_power_params".
201113-09:34:00,970 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-2.sinker_0_movement_parameters" in "/outputs/tmp/resting_preproc_sub-018_ses-2/_scan_vigilance_run-2/sinker_0_movement_parameters".
201113-09:34:00,976 nipype.workflow INFO:
[Node] Running "sinker_0_movement_parameters" ("CPAC.utils.interfaces.datasink.DataSink")
201113-09:34:01,208 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-2.sinker_0_movement_parameters".
201113-09:34:01,210 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-2.func_despiked_0" in "/outputs/tmp/resting_preproc_sub-018_ses-2/_scan_vigilance_run-2/func_despiked_0".
201113-09:34:01,215 nipype.workflow INFO:
[Node] Running "func_despiked_0" ("nipype.interfaces.afni.preprocess.Despike"), a CommandLine Interface with command:
3dDespike -prefix sub-018_ses-2_task-vigilance_run-2_bold_calc_despike.nii.gz /outputs/tmp/resting_preproc_sub-018_ses-2/_scan_vigilance_run-2/func_despiked_0/sub-018_ses-2_task-vigilance_run-2_bold_calc.nii.gz
201113-09:34:01,469 nipype.interface INFO:
stderr 2020-11-13T09:34:01.469219:++ 3dDespike: AFNI version=AFNI_20.2.19 (Sep 27 2020) [64-bit]
201113-09:34:01,469 nipype.interface INFO:
stderr 2020-11-13T09:34:01.469602:++ Authored by: RW Cox
201113-09:34:01,471 nipype.interface INFO:
stderr 2020-11-13T09:34:01.471424:[7m*+ WARNING:[0m If you are performing spatial transformations on an oblique dset,
201113-09:34:01,471 nipype.interface INFO:
stderr 2020-11-13T09:34:01.471424: such as /outputs/tmp/resting_preproc_sub-018_ses-2/_scan_vigilance_run-2/func_despiked_0/sub-018_ses-2_task-vigilance_run-2_bold_calc.nii.gz,
201113-09:34:01,471 nipype.interface INFO:
stderr 2020-11-13T09:34:01.471424: or viewing/combining it with volumes of differing obliquity,
201113-09:34:01,471 nipype.interface INFO:
stderr 2020-11-13T09:34:01.471424: you should consider running:
201113-09:34:01,471 nipype.interface INFO:
stderr 2020-11-13T09:34:01.471424: 3dWarp -deoblique
201113-09:34:01,472 nipype.interface INFO:
stderr 2020-11-13T09:34:01.471424: on this and other oblique datasets in the same session.
201113-09:34:01,472 nipype.interface INFO:
stderr 2020-11-13T09:34:01.471424: See 3dWarp -help for details.
201113-09:34:01,472 nipype.interface INFO:
stderr 2020-11-13T09:34:01.472238:++ Oblique dataset:/outputs/tmp/resting_preproc_sub-018_ses-2/_scan_vigilance_run-2/func_despiked_0/sub-018_ses-2_task-vigilance_run-2_bold_calc.nii.gz is 30.348724 degrees from plumb.
201113-09:34:01,472 nipype.interface INFO:
stderr 2020-11-13T09:34:01.472419:++ Input dataset is in short format, but output will be in float format
201113-09:34:01,472 nipype.interface INFO:
stderr 2020-11-13T09:34:01.472591:++ ignoring first 0 time points, using last 69
201113-09:34:01,472 nipype.interface INFO:
stderr 2020-11-13T09:34:01.472754:++ using 69 time points => -corder 2
201113-09:34:01,472 nipype.interface INFO:
stderr 2020-11-13T09:34:01.472910:++ Loading dataset /outputs/tmp/resting_preproc_sub-018_ses-2/_scan_vigilance_run-2/func_despiked_0/sub-018_ses-2_task-vigilance_run-2_bold_calc.nii.gz
201113-09:34:01,722 nipype.interface INFO:
stderr 2020-11-13T09:34:01.722368:++ 32517 voxels in the automask [out of 139264 in dataset]
201113-09:34:01,727 nipype.interface INFO:
stderr 2020-11-13T09:34:01.727897:++ 56139 voxels in the dilated automask [out of 139264 in dataset]
201113-09:34:01,733 nipype.interface INFO:
stderr 2020-11-13T09:34:01.733885:++ Procesing time series with OLD model fit algorithm
201113-09:34:01,734 nipype.interface INFO:
stderr 2020-11-13T09:34:01.734062:++ smash edit thresholds: 3.1 .. 5.0 MADs
201113-09:34:01,734 nipype.interface INFO:
stderr 2020-11-13T09:34:01.734221: + [ 3.457% .. 0.072% of normal distribution]
201113-09:34:01,734 nipype.interface INFO:
stderr 2020-11-13T09:34:01.734370: + [ 8.839% .. 3.125% of Laplace distribution]
201113-09:34:01,734 nipype.interface INFO:
stderr 2020-11-13T09:34:01.734542:++ start OpenMP thread #0
201113-09:34:03,442 nipype.interface INFO:
stderr 2020-11-13T09:34:03.442139:.........................
201113-09:34:03,442 nipype.interface INFO:
stderr 2020-11-13T09:34:03.442419:++ Elapsed despike time = 1s 708ms
201113-09:34:03,442 nipype.interface INFO:
stderr 2020-11-13T09:34:03.442576:
201113-09:34:03,443 nipype.interface INFO:
stderr 2020-11-13T09:34:03.443091:++ FINAL: 3873591 data points, 324126 edits [8.368%], 72072 big edits [1.861%]
201113-09:34:05,435 nipype.interface INFO:
stderr 2020-11-13T09:34:05.435491:++ Output dataset ./sub-018_ses-2_task-vigilance_run-2_bold_calc_despike.nii.gz
201113-09:34:05,629 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-2.func_despiked_0".
201113-09:34:05,631 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-2.func_slice_timing_correction_0.slice_timing" in "/outputs/tmp/resting_preproc_sub-018_ses-2/func_slice_timing_correction_0/_scan_vigilance_run-2/slice_timing".
201113-09:34:05,639 nipype.interface WARNING:
Passing a file prefixed by "@" will be deprecated; please use the `slice_timing` input
201113-09:34:05,640 nipype.workflow INFO:
[Node] Running "slice_timing" ("nipype.interfaces.afni.preprocess.TShift"), a CommandLine Interface with command:
3dTshift -prefix sub-018_ses-2_task-vigilance_run-2_bold_calc_despike_tshift.nii.gz -tpattern @/outputs/tmp/resting_preproc_sub-018_ses-2/_scan_vigilance_run-2/scan_params_0/tpattern.txt -TR 2.0s /outputs/tmp/resting_preproc_sub-018_ses-2/func_slice_timing_correction_0/_scan_vigilance_run-2/slice_timing/sub-018_ses-2_task-vigilance_run-2_bold_calc_despike.nii.gz
201113-09:34:05,851 nipype.interface WARNING:
Passing a file prefixed by "@" will be deprecated; please use the `slice_timing` input
201113-09:34:05,893 nipype.interface INFO:
stderr 2020-11-13T09:34:05.892996:++ 3dTshift: AFNI version=AFNI_20.2.19 (Sep 27 2020) [64-bit]
201113-09:34:05,895 nipype.interface INFO:
stderr 2020-11-13T09:34:05.895386:[7m*+ WARNING:[0m If you are performing spatial transformations on an oblique dset,
201113-09:34:05,895 nipype.interface INFO:
stderr 2020-11-13T09:34:05.895386: such as /outputs/tmp/resting_preproc_sub-018_ses-2/func_slice_timing_correction_0/_scan_vigilance_run-2/slice_timing/sub-018_ses-2_task-vigilance_run-2_bold_calc_despike.nii.gz,
201113-09:34:05,895 nipype.interface INFO:
stderr 2020-11-13T09:34:05.895386: or viewing/combining it with volumes of differing obliquity,
201113-09:34:05,895 nipype.interface INFO:
stderr 2020-11-13T09:34:05.895386: you should consider running:
201113-09:34:05,895 nipype.interface INFO:
stderr 2020-11-13T09:34:05.895386: 3dWarp -deoblique
201113-09:34:05,896 nipype.interface INFO:
stderr 2020-11-13T09:34:05.895386: on this and other oblique datasets in the same session.
201113-09:34:05,896 nipype.interface INFO:
stderr 2020-11-13T09:34:05.895386: See 3dWarp -help for details.
201113-09:34:05,896 nipype.interface INFO:
stderr 2020-11-13T09:34:05.896250:++ Oblique dataset:/outputs/tmp/resting_preproc_sub-018_ses-2/func_slice_timing_correction_0/_scan_vigilance_run-2/slice_timing/sub-018_ses-2_task-vigilance_run-2_bold_calc_despike.nii.gz is 30.348724 degrees from plumb.
201113-09:34:08,726 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-2.func_slice_timing_correction_0.slice_timing".
201113-09:34:08,728 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-2.func_preproc_fsl_afni_mean_mcflirt_0.func_deoblique" in "/outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_fsl_afni_mean_mcflirt_0/_scan_vigilance_run-2/func_deoblique".
201113-09:34:08,760 nipype.workflow INFO:
[Node] Running "func_deoblique" ("nipype.interfaces.afni.utils.Refit"), a CommandLine Interface with command:
3drefit -deoblique /outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_fsl_afni_mean_mcflirt_0/_scan_vigilance_run-2/func_deoblique/sub-018_ses-2_task-vigilance_run-2_bold_calc_despike_tshift.nii.gz
201113-09:34:09,10 nipype.interface INFO:
stderr 2020-11-13T09:34:09.010788:++ 3drefit: AFNI version=AFNI_20.2.19 (Sep 27 2020) [64-bit]
201113-09:34:09,11 nipype.interface INFO:
stderr 2020-11-13T09:34:09.011158:++ Authored by: RW Cox
201113-09:34:09,35 nipype.interface INFO:
stderr 2020-11-13T09:34:09.035490:++ Processing AFNI dataset /outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_fsl_afni_mean_mcflirt_0/_scan_vigilance_run-2/func_deoblique/sub-018_ses-2_task-vigilance_run-2_bold_calc_despike_tshift.nii.gz
201113-09:34:09,36 nipype.interface INFO:
stderr 2020-11-13T09:34:09.036110: + deoblique
201113-09:34:09,36 nipype.interface INFO:
stderr 2020-11-13T09:34:09.036303: + loading and re-writing dataset /outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_fsl_afni_mean_mcflirt_0/_scan_vigilance_run-2/func_deoblique/sub-018_ses-2_task-vigilance_run-2_bold_calc_despike_tshift.nii.gz (/outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_fsl_afni_mean_mcflirt_0/_scan_vigilance_run-2/func_deoblique/sub-018_ses-2_task-vigilance_run-2_bold_calc_despike_tshift.nii.gz in NIFTI storage)
201113-09:34:10,155 nipype.interface INFO:
stderr 2020-11-13T09:34:10.155279:++ 3drefit processed 1 datasets
201113-09:34:10,335 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-2.func_preproc_fsl_afni_mean_mcflirt_0.func_deoblique".
201113-09:34:10,337 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-2.func_preproc_fsl_afni_mean_mcflirt_0.func_reorient" in "/outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_fsl_afni_mean_mcflirt_0/_scan_vigilance_run-2/func_reorient".
201113-09:34:10,343 nipype.workflow INFO:
[Node] Running "func_reorient" ("nipype.interfaces.afni.utils.Resample"), a CommandLine Interface with command:
3dresample -orient RPI -prefix sub-018_ses-2_task-vigilance_run-2_bold_calc_despike_tshift_resample.nii.gz -inset /outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_fsl_afni_mean_mcflirt_0/_scan_vigilance_run-2/func_reorient/sub-018_ses-2_task-vigilance_run-2_bold_calc_despike_tshift.nii.gz
201113-09:34:12,6 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-2.func_preproc_fsl_afni_mean_mcflirt_0.func_reorient".
201113-09:34:12,7 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-2.func_preproc_fsl_afni_mean_mcflirt_0.func_get_mean_RPI" in "/outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_fsl_afni_mean_mcflirt_0/_scan_vigilance_run-2/func_get_mean_RPI".
201113-09:34:12,15 nipype.workflow INFO:
[Node] Running "func_get_mean_RPI" ("nipype.interfaces.afni.utils.TStat"), a CommandLine Interface with command:
3dTstat -mean -prefix sub-018_ses-2_task-vigilance_run-2_bold_calc_despike_tshift_resample_tstat.nii.gz /outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_fsl_afni_mean_mcflirt_0/_scan_vigilance_run-2/func_get_mean_RPI/sub-018_ses-2_task-vigilance_run-2_bold_calc_despike_tshift_resample.nii.gz
201113-09:34:12,262 nipype.interface INFO:
stderr 2020-11-13T09:34:12.262352:++ 3dTstat: AFNI version=AFNI_20.2.19 (Sep 27 2020) [64-bit]
201113-09:34:12,262 nipype.interface INFO:
stderr 2020-11-13T09:34:12.262694:++ Authored by: KR Hammett & RW Cox
201113-09:34:12,588 nipype.interface INFO:
stderr 2020-11-13T09:34:12.588445:++ Output dataset ./sub-018_ses-2_task-vigilance_run-2_bold_calc_despike_tshift_resample_tstat.nii.gz
201113-09:34:12,771 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-2.func_preproc_fsl_afni_mean_mcflirt_0.func_get_mean_RPI".
201113-09:34:12,772 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-2.func_preproc_fsl_afni_mean_mcflirt_0.func_generate_ref" in "/outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_fsl_afni_mean_mcflirt_0/_scan_vigilance_run-2/func_generate_ref".
201113-09:34:12,779 nipype.workflow INFO:
[Node] Running "func_generate_ref" ("nipype.interfaces.afni.preprocess.Volreg"), a CommandLine Interface with command:
3dvolreg -twopass -Fourier -1Dfile sub-018_ses-2_task-vigilance_run-2_bold_calc_despike_tshift_resample.1D -1Dmatrix_save sub-018_ses-2_task-vigilance_run-2_bold_calc_despike_tshift_resample.aff12.1D -prefix sub-018_ses-2_task-vigilance_run-2_bold_calc_despike_tshift_resample_volreg.nii.gz -base /outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_fsl_afni_mean_mcflirt_0/_scan_vigilance_run-2/func_get_mean_RPI/sub-018_ses-2_task-vigilance_run-2_bold_calc_despike_tshift_resample_tstat.nii.gz -zpad 4 -maxdisp1D sub-018_ses-2_task-vigilance_run-2_bold_calc_despike_tshift_resample_md.1D /outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_fsl_afni_mean_mcflirt_0/_scan_vigilance_run-2/func_generate_ref/sub-018_ses-2_task-vigilance_run-2_bold_calc_despike_tshift_resample.nii.gz
201113-09:34:13,24 nipype.interface INFO:
stderr 2020-11-13T09:34:13.024229:++ 3dvolreg: AFNI version=AFNI_20.2.19 (Sep 27 2020) [64-bit]
201113-09:34:13,24 nipype.interface INFO:
stderr 2020-11-13T09:34:13.024577:++ Authored by: RW Cox
201113-09:34:13,31 nipype.interface INFO:
stderr 2020-11-13T09:34:13.031442:++ Coarse del was 10, replaced with 3
201113-09:35:10,163 nipype.interface INFO:
stderr 2020-11-13T09:35:10.163675:++ Max displacement in automask = 0.73 (mm) at sub-brick 38
201113-09:35:10,164 nipype.interface INFO:
stderr 2020-11-13T09:35:10.164128:++ Max delta displ in automask = 0.68 (mm) at sub-brick 51
201113-09:35:12,807 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-2.func_preproc_fsl_afni_mean_mcflirt_0.func_generate_ref".
201113-09:35:12,808 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-2.func_preproc_fsl_afni_mean_mcflirt_0.func_get_mean_motion" in "/outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_fsl_afni_mean_mcflirt_0/_scan_vigilance_run-2/func_get_mean_motion".
201113-09:35:12,814 nipype.workflow INFO:
[Node] Running "func_get_mean_motion" ("nipype.interfaces.afni.utils.TStat"), a CommandLine Interface with command:
3dTstat -mean -prefix sub-018_ses-2_task-vigilance_run-2_bold_calc_despike_tshift_resample_volreg_tstat.nii.gz /outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_fsl_afni_mean_mcflirt_0/_scan_vigilance_run-2/func_get_mean_motion/sub-018_ses-2_task-vigilance_run-2_bold_calc_despike_tshift_resample_volreg.nii.gz
201113-09:35:13,72 nipype.interface INFO:
stderr 2020-11-13T09:35:13.072702:++ 3dTstat: AFNI version=AFNI_20.2.19 (Sep 27 2020) [64-bit]
201113-09:35:13,73 nipype.interface INFO:
stderr 2020-11-13T09:35:13.073203:++ Authored by: KR Hammett & RW Cox
201113-09:35:13,509 nipype.interface INFO:
stderr 2020-11-13T09:35:13.509386:++ Output dataset ./sub-018_ses-2_task-vigilance_run-2_bold_calc_despike_tshift_resample_volreg_tstat.nii.gz
201113-09:35:13,690 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-2.func_preproc_fsl_afni_mean_mcflirt_0.func_get_mean_motion".
201113-09:35:13,691 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-2.func_preproc_fsl_afni_mean_mcflirt_0.func_motion_correct_mcflirt" in "/outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_fsl_afni_mean_mcflirt_0/_scan_vigilance_run-2/func_motion_correct_mcflirt".
201113-09:35:13,699 nipype.workflow INFO:
[Node] Running "func_motion_correct_mcflirt" ("nipype.interfaces.fsl.preprocess.MCFLIRT"), a CommandLine Interface with command:
mcflirt -in /outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_fsl_afni_mean_mcflirt_0/_scan_vigilance_run-2/func_reorient/sub-018_ses-2_task-vigilance_run-2_bold_calc_despike_tshift_resample.nii.gz -out /outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_fsl_afni_mean_mcflirt_0/_scan_vigilance_run-2/func_motion_correct_mcflirt/sub-018_ses-2_task-vigilance_run-2_bold_calc_despike_tshift_resample_mcf.nii.gz -reffile /outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_fsl_afni_mean_mcflirt_0/_scan_vigilance_run-2/func_get_mean_motion/sub-018_ses-2_task-vigilance_run-2_bold_calc_despike_tshift_resample_volreg_tstat.nii.gz -mats -plots -rmsabs -rmsrel
201113-09:35:25,90 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-2.func_preproc_fsl_afni_mean_mcflirt_0.func_motion_correct_mcflirt".
201113-09:35:25,96 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-2.sinker_0_motion_correct" in "/outputs/tmp/resting_preproc_sub-018_ses-2/_scan_vigilance_run-2/sinker_0_motion_correct".
201113-09:35:25,103 nipype.workflow INFO:
[Node] Running "sinker_0_motion_correct" ("CPAC.utils.interfaces.datasink.DataSink")
201113-09:35:25,333 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-2.sinker_0_motion_correct".
201113-09:35:25,335 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-2.func_preproc_fsl_afni_mean_mcflirt_0.func_preproc_fsl_afni_mean_mcflirt_0_skullstrip.func_mean_skull" in "/outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_fsl_afni_mean_mcflirt_0/func_preproc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_vigilance_run-2/func_mean_skull".
201113-09:35:25,341 nipype.workflow INFO:
[Node] Running "func_mean_skull" ("nipype.interfaces.afni.utils.TStat"), a CommandLine Interface with command:
3dTstat -mean -prefix sub-018_ses-2_task-vigilance_run-2_bold_calc_despike_tshift_resample_mcf_tstat.nii.gz /outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_fsl_afni_mean_mcflirt_0/func_preproc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_vigilance_run-2/func_mean_skull/sub-018_ses-2_task-vigilance_run-2_bold_calc_despike_tshift_resample_mcf.nii.gz
201113-09:35:25,611 nipype.interface INFO:
stderr 2020-11-13T09:35:25.611902:++ 3dTstat: AFNI version=AFNI_20.2.19 (Sep 27 2020) [64-bit]
201113-09:35:25,612 nipype.interface INFO:
stderr 2020-11-13T09:35:25.612265:++ Authored by: KR Hammett & RW Cox
201113-09:35:25,960 nipype.interface INFO:
stderr 2020-11-13T09:35:25.960616:++ Output dataset ./sub-018_ses-2_task-vigilance_run-2_bold_calc_despike_tshift_resample_mcf_tstat.nii.gz
201113-09:35:26,143 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-2.func_preproc_fsl_afni_mean_mcflirt_0.func_preproc_fsl_afni_mean_mcflirt_0_skullstrip.func_mean_skull".
201113-09:35:26,145 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-2.func_preproc_fsl_afni_mean_mcflirt_0.func_preproc_fsl_afni_mean_mcflirt_0_skullstrip.skullstrip_first_pass" in "/outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_fsl_afni_mean_mcflirt_0/func_preproc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_vigilance_run-2/skullstrip_first_pass".
201113-09:35:26,151 nipype.workflow INFO:
[Node] Running "skullstrip_first_pass" ("nipype.interfaces.fsl.preprocess.BET"), a CommandLine Interface with command:
bet /outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_fsl_afni_mean_mcflirt_0/func_preproc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_vigilance_run-2/func_mean_skull/sub-018_ses-2_task-vigilance_run-2_bold_calc_despike_tshift_resample_mcf_tstat.nii.gz /outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_fsl_afni_mean_mcflirt_0/func_preproc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_vigilance_run-2/skullstrip_first_pass/sub-018_ses-2_task-vigilance_run-2_bold_calc_despike_tshift_resample_mcf_tstat_brain.nii.gz -f 0.20 -m
201113-09:35:27,997 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-2.func_preproc_fsl_afni_mean_mcflirt_0.func_preproc_fsl_afni_mean_mcflirt_0_skullstrip.skullstrip_first_pass".
201113-09:35:27,999 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-2.func_preproc_fsl_afni_mean_mcflirt_0.func_preproc_fsl_afni_mean_mcflirt_0_skullstrip.skullstrip_first_dilate" in "/outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_fsl_afni_mean_mcflirt_0/func_preproc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_vigilance_run-2/skullstrip_first_dilate".
201113-09:35:28,4 nipype.workflow INFO:
[Node] Running "skullstrip_first_dilate" ("nipype.interfaces.fsl.maths.DilateImage"), a CommandLine Interface with command:
fslmaths -dt char /outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_fsl_afni_mean_mcflirt_0/func_preproc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_vigilance_run-2/skullstrip_first_pass/sub-018_ses-2_task-vigilance_run-2_bold_calc_despike_tshift_resample_mcf_tstat_brain_mask.nii.gz -kernel sphere 6.0000 -dilF /outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_fsl_afni_mean_mcflirt_0/func_preproc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_vigilance_run-2/skullstrip_first_dilate/sub-018_ses-2_task-vigilance_run-2_bold_calc_despike_tshift_resample_mcf_tstat_brain_mask_dil.nii.gz
201113-09:35:28,683 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-2.func_preproc_fsl_afni_mean_mcflirt_0.func_preproc_fsl_afni_mean_mcflirt_0_skullstrip.skullstrip_first_dilate".
201113-09:35:28,684 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-2.func_preproc_fsl_afni_mean_mcflirt_0.func_preproc_fsl_afni_mean_mcflirt_0_skullstrip.skullstrip_first_mask" in "/outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_fsl_afni_mean_mcflirt_0/func_preproc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_vigilance_run-2/skullstrip_first_mask".
201113-09:35:28,690 nipype.workflow INFO:
[Node] Running "skullstrip_first_mask" ("nipype.interfaces.fsl.maths.ApplyMask"), a CommandLine Interface with command:
fslmaths /outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_fsl_afni_mean_mcflirt_0/func_preproc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_vigilance_run-2/skullstrip_first_pass/sub-018_ses-2_task-vigilance_run-2_bold_calc_despike_tshift_resample_mcf_tstat_brain.nii.gz -mas /outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_fsl_afni_mean_mcflirt_0/func_preproc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_vigilance_run-2/skullstrip_first_dilate/sub-018_ses-2_task-vigilance_run-2_bold_calc_despike_tshift_resample_mcf_tstat_brain_mask_dil.nii.gz /outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_fsl_afni_mean_mcflirt_0/func_preproc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_vigilance_run-2/skullstrip_first_mask/sub-018_ses-2_task-vigilance_run-2_bold_calc_despike_tshift_resample_mcf_tstat_brain_masked.nii.gz
201113-09:35:29,139 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-2.func_preproc_fsl_afni_mean_mcflirt_0.func_preproc_fsl_afni_mean_mcflirt_0_skullstrip.skullstrip_first_mask".
201113-09:35:29,140 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-2.func_preproc_fsl_afni_mean_mcflirt_0.func_preproc_fsl_afni_mean_mcflirt_0_skullstrip.unifize" in "/outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_fsl_afni_mean_mcflirt_0/func_preproc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_vigilance_run-2/unifize".
201113-09:35:29,146 nipype.workflow INFO:
[Node] Running "unifize" ("nipype.interfaces.afni.utils.Unifize"), a CommandLine Interface with command:
3dUnifize -clfrac 0.2 -rbt 18.3 65.0 90.0 -prefix uni.nii.gz -T2 -input /outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_fsl_afni_mean_mcflirt_0/func_preproc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_vigilance_run-2/unifize/sub-018_ses-2_task-vigilance_run-2_bold_calc_despike_tshift_resample_mcf_tstat_brain_masked.nii.gz
201113-09:35:29,401 nipype.interface INFO:
stderr 2020-11-13T09:35:29.401126:++ 3dUnifize: AFNI version=AFNI_20.2.19 (Sep 27 2020) [64-bit]
201113-09:36:41,447 nipype.interface INFO:
stderr 2020-11-13T09:36:41.447263: + Pre-processing: IAV..UW[s3785]Im
201113-09:36:41,461 nipype.interface INFO:
stderr 2020-11-13T09:36:41.461702:++ Output dataset ./uni.nii.gz
201113-09:36:41,462 nipype.interface INFO:
stderr 2020-11-13T09:36:41.461984:++ ===== Elapsed = 72.1 sec
201113-09:36:41,671 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-2.func_preproc_fsl_afni_mean_mcflirt_0.func_preproc_fsl_afni_mean_mcflirt_0_skullstrip.unifize".
201113-09:36:41,673 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-2.func_preproc_fsl_afni_mean_mcflirt_0.func_preproc_fsl_afni_mean_mcflirt_0_skullstrip.skullstrip_second_pass" in "/outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_fsl_afni_mean_mcflirt_0/func_preproc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_vigilance_run-2/skullstrip_second_pass".
201113-09:36:41,679 nipype.workflow INFO:
[Node] Running "skullstrip_second_pass" ("nipype.interfaces.afni.preprocess.Automask"), a CommandLine Interface with command:
3dAutomask -apply_prefix uni_masked.nii.gz -dilate 1 -prefix uni_mask.nii.gz /outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_fsl_afni_mean_mcflirt_0/func_preproc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_vigilance_run-2/skullstrip_second_pass/uni.nii.gz
201113-09:36:41,930 nipype.interface INFO:
stderr 2020-11-13T09:36:41.930145:++ 3dAutomask: AFNI version=AFNI_20.2.19 (Sep 27 2020) [64-bit]
201113-09:36:41,930 nipype.interface INFO:
stderr 2020-11-13T09:36:41.930676:++ Authored by: Emperor Zhark
201113-09:36:41,932 nipype.interface INFO:
stderr 2020-11-13T09:36:41.932944:++ Loading dataset /outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_fsl_afni_mean_mcflirt_0/func_preproc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_vigilance_run-2/skullstrip_second_pass/uni.nii.gz
201113-09:36:41,938 nipype.interface INFO:
stderr 2020-11-13T09:36:41.938246:++ Forming automask
201113-09:36:41,940 nipype.interface INFO:
stderr 2020-11-13T09:36:41.940231: + Fixed clip level = 422.469543
201113-09:36:41,945 nipype.interface INFO:
stderr 2020-11-13T09:36:41.945346: + Used gradual clip level = 380.347443 .. 520.718445
201113-09:36:41,945 nipype.interface INFO:
stderr 2020-11-13T09:36:41.945562: + Number voxels above clip level = 28913
201113-09:36:41,945 nipype.interface INFO:
stderr 2020-11-13T09:36:41.945720: + Clustering voxels ...
201113-09:36:41,947 nipype.interface INFO:
stderr 2020-11-13T09:36:41.947039: + Largest cluster has 28911 voxels
201113-09:36:41,948 nipype.interface INFO:
stderr 2020-11-13T09:36:41.948347: + Clustering voxels ...
201113-09:36:41,949 nipype.interface INFO:
stderr 2020-11-13T09:36:41.949425: + Largest cluster has 28428 voxels
201113-09:36:41,952 nipype.interface INFO:
stderr 2020-11-13T09:36:41.952783: + Filled 618 voxels in small holes; now have 29046 voxels
201113-09:36:41,955 nipype.interface INFO:
stderr 2020-11-13T09:36:41.954993: + Filled 3 voxels in large holes; now have 29049 voxels
201113-09:36:41,956 nipype.interface INFO:
stderr 2020-11-13T09:36:41.956205: + Clustering voxels ...
201113-09:36:41,957 nipype.interface INFO:
stderr 2020-11-13T09:36:41.957278: + Largest cluster has 29049 voxels
201113-09:36:41,957 nipype.interface INFO:
stderr 2020-11-13T09:36:41.957511: + Clustering non-brain voxels ...
201113-09:36:41,957 nipype.interface INFO:
stderr 2020-11-13T09:36:41.957654: + Clustering voxels ...
201113-09:36:41,960 nipype.interface INFO:
stderr 2020-11-13T09:36:41.960535: + Largest cluster has 110191 voxels
201113-09:36:41,960 nipype.interface INFO:
stderr 2020-11-13T09:36:41.960859: + Mask now has 29073 voxels
201113-09:36:41,961 nipype.interface INFO:
stderr 2020-11-13T09:36:41.961010:++ Dilating automask
201113-09:36:41,967 nipype.interface INFO:
stderr 2020-11-13T09:36:41.967005: + Clustering voxels ...
201113-09:36:41,969 nipype.interface INFO:
stderr 2020-11-13T09:36:41.969443: + Largest cluster has 104572 voxels
201113-09:36:41,969 nipype.interface INFO:
stderr 2020-11-13T09:36:41.969780:++ 34692 voxels in the mask [out of 139264: 24.91%]
201113-09:36:41,969 nipype.interface INFO:
stderr 2020-11-13T09:36:41.969947:++ first 9 x-planes are zero [from R]
201113-09:36:41,970 nipype.interface INFO:
stderr 2020-11-13T09:36:41.970106:++ last 9 x-planes are zero [from L]
201113-09:36:41,970 nipype.interface INFO:
stderr 2020-11-13T09:36:41.970242:++ first 1 y-planes are zero [from P]
201113-09:36:41,970 nipype.interface INFO:
stderr 2020-11-13T09:36:41.970391:++ last 9 y-planes are zero [from A]
201113-09:36:41,970 nipype.interface INFO:
stderr 2020-11-13T09:36:41.970716:++ first 0 z-planes are zero [from I]
201113-09:36:41,970 nipype.interface INFO:
stderr 2020-11-13T09:36:41.970879:++ last 2 z-planes are zero [from S]
201113-09:36:41,974 nipype.interface INFO:
stderr 2020-11-13T09:36:41.974890:++ Output dataset ./uni_mask.nii.gz
201113-09:36:41,975 nipype.interface INFO:
stderr 2020-11-13T09:36:41.975102:++ applying mask to original data
201113-09:36:41,975 nipype.interface INFO:
stderr 2020-11-13T09:36:41.975962:++ Writing masked data
201113-09:36:41,989 nipype.interface INFO:
stderr 2020-11-13T09:36:41.989261:++ Output dataset ./uni_masked.nii.gz
201113-09:36:41,989 nipype.interface INFO:
stderr 2020-11-13T09:36:41.989579:++ CPU time = 0.000000 sec
201113-09:36:42,173 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-2.func_preproc_fsl_afni_mean_mcflirt_0.func_preproc_fsl_afni_mean_mcflirt_0_skullstrip.skullstrip_second_pass".
201113-09:36:42,174 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-2.func_preproc_fsl_afni_mean_mcflirt_0.func_preproc_fsl_afni_mean_mcflirt_0_skullstrip.combine_masks" in "/outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_fsl_afni_mean_mcflirt_0/func_preproc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_vigilance_run-2/combine_masks".
201113-09:36:42,181 nipype.workflow INFO:
[Node] Running "combine_masks" ("nipype.interfaces.fsl.maths.BinaryMaths"), a CommandLine Interface with command:
fslmaths /outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_fsl_afni_mean_mcflirt_0/func_preproc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_vigilance_run-2/skullstrip_first_pass/sub-018_ses-2_task-vigilance_run-2_bold_calc_despike_tshift_resample_mcf_tstat_brain_mask.nii.gz -mul /outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_fsl_afni_mean_mcflirt_0/func_preproc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_vigilance_run-2/skullstrip_second_pass/uni_mask.nii.gz /outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_fsl_afni_mean_mcflirt_0/func_preproc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_vigilance_run-2/combine_masks/sub-018_ses-2_task-vigilance_run-2_bold_calc_despike_tshift_resample_mcf_tstat_brain_mask_maths.nii.gz
201113-09:36:42,613 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-2.func_preproc_fsl_afni_mean_mcflirt_0.func_preproc_fsl_afni_mean_mcflirt_0_skullstrip.combine_masks".
201113-09:36:42,615 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-2.nuisance_regressor_0_0.GlobalSignal_merge_masks" in "/outputs/tmp/resting_preproc_sub-018_ses-2/nuisance_regressor_0_0/_scan_vigilance_run-2/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/GlobalSignal_merge_masks".
201113-09:36:42,619 nipype.workflow INFO:
[Node] Running "GlobalSignal_merge_masks" ("nipype.interfaces.utility.base.Merge")
201113-09:36:42,848 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-2.nuisance_regressor_0_0.GlobalSignal_merge_masks".
201113-09:36:42,850 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-2.nuisance_regressor_0_0.GlobalSignal_union_masks" in "/outputs/tmp/resting_preproc_sub-018_ses-2/nuisance_regressor_0_0/_scan_vigilance_run-2/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/GlobalSignal_union_masks".
201113-09:36:42,856 nipype.workflow INFO:
[Node] Running "GlobalSignal_union_masks" ("CPAC.utils.interfaces.masktool.MaskTool"), a CommandLine Interface with command:
3dmask_tool -prefix sub-018_ses-2_task-vigilance_run-2_bold_calc_despike_tshift_resample_mcf_tstat_brain_mask_maths_mask.nii.gz -input /outputs/tmp/resting_preproc_sub-018_ses-2/nuisance_regressor_0_0/_scan_vigilance_run-2/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/GlobalSignal_union_masks/sub-018_ses-2_task-vigilance_run-2_bold_calc_despike_tshift_resample_mcf_tstat_brain_mask_maths.nii.gz
201113-09:36:43,110 nipype.interface INFO:
stderr 2020-11-13T09:36:43.110033:++ no -frac option: defaulting to -union
201113-09:36:43,110 nipype.interface INFO:
stderr 2020-11-13T09:36:43.110396:++ processing 1 input dataset(s), NN=2...
201113-09:36:43,110 nipype.interface INFO:
stderr 2020-11-13T09:36:43.110615:++ padding all datasets by 0 (for dilations)
201113-09:36:43,115 nipype.interface INFO:
stderr 2020-11-13T09:36:43.115089:++ frac 0 over 1 volumes gives min count 0
201113-09:36:43,115 nipype.interface INFO:
stderr 2020-11-13T09:36:43.115503:++ voxel limits: 0 clipped, 34647 survived, 104617 were zero
201113-09:36:43,115 nipype.interface INFO:
stderr 2020-11-13T09:36:43.115691:++ writing result sub-018_ses-2_task-vigilance_run-2_bold_calc_despike_tshift_resample_mcf_tstat_brain_mask_maths_mask.nii.gz...
201113-09:36:43,120 nipype.interface INFO:
stderr 2020-11-13T09:36:43.120168:++ Output dataset ./sub-018_ses-2_task-vigilance_run-2_bold_calc_despike_tshift_resample_mcf_tstat_brain_mask_maths_mask.nii.gz
201113-09:36:43,308 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-2.nuisance_regressor_0_0.GlobalSignal_union_masks".
201113-09:36:43,310 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-2.sinker_0_functional_brain_mask" in "/outputs/tmp/resting_preproc_sub-018_ses-2/_scan_vigilance_run-2/sinker_0_functional_brain_mask".
201113-09:36:43,317 nipype.workflow INFO:
[Node] Running "sinker_0_functional_brain_mask" ("CPAC.utils.interfaces.datasink.DataSink")
201113-09:36:43,546 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-2.sinker_0_functional_brain_mask".
201113-09:36:43,548 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-2.functional_brain_mask_derivative_0" in "/outputs/tmp/resting_preproc_sub-018_ses-2/_scan_vigilance_run-2/functional_brain_mask_derivative_0".
201113-09:36:43,553 nipype.workflow INFO:
[Node] Running "functional_brain_mask_derivative_0" ("CPAC.utils.interfaces.function.Function")
201113-09:36:43,766 nipype.workflow INFO:
[Node] Setting-up "functional_brain_mask_derivative" in "/outputs/tmp/resting_preproc_sub-018_ses-2/_scan_vigilance_run-2/functional_brain_mask_derivative_0/functional_brain_mask_derivative".
201113-09:36:43,771 nipype.workflow INFO:
[Node] Running "functional_brain_mask_derivative" ("nipype.interfaces.afni.utils.Resample"), a CommandLine Interface with command:
3dresample -prefix sub-018_ses-2_task-vigilance_run-2_bold_calc_despike_tshift_resample_mcf_tstat_brain_mask_maths_resample.nii.gz -rmode Cu -dxyz 2.000000 2.000000 2.000000 -inset /outputs/tmp/resting_preproc_sub-018_ses-2/_scan_vigilance_run-2/functional_brain_mask_derivative_0/functional_brain_mask_derivative/sub-018_ses-2_task-vigilance_run-2_bold_calc_despike_tshift_resample_mcf_tstat_brain_mask_maths.nii.gz
201113-09:36:44,282 nipype.workflow INFO:
[Node] Finished "functional_brain_mask_derivative".
201113-09:36:44,300 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-2.functional_brain_mask_derivative_0".
201113-09:36:44,301 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-2.func_preproc_fsl_afni_mean_mcflirt_0.func_preproc_fsl_afni_mean_mcflirt_0_skullstrip.func_extract_brain" in "/outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_fsl_afni_mean_mcflirt_0/func_preproc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_vigilance_run-2/func_extract_brain".
201113-09:36:44,308 nipype.workflow INFO:
[Node] Running "func_extract_brain" ("nipype.interfaces.afni.utils.Calc"), a CommandLine Interface with command:
3dcalc -a /outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_fsl_afni_mean_mcflirt_0/_scan_vigilance_run-2/func_motion_correct_mcflirt/sub-018_ses-2_task-vigilance_run-2_bold_calc_despike_tshift_resample_mcf.nii.gz -b /outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_fsl_afni_mean_mcflirt_0/func_preproc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_vigilance_run-2/combine_masks/sub-018_ses-2_task-vigilance_run-2_bold_calc_despike_tshift_resample_mcf_tstat_brain_mask_maths.nii.gz -expr "a*b" -prefix sub-018_ses-2_task-vigilance_run-2_bold_calc_despike_tshift_resample_mcf_calc.nii.gz
201113-09:36:44,555 nipype.interface INFO:
stderr 2020-11-13T09:36:44.555465:++ 3dcalc: AFNI version=AFNI_20.2.19 (Sep 27 2020) [64-bit]
201113-09:36:44,555 nipype.interface INFO:
stderr 2020-11-13T09:36:44.555817:++ Authored by: A cast of thousands
201113-09:36:46,165 nipype.interface INFO:
stderr 2020-11-13T09:36:46.165012:++ Output dataset ./sub-018_ses-2_task-vigilance_run-2_bold_calc_despike_tshift_resample_mcf_calc.nii.gz
201113-09:36:46,374 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-2.func_preproc_fsl_afni_mean_mcflirt_0.func_preproc_fsl_afni_mean_mcflirt_0_skullstrip.func_extract_brain".
201113-09:36:46,375 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-2.func_preproc_fsl_afni_mean_mcflirt_0.func_normalize" in "/outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_fsl_afni_mean_mcflirt_0/_scan_vigilance_run-2/func_normalize".
201113-09:36:46,381 nipype.workflow INFO:
[Node] Running "func_normalize" ("nipype.interfaces.fsl.utils.ImageMaths"), a CommandLine Interface with command:
fslmaths /outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_fsl_afni_mean_mcflirt_0/func_preproc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_vigilance_run-2/func_extract_brain/sub-018_ses-2_task-vigilance_run-2_bold_calc_despike_tshift_resample_mcf_calc.nii.gz -ing 10000 /outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_fsl_afni_mean_mcflirt_0/_scan_vigilance_run-2/func_normalize/sub-018_ses-2_task-vigilance_run-2_bold_calc_despike_tshift_resample_mcf_calc_maths.nii.gz -odt float
201113-09:36:47,759 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-2.func_preproc_fsl_afni_mean_mcflirt_0.func_normalize".
201113-09:36:47,760 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-2.nuisance_regressor_0_0.GlobalSignal_mean" in "/outputs/tmp/resting_preproc_sub-018_ses-2/nuisance_regressor_0_0/_scan_vigilance_run-2/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/GlobalSignal_mean".
201113-09:36:47,766 nipype.workflow INFO:
[Node] Running "GlobalSignal_mean" ("nipype.interfaces.afni.preprocess.ROIStats"), a CommandLine Interface with command:
3dROIstats -mask /outputs/tmp/resting_preproc_sub-018_ses-2/nuisance_regressor_0_0/_scan_vigilance_run-2/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/GlobalSignal_union_masks/sub-018_ses-2_task-vigilance_run-2_bold_calc_despike_tshift_resample_mcf_tstat_brain_mask_maths_mask.nii.gz -1Dformat /outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_fsl_afni_mean_mcflirt_0/_scan_vigilance_run-2/func_normalize/sub-018_ses-2_task-vigilance_run-2_bold_calc_despike_tshift_resample_mcf_calc_maths.nii.gz
201113-09:36:48,458 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-2.nuisance_regressor_0_0.GlobalSignal_mean".
201113-09:36:48,460 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-2.nuisance_regressor_0_0.functional_mean" in "/outputs/tmp/resting_preproc_sub-018_ses-2/nuisance_regressor_0_0/_scan_vigilance_run-2/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/functional_mean".
201113-09:36:48,466 nipype.workflow INFO:
[Node] Running "functional_mean" ("nipype.interfaces.afni.utils.TStat"), a CommandLine Interface with command:
3dTstat -mean -prefix sub-018_ses-2_task-vigilance_run-2_bold_calc_despike_tshift_resample_mcf_calc_maths_tstat.nii.gz /outputs/tmp/resting_preproc_sub-018_ses-2/nuisance_regressor_0_0/_scan_vigilance_run-2/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/functional_mean/sub-018_ses-2_task-vigilance_run-2_bold_calc_despike_tshift_resample_mcf_calc_maths.nii.gz
201113-09:36:48,715 nipype.interface INFO:
stderr 2020-11-13T09:36:48.715287:++ 3dTstat: AFNI version=AFNI_20.2.19 (Sep 27 2020) [64-bit]
201113-09:36:48,715 nipype.interface INFO:
stderr 2020-11-13T09:36:48.715645:++ Authored by: KR Hammett & RW Cox
201113-09:36:49,24 nipype.interface INFO:
stderr 2020-11-13T09:36:49.024307:++ Output dataset ./sub-018_ses-2_task-vigilance_run-2_bold_calc_despike_tshift_resample_mcf_calc_maths_tstat.nii.gz
201113-09:36:49,210 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-2.nuisance_regressor_0_0.functional_mean".
201113-09:36:49,212 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-2.qc_snr_0.std_dev" in "/outputs/tmp/resting_preproc_sub-018_ses-2/qc_snr_0/_scan_vigilance_run-2/std_dev".
201113-09:36:49,218 nipype.workflow INFO:
[Node] Running "std_dev" ("nipype.interfaces.afni.utils.TStat"), a CommandLine Interface with command:
3dTstat -stdev -mask /outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_fsl_afni_mean_mcflirt_0/func_preproc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_vigilance_run-2/combine_masks/sub-018_ses-2_task-vigilance_run-2_bold_calc_despike_tshift_resample_mcf_tstat_brain_mask_maths.nii.gz -prefix sub-018_ses-2_task-vigilance_run-2_bold_calc_despike_tshift_resample_mcf_calc_maths_tstat.nii.gz /outputs/tmp/resting_preproc_sub-018_ses-2/qc_snr_0/_scan_vigilance_run-2/std_dev/sub-018_ses-2_task-vigilance_run-2_bold_calc_despike_tshift_resample_mcf_calc_maths.nii.gz
201113-09:36:49,464 nipype.interface INFO:
stderr 2020-11-13T09:36:49.464847:++ 3dTstat: AFNI version=AFNI_20.2.19 (Sep 27 2020) [64-bit]
201113-09:36:49,465 nipype.interface INFO:
stderr 2020-11-13T09:36:49.465190:++ Authored by: KR Hammett & RW Cox
201113-09:36:49,748 nipype.interface INFO:
stderr 2020-11-13T09:36:49.748858:++ Output dataset ./sub-018_ses-2_task-vigilance_run-2_bold_calc_despike_tshift_resample_mcf_calc_maths_tstat.nii.gz
201113-09:36:49,936 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-2.qc_snr_0.std_dev".
201113-09:36:49,938 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-2.sinker_0_functional_preprocessed" in "/outputs/tmp/resting_preproc_sub-018_ses-2/_scan_vigilance_run-2/sinker_0_functional_preprocessed".
201113-09:36:49,945 nipype.workflow INFO:
[Node] Running "sinker_0_functional_preprocessed" ("CPAC.utils.interfaces.datasink.DataSink")
201113-09:36:50,173 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-2.sinker_0_functional_preprocessed".
201113-09:36:50,175 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-2.func_preproc_fsl_afni_mean_mcflirt_0.func_mask_normalize" in "/outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_fsl_afni_mean_mcflirt_0/_scan_vigilance_run-2/func_mask_normalize".
201113-09:36:50,181 nipype.workflow INFO:
[Node] Running "func_mask_normalize" ("nipype.interfaces.fsl.utils.ImageMaths"), a CommandLine Interface with command:
fslmaths /outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_fsl_afni_mean_mcflirt_0/_scan_vigilance_run-2/func_normalize/sub-018_ses-2_task-vigilance_run-2_bold_calc_despike_tshift_resample_mcf_calc_maths.nii.gz -Tmin -bin /outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_fsl_afni_mean_mcflirt_0/_scan_vigilance_run-2/func_mask_normalize/sub-018_ses-2_task-vigilance_run-2_bold_calc_despike_tshift_resample_mcf_calc_maths_maths.nii.gz -odt char
201113-09:36:50,944 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-2.func_preproc_fsl_afni_mean_mcflirt_0.func_mask_normalize".
201113-09:36:50,946 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-2.sinker_0_functional_preprocessed_mask" in "/outputs/tmp/resting_preproc_sub-018_ses-2/_scan_vigilance_run-2/sinker_0_functional_preprocessed_mask".
201113-09:36:50,953 nipype.workflow INFO:
[Node] Running "sinker_0_functional_preprocessed_mask" ("CPAC.utils.interfaces.datasink.DataSink")
201113-09:36:51,185 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-2.sinker_0_functional_preprocessed_mask".
201113-09:36:51,187 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-2.func_preproc_fsl_afni_mean_mcflirt_0.func_mean" in "/outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_fsl_afni_mean_mcflirt_0/_scan_vigilance_run-2/func_mean".
201113-09:36:51,193 nipype.workflow INFO:
[Node] Running "func_mean" ("nipype.interfaces.afni.utils.TStat"), a CommandLine Interface with command:
3dTstat -mean -prefix sub-018_ses-2_task-vigilance_run-2_bold_calc_despike_tshift_resample_mcf_calc_tstat.nii.gz /outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_fsl_afni_mean_mcflirt_0/_scan_vigilance_run-2/func_mean/sub-018_ses-2_task-vigilance_run-2_bold_calc_despike_tshift_resample_mcf_calc.nii.gz
201113-09:36:51,444 nipype.interface INFO:
stderr 2020-11-13T09:36:51.444338:++ 3dTstat: AFNI version=AFNI_20.2.19 (Sep 27 2020) [64-bit]
201113-09:36:51,444 nipype.interface INFO:
stderr 2020-11-13T09:36:51.444947:++ Authored by: KR Hammett & RW Cox
201113-09:36:51,743 nipype.interface INFO:
stderr 2020-11-13T09:36:51.742977:++ Output dataset ./sub-018_ses-2_task-vigilance_run-2_bold_calc_despike_tshift_resample_mcf_calc_tstat.nii.gz
201113-09:36:51,927 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-2.func_preproc_fsl_afni_mean_mcflirt_0.func_mean".
201113-09:36:51,929 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-2.sinker_0_mean_functional" in "/outputs/tmp/resting_preproc_sub-018_ses-2/_scan_vigilance_run-2/sinker_0_mean_functional".
201113-09:36:51,936 nipype.workflow INFO:
[Node] Running "sinker_0_mean_functional" ("CPAC.utils.interfaces.datasink.DataSink")
201113-09:36:52,166 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-2.sinker_0_mean_functional".
201113-09:36:52,167 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-2.func_preproc_fsl_afni_mean_mcflirt_0.norm_motion_params" in "/outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_fsl_afni_mean_mcflirt_0/_scan_vigilance_run-2/norm_motion_params".
201113-09:36:52,172 nipype.workflow INFO:
[Node] Running "norm_motion_params" ("CPAC.utils.interfaces.function.Function")
201113-09:36:52,404 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-2.func_preproc_fsl_afni_mean_mcflirt_0.norm_motion_params".
201113-09:36:52,405 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-2.sinker_0_slice_time_corrected" in "/outputs/tmp/resting_preproc_sub-018_ses-2/_scan_vigilance_run-2/sinker_0_slice_time_corrected".
201113-09:36:52,413 nipype.workflow INFO:
[Node] Running "sinker_0_slice_time_corrected" ("CPAC.utils.interfaces.datasink.DataSink")
201113-09:36:52,644 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-2.sinker_0_slice_time_corrected".
201113-09:36:52,646 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-2.sinker_0_raw_functional" in "/outputs/tmp/resting_preproc_sub-018_ses-2/_scan_vigilance_run-2/sinker_0_raw_functional".
201113-09:36:52,653 nipype.workflow INFO:
[Node] Running "sinker_0_raw_functional" ("CPAC.utils.interfaces.datasink.DataSink")
201113-09:36:52,958 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-2.sinker_0_raw_functional".
201113-09:36:52,960 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-2.func_gather_0.check_func_scan" in "/outputs/tmp/resting_preproc_sub-018_ses-2/func_gather_0/_scan_vigilance_run-2/check_func_scan".
201113-09:36:52,993 nipype.workflow INFO:
[Node] Running "check_func_scan" ("CPAC.utils.interfaces.function.Function")
201113-09:36:53,229 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-2.func_gather_0.check_func_scan".
201113-09:36:53,240 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-2.func_gather_0.select_scan_params" in "/outputs/tmp/resting_preproc_sub-018_ses-2/func_gather_0/_scan_vigilance_run-1/select_scan_params".
201113-09:36:53,269 nipype.workflow INFO:
[Node] Running "select_scan_params" ("CPAC.utils.interfaces.function.Function")
201113-09:36:53,501 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-2.func_gather_0.select_scan_params".
201113-09:36:53,511 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-2.func_gather_0.s3_scan_params" in "/outputs/tmp/resting_preproc_sub-018_ses-2/func_gather_0/_scan_vigilance_run-1/s3_scan_params".
201113-09:36:53,519 nipype.workflow INFO:
[Node] Running "s3_scan_params" ("CPAC.utils.interfaces.function.Function")
201113-09:36:53,748 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-2.func_gather_0.s3_scan_params".
201113-09:36:53,751 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-2.scan_params_0" in "/outputs/tmp/resting_preproc_sub-018_ses-2/_scan_vigilance_run-1/scan_params_0".
201113-09:36:53,760 nipype.workflow INFO:
[Node] Running "scan_params_0" ("CPAC.utils.interfaces.function.Function")
201113-09:36:53,988 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-2.scan_params_0".
201113-09:36:53,990 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-2.func_gather_0.selectrest" in "/outputs/tmp/resting_preproc_sub-018_ses-2/func_gather_0/_scan_vigilance_run-1/selectrest".
201113-09:36:54,20 nipype.workflow INFO:
[Node] Running "selectrest" ("CPAC.utils.interfaces.function.Function")
201113-09:36:54,252 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-2.func_gather_0.selectrest".
201113-09:36:54,263 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-2.func_gather_0.check_for_s3" in "/outputs/tmp/resting_preproc_sub-018_ses-2/func_gather_0/_scan_vigilance_run-1/check_for_s3".
201113-09:36:54,267 nipype.workflow INFO:
[Node] Running "check_for_s3" ("CPAC.utils.interfaces.function.Function")
201113-09:36:54,537 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-2.func_gather_0.check_for_s3".
201113-09:36:54,538 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-2.edit_func_0.func_get_idx" in "/outputs/tmp/resting_preproc_sub-018_ses-2/edit_func_0/_scan_vigilance_run-1/func_get_idx".
201113-09:36:54,544 nipype.workflow INFO:
[Node] Running "func_get_idx" ("nipype.interfaces.utility.wrappers.Function")
201113-09:36:54,776 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-2.edit_func_0.func_get_idx".
201113-09:36:54,778 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-2.edit_func_0.func_drop_trs" in "/outputs/tmp/resting_preproc_sub-018_ses-2/edit_func_0/_scan_vigilance_run-1/func_drop_trs".
201113-09:36:54,785 nipype.workflow INFO:
[Node] Running "func_drop_trs" ("nipype.interfaces.afni.utils.Calc"), a CommandLine Interface with command:
3dcalc -a /bids_dataset/sub-018/ses-2/func/sub-018_ses-2_task-vigilance_run-1_bold.nii.gz[0..68] -expr "a" -prefix sub-018_ses-2_task-vigilance_run-1_bold_calc.nii.gz
201113-09:36:55,36 nipype.interface INFO:
stderr 2020-11-13T09:36:55.036570:++ 3dcalc: AFNI version=AFNI_20.2.19 (Sep 27 2020) [64-bit]
201113-09:36:55,36 nipype.interface INFO:
stderr 2020-11-13T09:36:55.036945:++ Authored by: A cast of thousands
201113-09:36:58,127 nipype.interface INFO:
stderr 2020-11-13T09:36:58.127078:++ Output dataset ./sub-018_ses-2_task-vigilance_run-1_bold_calc.nii.gz
201113-09:36:58,340 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-2.edit_func_0.func_drop_trs".
201113-09:36:58,342 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-2.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_deoblique" in "/outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/_scan_vigilance_run-1/func_deoblique".
201113-09:36:58,368 nipype.workflow INFO:
[Node] Running "func_deoblique" ("nipype.interfaces.afni.utils.Refit"), a CommandLine Interface with command:
3drefit -deoblique /outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/_scan_vigilance_run-1/func_deoblique/sub-018_ses-2_task-vigilance_run-1_bold_calc.nii.gz
201113-09:36:58,617 nipype.interface INFO:
stderr 2020-11-13T09:36:58.617907:++ 3drefit: AFNI version=AFNI_20.2.19 (Sep 27 2020) [64-bit]
201113-09:36:58,618 nipype.interface INFO:
stderr 2020-11-13T09:36:58.618289:++ Authored by: RW Cox
201113-09:36:58,627 nipype.interface INFO:
stderr 2020-11-13T09:36:58.627557:++ Processing AFNI dataset /outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/_scan_vigilance_run-1/func_deoblique/sub-018_ses-2_task-vigilance_run-1_bold_calc.nii.gz
201113-09:36:58,628 nipype.interface INFO:
stderr 2020-11-13T09:36:58.628438: + deoblique
201113-09:36:58,628 nipype.interface INFO:
stderr 2020-11-13T09:36:58.628718: + loading and re-writing dataset /outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/_scan_vigilance_run-1/func_deoblique/sub-018_ses-2_task-vigilance_run-1_bold_calc.nii.gz (/outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/_scan_vigilance_run-1/func_deoblique/sub-018_ses-2_task-vigilance_run-1_bold_calc.nii.gz in NIFTI storage)
201113-09:37:00,750 nipype.interface INFO:
stderr 2020-11-13T09:37:00.750334:++ 3drefit processed 1 datasets
201113-09:37:00,930 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-2.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_deoblique".
201113-09:37:00,932 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-2.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_reorient" in "/outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/_scan_vigilance_run-1/func_reorient".
201113-09:37:00,938 nipype.workflow INFO:
[Node] Running "func_reorient" ("nipype.interfaces.afni.utils.Resample"), a CommandLine Interface with command:
3dresample -orient RPI -prefix sub-018_ses-2_task-vigilance_run-1_bold_calc_resample.nii.gz -inset /outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/_scan_vigilance_run-1/func_reorient/sub-018_ses-2_task-vigilance_run-1_bold_calc.nii.gz
201113-09:37:03,582 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-2.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_reorient".
201113-09:37:03,583 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-2.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_get_mean_RPI" in "/outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/_scan_vigilance_run-1/func_get_mean_RPI".
201113-09:37:03,589 nipype.workflow INFO:
[Node] Running "func_get_mean_RPI" ("nipype.interfaces.afni.utils.TStat"), a CommandLine Interface with command:
3dTstat -mean -prefix sub-018_ses-2_task-vigilance_run-1_bold_calc_resample_tstat.nii.gz /outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/_scan_vigilance_run-1/func_get_mean_RPI/sub-018_ses-2_task-vigilance_run-1_bold_calc_resample.nii.gz
201113-09:37:03,840 nipype.interface INFO:
stderr 2020-11-13T09:37:03.839974:++ 3dTstat: AFNI version=AFNI_20.2.19 (Sep 27 2020) [64-bit]
201113-09:37:03,840 nipype.interface INFO:
stderr 2020-11-13T09:37:03.840341:++ Authored by: KR Hammett & RW Cox
201113-09:37:04,106 nipype.interface INFO:
stderr 2020-11-13T09:37:04.106303:++ Output dataset ./sub-018_ses-2_task-vigilance_run-1_bold_calc_resample_tstat.nii.gz
201113-09:37:04,290 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-2.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_get_mean_RPI".
201113-09:37:04,292 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-2.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_generate_ref" in "/outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/_scan_vigilance_run-1/func_generate_ref".
201113-09:37:04,298 nipype.workflow INFO:
[Node] Running "func_generate_ref" ("nipype.interfaces.afni.preprocess.Volreg"), a CommandLine Interface with command:
3dvolreg -twopass -Fourier -1Dfile sub-018_ses-2_task-vigilance_run-1_bold_calc_resample.1D -1Dmatrix_save sub-018_ses-2_task-vigilance_run-1_bold_calc_resample.aff12.1D -prefix sub-018_ses-2_task-vigilance_run-1_bold_calc_resample_volreg.nii.gz -base /outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/_scan_vigilance_run-1/func_get_mean_RPI/sub-018_ses-2_task-vigilance_run-1_bold_calc_resample_tstat.nii.gz -zpad 4 -maxdisp1D sub-018_ses-2_task-vigilance_run-1_bold_calc_resample_md.1D /outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/_scan_vigilance_run-1/func_generate_ref/sub-018_ses-2_task-vigilance_run-1_bold_calc_resample.nii.gz
201113-09:37:04,545 nipype.interface INFO:
stderr 2020-11-13T09:37:04.544963:++ 3dvolreg: AFNI version=AFNI_20.2.19 (Sep 27 2020) [64-bit]
201113-09:37:04,545 nipype.interface INFO:
stderr 2020-11-13T09:37:04.545303:++ Authored by: RW Cox
201113-09:37:04,554 nipype.interface INFO:
stderr 2020-11-13T09:37:04.554418:++ Coarse del was 10, replaced with 3
201113-09:38:02,103 nipype.interface INFO:
stderr 2020-11-13T09:38:02.102935:++ Max displacement in automask = 2.16 (mm) at sub-brick 40
201113-09:38:02,103 nipype.interface INFO:
stderr 2020-11-13T09:38:02.103420:++ Max delta displ in automask = 1.84 (mm) at sub-brick 53
201113-09:38:04,220 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-2.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_generate_ref".
201113-09:38:04,221 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-2.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_get_mean_motion" in "/outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/_scan_vigilance_run-1/func_get_mean_motion".
201113-09:38:04,228 nipype.workflow INFO:
[Node] Running "func_get_mean_motion" ("nipype.interfaces.afni.utils.TStat"), a CommandLine Interface with command:
3dTstat -mean -prefix sub-018_ses-2_task-vigilance_run-1_bold_calc_resample_volreg_tstat.nii.gz /outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/_scan_vigilance_run-1/func_get_mean_motion/sub-018_ses-2_task-vigilance_run-1_bold_calc_resample_volreg.nii.gz
201113-09:38:04,488 nipype.interface INFO:
stderr 2020-11-13T09:38:04.488708:++ 3dTstat: AFNI version=AFNI_20.2.19 (Sep 27 2020) [64-bit]
201113-09:38:04,489 nipype.interface INFO:
stderr 2020-11-13T09:38:04.489222:++ Authored by: KR Hammett & RW Cox
201113-09:38:04,759 nipype.interface INFO:
stderr 2020-11-13T09:38:04.759097:++ Output dataset ./sub-018_ses-2_task-vigilance_run-1_bold_calc_resample_volreg_tstat.nii.gz
201113-09:38:04,942 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-2.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_get_mean_motion".
201113-09:38:04,943 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-2.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_motion_correct_mcflirt" in "/outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/_scan_vigilance_run-1/func_motion_correct_mcflirt".
201113-09:38:04,950 nipype.workflow INFO:
[Node] Running "func_motion_correct_mcflirt" ("nipype.interfaces.fsl.preprocess.MCFLIRT"), a CommandLine Interface with command:
mcflirt -in /outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/_scan_vigilance_run-1/func_reorient/sub-018_ses-2_task-vigilance_run-1_bold_calc_resample.nii.gz -out /outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/_scan_vigilance_run-1/func_motion_correct_mcflirt/sub-018_ses-2_task-vigilance_run-1_bold_calc_resample_mcf.nii.gz -reffile /outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/_scan_vigilance_run-1/func_get_mean_motion/sub-018_ses-2_task-vigilance_run-1_bold_calc_resample_volreg_tstat.nii.gz -mats -plots -rmsabs -rmsrel
201113-09:38:17,507 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-2.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_motion_correct_mcflirt".
201113-09:38:17,513 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-2.gen_motion_stats_before_stc_fsl_afni_mean_mcflirt_0.calculate_FDJ" in "/outputs/tmp/resting_preproc_sub-018_ses-2/gen_motion_stats_before_stc_fsl_afni_mean_mcflirt_0/_scan_vigilance_run-1/calculate_FDJ".
201113-09:38:17,521 nipype.workflow INFO:
[Node] Running "calculate_FDJ" ("CPAC.utils.interfaces.function.Function")
201113-09:38:17,750 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-2.gen_motion_stats_before_stc_fsl_afni_mean_mcflirt_0.calculate_FDJ".
201113-09:38:17,752 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-2.sinker_0_frame_wise_displacement_jenkinson" in "/outputs/tmp/resting_preproc_sub-018_ses-2/_scan_vigilance_run-1/sinker_0_frame_wise_displacement_jenkinson".
201113-09:38:17,760 nipype.workflow INFO:
[Node] Running "sinker_0_frame_wise_displacement_jenkinson" ("CPAC.utils.interfaces.datasink.DataSink")
201113-09:38:17,990 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-2.sinker_0_frame_wise_displacement_jenkinson".
201113-09:38:17,991 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-2.sinker_0_max_displacement" in "/outputs/tmp/resting_preproc_sub-018_ses-2/_scan_vigilance_run-1/sinker_0_max_displacement".
201113-09:38:17,999 nipype.workflow INFO:
[Node] Running "sinker_0_max_displacement" ("CPAC.utils.interfaces.datasink.DataSink")
201113-09:38:18,230 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-2.sinker_0_max_displacement".
201113-09:38:18,231 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-2.sinker_0_coordinate_transformation" in "/outputs/tmp/resting_preproc_sub-018_ses-2/_scan_vigilance_run-1/sinker_0_coordinate_transformation".
201113-09:38:18,245 nipype.workflow INFO:
[Node] Running "sinker_0_coordinate_transformation" ("CPAC.utils.interfaces.datasink.DataSink")
201113-09:38:18,493 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-2.sinker_0_coordinate_transformation".
201113-09:38:18,500 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-2.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip.func_mean_skull" in "/outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_vigilance_run-1/func_mean_skull".
201113-09:38:18,508 nipype.workflow INFO:
[Node] Running "func_mean_skull" ("nipype.interfaces.afni.utils.TStat"), a CommandLine Interface with command:
3dTstat -mean -prefix sub-018_ses-2_task-vigilance_run-1_bold_calc_resample_mcf_tstat.nii.gz /outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_vigilance_run-1/func_mean_skull/sub-018_ses-2_task-vigilance_run-1_bold_calc_resample_mcf.nii.gz
201113-09:38:18,768 nipype.interface INFO:
stderr 2020-11-13T09:38:18.768878:++ 3dTstat: AFNI version=AFNI_20.2.19 (Sep 27 2020) [64-bit]
201113-09:38:18,769 nipype.interface INFO:
stderr 2020-11-13T09:38:18.769384:++ Authored by: KR Hammett & RW Cox
201113-09:38:19,60 nipype.interface INFO:
stderr 2020-11-13T09:38:19.060746:++ Output dataset ./sub-018_ses-2_task-vigilance_run-1_bold_calc_resample_mcf_tstat.nii.gz
201113-09:38:19,245 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-2.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip.func_mean_skull".
201113-09:38:19,247 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-2.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip.skullstrip_first_pass" in "/outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_vigilance_run-1/skullstrip_first_pass".
201113-09:38:19,253 nipype.workflow INFO:
[Node] Running "skullstrip_first_pass" ("nipype.interfaces.fsl.preprocess.BET"), a CommandLine Interface with command:
bet /outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_vigilance_run-1/func_mean_skull/sub-018_ses-2_task-vigilance_run-1_bold_calc_resample_mcf_tstat.nii.gz /outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_vigilance_run-1/skullstrip_first_pass/sub-018_ses-2_task-vigilance_run-1_bold_calc_resample_mcf_tstat_brain.nii.gz -f 0.20 -m
201113-09:38:21,121 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-2.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip.skullstrip_first_pass".
201113-09:38:21,122 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-2.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip.skullstrip_first_dilate" in "/outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_vigilance_run-1/skullstrip_first_dilate".
201113-09:38:21,128 nipype.workflow INFO:
[Node] Running "skullstrip_first_dilate" ("nipype.interfaces.fsl.maths.DilateImage"), a CommandLine Interface with command:
fslmaths -dt char /outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_vigilance_run-1/skullstrip_first_pass/sub-018_ses-2_task-vigilance_run-1_bold_calc_resample_mcf_tstat_brain_mask.nii.gz -kernel sphere 6.0000 -dilF /outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_vigilance_run-1/skullstrip_first_dilate/sub-018_ses-2_task-vigilance_run-1_bold_calc_resample_mcf_tstat_brain_mask_dil.nii.gz
201113-09:38:21,825 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-2.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip.skullstrip_first_dilate".
201113-09:38:21,827 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-2.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip.skullstrip_first_mask" in "/outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_vigilance_run-1/skullstrip_first_mask".
201113-09:38:21,832 nipype.workflow INFO:
[Node] Running "skullstrip_first_mask" ("nipype.interfaces.fsl.maths.ApplyMask"), a CommandLine Interface with command:
fslmaths /outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_vigilance_run-1/skullstrip_first_pass/sub-018_ses-2_task-vigilance_run-1_bold_calc_resample_mcf_tstat_brain.nii.gz -mas /outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_vigilance_run-1/skullstrip_first_dilate/sub-018_ses-2_task-vigilance_run-1_bold_calc_resample_mcf_tstat_brain_mask_dil.nii.gz /outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_vigilance_run-1/skullstrip_first_mask/sub-018_ses-2_task-vigilance_run-1_bold_calc_resample_mcf_tstat_brain_masked.nii.gz
201113-09:38:22,288 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-2.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip.skullstrip_first_mask".
201113-09:38:22,290 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-2.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip.unifize" in "/outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_vigilance_run-1/unifize".
201113-09:38:22,295 nipype.workflow INFO:
[Node] Running "unifize" ("nipype.interfaces.afni.utils.Unifize"), a CommandLine Interface with command:
3dUnifize -clfrac 0.2 -rbt 18.3 65.0 90.0 -prefix uni.nii.gz -T2 -input /outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_vigilance_run-1/unifize/sub-018_ses-2_task-vigilance_run-1_bold_calc_resample_mcf_tstat_brain_masked.nii.gz
201113-09:38:22,543 nipype.interface INFO:
stderr 2020-11-13T09:38:22.543578:++ 3dUnifize: AFNI version=AFNI_20.2.19 (Sep 27 2020) [64-bit]
201113-09:39:34,503 nipype.interface INFO:
stderr 2020-11-13T09:39:34.503045: + Pre-processing: IAV..UW[s3893]Im
201113-09:39:34,523 nipype.interface INFO:
stderr 2020-11-13T09:39:34.523465:++ Output dataset ./uni.nii.gz
201113-09:39:34,523 nipype.interface INFO:
stderr 2020-11-13T09:39:34.523745:++ ===== Elapsed = 72.0 sec
201113-09:39:34,733 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-2.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip.unifize".
201113-09:39:34,735 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-2.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip.skullstrip_second_pass" in "/outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_vigilance_run-1/skullstrip_second_pass".
201113-09:39:34,741 nipype.workflow INFO:
[Node] Running "skullstrip_second_pass" ("nipype.interfaces.afni.preprocess.Automask"), a CommandLine Interface with command:
3dAutomask -apply_prefix uni_masked.nii.gz -dilate 1 -prefix uni_mask.nii.gz /outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_vigilance_run-1/skullstrip_second_pass/uni.nii.gz
201113-09:39:34,992 nipype.interface INFO:
stderr 2020-11-13T09:39:34.992411:++ 3dAutomask: AFNI version=AFNI_20.2.19 (Sep 27 2020) [64-bit]
201113-09:39:34,992 nipype.interface INFO:
stderr 2020-11-13T09:39:34.992792:++ Authored by: Emperor Zhark
201113-09:39:34,994 nipype.interface INFO:
stderr 2020-11-13T09:39:34.994730:++ Loading dataset /outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_vigilance_run-1/skullstrip_second_pass/uni.nii.gz
201113-09:39:35,0 nipype.interface INFO:
stderr 2020-11-13T09:39:35.000474:++ Forming automask
201113-09:39:35,2 nipype.interface INFO:
stderr 2020-11-13T09:39:35.002791: + Fixed clip level = 425.762756
201113-09:39:35,7 nipype.interface INFO:
stderr 2020-11-13T09:39:35.007381: + Used gradual clip level = 368.625671 .. 520.809814
201113-09:39:35,7 nipype.interface INFO:
stderr 2020-11-13T09:39:35.007594: + Number voxels above clip level = 28963
201113-09:39:35,7 nipype.interface INFO:
stderr 2020-11-13T09:39:35.007747: + Clustering voxels ...
201113-09:39:35,8 nipype.interface INFO:
stderr 2020-11-13T09:39:35.008861: + Largest cluster has 28959 voxels
201113-09:39:35,10 nipype.interface INFO:
stderr 2020-11-13T09:39:35.010174: + Clustering voxels ...
201113-09:39:35,11 nipype.interface INFO:
stderr 2020-11-13T09:39:35.011243: + Largest cluster has 28535 voxels
201113-09:39:35,14 nipype.interface INFO:
stderr 2020-11-13T09:39:35.014714: + Filled 609 voxels in small holes; now have 29144 voxels
201113-09:39:35,17 nipype.interface INFO:
stderr 2020-11-13T09:39:35.017946: + Filled 3 voxels in large holes; now have 29147 voxels
201113-09:39:35,19 nipype.interface INFO:
stderr 2020-11-13T09:39:35.019152: + Clustering voxels ...
201113-09:39:35,20 nipype.interface INFO:
stderr 2020-11-13T09:39:35.020216: + Largest cluster has 29146 voxels
201113-09:39:35,20 nipype.interface INFO:
stderr 2020-11-13T09:39:35.020440: + Clustering non-brain voxels ...
201113-09:39:35,20 nipype.interface INFO:
stderr 2020-11-13T09:39:35.020588: + Clustering voxels ...
201113-09:39:35,23 nipype.interface INFO:
stderr 2020-11-13T09:39:35.023501: + Largest cluster has 110102 voxels
201113-09:39:35,23 nipype.interface INFO:
stderr 2020-11-13T09:39:35.023826: + Mask now has 29162 voxels
201113-09:39:35,23 nipype.interface INFO:
stderr 2020-11-13T09:39:35.023977:++ Dilating automask
201113-09:39:35,30 nipype.interface INFO:
stderr 2020-11-13T09:39:35.030434: + Clustering voxels ...
201113-09:39:35,32 nipype.interface INFO:
stderr 2020-11-13T09:39:35.032918: + Largest cluster has 104453 voxels
201113-09:39:35,33 nipype.interface INFO:
stderr 2020-11-13T09:39:35.033249:++ 34811 voxels in the mask [out of 139264: 25.00%]
201113-09:39:35,33 nipype.interface INFO:
stderr 2020-11-13T09:39:35.033422:++ first 10 x-planes are zero [from R]
201113-09:39:35,33 nipype.interface INFO:
stderr 2020-11-13T09:39:35.033594:++ last 9 x-planes are zero [from L]
201113-09:39:35,33 nipype.interface INFO:
stderr 2020-11-13T09:39:35.033729:++ first 1 y-planes are zero [from P]
201113-09:39:35,33 nipype.interface INFO:
stderr 2020-11-13T09:39:35.033877:++ last 9 y-planes are zero [from A]
201113-09:39:35,34 nipype.interface INFO:
stderr 2020-11-13T09:39:35.034007:++ first 0 z-planes are zero [from I]
201113-09:39:35,34 nipype.interface INFO:
stderr 2020-11-13T09:39:35.034143:++ last 2 z-planes are zero [from S]
201113-09:39:35,37 nipype.interface INFO:
stderr 2020-11-13T09:39:35.037816:++ Output dataset ./uni_mask.nii.gz
201113-09:39:35,38 nipype.interface INFO:
stderr 2020-11-13T09:39:35.037987:++ applying mask to original data
201113-09:39:35,38 nipype.interface INFO:
stderr 2020-11-13T09:39:35.038683:++ Writing masked data
201113-09:39:35,51 nipype.interface INFO:
stderr 2020-11-13T09:39:35.051241:++ Output dataset ./uni_masked.nii.gz
201113-09:39:35,51 nipype.interface INFO:
stderr 2020-11-13T09:39:35.051576:++ CPU time = 0.000000 sec
201113-09:39:35,237 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-2.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip.skullstrip_second_pass".
201113-09:39:35,239 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-2.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip.combine_masks" in "/outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_vigilance_run-1/combine_masks".
201113-09:39:35,245 nipype.workflow INFO:
[Node] Running "combine_masks" ("nipype.interfaces.fsl.maths.BinaryMaths"), a CommandLine Interface with command:
fslmaths /outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_vigilance_run-1/skullstrip_first_pass/sub-018_ses-2_task-vigilance_run-1_bold_calc_resample_mcf_tstat_brain_mask.nii.gz -mul /outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_vigilance_run-1/skullstrip_second_pass/uni_mask.nii.gz /outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_vigilance_run-1/combine_masks/sub-018_ses-2_task-vigilance_run-1_bold_calc_resample_mcf_tstat_brain_mask_maths.nii.gz
201113-09:39:35,684 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-2.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip.combine_masks".
201113-09:39:35,686 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-2.gen_motion_stats_before_stc_fsl_afni_mean_mcflirt_0.cal_DVARS" in "/outputs/tmp/resting_preproc_sub-018_ses-2/gen_motion_stats_before_stc_fsl_afni_mean_mcflirt_0/_scan_vigilance_run-1/cal_DVARS".
201113-09:39:35,692 nipype.workflow INFO:
[Node] Running "cal_DVARS" ("CPAC.utils.interfaces.function.Function")
201113-09:39:36,150 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-2.gen_motion_stats_before_stc_fsl_afni_mean_mcflirt_0.cal_DVARS".
201113-09:39:36,151 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-2.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip.func_extract_brain" in "/outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_vigilance_run-1/func_extract_brain".
201113-09:39:36,158 nipype.workflow INFO:
[Node] Running "func_extract_brain" ("nipype.interfaces.afni.utils.Calc"), a CommandLine Interface with command:
3dcalc -a /outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/_scan_vigilance_run-1/func_motion_correct_mcflirt/sub-018_ses-2_task-vigilance_run-1_bold_calc_resample_mcf.nii.gz -b /outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_vigilance_run-1/combine_masks/sub-018_ses-2_task-vigilance_run-1_bold_calc_resample_mcf_tstat_brain_mask_maths.nii.gz -expr "a*b" -prefix sub-018_ses-2_task-vigilance_run-1_bold_calc_resample_mcf_calc.nii.gz
201113-09:39:36,404 nipype.interface INFO:
stderr 2020-11-13T09:39:36.404107:++ 3dcalc: AFNI version=AFNI_20.2.19 (Sep 27 2020) [64-bit]
201113-09:39:36,404 nipype.interface INFO:
stderr 2020-11-13T09:39:36.404450:++ Authored by: A cast of thousands
201113-09:39:37,863 nipype.interface INFO:
stderr 2020-11-13T09:39:37.863238:++ Output dataset ./sub-018_ses-2_task-vigilance_run-1_bold_calc_resample_mcf_calc.nii.gz
201113-09:39:38,79 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-2.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip.func_extract_brain".
201113-09:39:38,80 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-2.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_normalize" in "/outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/_scan_vigilance_run-1/func_normalize".
201113-09:39:38,86 nipype.workflow INFO:
[Node] Running "func_normalize" ("nipype.interfaces.fsl.utils.ImageMaths"), a CommandLine Interface with command:
fslmaths /outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_vigilance_run-1/func_extract_brain/sub-018_ses-2_task-vigilance_run-1_bold_calc_resample_mcf_calc.nii.gz -ing 10000 /outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/_scan_vigilance_run-1/func_normalize/sub-018_ses-2_task-vigilance_run-1_bold_calc_resample_mcf_calc_maths.nii.gz -odt float
201113-09:39:39,402 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-2.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_normalize".
201113-09:39:39,403 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-2.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_mask_normalize" in "/outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/_scan_vigilance_run-1/func_mask_normalize".
201113-09:39:39,408 nipype.workflow INFO:
[Node] Running "func_mask_normalize" ("nipype.interfaces.fsl.utils.ImageMaths"), a CommandLine Interface with command:
fslmaths /outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/_scan_vigilance_run-1/func_normalize/sub-018_ses-2_task-vigilance_run-1_bold_calc_resample_mcf_calc_maths.nii.gz -Tmin -bin /outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/_scan_vigilance_run-1/func_mask_normalize/sub-018_ses-2_task-vigilance_run-1_bold_calc_resample_mcf_calc_maths_maths.nii.gz -odt char
201113-09:39:40,167 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-2.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_mask_normalize".
201113-09:39:40,168 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-2.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_mean" in "/outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/_scan_vigilance_run-1/func_mean".
201113-09:39:40,174 nipype.workflow INFO:
[Node] Running "func_mean" ("nipype.interfaces.afni.utils.TStat"), a CommandLine Interface with command:
3dTstat -mean -prefix sub-018_ses-2_task-vigilance_run-1_bold_calc_resample_mcf_calc_tstat.nii.gz /outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/_scan_vigilance_run-1/func_mean/sub-018_ses-2_task-vigilance_run-1_bold_calc_resample_mcf_calc.nii.gz
201113-09:39:40,423 nipype.interface INFO:
stderr 2020-11-13T09:39:40.422985:++ 3dTstat: AFNI version=AFNI_20.2.19 (Sep 27 2020) [64-bit]
201113-09:39:40,423 nipype.interface INFO:
stderr 2020-11-13T09:39:40.423332:++ Authored by: KR Hammett & RW Cox
201113-09:39:40,593 nipype.interface INFO:
stderr 2020-11-13T09:39:40.593160:++ Output dataset ./sub-018_ses-2_task-vigilance_run-1_bold_calc_resample_mcf_calc_tstat.nii.gz
201113-09:39:40,777 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-2.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_mean".
201113-09:39:40,778 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-2.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.norm_motion_params" in "/outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/_scan_vigilance_run-1/norm_motion_params".
201113-09:39:40,783 nipype.workflow INFO:
[Node] Running "norm_motion_params" ("CPAC.utils.interfaces.function.Function")
201113-09:39:41,15 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-2.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.norm_motion_params".
201113-09:39:41,17 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-2.qc_motion_0.motion_plot" in "/outputs/tmp/resting_preproc_sub-018_ses-2/qc_motion_0/_scan_vigilance_run-1/motion_plot".
201113-09:39:41,21 nipype.workflow INFO:
[Node] Running "motion_plot" ("CPAC.utils.interfaces.function.Function")
201113-09:39:41,467 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-2.qc_motion_0.motion_plot".
201113-09:39:41,469 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-2.sinker_0_qc___movement_trans_plot" in "/outputs/tmp/resting_preproc_sub-018_ses-2/_scan_vigilance_run-1/sinker_0_qc___movement_trans_plot".
201113-09:39:41,475 nipype.workflow INFO:
[Node] Running "sinker_0_qc___movement_trans_plot" ("CPAC.utils.interfaces.datasink.DataSink")
201113-09:39:41,687 nipype.interface INFO:
sub: /outputs/output/pipeline_cpac_fmriprep-options/sub-018_ses-2/qc___movement_trans_plot/_scan_vigilance_run-1/motion_trans_plot.png -> /outputs/output/pipeline_cpac_fmriprep-options/sub-018_ses-2/qc/movement_trans_plot/_scan_vigilance_run-1/motion_trans_plot.png
201113-09:39:41,706 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-2.sinker_0_qc___movement_trans_plot".
201113-09:39:41,707 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-2.sinker_0_qc___movement_rot_plot" in "/outputs/tmp/resting_preproc_sub-018_ses-2/_scan_vigilance_run-1/sinker_0_qc___movement_rot_plot".
201113-09:39:41,714 nipype.workflow INFO:
[Node] Running "sinker_0_qc___movement_rot_plot" ("CPAC.utils.interfaces.datasink.DataSink")
201113-09:39:41,926 nipype.interface INFO:
sub: /outputs/output/pipeline_cpac_fmriprep-options/sub-018_ses-2/qc___movement_rot_plot/_scan_vigilance_run-1/motion_rot_plot.png -> /outputs/output/pipeline_cpac_fmriprep-options/sub-018_ses-2/qc/movement_rot_plot/_scan_vigilance_run-1/motion_rot_plot.png
201113-09:39:41,943 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-2.sinker_0_qc___movement_rot_plot".
201113-09:39:41,945 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-2.gen_motion_stats_before_stc_fsl_afni_mean_mcflirt_0.calc_motion_parameters" in "/outputs/tmp/resting_preproc_sub-018_ses-2/gen_motion_stats_before_stc_fsl_afni_mean_mcflirt_0/_scan_vigilance_run-1/calc_motion_parameters".
201113-09:39:41,951 nipype.workflow INFO:
[Node] Running "calc_motion_parameters" ("CPAC.utils.interfaces.function.Function")
201113-09:39:42,180 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-2.gen_motion_stats_before_stc_fsl_afni_mean_mcflirt_0.calc_motion_parameters".
201113-09:39:42,181 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-2.sinker_0_motion_params" in "/outputs/tmp/resting_preproc_sub-018_ses-2/_scan_vigilance_run-1/sinker_0_motion_params".
201113-09:39:42,188 nipype.workflow INFO:
[Node] Running "sinker_0_motion_params" ("CPAC.utils.interfaces.datasink.DataSink")
201113-09:39:42,416 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-2.sinker_0_motion_params".
201113-09:39:42,418 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-2.gen_motion_stats_before_stc_fsl_afni_mean_mcflirt_0.calculate_FD" in "/outputs/tmp/resting_preproc_sub-018_ses-2/gen_motion_stats_before_stc_fsl_afni_mean_mcflirt_0/_scan_vigilance_run-1/calculate_FD".
201113-09:39:42,423 nipype.workflow INFO:
[Node] Running "calculate_FD" ("CPAC.utils.interfaces.function.Function")
201113-09:39:42,657 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-2.gen_motion_stats_before_stc_fsl_afni_mean_mcflirt_0.calculate_FD".
201113-09:39:42,658 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-2.sinker_0_frame_wise_displacement_power" in "/outputs/tmp/resting_preproc_sub-018_ses-2/_scan_vigilance_run-1/sinker_0_frame_wise_displacement_power".
201113-09:39:42,665 nipype.workflow INFO:
[Node] Running "sinker_0_frame_wise_displacement_power" ("CPAC.utils.interfaces.datasink.DataSink")
201113-09:39:42,898 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-2.sinker_0_frame_wise_displacement_power".
201113-09:39:42,899 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-2.gen_motion_stats_before_stc_fsl_afni_mean_mcflirt_0.calc_power_parameters" in "/outputs/tmp/resting_preproc_sub-018_ses-2/gen_motion_stats_before_stc_fsl_afni_mean_mcflirt_0/_scan_vigilance_run-1/calc_power_parameters".
201113-09:39:42,906 nipype.workflow INFO:
[Node] Running "calc_power_parameters" ("CPAC.utils.interfaces.function.Function")
201113-09:39:43,140 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-2.gen_motion_stats_before_stc_fsl_afni_mean_mcflirt_0.calc_power_parameters".
201113-09:39:43,141 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-2.sinker_0_power_params" in "/outputs/tmp/resting_preproc_sub-018_ses-2/_scan_vigilance_run-1/sinker_0_power_params".
201113-09:39:43,149 nipype.workflow INFO:
[Node] Running "sinker_0_power_params" ("CPAC.utils.interfaces.datasink.DataSink")
201113-09:39:43,379 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-2.sinker_0_power_params".
201113-09:39:43,381 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-2.sinker_0_movement_parameters" in "/outputs/tmp/resting_preproc_sub-018_ses-2/_scan_vigilance_run-1/sinker_0_movement_parameters".
201113-09:39:43,388 nipype.workflow INFO:
[Node] Running "sinker_0_movement_parameters" ("CPAC.utils.interfaces.datasink.DataSink")
201113-09:39:43,618 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-2.sinker_0_movement_parameters".
201113-09:39:43,620 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-2.func_despiked_0" in "/outputs/tmp/resting_preproc_sub-018_ses-2/_scan_vigilance_run-1/func_despiked_0".
201113-09:39:43,626 nipype.workflow INFO:
[Node] Running "func_despiked_0" ("nipype.interfaces.afni.preprocess.Despike"), a CommandLine Interface with command:
3dDespike -prefix sub-018_ses-2_task-vigilance_run-1_bold_calc_despike.nii.gz /outputs/tmp/resting_preproc_sub-018_ses-2/_scan_vigilance_run-1/func_despiked_0/sub-018_ses-2_task-vigilance_run-1_bold_calc.nii.gz
201113-09:39:43,881 nipype.interface INFO:
stderr 2020-11-13T09:39:43.881139:++ 3dDespike: AFNI version=AFNI_20.2.19 (Sep 27 2020) [64-bit]
201113-09:39:43,881 nipype.interface INFO:
stderr 2020-11-13T09:39:43.881537:++ Authored by: RW Cox
201113-09:39:43,883 nipype.interface INFO:
stderr 2020-11-13T09:39:43.883382:[7m*+ WARNING:[0m If you are performing spatial transformations on an oblique dset,
201113-09:39:43,883 nipype.interface INFO:
stderr 2020-11-13T09:39:43.883382: such as /outputs/tmp/resting_preproc_sub-018_ses-2/_scan_vigilance_run-1/func_despiked_0/sub-018_ses-2_task-vigilance_run-1_bold_calc.nii.gz,
201113-09:39:43,883 nipype.interface INFO:
stderr 2020-11-13T09:39:43.883382: or viewing/combining it with volumes of differing obliquity,
201113-09:39:43,883 nipype.interface INFO:
stderr 2020-11-13T09:39:43.883382: you should consider running:
201113-09:39:43,883 nipype.interface INFO:
stderr 2020-11-13T09:39:43.883382: 3dWarp -deoblique
201113-09:39:43,883 nipype.interface INFO:
stderr 2020-11-13T09:39:43.883382: on this and other oblique datasets in the same session.
201113-09:39:43,884 nipype.interface INFO:
stderr 2020-11-13T09:39:43.883382: See 3dWarp -help for details.
201113-09:39:43,884 nipype.interface INFO:
stderr 2020-11-13T09:39:43.884224:++ Oblique dataset:/outputs/tmp/resting_preproc_sub-018_ses-2/_scan_vigilance_run-1/func_despiked_0/sub-018_ses-2_task-vigilance_run-1_bold_calc.nii.gz is 30.348724 degrees from plumb.
201113-09:39:43,884 nipype.interface INFO:
stderr 2020-11-13T09:39:43.884408:++ Input dataset is in short format, but output will be in float format
201113-09:39:43,884 nipype.interface INFO:
stderr 2020-11-13T09:39:43.884596:++ ignoring first 0 time points, using last 69
201113-09:39:43,884 nipype.interface INFO:
stderr 2020-11-13T09:39:43.884763:++ using 69 time points => -corder 2
201113-09:39:43,884 nipype.interface INFO:
stderr 2020-11-13T09:39:43.884923:++ Loading dataset /outputs/tmp/resting_preproc_sub-018_ses-2/_scan_vigilance_run-1/func_despiked_0/sub-018_ses-2_task-vigilance_run-1_bold_calc.nii.gz
201113-09:39:44,134 nipype.interface INFO:
stderr 2020-11-13T09:39:44.134935:++ 32527 voxels in the automask [out of 139264 in dataset]
201113-09:39:44,140 nipype.interface INFO:
stderr 2020-11-13T09:39:44.140486:++ 56106 voxels in the dilated automask [out of 139264 in dataset]
201113-09:39:44,146 nipype.interface INFO:
stderr 2020-11-13T09:39:44.146541:++ Procesing time series with OLD model fit algorithm
201113-09:39:44,146 nipype.interface INFO:
stderr 2020-11-13T09:39:44.146720:++ smash edit thresholds: 3.1 .. 5.0 MADs
201113-09:39:44,146 nipype.interface INFO:
stderr 2020-11-13T09:39:44.146878: + [ 3.457% .. 0.072% of normal distribution]
201113-09:39:44,147 nipype.interface INFO:
stderr 2020-11-13T09:39:44.147026: + [ 8.839% .. 3.125% of Laplace distribution]
201113-09:39:44,147 nipype.interface INFO:
stderr 2020-11-13T09:39:44.147178:++ start OpenMP thread #0
201113-09:39:45,974 nipype.interface INFO:
stderr 2020-11-13T09:39:45.974344:.........................
201113-09:39:45,974 nipype.interface INFO:
stderr 2020-11-13T09:39:45.974815:++ Elapsed despike time = 1s 827ms
201113-09:39:45,974 nipype.interface INFO:
stderr 2020-11-13T09:39:45.974963:
201113-09:39:45,975 nipype.interface INFO:
stderr 2020-11-13T09:39:45.975528:++ FINAL: 3871314 data points, 356766 edits [9.216%], 101662 big edits [2.626%]
201113-09:39:47,972 nipype.interface INFO:
stderr 2020-11-13T09:39:47.972254:++ Output dataset ./sub-018_ses-2_task-vigilance_run-1_bold_calc_despike.nii.gz
201113-09:39:48,196 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-2.func_despiked_0".
201113-09:39:48,197 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-2.func_slice_timing_correction_0.slice_timing" in "/outputs/tmp/resting_preproc_sub-018_ses-2/func_slice_timing_correction_0/_scan_vigilance_run-1/slice_timing".
201113-09:39:48,204 nipype.interface WARNING:
Passing a file prefixed by "@" will be deprecated; please use the `slice_timing` input
201113-09:39:48,205 nipype.workflow INFO:
[Node] Running "slice_timing" ("nipype.interfaces.afni.preprocess.TShift"), a CommandLine Interface with command:
3dTshift -prefix sub-018_ses-2_task-vigilance_run-1_bold_calc_despike_tshift.nii.gz -tpattern @/outputs/tmp/resting_preproc_sub-018_ses-2/_scan_vigilance_run-1/scan_params_0/tpattern.txt -TR 2.0s /outputs/tmp/resting_preproc_sub-018_ses-2/func_slice_timing_correction_0/_scan_vigilance_run-1/slice_timing/sub-018_ses-2_task-vigilance_run-1_bold_calc_despike.nii.gz
201113-09:39:48,417 nipype.interface WARNING:
Passing a file prefixed by "@" will be deprecated; please use the `slice_timing` input
201113-09:39:48,453 nipype.interface INFO:
stderr 2020-11-13T09:39:48.453542:++ 3dTshift: AFNI version=AFNI_20.2.19 (Sep 27 2020) [64-bit]
201113-09:39:48,455 nipype.interface INFO:
stderr 2020-11-13T09:39:48.455786:[7m*+ WARNING:[0m If you are performing spatial transformations on an oblique dset,
201113-09:39:48,455 nipype.interface INFO:
stderr 2020-11-13T09:39:48.455786: such as /outputs/tmp/resting_preproc_sub-018_ses-2/func_slice_timing_correction_0/_scan_vigilance_run-1/slice_timing/sub-018_ses-2_task-vigilance_run-1_bold_calc_despike.nii.gz,
201113-09:39:48,456 nipype.interface INFO:
stderr 2020-11-13T09:39:48.455786: or viewing/combining it with volumes of differing obliquity,
201113-09:39:48,456 nipype.interface INFO:
stderr 2020-11-13T09:39:48.455786: you should consider running:
201113-09:39:48,456 nipype.interface INFO:
stderr 2020-11-13T09:39:48.455786: 3dWarp -deoblique
201113-09:39:48,456 nipype.interface INFO:
stderr 2020-11-13T09:39:48.455786: on this and other oblique datasets in the same session.
201113-09:39:48,456 nipype.interface INFO:
stderr 2020-11-13T09:39:48.455786: See 3dWarp -help for details.
201113-09:39:48,456 nipype.interface INFO:
stderr 2020-11-13T09:39:48.456495:++ Oblique dataset:/outputs/tmp/resting_preproc_sub-018_ses-2/func_slice_timing_correction_0/_scan_vigilance_run-1/slice_timing/sub-018_ses-2_task-vigilance_run-1_bold_calc_despike.nii.gz is 30.348724 degrees from plumb.
201113-09:39:51,212 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-2.func_slice_timing_correction_0.slice_timing".
201113-09:39:51,213 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-2.func_preproc_fsl_afni_mean_mcflirt_0.func_deoblique" in "/outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_fsl_afni_mean_mcflirt_0/_scan_vigilance_run-1/func_deoblique".
201113-09:39:51,245 nipype.workflow INFO:
[Node] Running "func_deoblique" ("nipype.interfaces.afni.utils.Refit"), a CommandLine Interface with command:
3drefit -deoblique /outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_fsl_afni_mean_mcflirt_0/_scan_vigilance_run-1/func_deoblique/sub-018_ses-2_task-vigilance_run-1_bold_calc_despike_tshift.nii.gz
201113-09:39:51,495 nipype.interface INFO:
stderr 2020-11-13T09:39:51.495415:++ 3drefit: AFNI version=AFNI_20.2.19 (Sep 27 2020) [64-bit]
201113-09:39:51,495 nipype.interface INFO:
stderr 2020-11-13T09:39:51.495793:++ Authored by: RW Cox
201113-09:39:51,497 nipype.interface INFO:
stderr 2020-11-13T09:39:51.497579:++ Processing AFNI dataset /outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_fsl_afni_mean_mcflirt_0/_scan_vigilance_run-1/func_deoblique/sub-018_ses-2_task-vigilance_run-1_bold_calc_despike_tshift.nii.gz
201113-09:39:51,498 nipype.interface INFO:
stderr 2020-11-13T09:39:51.498180: + deoblique
201113-09:39:51,498 nipype.interface INFO:
stderr 2020-11-13T09:39:51.498363: + loading and re-writing dataset /outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_fsl_afni_mean_mcflirt_0/_scan_vigilance_run-1/func_deoblique/sub-018_ses-2_task-vigilance_run-1_bold_calc_despike_tshift.nii.gz (/outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_fsl_afni_mean_mcflirt_0/_scan_vigilance_run-1/func_deoblique/sub-018_ses-2_task-vigilance_run-1_bold_calc_despike_tshift.nii.gz in NIFTI storage)
201113-09:39:52,617 nipype.interface INFO:
stderr 2020-11-13T09:39:52.617603:++ 3drefit processed 1 datasets
201113-09:39:52,832 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-2.func_preproc_fsl_afni_mean_mcflirt_0.func_deoblique".
201113-09:39:52,833 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-2.func_preproc_fsl_afni_mean_mcflirt_0.func_reorient" in "/outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_fsl_afni_mean_mcflirt_0/_scan_vigilance_run-1/func_reorient".
201113-09:39:52,839 nipype.workflow INFO:
[Node] Running "func_reorient" ("nipype.interfaces.afni.utils.Resample"), a CommandLine Interface with command:
3dresample -orient RPI -prefix sub-018_ses-2_task-vigilance_run-1_bold_calc_despike_tshift_resample.nii.gz -inset /outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_fsl_afni_mean_mcflirt_0/_scan_vigilance_run-1/func_reorient/sub-018_ses-2_task-vigilance_run-1_bold_calc_despike_tshift.nii.gz
201113-09:39:54,489 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-2.func_preproc_fsl_afni_mean_mcflirt_0.func_reorient".
201113-09:39:54,490 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-2.func_preproc_fsl_afni_mean_mcflirt_0.func_get_mean_RPI" in "/outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_fsl_afni_mean_mcflirt_0/_scan_vigilance_run-1/func_get_mean_RPI".
201113-09:39:54,497 nipype.workflow INFO:
[Node] Running "func_get_mean_RPI" ("nipype.interfaces.afni.utils.TStat"), a CommandLine Interface with command:
3dTstat -mean -prefix sub-018_ses-2_task-vigilance_run-1_bold_calc_despike_tshift_resample_tstat.nii.gz /outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_fsl_afni_mean_mcflirt_0/_scan_vigilance_run-1/func_get_mean_RPI/sub-018_ses-2_task-vigilance_run-1_bold_calc_despike_tshift_resample.nii.gz
201113-09:39:54,745 nipype.interface INFO:
stderr 2020-11-13T09:39:54.745234:++ 3dTstat: AFNI version=AFNI_20.2.19 (Sep 27 2020) [64-bit]
201113-09:39:54,745 nipype.interface INFO:
stderr 2020-11-13T09:39:54.745593:++ Authored by: KR Hammett & RW Cox
201113-09:39:55,81 nipype.interface INFO:
stderr 2020-11-13T09:39:55.081922:++ Output dataset ./sub-018_ses-2_task-vigilance_run-1_bold_calc_despike_tshift_resample_tstat.nii.gz
201113-09:39:55,264 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-2.func_preproc_fsl_afni_mean_mcflirt_0.func_get_mean_RPI".
201113-09:39:55,266 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-2.func_preproc_fsl_afni_mean_mcflirt_0.func_generate_ref" in "/outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_fsl_afni_mean_mcflirt_0/_scan_vigilance_run-1/func_generate_ref".
201113-09:39:55,273 nipype.workflow INFO:
[Node] Running "func_generate_ref" ("nipype.interfaces.afni.preprocess.Volreg"), a CommandLine Interface with command:
3dvolreg -twopass -Fourier -1Dfile sub-018_ses-2_task-vigilance_run-1_bold_calc_despike_tshift_resample.1D -1Dmatrix_save sub-018_ses-2_task-vigilance_run-1_bold_calc_despike_tshift_resample.aff12.1D -prefix sub-018_ses-2_task-vigilance_run-1_bold_calc_despike_tshift_resample_volreg.nii.gz -base /outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_fsl_afni_mean_mcflirt_0/_scan_vigilance_run-1/func_get_mean_RPI/sub-018_ses-2_task-vigilance_run-1_bold_calc_despike_tshift_resample_tstat.nii.gz -zpad 4 -maxdisp1D sub-018_ses-2_task-vigilance_run-1_bold_calc_despike_tshift_resample_md.1D /outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_fsl_afni_mean_mcflirt_0/_scan_vigilance_run-1/func_generate_ref/sub-018_ses-2_task-vigilance_run-1_bold_calc_despike_tshift_resample.nii.gz
201113-09:39:55,525 nipype.interface INFO:
stderr 2020-11-13T09:39:55.525038:++ 3dvolreg: AFNI version=AFNI_20.2.19 (Sep 27 2020) [64-bit]
201113-09:39:55,525 nipype.interface INFO:
stderr 2020-11-13T09:39:55.525396:++ Authored by: RW Cox
201113-09:39:55,535 nipype.interface INFO:
stderr 2020-11-13T09:39:55.535161:++ Coarse del was 10, replaced with 3
201113-09:40:52,876 nipype.interface INFO:
stderr 2020-11-13T09:40:52.876055:++ Max displacement in automask = 1.72 (mm) at sub-brick 52
201113-09:40:52,876 nipype.interface INFO:
stderr 2020-11-13T09:40:52.876621:++ Max delta displ in automask = 1.22 (mm) at sub-brick 53
201113-09:40:55,525 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-2.func_preproc_fsl_afni_mean_mcflirt_0.func_generate_ref".
201113-09:40:55,527 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-2.func_preproc_fsl_afni_mean_mcflirt_0.func_get_mean_motion" in "/outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_fsl_afni_mean_mcflirt_0/_scan_vigilance_run-1/func_get_mean_motion".
201113-09:40:55,533 nipype.workflow INFO:
[Node] Running "func_get_mean_motion" ("nipype.interfaces.afni.utils.TStat"), a CommandLine Interface with command:
3dTstat -mean -prefix sub-018_ses-2_task-vigilance_run-1_bold_calc_despike_tshift_resample_volreg_tstat.nii.gz /outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_fsl_afni_mean_mcflirt_0/_scan_vigilance_run-1/func_get_mean_motion/sub-018_ses-2_task-vigilance_run-1_bold_calc_despike_tshift_resample_volreg.nii.gz
201113-09:40:55,790 nipype.interface INFO:
stderr 2020-11-13T09:40:55.790788:++ 3dTstat: AFNI version=AFNI_20.2.19 (Sep 27 2020) [64-bit]
201113-09:40:55,791 nipype.interface INFO:
stderr 2020-11-13T09:40:55.791136:++ Authored by: KR Hammett & RW Cox
201113-09:40:56,225 nipype.interface INFO:
stderr 2020-11-13T09:40:56.225252:++ Output dataset ./sub-018_ses-2_task-vigilance_run-1_bold_calc_despike_tshift_resample_volreg_tstat.nii.gz
201113-09:40:56,412 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-2.func_preproc_fsl_afni_mean_mcflirt_0.func_get_mean_motion".
201113-09:40:56,413 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-2.func_preproc_fsl_afni_mean_mcflirt_0.func_motion_correct_mcflirt" in "/outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_fsl_afni_mean_mcflirt_0/_scan_vigilance_run-1/func_motion_correct_mcflirt".
201113-09:40:56,421 nipype.workflow INFO:
[Node] Running "func_motion_correct_mcflirt" ("nipype.interfaces.fsl.preprocess.MCFLIRT"), a CommandLine Interface with command:
mcflirt -in /outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_fsl_afni_mean_mcflirt_0/_scan_vigilance_run-1/func_reorient/sub-018_ses-2_task-vigilance_run-1_bold_calc_despike_tshift_resample.nii.gz -out /outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_fsl_afni_mean_mcflirt_0/_scan_vigilance_run-1/func_motion_correct_mcflirt/sub-018_ses-2_task-vigilance_run-1_bold_calc_despike_tshift_resample_mcf.nii.gz -reffile /outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_fsl_afni_mean_mcflirt_0/_scan_vigilance_run-1/func_get_mean_motion/sub-018_ses-2_task-vigilance_run-1_bold_calc_despike_tshift_resample_volreg_tstat.nii.gz -mats -plots -rmsabs -rmsrel
201113-09:41:07,799 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-2.func_preproc_fsl_afni_mean_mcflirt_0.func_motion_correct_mcflirt".
201113-09:41:07,805 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-2.sinker_0_motion_correct" in "/outputs/tmp/resting_preproc_sub-018_ses-2/_scan_vigilance_run-1/sinker_0_motion_correct".
201113-09:41:07,813 nipype.workflow INFO:
[Node] Running "sinker_0_motion_correct" ("CPAC.utils.interfaces.datasink.DataSink")
201113-09:41:08,46 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-2.sinker_0_motion_correct".
201113-09:41:08,48 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-2.func_preproc_fsl_afni_mean_mcflirt_0.func_preproc_fsl_afni_mean_mcflirt_0_skullstrip.func_mean_skull" in "/outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_fsl_afni_mean_mcflirt_0/func_preproc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_vigilance_run-1/func_mean_skull".
201113-09:41:08,56 nipype.workflow INFO:
[Node] Running "func_mean_skull" ("nipype.interfaces.afni.utils.TStat"), a CommandLine Interface with command:
3dTstat -mean -prefix sub-018_ses-2_task-vigilance_run-1_bold_calc_despike_tshift_resample_mcf_tstat.nii.gz /outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_fsl_afni_mean_mcflirt_0/func_preproc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_vigilance_run-1/func_mean_skull/sub-018_ses-2_task-vigilance_run-1_bold_calc_despike_tshift_resample_mcf.nii.gz
201113-09:41:08,314 nipype.interface INFO:
stderr 2020-11-13T09:41:08.314893:++ 3dTstat: AFNI version=AFNI_20.2.19 (Sep 27 2020) [64-bit]
201113-09:41:08,315 nipype.interface INFO:
stderr 2020-11-13T09:41:08.315298:++ Authored by: KR Hammett & RW Cox
201113-09:41:08,669 nipype.interface INFO:
stderr 2020-11-13T09:41:08.668941:++ Output dataset ./sub-018_ses-2_task-vigilance_run-1_bold_calc_despike_tshift_resample_mcf_tstat.nii.gz
201113-09:41:08,857 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-2.func_preproc_fsl_afni_mean_mcflirt_0.func_preproc_fsl_afni_mean_mcflirt_0_skullstrip.func_mean_skull".
201113-09:41:08,858 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-2.func_preproc_fsl_afni_mean_mcflirt_0.func_preproc_fsl_afni_mean_mcflirt_0_skullstrip.skullstrip_first_pass" in "/outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_fsl_afni_mean_mcflirt_0/func_preproc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_vigilance_run-1/skullstrip_first_pass".
201113-09:41:08,864 nipype.workflow INFO:
[Node] Running "skullstrip_first_pass" ("nipype.interfaces.fsl.preprocess.BET"), a CommandLine Interface with command:
bet /outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_fsl_afni_mean_mcflirt_0/func_preproc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_vigilance_run-1/func_mean_skull/sub-018_ses-2_task-vigilance_run-1_bold_calc_despike_tshift_resample_mcf_tstat.nii.gz /outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_fsl_afni_mean_mcflirt_0/func_preproc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_vigilance_run-1/skullstrip_first_pass/sub-018_ses-2_task-vigilance_run-1_bold_calc_despike_tshift_resample_mcf_tstat_brain.nii.gz -f 0.20 -m
201113-09:41:10,703 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-2.func_preproc_fsl_afni_mean_mcflirt_0.func_preproc_fsl_afni_mean_mcflirt_0_skullstrip.skullstrip_first_pass".
201113-09:41:10,704 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-2.func_preproc_fsl_afni_mean_mcflirt_0.func_preproc_fsl_afni_mean_mcflirt_0_skullstrip.skullstrip_first_dilate" in "/outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_fsl_afni_mean_mcflirt_0/func_preproc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_vigilance_run-1/skullstrip_first_dilate".
201113-09:41:10,710 nipype.workflow INFO:
[Node] Running "skullstrip_first_dilate" ("nipype.interfaces.fsl.maths.DilateImage"), a CommandLine Interface with command:
fslmaths -dt char /outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_fsl_afni_mean_mcflirt_0/func_preproc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_vigilance_run-1/skullstrip_first_pass/sub-018_ses-2_task-vigilance_run-1_bold_calc_despike_tshift_resample_mcf_tstat_brain_mask.nii.gz -kernel sphere 6.0000 -dilF /outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_fsl_afni_mean_mcflirt_0/func_preproc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_vigilance_run-1/skullstrip_first_dilate/sub-018_ses-2_task-vigilance_run-1_bold_calc_despike_tshift_resample_mcf_tstat_brain_mask_dil.nii.gz
201113-09:41:11,392 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-2.func_preproc_fsl_afni_mean_mcflirt_0.func_preproc_fsl_afni_mean_mcflirt_0_skullstrip.skullstrip_first_dilate".
201113-09:41:11,394 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-2.func_preproc_fsl_afni_mean_mcflirt_0.func_preproc_fsl_afni_mean_mcflirt_0_skullstrip.skullstrip_first_mask" in "/outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_fsl_afni_mean_mcflirt_0/func_preproc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_vigilance_run-1/skullstrip_first_mask".
201113-09:41:11,399 nipype.workflow INFO:
[Node] Running "skullstrip_first_mask" ("nipype.interfaces.fsl.maths.ApplyMask"), a CommandLine Interface with command:
fslmaths /outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_fsl_afni_mean_mcflirt_0/func_preproc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_vigilance_run-1/skullstrip_first_pass/sub-018_ses-2_task-vigilance_run-1_bold_calc_despike_tshift_resample_mcf_tstat_brain.nii.gz -mas /outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_fsl_afni_mean_mcflirt_0/func_preproc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_vigilance_run-1/skullstrip_first_dilate/sub-018_ses-2_task-vigilance_run-1_bold_calc_despike_tshift_resample_mcf_tstat_brain_mask_dil.nii.gz /outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_fsl_afni_mean_mcflirt_0/func_preproc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_vigilance_run-1/skullstrip_first_mask/sub-018_ses-2_task-vigilance_run-1_bold_calc_despike_tshift_resample_mcf_tstat_brain_masked.nii.gz
201113-09:41:11,851 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-2.func_preproc_fsl_afni_mean_mcflirt_0.func_preproc_fsl_afni_mean_mcflirt_0_skullstrip.skullstrip_first_mask".
201113-09:41:11,852 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-2.func_preproc_fsl_afni_mean_mcflirt_0.func_preproc_fsl_afni_mean_mcflirt_0_skullstrip.unifize" in "/outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_fsl_afni_mean_mcflirt_0/func_preproc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_vigilance_run-1/unifize".
201113-09:41:11,858 nipype.workflow INFO:
[Node] Running "unifize" ("nipype.interfaces.afni.utils.Unifize"), a CommandLine Interface with command:
3dUnifize -clfrac 0.2 -rbt 18.3 65.0 90.0 -prefix uni.nii.gz -T2 -input /outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_fsl_afni_mean_mcflirt_0/func_preproc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_vigilance_run-1/unifize/sub-018_ses-2_task-vigilance_run-1_bold_calc_despike_tshift_resample_mcf_tstat_brain_masked.nii.gz
201113-09:41:12,107 nipype.interface INFO:
stderr 2020-11-13T09:41:12.107203:++ 3dUnifize: AFNI version=AFNI_20.2.19 (Sep 27 2020) [64-bit]
201113-09:42:24,258 nipype.interface INFO:
stderr 2020-11-13T09:42:24.258224: + Pre-processing: IAV..UW[s3880]Im
201113-09:42:24,273 nipype.interface INFO:
stderr 2020-11-13T09:42:24.273231:++ Output dataset ./uni.nii.gz
201113-09:42:24,273 nipype.interface INFO:
stderr 2020-11-13T09:42:24.273516:++ ===== Elapsed = 72.2 sec
201113-09:42:24,481 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-2.func_preproc_fsl_afni_mean_mcflirt_0.func_preproc_fsl_afni_mean_mcflirt_0_skullstrip.unifize".
201113-09:42:24,483 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-2.func_preproc_fsl_afni_mean_mcflirt_0.func_preproc_fsl_afni_mean_mcflirt_0_skullstrip.skullstrip_second_pass" in "/outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_fsl_afni_mean_mcflirt_0/func_preproc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_vigilance_run-1/skullstrip_second_pass".
201113-09:42:24,489 nipype.workflow INFO:
[Node] Running "skullstrip_second_pass" ("nipype.interfaces.afni.preprocess.Automask"), a CommandLine Interface with command:
3dAutomask -apply_prefix uni_masked.nii.gz -dilate 1 -prefix uni_mask.nii.gz /outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_fsl_afni_mean_mcflirt_0/func_preproc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_vigilance_run-1/skullstrip_second_pass/uni.nii.gz
201113-09:42:24,742 nipype.interface INFO:
stderr 2020-11-13T09:42:24.742865:++ 3dAutomask: AFNI version=AFNI_20.2.19 (Sep 27 2020) [64-bit]
201113-09:42:24,743 nipype.interface INFO:
stderr 2020-11-13T09:42:24.743206:++ Authored by: Emperor Zhark
201113-09:42:24,745 nipype.interface INFO:
stderr 2020-11-13T09:42:24.745352:++ Loading dataset /outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_fsl_afni_mean_mcflirt_0/func_preproc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_vigilance_run-1/skullstrip_second_pass/uni.nii.gz
201113-09:42:24,752 nipype.interface INFO:
stderr 2020-11-13T09:42:24.752201:++ Forming automask
201113-09:42:24,755 nipype.interface INFO:
stderr 2020-11-13T09:42:24.754980: + Fixed clip level = 425.320679
201113-09:42:24,758 nipype.interface INFO:
stderr 2020-11-13T09:42:24.758277: + Used gradual clip level = 368.095001 .. 519.769775
201113-09:42:24,758 nipype.interface INFO:
stderr 2020-11-13T09:42:24.758486: + Number voxels above clip level = 28971
201113-09:42:24,758 nipype.interface INFO:
stderr 2020-11-13T09:42:24.758646: + Clustering voxels ...
201113-09:42:24,759 nipype.interface INFO:
stderr 2020-11-13T09:42:24.759739: + Largest cluster has 28967 voxels
201113-09:42:24,761 nipype.interface INFO:
stderr 2020-11-13T09:42:24.761046: + Clustering voxels ...
201113-09:42:24,762 nipype.interface INFO:
stderr 2020-11-13T09:42:24.762367: + Largest cluster has 28537 voxels
201113-09:42:24,766 nipype.interface INFO:
stderr 2020-11-13T09:42:24.766092: + Filled 612 voxels in small holes; now have 29149 voxels
201113-09:42:24,769 nipype.interface INFO:
stderr 2020-11-13T09:42:24.769316: + Filled 3 voxels in large holes; now have 29152 voxels
201113-09:42:24,770 nipype.interface INFO:
stderr 2020-11-13T09:42:24.770534: + Clustering voxels ...
201113-09:42:24,771 nipype.interface INFO:
stderr 2020-11-13T09:42:24.771600: + Largest cluster has 29151 voxels
201113-09:42:24,771 nipype.interface INFO:
stderr 2020-11-13T09:42:24.771826: + Clustering non-brain voxels ...
201113-09:42:24,771 nipype.interface INFO:
stderr 2020-11-13T09:42:24.771969: + Clustering voxels ...
201113-09:42:24,774 nipype.interface INFO:
stderr 2020-11-13T09:42:24.774858: + Largest cluster has 110097 voxels
201113-09:42:24,775 nipype.interface INFO:
stderr 2020-11-13T09:42:24.775187: + Mask now has 29167 voxels
201113-09:42:24,775 nipype.interface INFO:
stderr 2020-11-13T09:42:24.775341:++ Dilating automask
201113-09:42:24,781 nipype.interface INFO:
stderr 2020-11-13T09:42:24.781351: + Clustering voxels ...
201113-09:42:24,783 nipype.interface INFO:
stderr 2020-11-13T09:42:24.783773: + Largest cluster has 104443 voxels
201113-09:42:24,784 nipype.interface INFO:
stderr 2020-11-13T09:42:24.784106:++ 34821 voxels in the mask [out of 139264: 25.00%]
201113-09:42:24,784 nipype.interface INFO:
stderr 2020-11-13T09:42:24.784275:++ first 10 x-planes are zero [from R]
201113-09:42:24,784 nipype.interface INFO:
stderr 2020-11-13T09:42:24.784434:++ last 9 x-planes are zero [from L]
201113-09:42:24,784 nipype.interface INFO:
stderr 2020-11-13T09:42:24.784584:++ first 1 y-planes are zero [from P]
201113-09:42:24,784 nipype.interface INFO:
stderr 2020-11-13T09:42:24.784736:++ last 9 y-planes are zero [from A]
201113-09:42:24,784 nipype.interface INFO:
stderr 2020-11-13T09:42:24.784867:++ first 0 z-planes are zero [from I]
201113-09:42:24,785 nipype.interface INFO:
stderr 2020-11-13T09:42:24.785004:++ last 2 z-planes are zero [from S]
201113-09:42:24,789 nipype.interface INFO:
stderr 2020-11-13T09:42:24.789042:++ Output dataset ./uni_mask.nii.gz
201113-09:42:24,789 nipype.interface INFO:
stderr 2020-11-13T09:42:24.789216:++ applying mask to original data
201113-09:42:24,789 nipype.interface INFO:
stderr 2020-11-13T09:42:24.789894:++ Writing masked data
201113-09:42:24,802 nipype.interface INFO:
stderr 2020-11-13T09:42:24.802820:++ Output dataset ./uni_masked.nii.gz
201113-09:42:24,803 nipype.interface INFO:
stderr 2020-11-13T09:42:24.803146:++ CPU time = 0.000000 sec
201113-09:42:24,987 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-2.func_preproc_fsl_afni_mean_mcflirt_0.func_preproc_fsl_afni_mean_mcflirt_0_skullstrip.skullstrip_second_pass".
201113-09:42:24,989 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-2.func_preproc_fsl_afni_mean_mcflirt_0.func_preproc_fsl_afni_mean_mcflirt_0_skullstrip.combine_masks" in "/outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_fsl_afni_mean_mcflirt_0/func_preproc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_vigilance_run-1/combine_masks".
201113-09:42:24,995 nipype.workflow INFO:
[Node] Running "combine_masks" ("nipype.interfaces.fsl.maths.BinaryMaths"), a CommandLine Interface with command:
fslmaths /outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_fsl_afni_mean_mcflirt_0/func_preproc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_vigilance_run-1/skullstrip_first_pass/sub-018_ses-2_task-vigilance_run-1_bold_calc_despike_tshift_resample_mcf_tstat_brain_mask.nii.gz -mul /outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_fsl_afni_mean_mcflirt_0/func_preproc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_vigilance_run-1/skullstrip_second_pass/uni_mask.nii.gz /outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_fsl_afni_mean_mcflirt_0/func_preproc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_vigilance_run-1/combine_masks/sub-018_ses-2_task-vigilance_run-1_bold_calc_despike_tshift_resample_mcf_tstat_brain_mask_maths.nii.gz
201113-09:42:25,437 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-2.func_preproc_fsl_afni_mean_mcflirt_0.func_preproc_fsl_afni_mean_mcflirt_0_skullstrip.combine_masks".
201113-09:42:25,439 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-2.nuisance_regressor_0_0.GlobalSignal_merge_masks" in "/outputs/tmp/resting_preproc_sub-018_ses-2/nuisance_regressor_0_0/_scan_vigilance_run-1/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/GlobalSignal_merge_masks".
201113-09:42:25,444 nipype.workflow INFO:
[Node] Running "GlobalSignal_merge_masks" ("nipype.interfaces.utility.base.Merge")
201113-09:42:25,678 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-2.nuisance_regressor_0_0.GlobalSignal_merge_masks".
201113-09:42:25,679 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-2.nuisance_regressor_0_0.GlobalSignal_union_masks" in "/outputs/tmp/resting_preproc_sub-018_ses-2/nuisance_regressor_0_0/_scan_vigilance_run-1/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/GlobalSignal_union_masks".
201113-09:42:25,686 nipype.workflow INFO:
[Node] Running "GlobalSignal_union_masks" ("CPAC.utils.interfaces.masktool.MaskTool"), a CommandLine Interface with command:
3dmask_tool -prefix sub-018_ses-2_task-vigilance_run-1_bold_calc_despike_tshift_resample_mcf_tstat_brain_mask_maths_mask.nii.gz -input /outputs/tmp/resting_preproc_sub-018_ses-2/nuisance_regressor_0_0/_scan_vigilance_run-1/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/GlobalSignal_union_masks/sub-018_ses-2_task-vigilance_run-1_bold_calc_despike_tshift_resample_mcf_tstat_brain_mask_maths.nii.gz
201113-09:42:25,971 nipype.interface INFO:
stderr 2020-11-13T09:42:25.971015:++ no -frac option: defaulting to -union
201113-09:42:25,971 nipype.interface INFO:
stderr 2020-11-13T09:42:25.971588:++ processing 1 input dataset(s), NN=2...
201113-09:42:25,971 nipype.interface INFO:
stderr 2020-11-13T09:42:25.971844:++ padding all datasets by 0 (for dilations)
201113-09:42:25,977 nipype.interface INFO:
stderr 2020-11-13T09:42:25.977613:++ frac 0 over 1 volumes gives min count 0
201113-09:42:25,978 nipype.interface INFO:
stderr 2020-11-13T09:42:25.978044:++ voxel limits: 0 clipped, 34780 survived, 104484 were zero
201113-09:42:25,978 nipype.interface INFO:
stderr 2020-11-13T09:42:25.978249:++ writing result sub-018_ses-2_task-vigilance_run-1_bold_calc_despike_tshift_resample_mcf_tstat_brain_mask_maths_mask.nii.gz...
201113-09:42:25,982 nipype.interface INFO:
stderr 2020-11-13T09:42:25.982726:++ Output dataset ./sub-018_ses-2_task-vigilance_run-1_bold_calc_despike_tshift_resample_mcf_tstat_brain_mask_maths_mask.nii.gz
201113-09:42:26,173 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-2.nuisance_regressor_0_0.GlobalSignal_union_masks".
201113-09:42:26,175 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-2.sinker_0_functional_brain_mask" in "/outputs/tmp/resting_preproc_sub-018_ses-2/_scan_vigilance_run-1/sinker_0_functional_brain_mask".
201113-09:42:26,183 nipype.workflow INFO:
[Node] Running "sinker_0_functional_brain_mask" ("CPAC.utils.interfaces.datasink.DataSink")
201113-09:42:26,414 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-2.sinker_0_functional_brain_mask".
201113-09:42:26,416 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-2.functional_brain_mask_derivative_0" in "/outputs/tmp/resting_preproc_sub-018_ses-2/_scan_vigilance_run-1/functional_brain_mask_derivative_0".
201113-09:42:26,420 nipype.workflow INFO:
[Node] Running "functional_brain_mask_derivative_0" ("CPAC.utils.interfaces.function.Function")
201113-09:42:26,629 nipype.workflow INFO:
[Node] Setting-up "functional_brain_mask_derivative" in "/outputs/tmp/resting_preproc_sub-018_ses-2/_scan_vigilance_run-1/functional_brain_mask_derivative_0/functional_brain_mask_derivative".
201113-09:42:26,634 nipype.workflow INFO:
[Node] Running "functional_brain_mask_derivative" ("nipype.interfaces.afni.utils.Resample"), a CommandLine Interface with command:
3dresample -prefix sub-018_ses-2_task-vigilance_run-1_bold_calc_despike_tshift_resample_mcf_tstat_brain_mask_maths_resample.nii.gz -rmode Cu -dxyz 2.000000 2.000000 2.000000 -inset /outputs/tmp/resting_preproc_sub-018_ses-2/_scan_vigilance_run-1/functional_brain_mask_derivative_0/functional_brain_mask_derivative/sub-018_ses-2_task-vigilance_run-1_bold_calc_despike_tshift_resample_mcf_tstat_brain_mask_maths.nii.gz
201113-09:42:27,161 nipype.workflow INFO:
[Node] Finished "functional_brain_mask_derivative".
201113-09:42:27,176 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-2.functional_brain_mask_derivative_0".
201113-09:42:27,178 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-2.func_preproc_fsl_afni_mean_mcflirt_0.func_preproc_fsl_afni_mean_mcflirt_0_skullstrip.func_extract_brain" in "/outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_fsl_afni_mean_mcflirt_0/func_preproc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_vigilance_run-1/func_extract_brain".
201113-09:42:27,186 nipype.workflow INFO:
[Node] Running "func_extract_brain" ("nipype.interfaces.afni.utils.Calc"), a CommandLine Interface with command:
3dcalc -a /outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_fsl_afni_mean_mcflirt_0/_scan_vigilance_run-1/func_motion_correct_mcflirt/sub-018_ses-2_task-vigilance_run-1_bold_calc_despike_tshift_resample_mcf.nii.gz -b /outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_fsl_afni_mean_mcflirt_0/func_preproc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_vigilance_run-1/combine_masks/sub-018_ses-2_task-vigilance_run-1_bold_calc_despike_tshift_resample_mcf_tstat_brain_mask_maths.nii.gz -expr "a*b" -prefix sub-018_ses-2_task-vigilance_run-1_bold_calc_despike_tshift_resample_mcf_calc.nii.gz
201113-09:42:27,433 nipype.interface INFO:
stderr 2020-11-13T09:42:27.433447:++ 3dcalc: AFNI version=AFNI_20.2.19 (Sep 27 2020) [64-bit]
201113-09:42:27,433 nipype.interface INFO:
stderr 2020-11-13T09:42:27.433807:++ Authored by: A cast of thousands
201113-09:42:29,60 nipype.interface INFO:
stderr 2020-11-13T09:42:29.060248:++ Output dataset ./sub-018_ses-2_task-vigilance_run-1_bold_calc_despike_tshift_resample_mcf_calc.nii.gz
201113-09:42:29,248 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-2.func_preproc_fsl_afni_mean_mcflirt_0.func_preproc_fsl_afni_mean_mcflirt_0_skullstrip.func_extract_brain".
201113-09:42:29,250 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-2.func_preproc_fsl_afni_mean_mcflirt_0.func_normalize" in "/outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_fsl_afni_mean_mcflirt_0/_scan_vigilance_run-1/func_normalize".
201113-09:42:29,255 nipype.workflow INFO:
[Node] Running "func_normalize" ("nipype.interfaces.fsl.utils.ImageMaths"), a CommandLine Interface with command:
fslmaths /outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_fsl_afni_mean_mcflirt_0/func_preproc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_vigilance_run-1/func_extract_brain/sub-018_ses-2_task-vigilance_run-1_bold_calc_despike_tshift_resample_mcf_calc.nii.gz -ing 10000 /outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_fsl_afni_mean_mcflirt_0/_scan_vigilance_run-1/func_normalize/sub-018_ses-2_task-vigilance_run-1_bold_calc_despike_tshift_resample_mcf_calc_maths.nii.gz -odt float
201113-09:42:30,664 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-2.func_preproc_fsl_afni_mean_mcflirt_0.func_normalize".
201113-09:42:30,665 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-2.nuisance_regressor_0_0.GlobalSignal_mean" in "/outputs/tmp/resting_preproc_sub-018_ses-2/nuisance_regressor_0_0/_scan_vigilance_run-1/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/GlobalSignal_mean".
201113-09:42:30,671 nipype.workflow INFO:
[Node] Running "GlobalSignal_mean" ("nipype.interfaces.afni.preprocess.ROIStats"), a CommandLine Interface with command:
3dROIstats -mask /outputs/tmp/resting_preproc_sub-018_ses-2/nuisance_regressor_0_0/_scan_vigilance_run-1/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/GlobalSignal_union_masks/sub-018_ses-2_task-vigilance_run-1_bold_calc_despike_tshift_resample_mcf_tstat_brain_mask_maths_mask.nii.gz -1Dformat /outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_fsl_afni_mean_mcflirt_0/_scan_vigilance_run-1/func_normalize/sub-018_ses-2_task-vigilance_run-1_bold_calc_despike_tshift_resample_mcf_calc_maths.nii.gz
201113-09:42:31,352 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-2.nuisance_regressor_0_0.GlobalSignal_mean".
201113-09:42:31,354 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-2.nuisance_regressor_0_0.functional_mean" in "/outputs/tmp/resting_preproc_sub-018_ses-2/nuisance_regressor_0_0/_scan_vigilance_run-1/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/functional_mean".
201113-09:42:31,360 nipype.workflow INFO:
[Node] Running "functional_mean" ("nipype.interfaces.afni.utils.TStat"), a CommandLine Interface with command:
3dTstat -mean -prefix sub-018_ses-2_task-vigilance_run-1_bold_calc_despike_tshift_resample_mcf_calc_maths_tstat.nii.gz /outputs/tmp/resting_preproc_sub-018_ses-2/nuisance_regressor_0_0/_scan_vigilance_run-1/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/functional_mean/sub-018_ses-2_task-vigilance_run-1_bold_calc_despike_tshift_resample_mcf_calc_maths.nii.gz
201113-09:42:31,611 nipype.interface INFO:
stderr 2020-11-13T09:42:31.611422:++ 3dTstat: AFNI version=AFNI_20.2.19 (Sep 27 2020) [64-bit]
201113-09:42:31,612 nipype.interface INFO:
stderr 2020-11-13T09:42:31.612170:++ Authored by: KR Hammett & RW Cox
201113-09:42:31,923 nipype.interface INFO:
stderr 2020-11-13T09:42:31.923150:++ Output dataset ./sub-018_ses-2_task-vigilance_run-1_bold_calc_despike_tshift_resample_mcf_calc_maths_tstat.nii.gz
201113-09:42:32,110 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-2.nuisance_regressor_0_0.functional_mean".
201113-09:42:32,111 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-2.qc_snr_0.std_dev" in "/outputs/tmp/resting_preproc_sub-018_ses-2/qc_snr_0/_scan_vigilance_run-1/std_dev".
201113-09:42:32,117 nipype.workflow INFO:
[Node] Running "std_dev" ("nipype.interfaces.afni.utils.TStat"), a CommandLine Interface with command:
3dTstat -stdev -mask /outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_fsl_afni_mean_mcflirt_0/func_preproc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_vigilance_run-1/combine_masks/sub-018_ses-2_task-vigilance_run-1_bold_calc_despike_tshift_resample_mcf_tstat_brain_mask_maths.nii.gz -prefix sub-018_ses-2_task-vigilance_run-1_bold_calc_despike_tshift_resample_mcf_calc_maths_tstat.nii.gz /outputs/tmp/resting_preproc_sub-018_ses-2/qc_snr_0/_scan_vigilance_run-1/std_dev/sub-018_ses-2_task-vigilance_run-1_bold_calc_despike_tshift_resample_mcf_calc_maths.nii.gz
201113-09:42:32,378 nipype.interface INFO:
stderr 2020-11-13T09:42:32.378342:++ 3dTstat: AFNI version=AFNI_20.2.19 (Sep 27 2020) [64-bit]
201113-09:42:32,378 nipype.interface INFO:
stderr 2020-11-13T09:42:32.378824:++ Authored by: KR Hammett & RW Cox
201113-09:42:32,659 nipype.interface INFO:
stderr 2020-11-13T09:42:32.659187:++ Output dataset ./sub-018_ses-2_task-vigilance_run-1_bold_calc_despike_tshift_resample_mcf_calc_maths_tstat.nii.gz
201113-09:42:32,843 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-2.qc_snr_0.std_dev".
201113-09:42:32,844 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-2.sinker_0_functional_preprocessed" in "/outputs/tmp/resting_preproc_sub-018_ses-2/_scan_vigilance_run-1/sinker_0_functional_preprocessed".
201113-09:42:32,851 nipype.workflow INFO:
[Node] Running "sinker_0_functional_preprocessed" ("CPAC.utils.interfaces.datasink.DataSink")
201113-09:42:33,78 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-2.sinker_0_functional_preprocessed".
201113-09:42:33,80 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-2.func_preproc_fsl_afni_mean_mcflirt_0.func_mask_normalize" in "/outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_fsl_afni_mean_mcflirt_0/_scan_vigilance_run-1/func_mask_normalize".
201113-09:42:33,85 nipype.workflow INFO:
[Node] Running "func_mask_normalize" ("nipype.interfaces.fsl.utils.ImageMaths"), a CommandLine Interface with command:
fslmaths /outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_fsl_afni_mean_mcflirt_0/_scan_vigilance_run-1/func_normalize/sub-018_ses-2_task-vigilance_run-1_bold_calc_despike_tshift_resample_mcf_calc_maths.nii.gz -Tmin -bin /outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_fsl_afni_mean_mcflirt_0/_scan_vigilance_run-1/func_mask_normalize/sub-018_ses-2_task-vigilance_run-1_bold_calc_despike_tshift_resample_mcf_calc_maths_maths.nii.gz -odt char
201113-09:42:33,854 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-2.func_preproc_fsl_afni_mean_mcflirt_0.func_mask_normalize".
201113-09:42:33,856 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-2.sinker_0_functional_preprocessed_mask" in "/outputs/tmp/resting_preproc_sub-018_ses-2/_scan_vigilance_run-1/sinker_0_functional_preprocessed_mask".
201113-09:42:33,862 nipype.workflow INFO:
[Node] Running "sinker_0_functional_preprocessed_mask" ("CPAC.utils.interfaces.datasink.DataSink")
201113-09:42:34,92 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-2.sinker_0_functional_preprocessed_mask".
201113-09:42:34,94 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-2.func_preproc_fsl_afni_mean_mcflirt_0.func_mean" in "/outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_fsl_afni_mean_mcflirt_0/_scan_vigilance_run-1/func_mean".
201113-09:42:34,99 nipype.workflow INFO:
[Node] Running "func_mean" ("nipype.interfaces.afni.utils.TStat"), a CommandLine Interface with command:
3dTstat -mean -prefix sub-018_ses-2_task-vigilance_run-1_bold_calc_despike_tshift_resample_mcf_calc_tstat.nii.gz /outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_fsl_afni_mean_mcflirt_0/_scan_vigilance_run-1/func_mean/sub-018_ses-2_task-vigilance_run-1_bold_calc_despike_tshift_resample_mcf_calc.nii.gz
201113-09:42:34,345 nipype.interface INFO:
stderr 2020-11-13T09:42:34.345008:++ 3dTstat: AFNI version=AFNI_20.2.19 (Sep 27 2020) [64-bit]
201113-09:42:34,345 nipype.interface INFO:
stderr 2020-11-13T09:42:34.345351:++ Authored by: KR Hammett & RW Cox
201113-09:42:34,642 nipype.interface INFO:
stderr 2020-11-13T09:42:34.642326:++ Output dataset ./sub-018_ses-2_task-vigilance_run-1_bold_calc_despike_tshift_resample_mcf_calc_tstat.nii.gz
201113-09:42:34,826 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-2.func_preproc_fsl_afni_mean_mcflirt_0.func_mean".
201113-09:42:34,827 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-2.sinker_0_mean_functional" in "/outputs/tmp/resting_preproc_sub-018_ses-2/_scan_vigilance_run-1/sinker_0_mean_functional".
201113-09:42:34,835 nipype.workflow INFO:
[Node] Running "sinker_0_mean_functional" ("CPAC.utils.interfaces.datasink.DataSink")
201113-09:42:35,65 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-2.sinker_0_mean_functional".
201113-09:42:35,67 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-2.func_preproc_fsl_afni_mean_mcflirt_0.norm_motion_params" in "/outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_fsl_afni_mean_mcflirt_0/_scan_vigilance_run-1/norm_motion_params".
201113-09:42:35,72 nipype.workflow INFO:
[Node] Running "norm_motion_params" ("CPAC.utils.interfaces.function.Function")
201113-09:42:35,306 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-2.func_preproc_fsl_afni_mean_mcflirt_0.norm_motion_params".
201113-09:42:35,307 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-2.sinker_0_slice_time_corrected" in "/outputs/tmp/resting_preproc_sub-018_ses-2/_scan_vigilance_run-1/sinker_0_slice_time_corrected".
201113-09:42:35,315 nipype.workflow INFO:
[Node] Running "sinker_0_slice_time_corrected" ("CPAC.utils.interfaces.datasink.DataSink")
201113-09:42:35,546 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-2.sinker_0_slice_time_corrected".
201113-09:42:35,548 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-2.sinker_0_raw_functional" in "/outputs/tmp/resting_preproc_sub-018_ses-2/_scan_vigilance_run-1/sinker_0_raw_functional".
201113-09:42:35,555 nipype.workflow INFO:
[Node] Running "sinker_0_raw_functional" ("CPAC.utils.interfaces.datasink.DataSink")
201113-09:42:35,862 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-2.sinker_0_raw_functional".
201113-09:42:35,863 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-2.func_gather_0.check_func_scan" in "/outputs/tmp/resting_preproc_sub-018_ses-2/func_gather_0/_scan_vigilance_run-1/check_func_scan".
201113-09:42:35,898 nipype.workflow INFO:
[Node] Running "check_func_scan" ("CPAC.utils.interfaces.function.Function")
201113-09:42:36,131 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-2.func_gather_0.check_func_scan".
201113-09:42:36,142 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-2.func_gather_0.select_scan_params" in "/outputs/tmp/resting_preproc_sub-018_ses-2/func_gather_0/_scan_tgng_run-2/select_scan_params".
201113-09:42:36,171 nipype.workflow INFO:
[Node] Running "select_scan_params" ("CPAC.utils.interfaces.function.Function")
201113-09:42:36,403 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-2.func_gather_0.select_scan_params".
201113-09:42:36,414 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-2.func_gather_0.s3_scan_params" in "/outputs/tmp/resting_preproc_sub-018_ses-2/func_gather_0/_scan_tgng_run-2/s3_scan_params".
201113-09:42:36,421 nipype.workflow INFO:
[Node] Running "s3_scan_params" ("CPAC.utils.interfaces.function.Function")
201113-09:42:36,649 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-2.func_gather_0.s3_scan_params".
201113-09:42:36,653 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-2.scan_params_0" in "/outputs/tmp/resting_preproc_sub-018_ses-2/_scan_tgng_run-2/scan_params_0".
201113-09:42:36,662 nipype.workflow INFO:
[Node] Running "scan_params_0" ("CPAC.utils.interfaces.function.Function")
201113-09:42:36,896 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-2.scan_params_0".
201113-09:42:36,899 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-2.func_gather_0.selectrest" in "/outputs/tmp/resting_preproc_sub-018_ses-2/func_gather_0/_scan_tgng_run-2/selectrest".
201113-09:42:36,930 nipype.workflow INFO:
[Node] Running "selectrest" ("CPAC.utils.interfaces.function.Function")
201113-09:42:37,162 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-2.func_gather_0.selectrest".
201113-09:42:37,173 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-2.func_gather_0.check_for_s3" in "/outputs/tmp/resting_preproc_sub-018_ses-2/func_gather_0/_scan_tgng_run-2/check_for_s3".
201113-09:42:37,178 nipype.workflow INFO:
[Node] Running "check_for_s3" ("CPAC.utils.interfaces.function.Function")
201113-09:42:37,472 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-2.func_gather_0.check_for_s3".
201113-09:42:37,473 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-2.edit_func_0.func_get_idx" in "/outputs/tmp/resting_preproc_sub-018_ses-2/edit_func_0/_scan_tgng_run-2/func_get_idx".
201113-09:42:37,479 nipype.workflow INFO:
[Node] Running "func_get_idx" ("nipype.interfaces.utility.wrappers.Function")
201113-09:42:37,710 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-2.edit_func_0.func_get_idx".
201113-09:42:37,711 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-2.edit_func_0.func_drop_trs" in "/outputs/tmp/resting_preproc_sub-018_ses-2/edit_func_0/_scan_tgng_run-2/func_drop_trs".
201113-09:42:37,717 nipype.workflow INFO:
[Node] Running "func_drop_trs" ("nipype.interfaces.afni.utils.Calc"), a CommandLine Interface with command:
3dcalc -a /bids_dataset/sub-018/ses-2/func/sub-018_ses-2_task-tgng_run-2_bold.nii.gz[0..129] -expr "a" -prefix sub-018_ses-2_task-tgng_run-2_bold_calc.nii.gz
201113-09:42:37,972 nipype.interface INFO:
stderr 2020-11-13T09:42:37.972844:++ 3dcalc: AFNI version=AFNI_20.2.19 (Sep 27 2020) [64-bit]
201113-09:42:37,973 nipype.interface INFO:
stderr 2020-11-13T09:42:37.973251:++ Authored by: A cast of thousands
201113-09:42:43,661 nipype.interface INFO:
stderr 2020-11-13T09:42:43.661570:++ Output dataset ./sub-018_ses-2_task-tgng_run-2_bold_calc.nii.gz
201113-09:42:43,853 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-2.edit_func_0.func_drop_trs".
201113-09:42:43,854 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-2.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_deoblique" in "/outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/_scan_tgng_run-2/func_deoblique".
201113-09:42:43,903 nipype.workflow INFO:
[Node] Running "func_deoblique" ("nipype.interfaces.afni.utils.Refit"), a CommandLine Interface with command:
3drefit -deoblique /outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/_scan_tgng_run-2/func_deoblique/sub-018_ses-2_task-tgng_run-2_bold_calc.nii.gz
201113-09:42:44,155 nipype.interface INFO:
stderr 2020-11-13T09:42:44.154957:++ 3drefit: AFNI version=AFNI_20.2.19 (Sep 27 2020) [64-bit]
201113-09:42:44,155 nipype.interface INFO:
stderr 2020-11-13T09:42:44.155315:++ Authored by: RW Cox
201113-09:42:44,167 nipype.interface INFO:
stderr 2020-11-13T09:42:44.167867:++ Processing AFNI dataset /outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/_scan_tgng_run-2/func_deoblique/sub-018_ses-2_task-tgng_run-2_bold_calc.nii.gz
201113-09:42:44,168 nipype.interface INFO:
stderr 2020-11-13T09:42:44.168929: + deoblique
201113-09:42:44,169 nipype.interface INFO:
stderr 2020-11-13T09:42:44.169260: + loading and re-writing dataset /outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/_scan_tgng_run-2/func_deoblique/sub-018_ses-2_task-tgng_run-2_bold_calc.nii.gz (/outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/_scan_tgng_run-2/func_deoblique/sub-018_ses-2_task-tgng_run-2_bold_calc.nii.gz in NIFTI storage)
201113-09:42:48,6 nipype.interface INFO:
stderr 2020-11-13T09:42:48.003453:++ 3drefit processed 1 datasets
201113-09:42:48,221 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-2.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_deoblique".
201113-09:42:48,222 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-2.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_reorient" in "/outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/_scan_tgng_run-2/func_reorient".
201113-09:42:48,227 nipype.workflow INFO:
[Node] Running "func_reorient" ("nipype.interfaces.afni.utils.Resample"), a CommandLine Interface with command:
3dresample -orient RPI -prefix sub-018_ses-2_task-tgng_run-2_bold_calc_resample.nii.gz -inset /outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/_scan_tgng_run-2/func_reorient/sub-018_ses-2_task-tgng_run-2_bold_calc.nii.gz
201113-09:42:52,766 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-2.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_reorient".
201113-09:42:52,767 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-2.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_get_mean_RPI" in "/outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/_scan_tgng_run-2/func_get_mean_RPI".
201113-09:42:52,774 nipype.workflow INFO:
[Node] Running "func_get_mean_RPI" ("nipype.interfaces.afni.utils.TStat"), a CommandLine Interface with command:
3dTstat -mean -prefix sub-018_ses-2_task-tgng_run-2_bold_calc_resample_tstat.nii.gz /outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/_scan_tgng_run-2/func_get_mean_RPI/sub-018_ses-2_task-tgng_run-2_bold_calc_resample.nii.gz
201113-09:42:53,26 nipype.interface INFO:
stderr 2020-11-13T09:42:53.026834:++ 3dTstat: AFNI version=AFNI_20.2.19 (Sep 27 2020) [64-bit]
201113-09:42:53,27 nipype.interface INFO:
stderr 2020-11-13T09:42:53.027181:++ Authored by: KR Hammett & RW Cox
201113-09:42:53,494 nipype.interface INFO:
stderr 2020-11-13T09:42:53.494267:++ Output dataset ./sub-018_ses-2_task-tgng_run-2_bold_calc_resample_tstat.nii.gz
201113-09:42:53,678 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-2.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_get_mean_RPI".
201113-09:42:53,679 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-2.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_generate_ref" in "/outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/_scan_tgng_run-2/func_generate_ref".
201113-09:42:53,686 nipype.workflow INFO:
[Node] Running "func_generate_ref" ("nipype.interfaces.afni.preprocess.Volreg"), a CommandLine Interface with command:
3dvolreg -twopass -Fourier -1Dfile sub-018_ses-2_task-tgng_run-2_bold_calc_resample.1D -1Dmatrix_save sub-018_ses-2_task-tgng_run-2_bold_calc_resample.aff12.1D -prefix sub-018_ses-2_task-tgng_run-2_bold_calc_resample_volreg.nii.gz -base /outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/_scan_tgng_run-2/func_get_mean_RPI/sub-018_ses-2_task-tgng_run-2_bold_calc_resample_tstat.nii.gz -zpad 4 -maxdisp1D sub-018_ses-2_task-tgng_run-2_bold_calc_resample_md.1D /outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/_scan_tgng_run-2/func_generate_ref/sub-018_ses-2_task-tgng_run-2_bold_calc_resample.nii.gz
201113-09:42:53,940 nipype.interface INFO:
stderr 2020-11-13T09:42:53.940338:++ 3dvolreg: AFNI version=AFNI_20.2.19 (Sep 27 2020) [64-bit]
201113-09:42:53,940 nipype.interface INFO:
stderr 2020-11-13T09:42:53.940931:++ Authored by: RW Cox
201113-09:42:53,954 nipype.interface INFO:
stderr 2020-11-13T09:42:53.954344:++ Coarse del was 10, replaced with 3
201113-09:44:40,995 nipype.interface INFO:
stderr 2020-11-13T09:44:40.995789:++ Max displacement in automask = 3.32 (mm) at sub-brick 107
201113-09:44:40,996 nipype.interface INFO:
stderr 2020-11-13T09:44:40.996328:++ Max delta displ in automask = 2.95 (mm) at sub-brick 108
201113-09:44:44,801 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-2.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_generate_ref".
201113-09:44:44,803 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-2.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_get_mean_motion" in "/outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/_scan_tgng_run-2/func_get_mean_motion".
201113-09:44:44,810 nipype.workflow INFO:
[Node] Running "func_get_mean_motion" ("nipype.interfaces.afni.utils.TStat"), a CommandLine Interface with command:
3dTstat -mean -prefix sub-018_ses-2_task-tgng_run-2_bold_calc_resample_volreg_tstat.nii.gz /outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/_scan_tgng_run-2/func_get_mean_motion/sub-018_ses-2_task-tgng_run-2_bold_calc_resample_volreg.nii.gz
201113-09:44:45,64 nipype.interface INFO:
stderr 2020-11-13T09:44:45.064329:++ 3dTstat: AFNI version=AFNI_20.2.19 (Sep 27 2020) [64-bit]
201113-09:44:45,65 nipype.interface INFO:
stderr 2020-11-13T09:44:45.065240:++ Authored by: KR Hammett & RW Cox
201113-09:44:45,533 nipype.interface INFO:
stderr 2020-11-13T09:44:45.533065:++ Output dataset ./sub-018_ses-2_task-tgng_run-2_bold_calc_resample_volreg_tstat.nii.gz
201113-09:44:45,720 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-2.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_get_mean_motion".
201113-09:44:45,721 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-2.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_motion_correct_mcflirt" in "/outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/_scan_tgng_run-2/func_motion_correct_mcflirt".
201113-09:44:45,728 nipype.workflow INFO:
[Node] Running "func_motion_correct_mcflirt" ("nipype.interfaces.fsl.preprocess.MCFLIRT"), a CommandLine Interface with command:
mcflirt -in /outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/_scan_tgng_run-2/func_reorient/sub-018_ses-2_task-tgng_run-2_bold_calc_resample.nii.gz -out /outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/_scan_tgng_run-2/func_motion_correct_mcflirt/sub-018_ses-2_task-tgng_run-2_bold_calc_resample_mcf.nii.gz -reffile /outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/_scan_tgng_run-2/func_get_mean_motion/sub-018_ses-2_task-tgng_run-2_bold_calc_resample_volreg_tstat.nii.gz -mats -plots -rmsabs -rmsrel
201113-09:45:09,347 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-2.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_motion_correct_mcflirt".
201113-09:45:09,355 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-2.gen_motion_stats_before_stc_fsl_afni_mean_mcflirt_0.calculate_FDJ" in "/outputs/tmp/resting_preproc_sub-018_ses-2/gen_motion_stats_before_stc_fsl_afni_mean_mcflirt_0/_scan_tgng_run-2/calculate_FDJ".
201113-09:45:09,361 nipype.workflow INFO:
[Node] Running "calculate_FDJ" ("CPAC.utils.interfaces.function.Function")
201113-09:45:09,587 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-2.gen_motion_stats_before_stc_fsl_afni_mean_mcflirt_0.calculate_FDJ".
201113-09:45:09,588 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-2.sinker_0_frame_wise_displacement_jenkinson" in "/outputs/tmp/resting_preproc_sub-018_ses-2/_scan_tgng_run-2/sinker_0_frame_wise_displacement_jenkinson".
201113-09:45:09,593 nipype.workflow INFO:
[Node] Running "sinker_0_frame_wise_displacement_jenkinson" ("CPAC.utils.interfaces.datasink.DataSink")
201113-09:45:09,823 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-2.sinker_0_frame_wise_displacement_jenkinson".
201113-09:45:09,825 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-2.sinker_0_max_displacement" in "/outputs/tmp/resting_preproc_sub-018_ses-2/_scan_tgng_run-2/sinker_0_max_displacement".
201113-09:45:09,833 nipype.workflow INFO:
[Node] Running "sinker_0_max_displacement" ("CPAC.utils.interfaces.datasink.DataSink")
201113-09:45:10,65 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-2.sinker_0_max_displacement".
201113-09:45:10,67 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-2.sinker_0_coordinate_transformation" in "/outputs/tmp/resting_preproc_sub-018_ses-2/_scan_tgng_run-2/sinker_0_coordinate_transformation".
201113-09:45:10,87 nipype.workflow INFO:
[Node] Running "sinker_0_coordinate_transformation" ("CPAC.utils.interfaces.datasink.DataSink")
201113-09:45:10,348 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-2.sinker_0_coordinate_transformation".
201113-09:45:10,359 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-2.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip.func_mean_skull" in "/outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_tgng_run-2/func_mean_skull".
201113-09:45:10,366 nipype.workflow INFO:
[Node] Running "func_mean_skull" ("nipype.interfaces.afni.utils.TStat"), a CommandLine Interface with command:
3dTstat -mean -prefix sub-018_ses-2_task-tgng_run-2_bold_calc_resample_mcf_tstat.nii.gz /outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_tgng_run-2/func_mean_skull/sub-018_ses-2_task-tgng_run-2_bold_calc_resample_mcf.nii.gz
201113-09:45:10,622 nipype.interface INFO:
stderr 2020-11-13T09:45:10.622472:++ 3dTstat: AFNI version=AFNI_20.2.19 (Sep 27 2020) [64-bit]
201113-09:45:10,623 nipype.interface INFO:
stderr 2020-11-13T09:45:10.623027:++ Authored by: KR Hammett & RW Cox
201113-09:45:11,129 nipype.interface INFO:
stderr 2020-11-13T09:45:11.129219:++ Output dataset ./sub-018_ses-2_task-tgng_run-2_bold_calc_resample_mcf_tstat.nii.gz
201113-09:45:11,320 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-2.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip.func_mean_skull".
201113-09:45:11,322 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-2.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip.skullstrip_first_pass" in "/outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_tgng_run-2/skullstrip_first_pass".
201113-09:45:11,328 nipype.workflow INFO:
[Node] Running "skullstrip_first_pass" ("nipype.interfaces.fsl.preprocess.BET"), a CommandLine Interface with command:
bet /outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_tgng_run-2/func_mean_skull/sub-018_ses-2_task-tgng_run-2_bold_calc_resample_mcf_tstat.nii.gz /outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_tgng_run-2/skullstrip_first_pass/sub-018_ses-2_task-tgng_run-2_bold_calc_resample_mcf_tstat_brain.nii.gz -f 0.20 -m
201113-09:45:13,172 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-2.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip.skullstrip_first_pass".
201113-09:45:13,174 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-2.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip.skullstrip_first_dilate" in "/outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_tgng_run-2/skullstrip_first_dilate".
201113-09:45:13,181 nipype.workflow INFO:
[Node] Running "skullstrip_first_dilate" ("nipype.interfaces.fsl.maths.DilateImage"), a CommandLine Interface with command:
fslmaths -dt char /outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_tgng_run-2/skullstrip_first_pass/sub-018_ses-2_task-tgng_run-2_bold_calc_resample_mcf_tstat_brain_mask.nii.gz -kernel sphere 6.0000 -dilF /outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_tgng_run-2/skullstrip_first_dilate/sub-018_ses-2_task-tgng_run-2_bold_calc_resample_mcf_tstat_brain_mask_dil.nii.gz
201113-09:45:13,878 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-2.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip.skullstrip_first_dilate".
201113-09:45:13,880 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-2.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip.skullstrip_first_mask" in "/outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_tgng_run-2/skullstrip_first_mask".
201113-09:45:13,886 nipype.workflow INFO:
[Node] Running "skullstrip_first_mask" ("nipype.interfaces.fsl.maths.ApplyMask"), a CommandLine Interface with command:
fslmaths /outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_tgng_run-2/skullstrip_first_pass/sub-018_ses-2_task-tgng_run-2_bold_calc_resample_mcf_tstat_brain.nii.gz -mas /outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_tgng_run-2/skullstrip_first_dilate/sub-018_ses-2_task-tgng_run-2_bold_calc_resample_mcf_tstat_brain_mask_dil.nii.gz /outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_tgng_run-2/skullstrip_first_mask/sub-018_ses-2_task-tgng_run-2_bold_calc_resample_mcf_tstat_brain_masked.nii.gz
201113-09:45:14,346 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-2.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip.skullstrip_first_mask".
201113-09:45:14,348 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-2.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip.unifize" in "/outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_tgng_run-2/unifize".
201113-09:45:14,354 nipype.workflow INFO:
[Node] Running "unifize" ("nipype.interfaces.afni.utils.Unifize"), a CommandLine Interface with command:
3dUnifize -clfrac 0.2 -rbt 18.3 65.0 90.0 -prefix uni.nii.gz -T2 -input /outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_tgng_run-2/unifize/sub-018_ses-2_task-tgng_run-2_bold_calc_resample_mcf_tstat_brain_masked.nii.gz
201113-09:45:14,607 nipype.interface INFO:
stderr 2020-11-13T09:45:14.607792:++ 3dUnifize: AFNI version=AFNI_20.2.19 (Sep 27 2020) [64-bit]
201113-09:46:26,951 nipype.interface INFO:
stderr 2020-11-13T09:46:26.951691: + Pre-processing: IAV..UW[s3804]Im
201113-09:46:26,966 nipype.interface INFO:
stderr 2020-11-13T09:46:26.966968:++ Output dataset ./uni.nii.gz
201113-09:46:26,967 nipype.interface INFO:
stderr 2020-11-13T09:46:26.967184:++ ===== Elapsed = 72.4 sec
201113-09:46:27,178 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-2.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip.unifize".
201113-09:46:27,179 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-2.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip.skullstrip_second_pass" in "/outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_tgng_run-2/skullstrip_second_pass".
201113-09:46:27,185 nipype.workflow INFO:
[Node] Running "skullstrip_second_pass" ("nipype.interfaces.afni.preprocess.Automask"), a CommandLine Interface with command:
3dAutomask -apply_prefix uni_masked.nii.gz -dilate 1 -prefix uni_mask.nii.gz /outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_tgng_run-2/skullstrip_second_pass/uni.nii.gz
201113-09:46:27,441 nipype.interface INFO:
stderr 2020-11-13T09:46:27.441878:++ 3dAutomask: AFNI version=AFNI_20.2.19 (Sep 27 2020) [64-bit]
201113-09:46:27,442 nipype.interface INFO:
stderr 2020-11-13T09:46:27.442233:++ Authored by: Emperor Zhark
201113-09:46:27,445 nipype.interface INFO:
stderr 2020-11-13T09:46:27.444977:++ Loading dataset /outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_tgng_run-2/skullstrip_second_pass/uni.nii.gz
201113-09:46:27,449 nipype.interface INFO:
stderr 2020-11-13T09:46:27.449477:++ Forming automask
201113-09:46:27,451 nipype.interface INFO:
stderr 2020-11-13T09:46:27.451482: + Fixed clip level = 424.699768
201113-09:46:27,455 nipype.interface INFO:
stderr 2020-11-13T09:46:27.455873: + Used gradual clip level = 376.095703 .. 519.743774
201113-09:46:27,456 nipype.interface INFO:
stderr 2020-11-13T09:46:27.456082: + Number voxels above clip level = 28945
201113-09:46:27,456 nipype.interface INFO:
stderr 2020-11-13T09:46:27.456236: + Clustering voxels ...
201113-09:46:27,457 nipype.interface INFO:
stderr 2020-11-13T09:46:27.457320: + Largest cluster has 28942 voxels
201113-09:46:27,458 nipype.interface INFO:
stderr 2020-11-13T09:46:27.458625: + Clustering voxels ...
201113-09:46:27,459 nipype.interface INFO:
stderr 2020-11-13T09:46:27.459918: + Largest cluster has 28535 voxels
201113-09:46:27,463 nipype.interface INFO:
stderr 2020-11-13T09:46:27.463298: + Filled 584 voxels in small holes; now have 29119 voxels
201113-09:46:27,466 nipype.interface INFO:
stderr 2020-11-13T09:46:27.466531: + Filled 5 voxels in large holes; now have 29124 voxels
201113-09:46:27,467 nipype.interface INFO:
stderr 2020-11-13T09:46:27.467752: + Clustering voxels ...
201113-09:46:27,468 nipype.interface INFO:
stderr 2020-11-13T09:46:27.468824: + Largest cluster has 29123 voxels
201113-09:46:27,469 nipype.interface INFO:
stderr 2020-11-13T09:46:27.469052: + Clustering non-brain voxels ...
201113-09:46:27,469 nipype.interface INFO:
stderr 2020-11-13T09:46:27.469192: + Clustering voxels ...
201113-09:46:27,472 nipype.interface INFO:
stderr 2020-11-13T09:46:27.472084: + Largest cluster has 110121 voxels
201113-09:46:27,472 nipype.interface INFO:
stderr 2020-11-13T09:46:27.472410: + Mask now has 29143 voxels
201113-09:46:27,472 nipype.interface INFO:
stderr 2020-11-13T09:46:27.472570:++ Dilating automask
201113-09:46:27,481 nipype.interface INFO:
stderr 2020-11-13T09:46:27.481010: + Clustering voxels ...
201113-09:46:27,483 nipype.interface INFO:
stderr 2020-11-13T09:46:27.483547: + Largest cluster has 104372 voxels
201113-09:46:27,483 nipype.interface INFO:
stderr 2020-11-13T09:46:27.483879:++ 34892 voxels in the mask [out of 139264: 25.05%]
201113-09:46:27,484 nipype.interface INFO:
stderr 2020-11-13T09:46:27.484045:++ first 9 x-planes are zero [from R]
201113-09:46:27,484 nipype.interface INFO:
stderr 2020-11-13T09:46:27.484201:++ last 8 x-planes are zero [from L]
201113-09:46:27,484 nipype.interface INFO:
stderr 2020-11-13T09:46:27.484337:++ first 1 y-planes are zero [from P]
201113-09:46:27,484 nipype.interface INFO:
stderr 2020-11-13T09:46:27.484496:++ last 9 y-planes are zero [from A]
201113-09:46:27,484 nipype.interface INFO:
stderr 2020-11-13T09:46:27.484630:++ first 0 z-planes are zero [from I]
201113-09:46:27,484 nipype.interface INFO:
stderr 2020-11-13T09:46:27.484766:++ last 2 z-planes are zero [from S]
201113-09:46:27,488 nipype.interface INFO:
stderr 2020-11-13T09:46:27.488560:++ Output dataset ./uni_mask.nii.gz
201113-09:46:27,488 nipype.interface INFO:
stderr 2020-11-13T09:46:27.488732:++ applying mask to original data
201113-09:46:27,489 nipype.interface INFO:
stderr 2020-11-13T09:46:27.489395:++ Writing masked data
201113-09:46:27,501 nipype.interface INFO:
stderr 2020-11-13T09:46:27.501779:++ Output dataset ./uni_masked.nii.gz
201113-09:46:27,502 nipype.interface INFO:
stderr 2020-11-13T09:46:27.502102:++ CPU time = 0.000000 sec
201113-09:46:27,690 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-2.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip.skullstrip_second_pass".
201113-09:46:27,692 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-2.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip.combine_masks" in "/outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_tgng_run-2/combine_masks".
201113-09:46:27,698 nipype.workflow INFO:
[Node] Running "combine_masks" ("nipype.interfaces.fsl.maths.BinaryMaths"), a CommandLine Interface with command:
fslmaths /outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_tgng_run-2/skullstrip_first_pass/sub-018_ses-2_task-tgng_run-2_bold_calc_resample_mcf_tstat_brain_mask.nii.gz -mul /outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_tgng_run-2/skullstrip_second_pass/uni_mask.nii.gz /outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_tgng_run-2/combine_masks/sub-018_ses-2_task-tgng_run-2_bold_calc_resample_mcf_tstat_brain_mask_maths.nii.gz
201113-09:46:28,140 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-2.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip.combine_masks".
201113-09:46:28,142 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-2.gen_motion_stats_before_stc_fsl_afni_mean_mcflirt_0.cal_DVARS" in "/outputs/tmp/resting_preproc_sub-018_ses-2/gen_motion_stats_before_stc_fsl_afni_mean_mcflirt_0/_scan_tgng_run-2/cal_DVARS".
201113-09:46:28,151 nipype.workflow INFO:
[Node] Running "cal_DVARS" ("CPAC.utils.interfaces.function.Function")
201113-09:46:28,833 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-2.gen_motion_stats_before_stc_fsl_afni_mean_mcflirt_0.cal_DVARS".
201113-09:46:28,835 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-2.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip.func_extract_brain" in "/outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_tgng_run-2/func_extract_brain".
201113-09:46:28,843 nipype.workflow INFO:
[Node] Running "func_extract_brain" ("nipype.interfaces.afni.utils.Calc"), a CommandLine Interface with command:
3dcalc -a /outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/_scan_tgng_run-2/func_motion_correct_mcflirt/sub-018_ses-2_task-tgng_run-2_bold_calc_resample_mcf.nii.gz -b /outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_tgng_run-2/combine_masks/sub-018_ses-2_task-tgng_run-2_bold_calc_resample_mcf_tstat_brain_mask_maths.nii.gz -expr "a*b" -prefix sub-018_ses-2_task-tgng_run-2_bold_calc_resample_mcf_calc.nii.gz
201113-09:46:29,91 nipype.interface INFO:
stderr 2020-11-13T09:46:29.091249:++ 3dcalc: AFNI version=AFNI_20.2.19 (Sep 27 2020) [64-bit]
201113-09:46:29,91 nipype.interface INFO:
stderr 2020-11-13T09:46:29.091593:++ Authored by: A cast of thousands
201113-09:46:31,829 nipype.interface INFO:
stderr 2020-11-13T09:46:31.828984:++ Output dataset ./sub-018_ses-2_task-tgng_run-2_bold_calc_resample_mcf_calc.nii.gz
201113-09:46:32,14 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-2.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip.func_extract_brain".
201113-09:46:32,16 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-2.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_normalize" in "/outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/_scan_tgng_run-2/func_normalize".
201113-09:46:32,22 nipype.workflow INFO:
[Node] Running "func_normalize" ("nipype.interfaces.fsl.utils.ImageMaths"), a CommandLine Interface with command:
fslmaths /outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_tgng_run-2/func_extract_brain/sub-018_ses-2_task-tgng_run-2_bold_calc_resample_mcf_calc.nii.gz -ing 10000 /outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/_scan_tgng_run-2/func_normalize/sub-018_ses-2_task-tgng_run-2_bold_calc_resample_mcf_calc_maths.nii.gz -odt float
201113-09:46:34,185 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-2.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_normalize".
201113-09:46:34,187 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-2.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_mask_normalize" in "/outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/_scan_tgng_run-2/func_mask_normalize".
201113-09:46:34,192 nipype.workflow INFO:
[Node] Running "func_mask_normalize" ("nipype.interfaces.fsl.utils.ImageMaths"), a CommandLine Interface with command:
fslmaths /outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/_scan_tgng_run-2/func_normalize/sub-018_ses-2_task-tgng_run-2_bold_calc_resample_mcf_calc_maths.nii.gz -Tmin -bin /outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/_scan_tgng_run-2/func_mask_normalize/sub-018_ses-2_task-tgng_run-2_bold_calc_resample_mcf_calc_maths_maths.nii.gz -odt char
201113-09:46:35,245 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-2.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_mask_normalize".
201113-09:46:35,247 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-2.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_mean" in "/outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/_scan_tgng_run-2/func_mean".
201113-09:46:35,253 nipype.workflow INFO:
[Node] Running "func_mean" ("nipype.interfaces.afni.utils.TStat"), a CommandLine Interface with command:
3dTstat -mean -prefix sub-018_ses-2_task-tgng_run-2_bold_calc_resample_mcf_calc_tstat.nii.gz /outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/_scan_tgng_run-2/func_mean/sub-018_ses-2_task-tgng_run-2_bold_calc_resample_mcf_calc.nii.gz
201113-09:46:35,507 nipype.interface INFO:
stderr 2020-11-13T09:46:35.507287:++ 3dTstat: AFNI version=AFNI_20.2.19 (Sep 27 2020) [64-bit]
201113-09:46:35,507 nipype.interface INFO:
stderr 2020-11-13T09:46:35.507892:++ Authored by: KR Hammett & RW Cox
201113-09:46:35,807 nipype.interface INFO:
stderr 2020-11-13T09:46:35.807809:++ Output dataset ./sub-018_ses-2_task-tgng_run-2_bold_calc_resample_mcf_calc_tstat.nii.gz
201113-09:46:35,994 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-2.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_mean".
201113-09:46:35,996 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-2.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.norm_motion_params" in "/outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/_scan_tgng_run-2/norm_motion_params".
201113-09:46:36,2 nipype.workflow INFO:
[Node] Running "norm_motion_params" ("CPAC.utils.interfaces.function.Function")
201113-09:46:36,235 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-2.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.norm_motion_params".
201113-09:46:36,236 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-2.qc_motion_0.motion_plot" in "/outputs/tmp/resting_preproc_sub-018_ses-2/qc_motion_0/_scan_tgng_run-2/motion_plot".
201113-09:46:36,241 nipype.workflow INFO:
[Node] Running "motion_plot" ("CPAC.utils.interfaces.function.Function")
201113-09:46:36,679 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-2.qc_motion_0.motion_plot".
201113-09:46:36,680 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-2.sinker_0_qc___movement_trans_plot" in "/outputs/tmp/resting_preproc_sub-018_ses-2/_scan_tgng_run-2/sinker_0_qc___movement_trans_plot".
201113-09:46:36,688 nipype.workflow INFO:
[Node] Running "sinker_0_qc___movement_trans_plot" ("CPAC.utils.interfaces.datasink.DataSink")
201113-09:46:36,898 nipype.interface INFO:
sub: /outputs/output/pipeline_cpac_fmriprep-options/sub-018_ses-2/qc___movement_trans_plot/_scan_tgng_run-2/motion_trans_plot.png -> /outputs/output/pipeline_cpac_fmriprep-options/sub-018_ses-2/qc/movement_trans_plot/_scan_tgng_run-2/motion_trans_plot.png
201113-09:46:36,916 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-2.sinker_0_qc___movement_trans_plot".
201113-09:46:36,918 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-2.sinker_0_qc___movement_rot_plot" in "/outputs/tmp/resting_preproc_sub-018_ses-2/_scan_tgng_run-2/sinker_0_qc___movement_rot_plot".
201113-09:46:36,925 nipype.workflow INFO:
[Node] Running "sinker_0_qc___movement_rot_plot" ("CPAC.utils.interfaces.datasink.DataSink")
201113-09:46:37,137 nipype.interface INFO:
sub: /outputs/output/pipeline_cpac_fmriprep-options/sub-018_ses-2/qc___movement_rot_plot/_scan_tgng_run-2/motion_rot_plot.png -> /outputs/output/pipeline_cpac_fmriprep-options/sub-018_ses-2/qc/movement_rot_plot/_scan_tgng_run-2/motion_rot_plot.png
201113-09:46:37,156 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-2.sinker_0_qc___movement_rot_plot".
201113-09:46:37,158 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-2.gen_motion_stats_before_stc_fsl_afni_mean_mcflirt_0.calc_motion_parameters" in "/outputs/tmp/resting_preproc_sub-018_ses-2/gen_motion_stats_before_stc_fsl_afni_mean_mcflirt_0/_scan_tgng_run-2/calc_motion_parameters".
201113-09:46:37,165 nipype.workflow INFO:
[Node] Running "calc_motion_parameters" ("CPAC.utils.interfaces.function.Function")
201113-09:46:37,399 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-2.gen_motion_stats_before_stc_fsl_afni_mean_mcflirt_0.calc_motion_parameters".
201113-09:46:37,400 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-2.sinker_0_motion_params" in "/outputs/tmp/resting_preproc_sub-018_ses-2/_scan_tgng_run-2/sinker_0_motion_params".
201113-09:46:37,407 nipype.workflow INFO:
[Node] Running "sinker_0_motion_params" ("CPAC.utils.interfaces.datasink.DataSink")
201113-09:46:37,636 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-2.sinker_0_motion_params".
201113-09:46:37,638 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-2.gen_motion_stats_before_stc_fsl_afni_mean_mcflirt_0.calculate_FD" in "/outputs/tmp/resting_preproc_sub-018_ses-2/gen_motion_stats_before_stc_fsl_afni_mean_mcflirt_0/_scan_tgng_run-2/calculate_FD".
201113-09:46:37,642 nipype.workflow INFO:
[Node] Running "calculate_FD" ("CPAC.utils.interfaces.function.Function")
201113-09:46:37,877 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-2.gen_motion_stats_before_stc_fsl_afni_mean_mcflirt_0.calculate_FD".
201113-09:46:37,879 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-2.sinker_0_frame_wise_displacement_power" in "/outputs/tmp/resting_preproc_sub-018_ses-2/_scan_tgng_run-2/sinker_0_frame_wise_displacement_power".
201113-09:46:37,886 nipype.workflow INFO:
[Node] Running "sinker_0_frame_wise_displacement_power" ("CPAC.utils.interfaces.datasink.DataSink")
201113-09:46:38,119 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-2.sinker_0_frame_wise_displacement_power".
201113-09:46:38,120 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-2.gen_motion_stats_before_stc_fsl_afni_mean_mcflirt_0.calc_power_parameters" in "/outputs/tmp/resting_preproc_sub-018_ses-2/gen_motion_stats_before_stc_fsl_afni_mean_mcflirt_0/_scan_tgng_run-2/calc_power_parameters".
201113-09:46:38,125 nipype.workflow INFO:
[Node] Running "calc_power_parameters" ("CPAC.utils.interfaces.function.Function")
201113-09:46:38,360 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-2.gen_motion_stats_before_stc_fsl_afni_mean_mcflirt_0.calc_power_parameters".
201113-09:46:38,361 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-2.sinker_0_power_params" in "/outputs/tmp/resting_preproc_sub-018_ses-2/_scan_tgng_run-2/sinker_0_power_params".
201113-09:46:38,368 nipype.workflow INFO:
[Node] Running "sinker_0_power_params" ("CPAC.utils.interfaces.datasink.DataSink")
201113-09:46:38,598 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-2.sinker_0_power_params".
201113-09:46:38,600 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-2.sinker_0_movement_parameters" in "/outputs/tmp/resting_preproc_sub-018_ses-2/_scan_tgng_run-2/sinker_0_movement_parameters".
201113-09:46:38,608 nipype.workflow INFO:
[Node] Running "sinker_0_movement_parameters" ("CPAC.utils.interfaces.datasink.DataSink")
201113-09:46:38,837 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-2.sinker_0_movement_parameters".
201113-09:46:38,839 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-2.func_despiked_0" in "/outputs/tmp/resting_preproc_sub-018_ses-2/_scan_tgng_run-2/func_despiked_0".
201113-09:46:38,845 nipype.workflow INFO:
[Node] Running "func_despiked_0" ("nipype.interfaces.afni.preprocess.Despike"), a CommandLine Interface with command:
3dDespike -prefix sub-018_ses-2_task-tgng_run-2_bold_calc_despike.nii.gz /outputs/tmp/resting_preproc_sub-018_ses-2/_scan_tgng_run-2/func_despiked_0/sub-018_ses-2_task-tgng_run-2_bold_calc.nii.gz
201113-09:46:39,108 nipype.interface INFO:
stderr 2020-11-13T09:46:39.108220:++ 3dDespike: AFNI version=AFNI_20.2.19 (Sep 27 2020) [64-bit]
201113-09:46:39,108 nipype.interface INFO:
stderr 2020-11-13T09:46:39.108858:++ Authored by: RW Cox
201113-09:46:39,112 nipype.interface INFO:
stderr 2020-11-13T09:46:39.112308:[7m*+ WARNING:[0m If you are performing spatial transformations on an oblique dset,
201113-09:46:39,112 nipype.interface INFO:
stderr 2020-11-13T09:46:39.112308: such as /outputs/tmp/resting_preproc_sub-018_ses-2/_scan_tgng_run-2/func_despiked_0/sub-018_ses-2_task-tgng_run-2_bold_calc.nii.gz,
201113-09:46:39,112 nipype.interface INFO:
stderr 2020-11-13T09:46:39.112308: or viewing/combining it with volumes of differing obliquity,
201113-09:46:39,113 nipype.interface INFO:
stderr 2020-11-13T09:46:39.112308: you should consider running:
201113-09:46:39,113 nipype.interface INFO:
stderr 2020-11-13T09:46:39.112308: 3dWarp -deoblique
201113-09:46:39,113 nipype.interface INFO:
stderr 2020-11-13T09:46:39.112308: on this and other oblique datasets in the same session.
201113-09:46:39,113 nipype.interface INFO:
stderr 2020-11-13T09:46:39.112308: See 3dWarp -help for details.
201113-09:46:39,113 nipype.interface INFO:
stderr 2020-11-13T09:46:39.113736:++ Oblique dataset:/outputs/tmp/resting_preproc_sub-018_ses-2/_scan_tgng_run-2/func_despiked_0/sub-018_ses-2_task-tgng_run-2_bold_calc.nii.gz is 30.348724 degrees from plumb.
201113-09:46:39,114 nipype.interface INFO:
stderr 2020-11-13T09:46:39.113995:++ Input dataset is in short format, but output will be in float format
201113-09:46:39,114 nipype.interface INFO:
stderr 2020-11-13T09:46:39.114230:++ ignoring first 0 time points, using last 130
201113-09:46:39,114 nipype.interface INFO:
stderr 2020-11-13T09:46:39.114685:++ using 130 time points => -corder 4
201113-09:46:39,114 nipype.interface INFO:
stderr 2020-11-13T09:46:39.114935:++ Loading dataset /outputs/tmp/resting_preproc_sub-018_ses-2/_scan_tgng_run-2/func_despiked_0/sub-018_ses-2_task-tgng_run-2_bold_calc.nii.gz
201113-09:46:39,577 nipype.interface INFO:
stderr 2020-11-13T09:46:39.577465:++ 32620 voxels in the automask [out of 139264 in dataset]
201113-09:46:39,583 nipype.interface INFO:
stderr 2020-11-13T09:46:39.583161:++ 56176 voxels in the dilated automask [out of 139264 in dataset]
201113-09:46:39,594 nipype.interface INFO:
stderr 2020-11-13T09:46:39.594114:++ Procesing time series with OLD model fit algorithm
201113-09:46:39,594 nipype.interface INFO:
stderr 2020-11-13T09:46:39.594298:++ smash edit thresholds: 3.1 .. 5.0 MADs
201113-09:46:39,594 nipype.interface INFO:
stderr 2020-11-13T09:46:39.594468: + [ 3.457% .. 0.072% of normal distribution]
201113-09:46:39,594 nipype.interface INFO:
stderr 2020-11-13T09:46:39.594623: + [ 8.839% .. 3.125% of Laplace distribution]
201113-09:46:39,594 nipype.interface INFO:
stderr 2020-11-13T09:46:39.594777:++ start OpenMP thread #0
201113-09:46:45,122 nipype.interface INFO:
stderr 2020-11-13T09:46:45.122312:.........................
201113-09:46:45,122 nipype.interface INFO:
stderr 2020-11-13T09:46:45.122798:++ Elapsed despike time = 5s 528ms
201113-09:46:45,122 nipype.interface INFO:
stderr 2020-11-13T09:46:45.122948:
201113-09:46:45,123 nipype.interface INFO:
stderr 2020-11-13T09:46:45.123811:++ FINAL: 7302880 data points, 593905 edits [8.132%], 151929 big edits [2.080%]
201113-09:46:48,889 nipype.interface INFO:
stderr 2020-11-13T09:46:48.889268:++ Output dataset ./sub-018_ses-2_task-tgng_run-2_bold_calc_despike.nii.gz
201113-09:46:49,121 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-2.func_despiked_0".
201113-09:46:49,122 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-2.func_slice_timing_correction_0.slice_timing" in "/outputs/tmp/resting_preproc_sub-018_ses-2/func_slice_timing_correction_0/_scan_tgng_run-2/slice_timing".
201113-09:46:49,131 nipype.interface WARNING:
Passing a file prefixed by "@" will be deprecated; please use the `slice_timing` input
201113-09:46:49,131 nipype.workflow INFO:
[Node] Running "slice_timing" ("nipype.interfaces.afni.preprocess.TShift"), a CommandLine Interface with command:
3dTshift -prefix sub-018_ses-2_task-tgng_run-2_bold_calc_despike_tshift.nii.gz -tpattern @/outputs/tmp/resting_preproc_sub-018_ses-2/_scan_tgng_run-2/scan_params_0/tpattern.txt -TR 2.0s /outputs/tmp/resting_preproc_sub-018_ses-2/func_slice_timing_correction_0/_scan_tgng_run-2/slice_timing/sub-018_ses-2_task-tgng_run-2_bold_calc_despike.nii.gz
201113-09:46:49,343 nipype.interface WARNING:
Passing a file prefixed by "@" will be deprecated; please use the `slice_timing` input
201113-09:46:49,385 nipype.interface INFO:
stderr 2020-11-13T09:46:49.385120:++ 3dTshift: AFNI version=AFNI_20.2.19 (Sep 27 2020) [64-bit]
201113-09:46:49,388 nipype.interface INFO:
stderr 2020-11-13T09:46:49.388632:[7m*+ WARNING:[0m If you are performing spatial transformations on an oblique dset,
201113-09:46:49,388 nipype.interface INFO:
stderr 2020-11-13T09:46:49.388632: such as /outputs/tmp/resting_preproc_sub-018_ses-2/func_slice_timing_correction_0/_scan_tgng_run-2/slice_timing/sub-018_ses-2_task-tgng_run-2_bold_calc_despike.nii.gz,
201113-09:46:49,388 nipype.interface INFO:
stderr 2020-11-13T09:46:49.388632: or viewing/combining it with volumes of differing obliquity,
201113-09:46:49,389 nipype.interface INFO:
stderr 2020-11-13T09:46:49.388632: you should consider running:
201113-09:46:49,389 nipype.interface INFO:
stderr 2020-11-13T09:46:49.388632: 3dWarp -deoblique
201113-09:46:49,389 nipype.interface INFO:
stderr 2020-11-13T09:46:49.388632: on this and other oblique datasets in the same session.
201113-09:46:49,389 nipype.interface INFO:
stderr 2020-11-13T09:46:49.388632: See 3dWarp -help for details.
201113-09:46:49,389 nipype.interface INFO:
stderr 2020-11-13T09:46:49.389650:++ Oblique dataset:/outputs/tmp/resting_preproc_sub-018_ses-2/func_slice_timing_correction_0/_scan_tgng_run-2/slice_timing/sub-018_ses-2_task-tgng_run-2_bold_calc_despike.nii.gz is 30.348724 degrees from plumb.
201113-09:46:53,706 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-2.func_slice_timing_correction_0.slice_timing".
201113-09:46:53,707 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-2.func_preproc_fsl_afni_mean_mcflirt_0.func_deoblique" in "/outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_fsl_afni_mean_mcflirt_0/_scan_tgng_run-2/func_deoblique".
201113-09:46:53,760 nipype.workflow INFO:
[Node] Running "func_deoblique" ("nipype.interfaces.afni.utils.Refit"), a CommandLine Interface with command:
3drefit -deoblique /outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_fsl_afni_mean_mcflirt_0/_scan_tgng_run-2/func_deoblique/sub-018_ses-2_task-tgng_run-2_bold_calc_despike_tshift.nii.gz
201113-09:46:54,8 nipype.interface INFO:
stderr 2020-11-13T09:46:54.008274:++ 3drefit: AFNI version=AFNI_20.2.19 (Sep 27 2020) [64-bit]
201113-09:46:54,8 nipype.interface INFO:
stderr 2020-11-13T09:46:54.008639:++ Authored by: RW Cox
201113-09:46:54,17 nipype.interface INFO:
stderr 2020-11-13T09:46:54.017087:++ Processing AFNI dataset /outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_fsl_afni_mean_mcflirt_0/_scan_tgng_run-2/func_deoblique/sub-018_ses-2_task-tgng_run-2_bold_calc_despike_tshift.nii.gz
201113-09:46:54,18 nipype.interface INFO:
stderr 2020-11-13T09:46:54.018008: + deoblique
201113-09:46:54,18 nipype.interface INFO:
stderr 2020-11-13T09:46:54.018287: + loading and re-writing dataset /outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_fsl_afni_mean_mcflirt_0/_scan_tgng_run-2/func_deoblique/sub-018_ses-2_task-tgng_run-2_bold_calc_despike_tshift.nii.gz (/outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_fsl_afni_mean_mcflirt_0/_scan_tgng_run-2/func_deoblique/sub-018_ses-2_task-tgng_run-2_bold_calc_despike_tshift.nii.gz in NIFTI storage)
201113-09:46:56,104 nipype.interface INFO:
stderr 2020-11-13T09:46:56.104390:++ 3drefit processed 1 datasets
201113-09:46:56,318 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-2.func_preproc_fsl_afni_mean_mcflirt_0.func_deoblique".
201113-09:46:56,319 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-2.func_preproc_fsl_afni_mean_mcflirt_0.func_reorient" in "/outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_fsl_afni_mean_mcflirt_0/_scan_tgng_run-2/func_reorient".
201113-09:46:56,326 nipype.workflow INFO:
[Node] Running "func_reorient" ("nipype.interfaces.afni.utils.Resample"), a CommandLine Interface with command:
3dresample -orient RPI -prefix sub-018_ses-2_task-tgng_run-2_bold_calc_despike_tshift_resample.nii.gz -inset /outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_fsl_afni_mean_mcflirt_0/_scan_tgng_run-2/func_reorient/sub-018_ses-2_task-tgng_run-2_bold_calc_despike_tshift.nii.gz
201113-09:46:59,59 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-2.func_preproc_fsl_afni_mean_mcflirt_0.func_reorient".
201113-09:46:59,60 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-2.func_preproc_fsl_afni_mean_mcflirt_0.func_get_mean_RPI" in "/outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_fsl_afni_mean_mcflirt_0/_scan_tgng_run-2/func_get_mean_RPI".
201113-09:46:59,66 nipype.workflow INFO:
[Node] Running "func_get_mean_RPI" ("nipype.interfaces.afni.utils.TStat"), a CommandLine Interface with command:
3dTstat -mean -prefix sub-018_ses-2_task-tgng_run-2_bold_calc_despike_tshift_resample_tstat.nii.gz /outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_fsl_afni_mean_mcflirt_0/_scan_tgng_run-2/func_get_mean_RPI/sub-018_ses-2_task-tgng_run-2_bold_calc_despike_tshift_resample.nii.gz
201113-09:46:59,319 nipype.interface INFO:
stderr 2020-11-13T09:46:59.319264:++ 3dTstat: AFNI version=AFNI_20.2.19 (Sep 27 2020) [64-bit]
201113-09:46:59,319 nipype.interface INFO:
stderr 2020-11-13T09:46:59.319889:++ Authored by: KR Hammett & RW Cox
201113-09:46:59,917 nipype.interface INFO:
stderr 2020-11-13T09:46:59.917318:++ Output dataset ./sub-018_ses-2_task-tgng_run-2_bold_calc_despike_tshift_resample_tstat.nii.gz
201113-09:47:00,107 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-2.func_preproc_fsl_afni_mean_mcflirt_0.func_get_mean_RPI".
201113-09:47:00,108 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-2.func_preproc_fsl_afni_mean_mcflirt_0.func_generate_ref" in "/outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_fsl_afni_mean_mcflirt_0/_scan_tgng_run-2/func_generate_ref".
201113-09:47:00,115 nipype.workflow INFO:
[Node] Running "func_generate_ref" ("nipype.interfaces.afni.preprocess.Volreg"), a CommandLine Interface with command:
3dvolreg -twopass -Fourier -1Dfile sub-018_ses-2_task-tgng_run-2_bold_calc_despike_tshift_resample.1D -1Dmatrix_save sub-018_ses-2_task-tgng_run-2_bold_calc_despike_tshift_resample.aff12.1D -prefix sub-018_ses-2_task-tgng_run-2_bold_calc_despike_tshift_resample_volreg.nii.gz -base /outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_fsl_afni_mean_mcflirt_0/_scan_tgng_run-2/func_get_mean_RPI/sub-018_ses-2_task-tgng_run-2_bold_calc_despike_tshift_resample_tstat.nii.gz -zpad 4 -maxdisp1D sub-018_ses-2_task-tgng_run-2_bold_calc_despike_tshift_resample_md.1D /outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_fsl_afni_mean_mcflirt_0/_scan_tgng_run-2/func_generate_ref/sub-018_ses-2_task-tgng_run-2_bold_calc_despike_tshift_resample.nii.gz
201113-09:47:00,361 nipype.interface INFO:
stderr 2020-11-13T09:47:00.361177:++ 3dvolreg: AFNI version=AFNI_20.2.19 (Sep 27 2020) [64-bit]
201113-09:47:00,361 nipype.interface INFO:
stderr 2020-11-13T09:47:00.361610:++ Authored by: RW Cox
201113-09:47:00,369 nipype.interface INFO:
stderr 2020-11-13T09:47:00.369054:++ Coarse del was 10, replaced with 3
201113-09:48:47,167 nipype.interface INFO:
stderr 2020-11-13T09:48:47.167790:++ Max displacement in automask = 1.49 (mm) at sub-brick 107
201113-09:48:47,168 nipype.interface INFO:
stderr 2020-11-13T09:48:47.168336:++ Max delta displ in automask = 1.38 (mm) at sub-brick 77
201113-09:48:51,890 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-2.func_preproc_fsl_afni_mean_mcflirt_0.func_generate_ref".
201113-09:48:51,892 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-2.func_preproc_fsl_afni_mean_mcflirt_0.func_get_mean_motion" in "/outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_fsl_afni_mean_mcflirt_0/_scan_tgng_run-2/func_get_mean_motion".
201113-09:48:51,898 nipype.workflow INFO:
[Node] Running "func_get_mean_motion" ("nipype.interfaces.afni.utils.TStat"), a CommandLine Interface with command:
3dTstat -mean -prefix sub-018_ses-2_task-tgng_run-2_bold_calc_despike_tshift_resample_volreg_tstat.nii.gz /outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_fsl_afni_mean_mcflirt_0/_scan_tgng_run-2/func_get_mean_motion/sub-018_ses-2_task-tgng_run-2_bold_calc_despike_tshift_resample_volreg.nii.gz
201113-09:48:52,152 nipype.interface INFO:
stderr 2020-11-13T09:48:52.152279:++ 3dTstat: AFNI version=AFNI_20.2.19 (Sep 27 2020) [64-bit]
201113-09:48:52,153 nipype.interface INFO:
stderr 2020-11-13T09:48:52.153092:++ Authored by: KR Hammett & RW Cox
201113-09:48:52,942 nipype.interface INFO:
stderr 2020-11-13T09:48:52.942510:++ Output dataset ./sub-018_ses-2_task-tgng_run-2_bold_calc_despike_tshift_resample_volreg_tstat.nii.gz
201113-09:48:53,140 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-2.func_preproc_fsl_afni_mean_mcflirt_0.func_get_mean_motion".
201113-09:48:53,142 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-2.func_preproc_fsl_afni_mean_mcflirt_0.func_motion_correct_mcflirt" in "/outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_fsl_afni_mean_mcflirt_0/_scan_tgng_run-2/func_motion_correct_mcflirt".
201113-09:48:53,149 nipype.workflow INFO:
[Node] Running "func_motion_correct_mcflirt" ("nipype.interfaces.fsl.preprocess.MCFLIRT"), a CommandLine Interface with command:
mcflirt -in /outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_fsl_afni_mean_mcflirt_0/_scan_tgng_run-2/func_reorient/sub-018_ses-2_task-tgng_run-2_bold_calc_despike_tshift_resample.nii.gz -out /outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_fsl_afni_mean_mcflirt_0/_scan_tgng_run-2/func_motion_correct_mcflirt/sub-018_ses-2_task-tgng_run-2_bold_calc_despike_tshift_resample_mcf.nii.gz -reffile /outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_fsl_afni_mean_mcflirt_0/_scan_tgng_run-2/func_get_mean_motion/sub-018_ses-2_task-tgng_run-2_bold_calc_despike_tshift_resample_volreg_tstat.nii.gz -mats -plots -rmsabs -rmsrel
201113-09:49:14,223 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-2.func_preproc_fsl_afni_mean_mcflirt_0.func_motion_correct_mcflirt".
201113-09:49:14,232 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-2.sinker_0_motion_correct" in "/outputs/tmp/resting_preproc_sub-018_ses-2/_scan_tgng_run-2/sinker_0_motion_correct".
201113-09:49:14,241 nipype.workflow INFO:
[Node] Running "sinker_0_motion_correct" ("CPAC.utils.interfaces.datasink.DataSink")
201113-09:49:14,465 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-2.sinker_0_motion_correct".
201113-09:49:14,467 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-2.func_preproc_fsl_afni_mean_mcflirt_0.func_preproc_fsl_afni_mean_mcflirt_0_skullstrip.func_mean_skull" in "/outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_fsl_afni_mean_mcflirt_0/func_preproc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_tgng_run-2/func_mean_skull".
201113-09:49:14,475 nipype.workflow INFO:
[Node] Running "func_mean_skull" ("nipype.interfaces.afni.utils.TStat"), a CommandLine Interface with command:
3dTstat -mean -prefix sub-018_ses-2_task-tgng_run-2_bold_calc_despike_tshift_resample_mcf_tstat.nii.gz /outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_fsl_afni_mean_mcflirt_0/func_preproc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_tgng_run-2/func_mean_skull/sub-018_ses-2_task-tgng_run-2_bold_calc_despike_tshift_resample_mcf.nii.gz
201113-09:49:14,731 nipype.interface INFO:
stderr 2020-11-13T09:49:14.731122:++ 3dTstat: AFNI version=AFNI_20.2.19 (Sep 27 2020) [64-bit]
201113-09:49:14,731 nipype.interface INFO:
stderr 2020-11-13T09:49:14.731722:++ Authored by: KR Hammett & RW Cox
201113-09:49:15,366 nipype.interface INFO:
stderr 2020-11-13T09:49:15.366050:++ Output dataset ./sub-018_ses-2_task-tgng_run-2_bold_calc_despike_tshift_resample_mcf_tstat.nii.gz
201113-09:49:15,556 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-2.func_preproc_fsl_afni_mean_mcflirt_0.func_preproc_fsl_afni_mean_mcflirt_0_skullstrip.func_mean_skull".
201113-09:49:15,558 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-2.func_preproc_fsl_afni_mean_mcflirt_0.func_preproc_fsl_afni_mean_mcflirt_0_skullstrip.skullstrip_first_pass" in "/outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_fsl_afni_mean_mcflirt_0/func_preproc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_tgng_run-2/skullstrip_first_pass".
201113-09:49:15,563 nipype.workflow INFO:
[Node] Running "skullstrip_first_pass" ("nipype.interfaces.fsl.preprocess.BET"), a CommandLine Interface with command:
bet /outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_fsl_afni_mean_mcflirt_0/func_preproc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_tgng_run-2/func_mean_skull/sub-018_ses-2_task-tgng_run-2_bold_calc_despike_tshift_resample_mcf_tstat.nii.gz /outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_fsl_afni_mean_mcflirt_0/func_preproc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_tgng_run-2/skullstrip_first_pass/sub-018_ses-2_task-tgng_run-2_bold_calc_despike_tshift_resample_mcf_tstat_brain.nii.gz -f 0.20 -m
201113-09:49:17,433 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-2.func_preproc_fsl_afni_mean_mcflirt_0.func_preproc_fsl_afni_mean_mcflirt_0_skullstrip.skullstrip_first_pass".
201113-09:49:17,435 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-2.func_preproc_fsl_afni_mean_mcflirt_0.func_preproc_fsl_afni_mean_mcflirt_0_skullstrip.skullstrip_first_dilate" in "/outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_fsl_afni_mean_mcflirt_0/func_preproc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_tgng_run-2/skullstrip_first_dilate".
201113-09:49:17,441 nipype.workflow INFO:
[Node] Running "skullstrip_first_dilate" ("nipype.interfaces.fsl.maths.DilateImage"), a CommandLine Interface with command:
fslmaths -dt char /outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_fsl_afni_mean_mcflirt_0/func_preproc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_tgng_run-2/skullstrip_first_pass/sub-018_ses-2_task-tgng_run-2_bold_calc_despike_tshift_resample_mcf_tstat_brain_mask.nii.gz -kernel sphere 6.0000 -dilF /outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_fsl_afni_mean_mcflirt_0/func_preproc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_tgng_run-2/skullstrip_first_dilate/sub-018_ses-2_task-tgng_run-2_bold_calc_despike_tshift_resample_mcf_tstat_brain_mask_dil.nii.gz
201113-09:49:18,122 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-2.func_preproc_fsl_afni_mean_mcflirt_0.func_preproc_fsl_afni_mean_mcflirt_0_skullstrip.skullstrip_first_dilate".
201113-09:49:18,124 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-2.func_preproc_fsl_afni_mean_mcflirt_0.func_preproc_fsl_afni_mean_mcflirt_0_skullstrip.skullstrip_first_mask" in "/outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_fsl_afni_mean_mcflirt_0/func_preproc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_tgng_run-2/skullstrip_first_mask".
201113-09:49:18,130 nipype.workflow INFO:
[Node] Running "skullstrip_first_mask" ("nipype.interfaces.fsl.maths.ApplyMask"), a CommandLine Interface with command:
fslmaths /outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_fsl_afni_mean_mcflirt_0/func_preproc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_tgng_run-2/skullstrip_first_pass/sub-018_ses-2_task-tgng_run-2_bold_calc_despike_tshift_resample_mcf_tstat_brain.nii.gz -mas /outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_fsl_afni_mean_mcflirt_0/func_preproc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_tgng_run-2/skullstrip_first_dilate/sub-018_ses-2_task-tgng_run-2_bold_calc_despike_tshift_resample_mcf_tstat_brain_mask_dil.nii.gz /outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_fsl_afni_mean_mcflirt_0/func_preproc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_tgng_run-2/skullstrip_first_mask/sub-018_ses-2_task-tgng_run-2_bold_calc_despike_tshift_resample_mcf_tstat_brain_masked.nii.gz
201113-09:49:18,577 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-2.func_preproc_fsl_afni_mean_mcflirt_0.func_preproc_fsl_afni_mean_mcflirt_0_skullstrip.skullstrip_first_mask".
201113-09:49:18,578 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-2.func_preproc_fsl_afni_mean_mcflirt_0.func_preproc_fsl_afni_mean_mcflirt_0_skullstrip.unifize" in "/outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_fsl_afni_mean_mcflirt_0/func_preproc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_tgng_run-2/unifize".
201113-09:49:18,584 nipype.workflow INFO:
[Node] Running "unifize" ("nipype.interfaces.afni.utils.Unifize"), a CommandLine Interface with command:
3dUnifize -clfrac 0.2 -rbt 18.3 65.0 90.0 -prefix uni.nii.gz -T2 -input /outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_fsl_afni_mean_mcflirt_0/func_preproc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_tgng_run-2/unifize/sub-018_ses-2_task-tgng_run-2_bold_calc_despike_tshift_resample_mcf_tstat_brain_masked.nii.gz
201113-09:49:18,831 nipype.interface INFO:
stderr 2020-11-13T09:49:18.831612:++ 3dUnifize: AFNI version=AFNI_20.2.19 (Sep 27 2020) [64-bit]
201113-09:50:30,998 nipype.interface INFO:
stderr 2020-11-13T09:50:30.998069: + Pre-processing: IAV..UW[s3777]Im
201113-09:50:31,12 nipype.interface INFO:
stderr 2020-11-13T09:50:31.012927:++ Output dataset ./uni.nii.gz
201113-09:50:31,13 nipype.interface INFO:
stderr 2020-11-13T09:50:31.013206:++ ===== Elapsed = 72.2 sec
201113-09:50:31,225 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-2.func_preproc_fsl_afni_mean_mcflirt_0.func_preproc_fsl_afni_mean_mcflirt_0_skullstrip.unifize".
201113-09:50:31,227 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-2.func_preproc_fsl_afni_mean_mcflirt_0.func_preproc_fsl_afni_mean_mcflirt_0_skullstrip.skullstrip_second_pass" in "/outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_fsl_afni_mean_mcflirt_0/func_preproc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_tgng_run-2/skullstrip_second_pass".
201113-09:50:31,233 nipype.workflow INFO:
[Node] Running "skullstrip_second_pass" ("nipype.interfaces.afni.preprocess.Automask"), a CommandLine Interface with command:
3dAutomask -apply_prefix uni_masked.nii.gz -dilate 1 -prefix uni_mask.nii.gz /outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_fsl_afni_mean_mcflirt_0/func_preproc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_tgng_run-2/skullstrip_second_pass/uni.nii.gz
201113-09:50:31,511 nipype.interface INFO:
stderr 2020-11-13T09:50:31.511546:++ 3dAutomask: AFNI version=AFNI_20.2.19 (Sep 27 2020) [64-bit]
201113-09:50:31,511 nipype.interface INFO:
stderr 2020-11-13T09:50:31.511965:++ Authored by: Emperor Zhark
201113-09:50:31,513 nipype.interface INFO:
stderr 2020-11-13T09:50:31.513765:++ Loading dataset /outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_fsl_afni_mean_mcflirt_0/func_preproc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_tgng_run-2/skullstrip_second_pass/uni.nii.gz
201113-09:50:31,518 nipype.interface INFO:
stderr 2020-11-13T09:50:31.518265:++ Forming automask
201113-09:50:31,520 nipype.interface INFO:
stderr 2020-11-13T09:50:31.520127: + Fixed clip level = 424.057648
201113-09:50:31,525 nipype.interface INFO:
stderr 2020-11-13T09:50:31.525123: + Used gradual clip level = 375.768799 .. 519.425598
201113-09:50:31,525 nipype.interface INFO:
stderr 2020-11-13T09:50:31.525344: + Number voxels above clip level = 28962
201113-09:50:31,525 nipype.interface INFO:
stderr 2020-11-13T09:50:31.525520: + Clustering voxels ...
201113-09:50:31,526 nipype.interface INFO:
stderr 2020-11-13T09:50:31.526628: + Largest cluster has 28960 voxels
201113-09:50:31,527 nipype.interface INFO:
stderr 2020-11-13T09:50:31.527946: + Clustering voxels ...
201113-09:50:31,529 nipype.interface INFO:
stderr 2020-11-13T09:50:31.529050: + Largest cluster has 28544 voxels
201113-09:50:31,532 nipype.interface INFO:
stderr 2020-11-13T09:50:31.532426: + Filled 593 voxels in small holes; now have 29137 voxels
201113-09:50:31,535 nipype.interface INFO:
stderr 2020-11-13T09:50:31.535675: + Filled 5 voxels in large holes; now have 29142 voxels
201113-09:50:31,536 nipype.interface INFO:
stderr 2020-11-13T09:50:31.536903: + Clustering voxels ...
201113-09:50:31,538 nipype.interface INFO:
stderr 2020-11-13T09:50:31.537992: + Largest cluster has 29141 voxels
201113-09:50:31,538 nipype.interface INFO:
stderr 2020-11-13T09:50:31.538227: + Clustering non-brain voxels ...
201113-09:50:31,538 nipype.interface INFO:
stderr 2020-11-13T09:50:31.538377: + Clustering voxels ...
201113-09:50:31,541 nipype.interface INFO:
stderr 2020-11-13T09:50:31.541293: + Largest cluster has 110103 voxels
201113-09:50:31,541 nipype.interface INFO:
stderr 2020-11-13T09:50:31.541633: + Mask now has 29161 voxels
201113-09:50:31,541 nipype.interface INFO:
stderr 2020-11-13T09:50:31.541792:++ Dilating automask
201113-09:50:31,549 nipype.interface INFO:
stderr 2020-11-13T09:50:31.549852: + Clustering voxels ...
201113-09:50:31,552 nipype.interface INFO:
stderr 2020-11-13T09:50:31.552289: + Largest cluster has 104324 voxels
201113-09:50:31,552 nipype.interface INFO:
stderr 2020-11-13T09:50:31.552634:++ 34940 voxels in the mask [out of 139264: 25.09%]
201113-09:50:31,552 nipype.interface INFO:
stderr 2020-11-13T09:50:31.552806:++ first 9 x-planes are zero [from R]
201113-09:50:31,552 nipype.interface INFO:
stderr 2020-11-13T09:50:31.552971:++ last 8 x-planes are zero [from L]
201113-09:50:31,553 nipype.interface INFO:
stderr 2020-11-13T09:50:31.553116:++ first 1 y-planes are zero [from P]
201113-09:50:31,553 nipype.interface INFO:
stderr 2020-11-13T09:50:31.553273:++ last 9 y-planes are zero [from A]
201113-09:50:31,553 nipype.interface INFO:
stderr 2020-11-13T09:50:31.553408:++ first 0 z-planes are zero [from I]
201113-09:50:31,553 nipype.interface INFO:
stderr 2020-11-13T09:50:31.553572:++ last 2 z-planes are zero [from S]
201113-09:50:31,557 nipype.interface INFO:
stderr 2020-11-13T09:50:31.557449:++ Output dataset ./uni_mask.nii.gz
201113-09:50:31,557 nipype.interface INFO:
stderr 2020-11-13T09:50:31.557671:++ applying mask to original data
201113-09:50:31,558 nipype.interface INFO:
stderr 2020-11-13T09:50:31.558346:++ Writing masked data
201113-09:50:31,570 nipype.interface INFO:
stderr 2020-11-13T09:50:31.570566:++ Output dataset ./uni_masked.nii.gz
201113-09:50:31,570 nipype.interface INFO:
stderr 2020-11-13T09:50:31.570895:++ CPU time = 0.000000 sec
201113-09:50:31,756 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-2.func_preproc_fsl_afni_mean_mcflirt_0.func_preproc_fsl_afni_mean_mcflirt_0_skullstrip.skullstrip_second_pass".
201113-09:50:31,758 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-2.func_preproc_fsl_afni_mean_mcflirt_0.func_preproc_fsl_afni_mean_mcflirt_0_skullstrip.combine_masks" in "/outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_fsl_afni_mean_mcflirt_0/func_preproc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_tgng_run-2/combine_masks".
201113-09:50:31,764 nipype.workflow INFO:
[Node] Running "combine_masks" ("nipype.interfaces.fsl.maths.BinaryMaths"), a CommandLine Interface with command:
fslmaths /outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_fsl_afni_mean_mcflirt_0/func_preproc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_tgng_run-2/skullstrip_first_pass/sub-018_ses-2_task-tgng_run-2_bold_calc_despike_tshift_resample_mcf_tstat_brain_mask.nii.gz -mul /outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_fsl_afni_mean_mcflirt_0/func_preproc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_tgng_run-2/skullstrip_second_pass/uni_mask.nii.gz /outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_fsl_afni_mean_mcflirt_0/func_preproc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_tgng_run-2/combine_masks/sub-018_ses-2_task-tgng_run-2_bold_calc_despike_tshift_resample_mcf_tstat_brain_mask_maths.nii.gz
201113-09:50:32,208 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-2.func_preproc_fsl_afni_mean_mcflirt_0.func_preproc_fsl_afni_mean_mcflirt_0_skullstrip.combine_masks".
201113-09:50:32,210 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-2.nuisance_regressor_0_0.GlobalSignal_merge_masks" in "/outputs/tmp/resting_preproc_sub-018_ses-2/nuisance_regressor_0_0/_scan_tgng_run-2/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/GlobalSignal_merge_masks".
201113-09:50:32,214 nipype.workflow INFO:
[Node] Running "GlobalSignal_merge_masks" ("nipype.interfaces.utility.base.Merge")
201113-09:50:32,445 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-2.nuisance_regressor_0_0.GlobalSignal_merge_masks".
201113-09:50:32,446 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-2.nuisance_regressor_0_0.GlobalSignal_union_masks" in "/outputs/tmp/resting_preproc_sub-018_ses-2/nuisance_regressor_0_0/_scan_tgng_run-2/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/GlobalSignal_union_masks".
201113-09:50:32,453 nipype.workflow INFO:
[Node] Running "GlobalSignal_union_masks" ("CPAC.utils.interfaces.masktool.MaskTool"), a CommandLine Interface with command:
3dmask_tool -prefix sub-018_ses-2_task-tgng_run-2_bold_calc_despike_tshift_resample_mcf_tstat_brain_mask_maths_mask.nii.gz -input /outputs/tmp/resting_preproc_sub-018_ses-2/nuisance_regressor_0_0/_scan_tgng_run-2/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/GlobalSignal_union_masks/sub-018_ses-2_task-tgng_run-2_bold_calc_despike_tshift_resample_mcf_tstat_brain_mask_maths.nii.gz
201113-09:50:32,711 nipype.interface INFO:
stderr 2020-11-13T09:50:32.711742:++ no -frac option: defaulting to -union
201113-09:50:32,712 nipype.interface INFO:
stderr 2020-11-13T09:50:32.712161:++ processing 1 input dataset(s), NN=2...
201113-09:50:32,712 nipype.interface INFO:
stderr 2020-11-13T09:50:32.712399:++ padding all datasets by 0 (for dilations)
201113-09:50:32,717 nipype.interface INFO:
stderr 2020-11-13T09:50:32.717878:++ frac 0 over 1 volumes gives min count 0
201113-09:50:32,718 nipype.interface INFO:
stderr 2020-11-13T09:50:32.718275:++ voxel limits: 0 clipped, 34893 survived, 104371 were zero
201113-09:50:32,718 nipype.interface INFO:
stderr 2020-11-13T09:50:32.718449:++ writing result sub-018_ses-2_task-tgng_run-2_bold_calc_despike_tshift_resample_mcf_tstat_brain_mask_maths_mask.nii.gz...
201113-09:50:32,722 nipype.interface INFO:
stderr 2020-11-13T09:50:32.722922:++ Output dataset ./sub-018_ses-2_task-tgng_run-2_bold_calc_despike_tshift_resample_mcf_tstat_brain_mask_maths_mask.nii.gz
201113-09:50:32,910 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-2.nuisance_regressor_0_0.GlobalSignal_union_masks".
201113-09:50:32,911 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-2.sinker_0_functional_brain_mask" in "/outputs/tmp/resting_preproc_sub-018_ses-2/_scan_tgng_run-2/sinker_0_functional_brain_mask".
201113-09:50:32,918 nipype.workflow INFO:
[Node] Running "sinker_0_functional_brain_mask" ("CPAC.utils.interfaces.datasink.DataSink")
201113-09:50:33,149 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-2.sinker_0_functional_brain_mask".
201113-09:50:33,151 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-2.functional_brain_mask_derivative_0" in "/outputs/tmp/resting_preproc_sub-018_ses-2/_scan_tgng_run-2/functional_brain_mask_derivative_0".
201113-09:50:33,155 nipype.workflow INFO:
[Node] Running "functional_brain_mask_derivative_0" ("CPAC.utils.interfaces.function.Function")
201113-09:50:33,367 nipype.workflow INFO:
[Node] Setting-up "functional_brain_mask_derivative" in "/outputs/tmp/resting_preproc_sub-018_ses-2/_scan_tgng_run-2/functional_brain_mask_derivative_0/functional_brain_mask_derivative".
201113-09:50:33,373 nipype.workflow INFO:
[Node] Running "functional_brain_mask_derivative" ("nipype.interfaces.afni.utils.Resample"), a CommandLine Interface with command:
3dresample -prefix sub-018_ses-2_task-tgng_run-2_bold_calc_despike_tshift_resample_mcf_tstat_brain_mask_maths_resample.nii.gz -rmode Cu -dxyz 2.000000 2.000000 2.000000 -inset /outputs/tmp/resting_preproc_sub-018_ses-2/_scan_tgng_run-2/functional_brain_mask_derivative_0/functional_brain_mask_derivative/sub-018_ses-2_task-tgng_run-2_bold_calc_despike_tshift_resample_mcf_tstat_brain_mask_maths.nii.gz
201113-09:50:33,906 nipype.workflow INFO:
[Node] Finished "functional_brain_mask_derivative".
201113-09:50:33,923 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-2.functional_brain_mask_derivative_0".
201113-09:50:33,924 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-2.func_preproc_fsl_afni_mean_mcflirt_0.func_preproc_fsl_afni_mean_mcflirt_0_skullstrip.func_extract_brain" in "/outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_fsl_afni_mean_mcflirt_0/func_preproc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_tgng_run-2/func_extract_brain".
201113-09:50:33,933 nipype.workflow INFO:
[Node] Running "func_extract_brain" ("nipype.interfaces.afni.utils.Calc"), a CommandLine Interface with command:
3dcalc -a /outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_fsl_afni_mean_mcflirt_0/_scan_tgng_run-2/func_motion_correct_mcflirt/sub-018_ses-2_task-tgng_run-2_bold_calc_despike_tshift_resample_mcf.nii.gz -b /outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_fsl_afni_mean_mcflirt_0/func_preproc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_tgng_run-2/combine_masks/sub-018_ses-2_task-tgng_run-2_bold_calc_despike_tshift_resample_mcf_tstat_brain_mask_maths.nii.gz -expr "a*b" -prefix sub-018_ses-2_task-tgng_run-2_bold_calc_despike_tshift_resample_mcf_calc.nii.gz
201113-09:50:34,180 nipype.interface INFO:
stderr 2020-11-13T09:50:34.179964:++ 3dcalc: AFNI version=AFNI_20.2.19 (Sep 27 2020) [64-bit]
201113-09:50:34,180 nipype.interface INFO:
stderr 2020-11-13T09:50:34.180296:++ Authored by: A cast of thousands
201113-09:50:37,249 nipype.interface INFO:
stderr 2020-11-13T09:50:37.249346:++ Output dataset ./sub-018_ses-2_task-tgng_run-2_bold_calc_despike_tshift_resample_mcf_calc.nii.gz
201113-09:50:37,469 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-2.func_preproc_fsl_afni_mean_mcflirt_0.func_preproc_fsl_afni_mean_mcflirt_0_skullstrip.func_extract_brain".
201113-09:50:37,470 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-2.func_preproc_fsl_afni_mean_mcflirt_0.func_normalize" in "/outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_fsl_afni_mean_mcflirt_0/_scan_tgng_run-2/func_normalize".
201113-09:50:37,475 nipype.workflow INFO:
[Node] Running "func_normalize" ("nipype.interfaces.fsl.utils.ImageMaths"), a CommandLine Interface with command:
fslmaths /outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_fsl_afni_mean_mcflirt_0/func_preproc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_tgng_run-2/func_extract_brain/sub-018_ses-2_task-tgng_run-2_bold_calc_despike_tshift_resample_mcf_calc.nii.gz -ing 10000 /outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_fsl_afni_mean_mcflirt_0/_scan_tgng_run-2/func_normalize/sub-018_ses-2_task-tgng_run-2_bold_calc_despike_tshift_resample_mcf_calc_maths.nii.gz -odt float
201113-09:50:39,697 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-2.func_preproc_fsl_afni_mean_mcflirt_0.func_normalize".
201113-09:50:39,698 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-2.nuisance_regressor_0_0.GlobalSignal_mean" in "/outputs/tmp/resting_preproc_sub-018_ses-2/nuisance_regressor_0_0/_scan_tgng_run-2/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/GlobalSignal_mean".
201113-09:50:39,705 nipype.workflow INFO:
[Node] Running "GlobalSignal_mean" ("nipype.interfaces.afni.preprocess.ROIStats"), a CommandLine Interface with command:
3dROIstats -mask /outputs/tmp/resting_preproc_sub-018_ses-2/nuisance_regressor_0_0/_scan_tgng_run-2/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/GlobalSignal_union_masks/sub-018_ses-2_task-tgng_run-2_bold_calc_despike_tshift_resample_mcf_tstat_brain_mask_maths_mask.nii.gz -1Dformat /outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_fsl_afni_mean_mcflirt_0/_scan_tgng_run-2/func_normalize/sub-018_ses-2_task-tgng_run-2_bold_calc_despike_tshift_resample_mcf_calc_maths.nii.gz
201113-09:50:40,610 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-2.nuisance_regressor_0_0.GlobalSignal_mean".
201113-09:50:40,611 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-2.nuisance_regressor_0_0.functional_mean" in "/outputs/tmp/resting_preproc_sub-018_ses-2/nuisance_regressor_0_0/_scan_tgng_run-2/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/functional_mean".
201113-09:50:40,616 nipype.workflow INFO:
[Node] Running "functional_mean" ("nipype.interfaces.afni.utils.TStat"), a CommandLine Interface with command:
3dTstat -mean -prefix sub-018_ses-2_task-tgng_run-2_bold_calc_despike_tshift_resample_mcf_calc_maths_tstat.nii.gz /outputs/tmp/resting_preproc_sub-018_ses-2/nuisance_regressor_0_0/_scan_tgng_run-2/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/functional_mean/sub-018_ses-2_task-tgng_run-2_bold_calc_despike_tshift_resample_mcf_calc_maths.nii.gz
201113-09:50:40,870 nipype.interface INFO:
stderr 2020-11-13T09:50:40.870273:++ 3dTstat: AFNI version=AFNI_20.2.19 (Sep 27 2020) [64-bit]
201113-09:50:40,870 nipype.interface INFO:
stderr 2020-11-13T09:50:40.870736:++ Authored by: KR Hammett & RW Cox
201113-09:50:41,440 nipype.interface INFO:
stderr 2020-11-13T09:50:41.440698:++ Output dataset ./sub-018_ses-2_task-tgng_run-2_bold_calc_despike_tshift_resample_mcf_calc_maths_tstat.nii.gz
201113-09:50:41,633 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-2.nuisance_regressor_0_0.functional_mean".
201113-09:50:41,634 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-2.qc_snr_0.std_dev" in "/outputs/tmp/resting_preproc_sub-018_ses-2/qc_snr_0/_scan_tgng_run-2/std_dev".
201113-09:50:41,641 nipype.workflow INFO:
[Node] Running "std_dev" ("nipype.interfaces.afni.utils.TStat"), a CommandLine Interface with command:
3dTstat -stdev -mask /outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_fsl_afni_mean_mcflirt_0/func_preproc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_tgng_run-2/combine_masks/sub-018_ses-2_task-tgng_run-2_bold_calc_despike_tshift_resample_mcf_tstat_brain_mask_maths.nii.gz -prefix sub-018_ses-2_task-tgng_run-2_bold_calc_despike_tshift_resample_mcf_calc_maths_tstat.nii.gz /outputs/tmp/resting_preproc_sub-018_ses-2/qc_snr_0/_scan_tgng_run-2/std_dev/sub-018_ses-2_task-tgng_run-2_bold_calc_despike_tshift_resample_mcf_calc_maths.nii.gz
201113-09:50:41,882 nipype.interface INFO:
stderr 2020-11-13T09:50:41.882169:++ 3dTstat: AFNI version=AFNI_20.2.19 (Sep 27 2020) [64-bit]
201113-09:50:41,882 nipype.interface INFO:
stderr 2020-11-13T09:50:41.882598:++ Authored by: KR Hammett & RW Cox
201113-09:50:42,396 nipype.interface INFO:
stderr 2020-11-13T09:50:42.396408:++ Output dataset ./sub-018_ses-2_task-tgng_run-2_bold_calc_despike_tshift_resample_mcf_calc_maths_tstat.nii.gz
201113-09:50:42,614 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-2.qc_snr_0.std_dev".
201113-09:50:42,615 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-2.sinker_0_functional_preprocessed" in "/outputs/tmp/resting_preproc_sub-018_ses-2/_scan_tgng_run-2/sinker_0_functional_preprocessed".
201113-09:50:42,623 nipype.workflow INFO:
[Node] Running "sinker_0_functional_preprocessed" ("CPAC.utils.interfaces.datasink.DataSink")
201113-09:50:42,854 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-2.sinker_0_functional_preprocessed".
201113-09:50:42,856 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-2.func_preproc_fsl_afni_mean_mcflirt_0.func_mask_normalize" in "/outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_fsl_afni_mean_mcflirt_0/_scan_tgng_run-2/func_mask_normalize".
201113-09:50:42,861 nipype.workflow INFO:
[Node] Running "func_mask_normalize" ("nipype.interfaces.fsl.utils.ImageMaths"), a CommandLine Interface with command:
fslmaths /outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_fsl_afni_mean_mcflirt_0/_scan_tgng_run-2/func_normalize/sub-018_ses-2_task-tgng_run-2_bold_calc_despike_tshift_resample_mcf_calc_maths.nii.gz -Tmin -bin /outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_fsl_afni_mean_mcflirt_0/_scan_tgng_run-2/func_mask_normalize/sub-018_ses-2_task-tgng_run-2_bold_calc_despike_tshift_resample_mcf_calc_maths_maths.nii.gz -odt char
201113-09:50:43,948 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-2.func_preproc_fsl_afni_mean_mcflirt_0.func_mask_normalize".
201113-09:50:43,950 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-2.sinker_0_functional_preprocessed_mask" in "/outputs/tmp/resting_preproc_sub-018_ses-2/_scan_tgng_run-2/sinker_0_functional_preprocessed_mask".
201113-09:50:43,957 nipype.workflow INFO:
[Node] Running "sinker_0_functional_preprocessed_mask" ("CPAC.utils.interfaces.datasink.DataSink")
201113-09:50:44,186 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-2.sinker_0_functional_preprocessed_mask".
201113-09:50:44,188 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-2.func_preproc_fsl_afni_mean_mcflirt_0.func_mean" in "/outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_fsl_afni_mean_mcflirt_0/_scan_tgng_run-2/func_mean".
201113-09:50:44,193 nipype.workflow INFO:
[Node] Running "func_mean" ("nipype.interfaces.afni.utils.TStat"), a CommandLine Interface with command:
3dTstat -mean -prefix sub-018_ses-2_task-tgng_run-2_bold_calc_despike_tshift_resample_mcf_calc_tstat.nii.gz /outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_fsl_afni_mean_mcflirt_0/_scan_tgng_run-2/func_mean/sub-018_ses-2_task-tgng_run-2_bold_calc_despike_tshift_resample_mcf_calc.nii.gz
201113-09:50:44,452 nipype.interface INFO:
stderr 2020-11-13T09:50:44.451891:++ 3dTstat: AFNI version=AFNI_20.2.19 (Sep 27 2020) [64-bit]
201113-09:50:44,452 nipype.interface INFO:
stderr 2020-11-13T09:50:44.452407:++ Authored by: KR Hammett & RW Cox
201113-09:50:45,8 nipype.interface INFO:
stderr 2020-11-13T09:50:45.008404:++ Output dataset ./sub-018_ses-2_task-tgng_run-2_bold_calc_despike_tshift_resample_mcf_calc_tstat.nii.gz
201113-09:50:45,202 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-2.func_preproc_fsl_afni_mean_mcflirt_0.func_mean".
201113-09:50:45,203 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-2.sinker_0_mean_functional" in "/outputs/tmp/resting_preproc_sub-018_ses-2/_scan_tgng_run-2/sinker_0_mean_functional".
201113-09:50:45,211 nipype.workflow INFO:
[Node] Running "sinker_0_mean_functional" ("CPAC.utils.interfaces.datasink.DataSink")
201113-09:50:45,441 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-2.sinker_0_mean_functional".
201113-09:50:45,442 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-2.func_preproc_fsl_afni_mean_mcflirt_0.norm_motion_params" in "/outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_fsl_afni_mean_mcflirt_0/_scan_tgng_run-2/norm_motion_params".
201113-09:50:45,448 nipype.workflow INFO:
[Node] Running "norm_motion_params" ("CPAC.utils.interfaces.function.Function")
201113-09:50:45,678 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-2.func_preproc_fsl_afni_mean_mcflirt_0.norm_motion_params".
201113-09:50:45,679 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-2.sinker_0_slice_time_corrected" in "/outputs/tmp/resting_preproc_sub-018_ses-2/_scan_tgng_run-2/sinker_0_slice_time_corrected".
201113-09:50:45,687 nipype.workflow INFO:
[Node] Running "sinker_0_slice_time_corrected" ("CPAC.utils.interfaces.datasink.DataSink")
201113-09:50:45,917 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-2.sinker_0_slice_time_corrected".
201113-09:50:45,919 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-2.sinker_0_raw_functional" in "/outputs/tmp/resting_preproc_sub-018_ses-2/_scan_tgng_run-2/sinker_0_raw_functional".
201113-09:50:45,927 nipype.workflow INFO:
[Node] Running "sinker_0_raw_functional" ("CPAC.utils.interfaces.datasink.DataSink")
201113-09:50:46,279 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-2.sinker_0_raw_functional".
201113-09:50:46,281 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-2.func_gather_0.check_func_scan" in "/outputs/tmp/resting_preproc_sub-018_ses-2/func_gather_0/_scan_tgng_run-2/check_func_scan".
201113-09:50:46,315 nipype.workflow INFO:
[Node] Running "check_func_scan" ("CPAC.utils.interfaces.function.Function")
201113-09:50:46,546 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-2.func_gather_0.check_func_scan".
201113-09:50:46,556 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-2.func_gather_0.select_scan_params" in "/outputs/tmp/resting_preproc_sub-018_ses-2/func_gather_0/_scan_tgng_run-1/select_scan_params".
201113-09:50:46,583 nipype.workflow INFO:
[Node] Running "select_scan_params" ("CPAC.utils.interfaces.function.Function")
201113-09:50:46,819 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-2.func_gather_0.select_scan_params".
201113-09:50:46,831 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-2.func_gather_0.s3_scan_params" in "/outputs/tmp/resting_preproc_sub-018_ses-2/func_gather_0/_scan_tgng_run-1/s3_scan_params".
201113-09:50:46,838 nipype.workflow INFO:
[Node] Running "s3_scan_params" ("CPAC.utils.interfaces.function.Function")
201113-09:50:47,69 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-2.func_gather_0.s3_scan_params".
201113-09:50:47,72 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-2.scan_params_0" in "/outputs/tmp/resting_preproc_sub-018_ses-2/_scan_tgng_run-1/scan_params_0".
201113-09:50:47,81 nipype.workflow INFO:
[Node] Running "scan_params_0" ("CPAC.utils.interfaces.function.Function")
201113-09:50:47,308 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-2.scan_params_0".
201113-09:50:47,310 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-2.func_gather_0.selectrest" in "/outputs/tmp/resting_preproc_sub-018_ses-2/func_gather_0/_scan_tgng_run-1/selectrest".
201113-09:50:47,340 nipype.workflow INFO:
[Node] Running "selectrest" ("CPAC.utils.interfaces.function.Function")
201113-09:50:47,571 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-2.func_gather_0.selectrest".
201113-09:50:47,582 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-2.func_gather_0.check_for_s3" in "/outputs/tmp/resting_preproc_sub-018_ses-2/func_gather_0/_scan_tgng_run-1/check_for_s3".
201113-09:50:47,587 nipype.workflow INFO:
[Node] Running "check_for_s3" ("CPAC.utils.interfaces.function.Function")
201113-09:50:47,888 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-2.func_gather_0.check_for_s3".
201113-09:50:47,889 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-2.edit_func_0.func_get_idx" in "/outputs/tmp/resting_preproc_sub-018_ses-2/edit_func_0/_scan_tgng_run-1/func_get_idx".
201113-09:50:47,896 nipype.workflow INFO:
[Node] Running "func_get_idx" ("nipype.interfaces.utility.wrappers.Function")
201113-09:50:48,137 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-2.edit_func_0.func_get_idx".
201113-09:50:48,138 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-2.edit_func_0.func_drop_trs" in "/outputs/tmp/resting_preproc_sub-018_ses-2/edit_func_0/_scan_tgng_run-1/func_drop_trs".
201113-09:50:48,145 nipype.workflow INFO:
[Node] Running "func_drop_trs" ("nipype.interfaces.afni.utils.Calc"), a CommandLine Interface with command:
3dcalc -a /bids_dataset/sub-018/ses-2/func/sub-018_ses-2_task-tgng_run-1_bold.nii.gz[0..129] -expr "a" -prefix sub-018_ses-2_task-tgng_run-1_bold_calc.nii.gz
201113-09:50:48,398 nipype.interface INFO:
stderr 2020-11-13T09:50:48.398342:++ 3dcalc: AFNI version=AFNI_20.2.19 (Sep 27 2020) [64-bit]
201113-09:50:48,398 nipype.interface INFO:
stderr 2020-11-13T09:50:48.398961:++ Authored by: A cast of thousands
201113-09:50:54,51 nipype.interface INFO:
stderr 2020-11-13T09:50:54.051447:++ Output dataset ./sub-018_ses-2_task-tgng_run-1_bold_calc.nii.gz
201113-09:50:54,273 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-2.edit_func_0.func_drop_trs".
201113-09:50:54,274 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-2.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_deoblique" in "/outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/_scan_tgng_run-1/func_deoblique".
201113-09:50:54,318 nipype.workflow INFO:
[Node] Running "func_deoblique" ("nipype.interfaces.afni.utils.Refit"), a CommandLine Interface with command:
3drefit -deoblique /outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/_scan_tgng_run-1/func_deoblique/sub-018_ses-2_task-tgng_run-1_bold_calc.nii.gz
201113-09:50:54,569 nipype.interface INFO:
stderr 2020-11-13T09:50:54.568990:++ 3drefit: AFNI version=AFNI_20.2.19 (Sep 27 2020) [64-bit]
201113-09:50:54,569 nipype.interface INFO:
stderr 2020-11-13T09:50:54.569345:++ Authored by: RW Cox
201113-09:50:54,582 nipype.interface INFO:
stderr 2020-11-13T09:50:54.582207:++ Processing AFNI dataset /outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/_scan_tgng_run-1/func_deoblique/sub-018_ses-2_task-tgng_run-1_bold_calc.nii.gz
201113-09:50:54,583 nipype.interface INFO:
stderr 2020-11-13T09:50:54.583357: + deoblique
201113-09:50:54,583 nipype.interface INFO:
stderr 2020-11-13T09:50:54.583667: + loading and re-writing dataset /outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/_scan_tgng_run-1/func_deoblique/sub-018_ses-2_task-tgng_run-1_bold_calc.nii.gz (/outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/_scan_tgng_run-1/func_deoblique/sub-018_ses-2_task-tgng_run-1_bold_calc.nii.gz in NIFTI storage)
201113-09:50:58,423 nipype.interface INFO:
stderr 2020-11-13T09:50:58.423621:++ 3drefit processed 1 datasets
201113-09:50:58,644 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-2.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_deoblique".
201113-09:50:58,646 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-2.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_reorient" in "/outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/_scan_tgng_run-1/func_reorient".
201113-09:50:58,651 nipype.workflow INFO:
[Node] Running "func_reorient" ("nipype.interfaces.afni.utils.Resample"), a CommandLine Interface with command:
3dresample -orient RPI -prefix sub-018_ses-2_task-tgng_run-1_bold_calc_resample.nii.gz -inset /outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/_scan_tgng_run-1/func_reorient/sub-018_ses-2_task-tgng_run-1_bold_calc.nii.gz
201113-09:51:03,202 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-2.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_reorient".
201113-09:51:03,204 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-2.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_get_mean_RPI" in "/outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/_scan_tgng_run-1/func_get_mean_RPI".
201113-09:51:03,209 nipype.workflow INFO:
[Node] Running "func_get_mean_RPI" ("nipype.interfaces.afni.utils.TStat"), a CommandLine Interface with command:
3dTstat -mean -prefix sub-018_ses-2_task-tgng_run-1_bold_calc_resample_tstat.nii.gz /outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/_scan_tgng_run-1/func_get_mean_RPI/sub-018_ses-2_task-tgng_run-1_bold_calc_resample.nii.gz
201113-09:51:03,461 nipype.interface INFO:
stderr 2020-11-13T09:51:03.461273:++ 3dTstat: AFNI version=AFNI_20.2.19 (Sep 27 2020) [64-bit]
201113-09:51:03,461 nipype.interface INFO:
stderr 2020-11-13T09:51:03.461818:++ Authored by: KR Hammett & RW Cox
201113-09:51:03,924 nipype.interface INFO:
stderr 2020-11-13T09:51:03.924840:++ Output dataset ./sub-018_ses-2_task-tgng_run-1_bold_calc_resample_tstat.nii.gz
201113-09:51:04,112 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-2.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_get_mean_RPI".
201113-09:51:04,113 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-2.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_generate_ref" in "/outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/_scan_tgng_run-1/func_generate_ref".
201113-09:51:04,122 nipype.workflow INFO:
[Node] Running "func_generate_ref" ("nipype.interfaces.afni.preprocess.Volreg"), a CommandLine Interface with command:
3dvolreg -twopass -Fourier -1Dfile sub-018_ses-2_task-tgng_run-1_bold_calc_resample.1D -1Dmatrix_save sub-018_ses-2_task-tgng_run-1_bold_calc_resample.aff12.1D -prefix sub-018_ses-2_task-tgng_run-1_bold_calc_resample_volreg.nii.gz -base /outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/_scan_tgng_run-1/func_get_mean_RPI/sub-018_ses-2_task-tgng_run-1_bold_calc_resample_tstat.nii.gz -zpad 4 -maxdisp1D sub-018_ses-2_task-tgng_run-1_bold_calc_resample_md.1D /outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/_scan_tgng_run-1/func_generate_ref/sub-018_ses-2_task-tgng_run-1_bold_calc_resample.nii.gz
201113-09:51:04,377 nipype.interface INFO:
stderr 2020-11-13T09:51:04.377775:++ 3dvolreg: AFNI version=AFNI_20.2.19 (Sep 27 2020) [64-bit]
201113-09:51:04,378 nipype.interface INFO:
stderr 2020-11-13T09:51:04.378094:++ Authored by: RW Cox
201113-09:51:04,390 nipype.interface INFO:
stderr 2020-11-13T09:51:04.390031:++ Coarse del was 10, replaced with 3
201113-09:52:51,247 nipype.interface INFO:
stderr 2020-11-13T09:52:51.247800:++ Max displacement in automask = 1.22 (mm) at sub-brick 101
201113-09:52:51,248 nipype.interface INFO:
stderr 2020-11-13T09:52:51.248261:++ Max delta displ in automask = 0.81 (mm) at sub-brick 2
201113-09:52:55,60 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-2.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_generate_ref".
201113-09:52:55,62 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-2.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_get_mean_motion" in "/outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/_scan_tgng_run-1/func_get_mean_motion".
201113-09:52:55,70 nipype.workflow INFO:
[Node] Running "func_get_mean_motion" ("nipype.interfaces.afni.utils.TStat"), a CommandLine Interface with command:
3dTstat -mean -prefix sub-018_ses-2_task-tgng_run-1_bold_calc_resample_volreg_tstat.nii.gz /outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/_scan_tgng_run-1/func_get_mean_motion/sub-018_ses-2_task-tgng_run-1_bold_calc_resample_volreg.nii.gz
201113-09:52:55,324 nipype.interface INFO:
stderr 2020-11-13T09:52:55.324028:++ 3dTstat: AFNI version=AFNI_20.2.19 (Sep 27 2020) [64-bit]
201113-09:52:55,324 nipype.interface INFO:
stderr 2020-11-13T09:52:55.324841:++ Authored by: KR Hammett & RW Cox
201113-09:52:55,794 nipype.interface INFO:
stderr 2020-11-13T09:52:55.794317:++ Output dataset ./sub-018_ses-2_task-tgng_run-1_bold_calc_resample_volreg_tstat.nii.gz
201113-09:52:55,983 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-2.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_get_mean_motion".
201113-09:52:55,984 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-2.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_motion_correct_mcflirt" in "/outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/_scan_tgng_run-1/func_motion_correct_mcflirt".
201113-09:52:55,991 nipype.workflow INFO:
[Node] Running "func_motion_correct_mcflirt" ("nipype.interfaces.fsl.preprocess.MCFLIRT"), a CommandLine Interface with command:
mcflirt -in /outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/_scan_tgng_run-1/func_reorient/sub-018_ses-2_task-tgng_run-1_bold_calc_resample.nii.gz -out /outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/_scan_tgng_run-1/func_motion_correct_mcflirt/sub-018_ses-2_task-tgng_run-1_bold_calc_resample_mcf.nii.gz -reffile /outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/_scan_tgng_run-1/func_get_mean_motion/sub-018_ses-2_task-tgng_run-1_bold_calc_resample_volreg_tstat.nii.gz -mats -plots -rmsabs -rmsrel
201113-09:53:19,344 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-2.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_motion_correct_mcflirt".
201113-09:53:19,353 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-2.gen_motion_stats_before_stc_fsl_afni_mean_mcflirt_0.calculate_FDJ" in "/outputs/tmp/resting_preproc_sub-018_ses-2/gen_motion_stats_before_stc_fsl_afni_mean_mcflirt_0/_scan_tgng_run-1/calculate_FDJ".
201113-09:53:19,358 nipype.workflow INFO:
[Node] Running "calculate_FDJ" ("CPAC.utils.interfaces.function.Function")
201113-09:53:19,584 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-2.gen_motion_stats_before_stc_fsl_afni_mean_mcflirt_0.calculate_FDJ".
201113-09:53:19,586 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-2.sinker_0_frame_wise_displacement_jenkinson" in "/outputs/tmp/resting_preproc_sub-018_ses-2/_scan_tgng_run-1/sinker_0_frame_wise_displacement_jenkinson".
201113-09:53:19,592 nipype.workflow INFO:
[Node] Running "sinker_0_frame_wise_displacement_jenkinson" ("CPAC.utils.interfaces.datasink.DataSink")
201113-09:53:19,822 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-2.sinker_0_frame_wise_displacement_jenkinson".
201113-09:53:19,824 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-2.sinker_0_max_displacement" in "/outputs/tmp/resting_preproc_sub-018_ses-2/_scan_tgng_run-1/sinker_0_max_displacement".
201113-09:53:19,833 nipype.workflow INFO:
[Node] Running "sinker_0_max_displacement" ("CPAC.utils.interfaces.datasink.DataSink")
201113-09:53:20,63 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-2.sinker_0_max_displacement".
201113-09:53:20,65 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-2.sinker_0_coordinate_transformation" in "/outputs/tmp/resting_preproc_sub-018_ses-2/_scan_tgng_run-1/sinker_0_coordinate_transformation".
201113-09:53:20,83 nipype.workflow INFO:
[Node] Running "sinker_0_coordinate_transformation" ("CPAC.utils.interfaces.datasink.DataSink")
201113-09:53:20,350 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-2.sinker_0_coordinate_transformation".
201113-09:53:20,360 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-2.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip.func_mean_skull" in "/outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_tgng_run-1/func_mean_skull".
201113-09:53:20,367 nipype.workflow INFO:
[Node] Running "func_mean_skull" ("nipype.interfaces.afni.utils.TStat"), a CommandLine Interface with command:
3dTstat -mean -prefix sub-018_ses-2_task-tgng_run-1_bold_calc_resample_mcf_tstat.nii.gz /outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_tgng_run-1/func_mean_skull/sub-018_ses-2_task-tgng_run-1_bold_calc_resample_mcf.nii.gz
201113-09:53:20,622 nipype.interface INFO:
stderr 2020-11-13T09:53:20.622832:++ 3dTstat: AFNI version=AFNI_20.2.19 (Sep 27 2020) [64-bit]
201113-09:53:20,623 nipype.interface INFO:
stderr 2020-11-13T09:53:20.623301:++ Authored by: KR Hammett & RW Cox
201113-09:53:21,130 nipype.interface INFO:
stderr 2020-11-13T09:53:21.130901:++ Output dataset ./sub-018_ses-2_task-tgng_run-1_bold_calc_resample_mcf_tstat.nii.gz
201113-09:53:21,321 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-2.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip.func_mean_skull".
201113-09:53:21,322 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-2.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip.skullstrip_first_pass" in "/outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_tgng_run-1/skullstrip_first_pass".
201113-09:53:21,328 nipype.workflow INFO:
[Node] Running "skullstrip_first_pass" ("nipype.interfaces.fsl.preprocess.BET"), a CommandLine Interface with command:
bet /outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_tgng_run-1/func_mean_skull/sub-018_ses-2_task-tgng_run-1_bold_calc_resample_mcf_tstat.nii.gz /outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_tgng_run-1/skullstrip_first_pass/sub-018_ses-2_task-tgng_run-1_bold_calc_resample_mcf_tstat_brain.nii.gz -f 0.20 -m
201113-09:53:23,164 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-2.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip.skullstrip_first_pass".
201113-09:53:23,166 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-2.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip.skullstrip_first_dilate" in "/outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_tgng_run-1/skullstrip_first_dilate".
201113-09:53:23,171 nipype.workflow INFO:
[Node] Running "skullstrip_first_dilate" ("nipype.interfaces.fsl.maths.DilateImage"), a CommandLine Interface with command:
fslmaths -dt char /outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_tgng_run-1/skullstrip_first_pass/sub-018_ses-2_task-tgng_run-1_bold_calc_resample_mcf_tstat_brain_mask.nii.gz -kernel sphere 6.0000 -dilF /outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_tgng_run-1/skullstrip_first_dilate/sub-018_ses-2_task-tgng_run-1_bold_calc_resample_mcf_tstat_brain_mask_dil.nii.gz
201113-09:53:23,883 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-2.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip.skullstrip_first_dilate".
201113-09:53:23,884 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-2.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip.skullstrip_first_mask" in "/outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_tgng_run-1/skullstrip_first_mask".
201113-09:53:23,891 nipype.workflow INFO:
[Node] Running "skullstrip_first_mask" ("nipype.interfaces.fsl.maths.ApplyMask"), a CommandLine Interface with command:
fslmaths /outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_tgng_run-1/skullstrip_first_pass/sub-018_ses-2_task-tgng_run-1_bold_calc_resample_mcf_tstat_brain.nii.gz -mas /outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_tgng_run-1/skullstrip_first_dilate/sub-018_ses-2_task-tgng_run-1_bold_calc_resample_mcf_tstat_brain_mask_dil.nii.gz /outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_tgng_run-1/skullstrip_first_mask/sub-018_ses-2_task-tgng_run-1_bold_calc_resample_mcf_tstat_brain_masked.nii.gz
201113-09:53:24,336 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-2.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip.skullstrip_first_mask".
201113-09:53:24,338 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-2.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip.unifize" in "/outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_tgng_run-1/unifize".
201113-09:53:24,344 nipype.workflow INFO:
[Node] Running "unifize" ("nipype.interfaces.afni.utils.Unifize"), a CommandLine Interface with command:
3dUnifize -clfrac 0.2 -rbt 18.3 65.0 90.0 -prefix uni.nii.gz -T2 -input /outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_tgng_run-1/unifize/sub-018_ses-2_task-tgng_run-1_bold_calc_resample_mcf_tstat_brain_masked.nii.gz
201113-09:53:24,590 nipype.interface INFO:
stderr 2020-11-13T09:53:24.590293:++ 3dUnifize: AFNI version=AFNI_20.2.19 (Sep 27 2020) [64-bit]
201113-09:54:36,578 nipype.interface INFO:
stderr 2020-11-13T09:54:36.578031: + Pre-processing: IAV..UW[s3787]Im
201113-09:54:36,592 nipype.interface INFO:
stderr 2020-11-13T09:54:36.592910:++ Output dataset ./uni.nii.gz
201113-09:54:36,593 nipype.interface INFO:
stderr 2020-11-13T09:54:36.593191:++ ===== Elapsed = 72.0 sec
201113-09:54:36,807 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-2.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip.unifize".
201113-09:54:36,809 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-2.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip.skullstrip_second_pass" in "/outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_tgng_run-1/skullstrip_second_pass".
201113-09:54:36,816 nipype.workflow INFO:
[Node] Running "skullstrip_second_pass" ("nipype.interfaces.afni.preprocess.Automask"), a CommandLine Interface with command:
3dAutomask -apply_prefix uni_masked.nii.gz -dilate 1 -prefix uni_mask.nii.gz /outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_tgng_run-1/skullstrip_second_pass/uni.nii.gz
201113-09:54:37,67 nipype.interface INFO:
stderr 2020-11-13T09:54:37.067792:++ 3dAutomask: AFNI version=AFNI_20.2.19 (Sep 27 2020) [64-bit]
201113-09:54:37,68 nipype.interface INFO:
stderr 2020-11-13T09:54:37.068260:++ Authored by: Emperor Zhark
201113-09:54:37,70 nipype.interface INFO:
stderr 2020-11-13T09:54:37.070646:++ Loading dataset /outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_tgng_run-1/skullstrip_second_pass/uni.nii.gz
201113-09:54:37,75 nipype.interface INFO:
stderr 2020-11-13T09:54:37.075850:++ Forming automask
201113-09:54:37,77 nipype.interface INFO:
stderr 2020-11-13T09:54:37.077215: + Fixed clip level = 421.835480
201113-09:54:37,80 nipype.interface INFO:
stderr 2020-11-13T09:54:37.080731: + Used gradual clip level = 375.079712 .. 515.676636
201113-09:54:37,80 nipype.interface INFO:
stderr 2020-11-13T09:54:37.080937: + Number voxels above clip level = 28931
201113-09:54:37,81 nipype.interface INFO:
stderr 2020-11-13T09:54:37.081088: + Clustering voxels ...
201113-09:54:37,82 nipype.interface INFO:
stderr 2020-11-13T09:54:37.082167: + Largest cluster has 28923 voxels
201113-09:54:37,83 nipype.interface INFO:
stderr 2020-11-13T09:54:37.083470: + Clustering voxels ...
201113-09:54:37,84 nipype.interface INFO:
stderr 2020-11-13T09:54:37.084556: + Largest cluster has 28474 voxels
201113-09:54:37,87 nipype.interface INFO:
stderr 2020-11-13T09:54:37.087913: + Filled 618 voxels in small holes; now have 29092 voxels
201113-09:54:37,90 nipype.interface INFO:
stderr 2020-11-13T09:54:37.090121: + Filled 2 voxels in large holes; now have 29094 voxels
201113-09:54:37,91 nipype.interface INFO:
stderr 2020-11-13T09:54:37.091334: + Clustering voxels ...
201113-09:54:37,92 nipype.interface INFO:
stderr 2020-11-13T09:54:37.092395: + Largest cluster has 29094 voxels
201113-09:54:37,92 nipype.interface INFO:
stderr 2020-11-13T09:54:37.092628: + Clustering non-brain voxels ...
201113-09:54:37,92 nipype.interface INFO:
stderr 2020-11-13T09:54:37.092773: + Clustering voxels ...
201113-09:54:37,95 nipype.interface INFO:
stderr 2020-11-13T09:54:37.095659: + Largest cluster has 110144 voxels
201113-09:54:37,96 nipype.interface INFO:
stderr 2020-11-13T09:54:37.095985: + Mask now has 29120 voxels
201113-09:54:37,96 nipype.interface INFO:
stderr 2020-11-13T09:54:37.096135:++ Dilating automask
201113-09:54:37,102 nipype.interface INFO:
stderr 2020-11-13T09:54:37.102800: + Clustering voxels ...
201113-09:54:37,105 nipype.interface INFO:
stderr 2020-11-13T09:54:37.105238: + Largest cluster has 104407 voxels
201113-09:54:37,105 nipype.interface INFO:
stderr 2020-11-13T09:54:37.105576:++ 34857 voxels in the mask [out of 139264: 25.03%]
201113-09:54:37,105 nipype.interface INFO:
stderr 2020-11-13T09:54:37.105743:++ first 9 x-planes are zero [from R]
201113-09:54:37,105 nipype.interface INFO:
stderr 2020-11-13T09:54:37.105902:++ last 9 x-planes are zero [from L]
201113-09:54:37,106 nipype.interface INFO:
stderr 2020-11-13T09:54:37.106042:++ first 1 y-planes are zero [from P]
201113-09:54:37,106 nipype.interface INFO:
stderr 2020-11-13T09:54:37.106190:++ last 9 y-planes are zero [from A]
201113-09:54:37,106 nipype.interface INFO:
stderr 2020-11-13T09:54:37.106322:++ first 0 z-planes are zero [from I]
201113-09:54:37,106 nipype.interface INFO:
stderr 2020-11-13T09:54:37.106464:++ last 2 z-planes are zero [from S]
201113-09:54:37,110 nipype.interface INFO:
stderr 2020-11-13T09:54:37.110721:++ Output dataset ./uni_mask.nii.gz
201113-09:54:37,110 nipype.interface INFO:
stderr 2020-11-13T09:54:37.110893:++ applying mask to original data
201113-09:54:37,111 nipype.interface INFO:
stderr 2020-11-13T09:54:37.111570:++ Writing masked data
201113-09:54:37,125 nipype.interface INFO:
stderr 2020-11-13T09:54:37.125126:++ Output dataset ./uni_masked.nii.gz
201113-09:54:37,125 nipype.interface INFO:
stderr 2020-11-13T09:54:37.125376:++ CPU time = 0.000000 sec
201113-09:54:37,312 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-2.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip.skullstrip_second_pass".
201113-09:54:37,313 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-2.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip.combine_masks" in "/outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_tgng_run-1/combine_masks".
201113-09:54:37,319 nipype.workflow INFO:
[Node] Running "combine_masks" ("nipype.interfaces.fsl.maths.BinaryMaths"), a CommandLine Interface with command:
fslmaths /outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_tgng_run-1/skullstrip_first_pass/sub-018_ses-2_task-tgng_run-1_bold_calc_resample_mcf_tstat_brain_mask.nii.gz -mul /outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_tgng_run-1/skullstrip_second_pass/uni_mask.nii.gz /outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_tgng_run-1/combine_masks/sub-018_ses-2_task-tgng_run-1_bold_calc_resample_mcf_tstat_brain_mask_maths.nii.gz
201113-09:54:37,757 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-2.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip.combine_masks".
201113-09:54:37,759 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-2.gen_motion_stats_before_stc_fsl_afni_mean_mcflirt_0.cal_DVARS" in "/outputs/tmp/resting_preproc_sub-018_ses-2/gen_motion_stats_before_stc_fsl_afni_mean_mcflirt_0/_scan_tgng_run-1/cal_DVARS".
201113-09:54:37,766 nipype.workflow INFO:
[Node] Running "cal_DVARS" ("CPAC.utils.interfaces.function.Function")
201113-09:54:38,454 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-2.gen_motion_stats_before_stc_fsl_afni_mean_mcflirt_0.cal_DVARS".
201113-09:54:38,456 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-2.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip.func_extract_brain" in "/outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_tgng_run-1/func_extract_brain".
201113-09:54:38,465 nipype.workflow INFO:
[Node] Running "func_extract_brain" ("nipype.interfaces.afni.utils.Calc"), a CommandLine Interface with command:
3dcalc -a /outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/_scan_tgng_run-1/func_motion_correct_mcflirt/sub-018_ses-2_task-tgng_run-1_bold_calc_resample_mcf.nii.gz -b /outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_tgng_run-1/combine_masks/sub-018_ses-2_task-tgng_run-1_bold_calc_resample_mcf_tstat_brain_mask_maths.nii.gz -expr "a*b" -prefix sub-018_ses-2_task-tgng_run-1_bold_calc_resample_mcf_calc.nii.gz
201113-09:54:38,710 nipype.interface INFO:
stderr 2020-11-13T09:54:38.710890:++ 3dcalc: AFNI version=AFNI_20.2.19 (Sep 27 2020) [64-bit]
201113-09:54:38,711 nipype.interface INFO:
stderr 2020-11-13T09:54:38.711213:++ Authored by: A cast of thousands
201113-09:54:41,465 nipype.interface INFO:
stderr 2020-11-13T09:54:41.465080:++ Output dataset ./sub-018_ses-2_task-tgng_run-1_bold_calc_resample_mcf_calc.nii.gz
201113-09:54:41,651 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-2.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip.func_extract_brain".
201113-09:54:41,652 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-2.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_normalize" in "/outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/_scan_tgng_run-1/func_normalize".
201113-09:54:41,657 nipype.workflow INFO:
[Node] Running "func_normalize" ("nipype.interfaces.fsl.utils.ImageMaths"), a CommandLine Interface with command:
fslmaths /outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_tgng_run-1/func_extract_brain/sub-018_ses-2_task-tgng_run-1_bold_calc_resample_mcf_calc.nii.gz -ing 10000 /outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/_scan_tgng_run-1/func_normalize/sub-018_ses-2_task-tgng_run-1_bold_calc_resample_mcf_calc_maths.nii.gz -odt float
201113-09:54:43,850 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-2.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_normalize".
201113-09:54:43,851 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-2.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_mask_normalize" in "/outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/_scan_tgng_run-1/func_mask_normalize".
201113-09:54:43,856 nipype.workflow INFO:
[Node] Running "func_mask_normalize" ("nipype.interfaces.fsl.utils.ImageMaths"), a CommandLine Interface with command:
fslmaths /outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/_scan_tgng_run-1/func_normalize/sub-018_ses-2_task-tgng_run-1_bold_calc_resample_mcf_calc_maths.nii.gz -Tmin -bin /outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/_scan_tgng_run-1/func_mask_normalize/sub-018_ses-2_task-tgng_run-1_bold_calc_resample_mcf_calc_maths_maths.nii.gz -odt char
201113-09:54:44,908 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-2.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_mask_normalize".
201113-09:54:44,910 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-2.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_mean" in "/outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/_scan_tgng_run-1/func_mean".
201113-09:54:44,916 nipype.workflow INFO:
[Node] Running "func_mean" ("nipype.interfaces.afni.utils.TStat"), a CommandLine Interface with command:
3dTstat -mean -prefix sub-018_ses-2_task-tgng_run-1_bold_calc_resample_mcf_calc_tstat.nii.gz /outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/_scan_tgng_run-1/func_mean/sub-018_ses-2_task-tgng_run-1_bold_calc_resample_mcf_calc.nii.gz
201113-09:54:45,161 nipype.interface INFO:
stderr 2020-11-13T09:54:45.161201:++ 3dTstat: AFNI version=AFNI_20.2.19 (Sep 27 2020) [64-bit]
201113-09:54:45,161 nipype.interface INFO:
stderr 2020-11-13T09:54:45.161536:++ Authored by: KR Hammett & RW Cox
201113-09:54:45,458 nipype.interface INFO:
stderr 2020-11-13T09:54:45.458938:++ Output dataset ./sub-018_ses-2_task-tgng_run-1_bold_calc_resample_mcf_calc_tstat.nii.gz
201113-09:54:45,646 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-2.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_mean".
201113-09:54:45,647 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-2.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.norm_motion_params" in "/outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/_scan_tgng_run-1/norm_motion_params".
201113-09:54:45,653 nipype.workflow INFO:
[Node] Running "norm_motion_params" ("CPAC.utils.interfaces.function.Function")
201113-09:54:45,887 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-2.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.norm_motion_params".
201113-09:54:45,888 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-2.qc_motion_0.motion_plot" in "/outputs/tmp/resting_preproc_sub-018_ses-2/qc_motion_0/_scan_tgng_run-1/motion_plot".
201113-09:54:45,892 nipype.workflow INFO:
[Node] Running "motion_plot" ("CPAC.utils.interfaces.function.Function")
201113-09:54:46,344 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-2.qc_motion_0.motion_plot".
201113-09:54:46,346 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-2.sinker_0_qc___movement_trans_plot" in "/outputs/tmp/resting_preproc_sub-018_ses-2/_scan_tgng_run-1/sinker_0_qc___movement_trans_plot".
201113-09:54:46,352 nipype.workflow INFO:
[Node] Running "sinker_0_qc___movement_trans_plot" ("CPAC.utils.interfaces.datasink.DataSink")
201113-09:54:46,566 nipype.interface INFO:
sub: /outputs/output/pipeline_cpac_fmriprep-options/sub-018_ses-2/qc___movement_trans_plot/_scan_tgng_run-1/motion_trans_plot.png -> /outputs/output/pipeline_cpac_fmriprep-options/sub-018_ses-2/qc/movement_trans_plot/_scan_tgng_run-1/motion_trans_plot.png
201113-09:54:46,584 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-2.sinker_0_qc___movement_trans_plot".
201113-09:54:46,586 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-2.sinker_0_qc___movement_rot_plot" in "/outputs/tmp/resting_preproc_sub-018_ses-2/_scan_tgng_run-1/sinker_0_qc___movement_rot_plot".
201113-09:54:46,593 nipype.workflow INFO:
[Node] Running "sinker_0_qc___movement_rot_plot" ("CPAC.utils.interfaces.datasink.DataSink")
201113-09:54:46,806 nipype.interface INFO:
sub: /outputs/output/pipeline_cpac_fmriprep-options/sub-018_ses-2/qc___movement_rot_plot/_scan_tgng_run-1/motion_rot_plot.png -> /outputs/output/pipeline_cpac_fmriprep-options/sub-018_ses-2/qc/movement_rot_plot/_scan_tgng_run-1/motion_rot_plot.png
201113-09:54:46,825 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-2.sinker_0_qc___movement_rot_plot".
201113-09:54:46,827 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-2.gen_motion_stats_before_stc_fsl_afni_mean_mcflirt_0.calc_motion_parameters" in "/outputs/tmp/resting_preproc_sub-018_ses-2/gen_motion_stats_before_stc_fsl_afni_mean_mcflirt_0/_scan_tgng_run-1/calc_motion_parameters".
201113-09:54:46,835 nipype.workflow INFO:
[Node] Running "calc_motion_parameters" ("CPAC.utils.interfaces.function.Function")
201113-09:54:47,70 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-2.gen_motion_stats_before_stc_fsl_afni_mean_mcflirt_0.calc_motion_parameters".
201113-09:54:47,71 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-2.sinker_0_motion_params" in "/outputs/tmp/resting_preproc_sub-018_ses-2/_scan_tgng_run-1/sinker_0_motion_params".
201113-09:54:47,78 nipype.workflow INFO:
[Node] Running "sinker_0_motion_params" ("CPAC.utils.interfaces.datasink.DataSink")
201113-09:54:47,308 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-2.sinker_0_motion_params".
201113-09:54:47,310 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-2.gen_motion_stats_before_stc_fsl_afni_mean_mcflirt_0.calculate_FD" in "/outputs/tmp/resting_preproc_sub-018_ses-2/gen_motion_stats_before_stc_fsl_afni_mean_mcflirt_0/_scan_tgng_run-1/calculate_FD".
201113-09:54:47,315 nipype.workflow INFO:
[Node] Running "calculate_FD" ("CPAC.utils.interfaces.function.Function")
201113-09:54:47,549 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-2.gen_motion_stats_before_stc_fsl_afni_mean_mcflirt_0.calculate_FD".
201113-09:54:47,550 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-2.sinker_0_frame_wise_displacement_power" in "/outputs/tmp/resting_preproc_sub-018_ses-2/_scan_tgng_run-1/sinker_0_frame_wise_displacement_power".
201113-09:54:47,558 nipype.workflow INFO:
[Node] Running "sinker_0_frame_wise_displacement_power" ("CPAC.utils.interfaces.datasink.DataSink")
201113-09:54:47,788 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-2.sinker_0_frame_wise_displacement_power".
201113-09:54:47,790 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-2.gen_motion_stats_before_stc_fsl_afni_mean_mcflirt_0.calc_power_parameters" in "/outputs/tmp/resting_preproc_sub-018_ses-2/gen_motion_stats_before_stc_fsl_afni_mean_mcflirt_0/_scan_tgng_run-1/calc_power_parameters".
201113-09:54:47,796 nipype.workflow INFO:
[Node] Running "calc_power_parameters" ("CPAC.utils.interfaces.function.Function")
201113-09:54:48,30 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-2.gen_motion_stats_before_stc_fsl_afni_mean_mcflirt_0.calc_power_parameters".
201113-09:54:48,31 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-2.sinker_0_power_params" in "/outputs/tmp/resting_preproc_sub-018_ses-2/_scan_tgng_run-1/sinker_0_power_params".
201113-09:54:48,39 nipype.workflow INFO:
[Node] Running "sinker_0_power_params" ("CPAC.utils.interfaces.datasink.DataSink")
201113-09:54:48,276 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-2.sinker_0_power_params".
201113-09:54:48,278 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-2.sinker_0_movement_parameters" in "/outputs/tmp/resting_preproc_sub-018_ses-2/_scan_tgng_run-1/sinker_0_movement_parameters".
201113-09:54:48,285 nipype.workflow INFO:
[Node] Running "sinker_0_movement_parameters" ("CPAC.utils.interfaces.datasink.DataSink")
201113-09:54:48,513 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-2.sinker_0_movement_parameters".
201113-09:54:48,515 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-2.func_despiked_0" in "/outputs/tmp/resting_preproc_sub-018_ses-2/_scan_tgng_run-1/func_despiked_0".
201113-09:54:48,520 nipype.workflow INFO:
[Node] Running "func_despiked_0" ("nipype.interfaces.afni.preprocess.Despike"), a CommandLine Interface with command:
3dDespike -prefix sub-018_ses-2_task-tgng_run-1_bold_calc_despike.nii.gz /outputs/tmp/resting_preproc_sub-018_ses-2/_scan_tgng_run-1/func_despiked_0/sub-018_ses-2_task-tgng_run-1_bold_calc.nii.gz
201113-09:54:48,770 nipype.interface INFO:
stderr 2020-11-13T09:54:48.770830:++ 3dDespike: AFNI version=AFNI_20.2.19 (Sep 27 2020) [64-bit]
201113-09:54:48,771 nipype.interface INFO:
stderr 2020-11-13T09:54:48.771188:++ Authored by: RW Cox
201113-09:54:48,773 nipype.interface INFO:
stderr 2020-11-13T09:54:48.773226:[7m*+ WARNING:[0m If you are performing spatial transformations on an oblique dset,
201113-09:54:48,773 nipype.interface INFO:
stderr 2020-11-13T09:54:48.773226: such as /outputs/tmp/resting_preproc_sub-018_ses-2/_scan_tgng_run-1/func_despiked_0/sub-018_ses-2_task-tgng_run-1_bold_calc.nii.gz,
201113-09:54:48,773 nipype.interface INFO:
stderr 2020-11-13T09:54:48.773226: or viewing/combining it with volumes of differing obliquity,
201113-09:54:48,773 nipype.interface INFO:
stderr 2020-11-13T09:54:48.773226: you should consider running:
201113-09:54:48,773 nipype.interface INFO:
stderr 2020-11-13T09:54:48.773226: 3dWarp -deoblique
201113-09:54:48,773 nipype.interface INFO:
stderr 2020-11-13T09:54:48.773226: on this and other oblique datasets in the same session.
201113-09:54:48,773 nipype.interface INFO:
stderr 2020-11-13T09:54:48.773226: See 3dWarp -help for details.
201113-09:54:48,774 nipype.interface INFO:
stderr 2020-11-13T09:54:48.774048:++ Oblique dataset:/outputs/tmp/resting_preproc_sub-018_ses-2/_scan_tgng_run-1/func_despiked_0/sub-018_ses-2_task-tgng_run-1_bold_calc.nii.gz is 30.348724 degrees from plumb.
201113-09:54:48,774 nipype.interface INFO:
stderr 2020-11-13T09:54:48.774228:++ Input dataset is in short format, but output will be in float format
201113-09:54:48,774 nipype.interface INFO:
stderr 2020-11-13T09:54:48.774393:++ ignoring first 0 time points, using last 130
201113-09:54:48,774 nipype.interface INFO:
stderr 2020-11-13T09:54:48.774575:++ using 130 time points => -corder 4
201113-09:54:48,774 nipype.interface INFO:
stderr 2020-11-13T09:54:48.774731:++ Loading dataset /outputs/tmp/resting_preproc_sub-018_ses-2/_scan_tgng_run-1/func_despiked_0/sub-018_ses-2_task-tgng_run-1_bold_calc.nii.gz
201113-09:54:49,242 nipype.interface INFO:
stderr 2020-11-13T09:54:49.242169:++ 32622 voxels in the automask [out of 139264 in dataset]
201113-09:54:49,247 nipype.interface INFO:
stderr 2020-11-13T09:54:49.247796:++ 56196 voxels in the dilated automask [out of 139264 in dataset]
201113-09:54:49,258 nipype.interface INFO:
stderr 2020-11-13T09:54:49.258773:++ Procesing time series with OLD model fit algorithm
201113-09:54:49,258 nipype.interface INFO:
stderr 2020-11-13T09:54:49.258953:++ smash edit thresholds: 3.1 .. 5.0 MADs
201113-09:54:49,259 nipype.interface INFO:
stderr 2020-11-13T09:54:49.259111: + [ 3.457% .. 0.072% of normal distribution]
201113-09:54:49,259 nipype.interface INFO:
stderr 2020-11-13T09:54:49.259260: + [ 8.839% .. 3.125% of Laplace distribution]
201113-09:54:49,259 nipype.interface INFO:
stderr 2020-11-13T09:54:49.259414:++ start OpenMP thread #0
201113-09:54:54,629 nipype.interface INFO:
stderr 2020-11-13T09:54:54.629532:.........................
201113-09:54:54,630 nipype.interface INFO:
stderr 2020-11-13T09:54:54.630022:++ Elapsed despike time = 5s 371ms
201113-09:54:54,630 nipype.interface INFO:
stderr 2020-11-13T09:54:54.630173:
201113-09:54:54,631 nipype.interface INFO:
stderr 2020-11-13T09:54:54.631036:++ FINAL: 7305480 data points, 519343 edits [7.109%], 80325 big edits [1.100%]
201113-09:54:58,446 nipype.interface INFO:
stderr 2020-11-13T09:54:58.446300:++ Output dataset ./sub-018_ses-2_task-tgng_run-1_bold_calc_despike.nii.gz
201113-09:54:58,675 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-2.func_despiked_0".
201113-09:54:58,676 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-2.func_slice_timing_correction_0.slice_timing" in "/outputs/tmp/resting_preproc_sub-018_ses-2/func_slice_timing_correction_0/_scan_tgng_run-1/slice_timing".
201113-09:54:58,685 nipype.interface WARNING:
Passing a file prefixed by "@" will be deprecated; please use the `slice_timing` input
201113-09:54:58,686 nipype.workflow INFO:
[Node] Running "slice_timing" ("nipype.interfaces.afni.preprocess.TShift"), a CommandLine Interface with command:
3dTshift -prefix sub-018_ses-2_task-tgng_run-1_bold_calc_despike_tshift.nii.gz -tpattern @/outputs/tmp/resting_preproc_sub-018_ses-2/_scan_tgng_run-1/scan_params_0/tpattern.txt -TR 2.0s /outputs/tmp/resting_preproc_sub-018_ses-2/func_slice_timing_correction_0/_scan_tgng_run-1/slice_timing/sub-018_ses-2_task-tgng_run-1_bold_calc_despike.nii.gz
201113-09:54:58,898 nipype.interface WARNING:
Passing a file prefixed by "@" will be deprecated; please use the `slice_timing` input
201113-09:54:58,941 nipype.interface INFO:
stderr 2020-11-13T09:54:58.941768:++ 3dTshift: AFNI version=AFNI_20.2.19 (Sep 27 2020) [64-bit]
201113-09:54:58,945 nipype.interface INFO:
stderr 2020-11-13T09:54:58.945088:[7m*+ WARNING:[0m If you are performing spatial transformations on an oblique dset,
201113-09:54:58,945 nipype.interface INFO:
stderr 2020-11-13T09:54:58.945088: such as /outputs/tmp/resting_preproc_sub-018_ses-2/func_slice_timing_correction_0/_scan_tgng_run-1/slice_timing/sub-018_ses-2_task-tgng_run-1_bold_calc_despike.nii.gz,
201113-09:54:58,945 nipype.interface INFO:
stderr 2020-11-13T09:54:58.945088: or viewing/combining it with volumes of differing obliquity,
201113-09:54:58,945 nipype.interface INFO:
stderr 2020-11-13T09:54:58.945088: you should consider running:
201113-09:54:58,945 nipype.interface INFO:
stderr 2020-11-13T09:54:58.945088: 3dWarp -deoblique
201113-09:54:58,945 nipype.interface INFO:
stderr 2020-11-13T09:54:58.945088: on this and other oblique datasets in the same session.
201113-09:54:58,945 nipype.interface INFO:
stderr 2020-11-13T09:54:58.945088: See 3dWarp -help for details.
201113-09:54:58,945 nipype.interface INFO:
stderr 2020-11-13T09:54:58.945849:++ Oblique dataset:/outputs/tmp/resting_preproc_sub-018_ses-2/func_slice_timing_correction_0/_scan_tgng_run-1/slice_timing/sub-018_ses-2_task-tgng_run-1_bold_calc_despike.nii.gz is 30.348724 degrees from plumb.
201113-09:55:03,262 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-2.func_slice_timing_correction_0.slice_timing".
201113-09:55:03,263 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-2.func_preproc_fsl_afni_mean_mcflirt_0.func_deoblique" in "/outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_fsl_afni_mean_mcflirt_0/_scan_tgng_run-1/func_deoblique".
201113-09:55:03,316 nipype.workflow INFO:
[Node] Running "func_deoblique" ("nipype.interfaces.afni.utils.Refit"), a CommandLine Interface with command:
3drefit -deoblique /outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_fsl_afni_mean_mcflirt_0/_scan_tgng_run-1/func_deoblique/sub-018_ses-2_task-tgng_run-1_bold_calc_despike_tshift.nii.gz
201113-09:55:03,567 nipype.interface INFO:
stderr 2020-11-13T09:55:03.567766:++ 3drefit: AFNI version=AFNI_20.2.19 (Sep 27 2020) [64-bit]
201113-09:55:03,568 nipype.interface INFO:
stderr 2020-11-13T09:55:03.568162:++ Authored by: RW Cox
201113-09:55:03,580 nipype.interface INFO:
stderr 2020-11-13T09:55:03.580674:++ Processing AFNI dataset /outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_fsl_afni_mean_mcflirt_0/_scan_tgng_run-1/func_deoblique/sub-018_ses-2_task-tgng_run-1_bold_calc_despike_tshift.nii.gz
201113-09:55:03,581 nipype.interface INFO:
stderr 2020-11-13T09:55:03.581675: + deoblique
201113-09:55:03,582 nipype.interface INFO:
stderr 2020-11-13T09:55:03.581972: + loading and re-writing dataset /outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_fsl_afni_mean_mcflirt_0/_scan_tgng_run-1/func_deoblique/sub-018_ses-2_task-tgng_run-1_bold_calc_despike_tshift.nii.gz (/outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_fsl_afni_mean_mcflirt_0/_scan_tgng_run-1/func_deoblique/sub-018_ses-2_task-tgng_run-1_bold_calc_despike_tshift.nii.gz in NIFTI storage)
201113-09:55:05,668 nipype.interface INFO:
stderr 2020-11-13T09:55:05.668468:++ 3drefit processed 1 datasets
201113-09:55:05,881 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-2.func_preproc_fsl_afni_mean_mcflirt_0.func_deoblique".
201113-09:55:05,882 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-2.func_preproc_fsl_afni_mean_mcflirt_0.func_reorient" in "/outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_fsl_afni_mean_mcflirt_0/_scan_tgng_run-1/func_reorient".
201113-09:55:05,888 nipype.workflow INFO:
[Node] Running "func_reorient" ("nipype.interfaces.afni.utils.Resample"), a CommandLine Interface with command:
3dresample -orient RPI -prefix sub-018_ses-2_task-tgng_run-1_bold_calc_despike_tshift_resample.nii.gz -inset /outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_fsl_afni_mean_mcflirt_0/_scan_tgng_run-1/func_reorient/sub-018_ses-2_task-tgng_run-1_bold_calc_despike_tshift.nii.gz
201113-09:55:08,628 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-2.func_preproc_fsl_afni_mean_mcflirt_0.func_reorient".
201113-09:55:08,630 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-2.func_preproc_fsl_afni_mean_mcflirt_0.func_get_mean_RPI" in "/outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_fsl_afni_mean_mcflirt_0/_scan_tgng_run-1/func_get_mean_RPI".
201113-09:55:08,635 nipype.workflow INFO:
[Node] Running "func_get_mean_RPI" ("nipype.interfaces.afni.utils.TStat"), a CommandLine Interface with command:
3dTstat -mean -prefix sub-018_ses-2_task-tgng_run-1_bold_calc_despike_tshift_resample_tstat.nii.gz /outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_fsl_afni_mean_mcflirt_0/_scan_tgng_run-1/func_get_mean_RPI/sub-018_ses-2_task-tgng_run-1_bold_calc_despike_tshift_resample.nii.gz
201113-09:55:08,889 nipype.interface INFO:
stderr 2020-11-13T09:55:08.889403:++ 3dTstat: AFNI version=AFNI_20.2.19 (Sep 27 2020) [64-bit]
201113-09:55:08,889 nipype.interface INFO:
stderr 2020-11-13T09:55:08.889914:++ Authored by: KR Hammett & RW Cox
201113-09:55:09,488 nipype.interface INFO:
stderr 2020-11-13T09:55:09.488357:++ Output dataset ./sub-018_ses-2_task-tgng_run-1_bold_calc_despike_tshift_resample_tstat.nii.gz
201113-09:55:09,680 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-2.func_preproc_fsl_afni_mean_mcflirt_0.func_get_mean_RPI".
201113-09:55:09,681 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-2.func_preproc_fsl_afni_mean_mcflirt_0.func_generate_ref" in "/outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_fsl_afni_mean_mcflirt_0/_scan_tgng_run-1/func_generate_ref".
201113-09:55:09,688 nipype.workflow INFO:
[Node] Running "func_generate_ref" ("nipype.interfaces.afni.preprocess.Volreg"), a CommandLine Interface with command:
3dvolreg -twopass -Fourier -1Dfile sub-018_ses-2_task-tgng_run-1_bold_calc_despike_tshift_resample.1D -1Dmatrix_save sub-018_ses-2_task-tgng_run-1_bold_calc_despike_tshift_resample.aff12.1D -prefix sub-018_ses-2_task-tgng_run-1_bold_calc_despike_tshift_resample_volreg.nii.gz -base /outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_fsl_afni_mean_mcflirt_0/_scan_tgng_run-1/func_get_mean_RPI/sub-018_ses-2_task-tgng_run-1_bold_calc_despike_tshift_resample_tstat.nii.gz -zpad 4 -maxdisp1D sub-018_ses-2_task-tgng_run-1_bold_calc_despike_tshift_resample_md.1D /outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_fsl_afni_mean_mcflirt_0/_scan_tgng_run-1/func_generate_ref/sub-018_ses-2_task-tgng_run-1_bold_calc_despike_tshift_resample.nii.gz
201113-09:55:09,934 nipype.interface INFO:
stderr 2020-11-13T09:55:09.934009:++ 3dvolreg: AFNI version=AFNI_20.2.19 (Sep 27 2020) [64-bit]
201113-09:55:09,934 nipype.interface INFO:
stderr 2020-11-13T09:55:09.934429:++ Authored by: RW Cox
201113-09:55:09,941 nipype.interface INFO:
stderr 2020-11-13T09:55:09.941897:++ Coarse del was 10, replaced with 3
201113-09:56:56,479 nipype.interface INFO:
stderr 2020-11-13T09:56:56.479399:++ Max displacement in automask = 0.95 (mm) at sub-brick 101
201113-09:56:56,479 nipype.interface INFO:
stderr 2020-11-13T09:56:56.479958:++ Max delta displ in automask = 0.67 (mm) at sub-brick 2
201113-09:57:01,201 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-2.func_preproc_fsl_afni_mean_mcflirt_0.func_generate_ref".
201113-09:57:01,202 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-2.func_preproc_fsl_afni_mean_mcflirt_0.func_get_mean_motion" in "/outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_fsl_afni_mean_mcflirt_0/_scan_tgng_run-1/func_get_mean_motion".
201113-09:57:01,209 nipype.workflow INFO:
[Node] Running "func_get_mean_motion" ("nipype.interfaces.afni.utils.TStat"), a CommandLine Interface with command:
3dTstat -mean -prefix sub-018_ses-2_task-tgng_run-1_bold_calc_despike_tshift_resample_volreg_tstat.nii.gz /outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_fsl_afni_mean_mcflirt_0/_scan_tgng_run-1/func_get_mean_motion/sub-018_ses-2_task-tgng_run-1_bold_calc_despike_tshift_resample_volreg.nii.gz
201113-09:57:01,458 nipype.interface INFO:
stderr 2020-11-13T09:57:01.458195:++ 3dTstat: AFNI version=AFNI_20.2.19 (Sep 27 2020) [64-bit]
201113-09:57:01,458 nipype.interface INFO:
stderr 2020-11-13T09:57:01.458758:++ Authored by: KR Hammett & RW Cox
201113-09:57:02,250 nipype.interface INFO:
stderr 2020-11-13T09:57:02.250895:++ Output dataset ./sub-018_ses-2_task-tgng_run-1_bold_calc_despike_tshift_resample_volreg_tstat.nii.gz
201113-09:57:02,454 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-2.func_preproc_fsl_afni_mean_mcflirt_0.func_get_mean_motion".
201113-09:57:02,456 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-2.func_preproc_fsl_afni_mean_mcflirt_0.func_motion_correct_mcflirt" in "/outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_fsl_afni_mean_mcflirt_0/_scan_tgng_run-1/func_motion_correct_mcflirt".
201113-09:57:02,463 nipype.workflow INFO:
[Node] Running "func_motion_correct_mcflirt" ("nipype.interfaces.fsl.preprocess.MCFLIRT"), a CommandLine Interface with command:
mcflirt -in /outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_fsl_afni_mean_mcflirt_0/_scan_tgng_run-1/func_reorient/sub-018_ses-2_task-tgng_run-1_bold_calc_despike_tshift_resample.nii.gz -out /outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_fsl_afni_mean_mcflirt_0/_scan_tgng_run-1/func_motion_correct_mcflirt/sub-018_ses-2_task-tgng_run-1_bold_calc_despike_tshift_resample_mcf.nii.gz -reffile /outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_fsl_afni_mean_mcflirt_0/_scan_tgng_run-1/func_get_mean_motion/sub-018_ses-2_task-tgng_run-1_bold_calc_despike_tshift_resample_volreg_tstat.nii.gz -mats -plots -rmsabs -rmsrel
201113-09:57:23,103 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-2.func_preproc_fsl_afni_mean_mcflirt_0.func_motion_correct_mcflirt".
201113-09:57:23,112 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-2.sinker_0_motion_correct" in "/outputs/tmp/resting_preproc_sub-018_ses-2/_scan_tgng_run-1/sinker_0_motion_correct".
201113-09:57:23,119 nipype.workflow INFO:
[Node] Running "sinker_0_motion_correct" ("CPAC.utils.interfaces.datasink.DataSink")
201113-09:57:23,347 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-2.sinker_0_motion_correct".
201113-09:57:23,349 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-2.func_preproc_fsl_afni_mean_mcflirt_0.func_preproc_fsl_afni_mean_mcflirt_0_skullstrip.func_mean_skull" in "/outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_fsl_afni_mean_mcflirt_0/func_preproc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_tgng_run-1/func_mean_skull".
201113-09:57:23,356 nipype.workflow INFO:
[Node] Running "func_mean_skull" ("nipype.interfaces.afni.utils.TStat"), a CommandLine Interface with command:
3dTstat -mean -prefix sub-018_ses-2_task-tgng_run-1_bold_calc_despike_tshift_resample_mcf_tstat.nii.gz /outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_fsl_afni_mean_mcflirt_0/func_preproc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_tgng_run-1/func_mean_skull/sub-018_ses-2_task-tgng_run-1_bold_calc_despike_tshift_resample_mcf.nii.gz
201113-09:57:23,604 nipype.interface INFO:
stderr 2020-11-13T09:57:23.604731:++ 3dTstat: AFNI version=AFNI_20.2.19 (Sep 27 2020) [64-bit]
201113-09:57:23,605 nipype.interface INFO:
stderr 2020-11-13T09:57:23.605072:++ Authored by: KR Hammett & RW Cox
201113-09:57:24,238 nipype.interface INFO:
stderr 2020-11-13T09:57:24.238002:++ Output dataset ./sub-018_ses-2_task-tgng_run-1_bold_calc_despike_tshift_resample_mcf_tstat.nii.gz
201113-09:57:24,429 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-2.func_preproc_fsl_afni_mean_mcflirt_0.func_preproc_fsl_afni_mean_mcflirt_0_skullstrip.func_mean_skull".
201113-09:57:24,430 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-2.func_preproc_fsl_afni_mean_mcflirt_0.func_preproc_fsl_afni_mean_mcflirt_0_skullstrip.skullstrip_first_pass" in "/outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_fsl_afni_mean_mcflirt_0/func_preproc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_tgng_run-1/skullstrip_first_pass".
201113-09:57:24,437 nipype.workflow INFO:
[Node] Running "skullstrip_first_pass" ("nipype.interfaces.fsl.preprocess.BET"), a CommandLine Interface with command:
bet /outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_fsl_afni_mean_mcflirt_0/func_preproc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_tgng_run-1/func_mean_skull/sub-018_ses-2_task-tgng_run-1_bold_calc_despike_tshift_resample_mcf_tstat.nii.gz /outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_fsl_afni_mean_mcflirt_0/func_preproc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_tgng_run-1/skullstrip_first_pass/sub-018_ses-2_task-tgng_run-1_bold_calc_despike_tshift_resample_mcf_tstat_brain.nii.gz -f 0.20 -m
201113-09:57:26,304 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-2.func_preproc_fsl_afni_mean_mcflirt_0.func_preproc_fsl_afni_mean_mcflirt_0_skullstrip.skullstrip_first_pass".
201113-09:57:26,306 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-2.func_preproc_fsl_afni_mean_mcflirt_0.func_preproc_fsl_afni_mean_mcflirt_0_skullstrip.skullstrip_first_dilate" in "/outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_fsl_afni_mean_mcflirt_0/func_preproc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_tgng_run-1/skullstrip_first_dilate".
201113-09:57:26,312 nipype.workflow INFO:
[Node] Running "skullstrip_first_dilate" ("nipype.interfaces.fsl.maths.DilateImage"), a CommandLine Interface with command:
fslmaths -dt char /outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_fsl_afni_mean_mcflirt_0/func_preproc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_tgng_run-1/skullstrip_first_pass/sub-018_ses-2_task-tgng_run-1_bold_calc_despike_tshift_resample_mcf_tstat_brain_mask.nii.gz -kernel sphere 6.0000 -dilF /outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_fsl_afni_mean_mcflirt_0/func_preproc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_tgng_run-1/skullstrip_first_dilate/sub-018_ses-2_task-tgng_run-1_bold_calc_despike_tshift_resample_mcf_tstat_brain_mask_dil.nii.gz
201113-09:57:26,992 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-2.func_preproc_fsl_afni_mean_mcflirt_0.func_preproc_fsl_afni_mean_mcflirt_0_skullstrip.skullstrip_first_dilate".
201113-09:57:26,994 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-2.func_preproc_fsl_afni_mean_mcflirt_0.func_preproc_fsl_afni_mean_mcflirt_0_skullstrip.skullstrip_first_mask" in "/outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_fsl_afni_mean_mcflirt_0/func_preproc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_tgng_run-1/skullstrip_first_mask".
201113-09:57:27,0 nipype.workflow INFO:
[Node] Running "skullstrip_first_mask" ("nipype.interfaces.fsl.maths.ApplyMask"), a CommandLine Interface with command:
fslmaths /outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_fsl_afni_mean_mcflirt_0/func_preproc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_tgng_run-1/skullstrip_first_pass/sub-018_ses-2_task-tgng_run-1_bold_calc_despike_tshift_resample_mcf_tstat_brain.nii.gz -mas /outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_fsl_afni_mean_mcflirt_0/func_preproc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_tgng_run-1/skullstrip_first_dilate/sub-018_ses-2_task-tgng_run-1_bold_calc_despike_tshift_resample_mcf_tstat_brain_mask_dil.nii.gz /outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_fsl_afni_mean_mcflirt_0/func_preproc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_tgng_run-1/skullstrip_first_mask/sub-018_ses-2_task-tgng_run-1_bold_calc_despike_tshift_resample_mcf_tstat_brain_masked.nii.gz
201113-09:57:27,448 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-2.func_preproc_fsl_afni_mean_mcflirt_0.func_preproc_fsl_afni_mean_mcflirt_0_skullstrip.skullstrip_first_mask".
201113-09:57:27,450 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-2.func_preproc_fsl_afni_mean_mcflirt_0.func_preproc_fsl_afni_mean_mcflirt_0_skullstrip.unifize" in "/outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_fsl_afni_mean_mcflirt_0/func_preproc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_tgng_run-1/unifize".
201113-09:57:27,455 nipype.workflow INFO:
[Node] Running "unifize" ("nipype.interfaces.afni.utils.Unifize"), a CommandLine Interface with command:
3dUnifize -clfrac 0.2 -rbt 18.3 65.0 90.0 -prefix uni.nii.gz -T2 -input /outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_fsl_afni_mean_mcflirt_0/func_preproc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_tgng_run-1/unifize/sub-018_ses-2_task-tgng_run-1_bold_calc_despike_tshift_resample_mcf_tstat_brain_masked.nii.gz
201113-09:57:27,705 nipype.interface INFO:
stderr 2020-11-13T09:57:27.705846:++ 3dUnifize: AFNI version=AFNI_20.2.19 (Sep 27 2020) [64-bit]
201113-09:58:39,934 nipype.interface INFO:
stderr 2020-11-13T09:58:39.934225: + Pre-processing: IAV..UW[s3799]Im
201113-09:58:39,947 nipype.interface INFO:
stderr 2020-11-13T09:58:39.947865:++ Output dataset ./uni.nii.gz
201113-09:58:39,948 nipype.interface INFO:
stderr 2020-11-13T09:58:39.948142:++ ===== Elapsed = 72.2 sec
201113-09:58:40,161 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-2.func_preproc_fsl_afni_mean_mcflirt_0.func_preproc_fsl_afni_mean_mcflirt_0_skullstrip.unifize".
201113-09:58:40,162 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-2.func_preproc_fsl_afni_mean_mcflirt_0.func_preproc_fsl_afni_mean_mcflirt_0_skullstrip.skullstrip_second_pass" in "/outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_fsl_afni_mean_mcflirt_0/func_preproc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_tgng_run-1/skullstrip_second_pass".
201113-09:58:40,168 nipype.workflow INFO:
[Node] Running "skullstrip_second_pass" ("nipype.interfaces.afni.preprocess.Automask"), a CommandLine Interface with command:
3dAutomask -apply_prefix uni_masked.nii.gz -dilate 1 -prefix uni_mask.nii.gz /outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_fsl_afni_mean_mcflirt_0/func_preproc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_tgng_run-1/skullstrip_second_pass/uni.nii.gz
201113-09:58:40,425 nipype.interface INFO:
stderr 2020-11-13T09:58:40.425781:++ 3dAutomask: AFNI version=AFNI_20.2.19 (Sep 27 2020) [64-bit]
201113-09:58:40,426 nipype.interface INFO:
stderr 2020-11-13T09:58:40.426123:++ Authored by: Emperor Zhark
201113-09:58:40,428 nipype.interface INFO:
stderr 2020-11-13T09:58:40.428115:++ Loading dataset /outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_fsl_afni_mean_mcflirt_0/func_preproc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_tgng_run-1/skullstrip_second_pass/uni.nii.gz
201113-09:58:40,431 nipype.interface INFO:
stderr 2020-11-13T09:58:40.431436:++ Forming automask
201113-09:58:40,432 nipype.interface INFO:
stderr 2020-11-13T09:58:40.432850: + Fixed clip level = 421.878143
201113-09:58:40,436 nipype.interface INFO:
stderr 2020-11-13T09:58:40.436444: + Used gradual clip level = 374.715637 .. 515.578857
201113-09:58:40,436 nipype.interface INFO:
stderr 2020-11-13T09:58:40.436680: + Number voxels above clip level = 28974
201113-09:58:40,436 nipype.interface INFO:
stderr 2020-11-13T09:58:40.436851: + Clustering voxels ...
201113-09:58:40,437 nipype.interface INFO:
stderr 2020-11-13T09:58:40.437970: + Largest cluster has 28965 voxels
201113-09:58:40,439 nipype.interface INFO:
stderr 2020-11-13T09:58:40.439326: + Clustering voxels ...
201113-09:58:40,440 nipype.interface INFO:
stderr 2020-11-13T09:58:40.440454: + Largest cluster has 28520 voxels
201113-09:58:40,443 nipype.interface INFO:
stderr 2020-11-13T09:58:40.443833: + Filled 622 voxels in small holes; now have 29142 voxels
201113-09:58:40,446 nipype.interface INFO:
stderr 2020-11-13T09:58:40.446059: + Filled 2 voxels in large holes; now have 29144 voxels
201113-09:58:40,447 nipype.interface INFO:
stderr 2020-11-13T09:58:40.447291: + Clustering voxels ...
201113-09:58:40,448 nipype.interface INFO:
stderr 2020-11-13T09:58:40.448369: + Largest cluster has 29144 voxels
201113-09:58:40,448 nipype.interface INFO:
stderr 2020-11-13T09:58:40.448620: + Clustering non-brain voxels ...
201113-09:58:40,448 nipype.interface INFO:
stderr 2020-11-13T09:58:40.448777: + Clustering voxels ...
201113-09:58:40,452 nipype.interface INFO:
stderr 2020-11-13T09:58:40.451988: + Largest cluster has 110094 voxels
201113-09:58:40,452 nipype.interface INFO:
stderr 2020-11-13T09:58:40.452331: + Mask now has 29170 voxels
201113-09:58:40,452 nipype.interface INFO:
stderr 2020-11-13T09:58:40.452530:++ Dilating automask
201113-09:58:40,458 nipype.interface INFO:
stderr 2020-11-13T09:58:40.458637: + Clustering voxels ...
201113-09:58:40,461 nipype.interface INFO:
stderr 2020-11-13T09:58:40.461345: + Largest cluster has 104360 voxels
201113-09:58:40,461 nipype.interface INFO:
stderr 2020-11-13T09:58:40.461703:++ 34904 voxels in the mask [out of 139264: 25.06%]
201113-09:58:40,461 nipype.interface INFO:
stderr 2020-11-13T09:58:40.461887:++ first 9 x-planes are zero [from R]
201113-09:58:40,462 nipype.interface INFO:
stderr 2020-11-13T09:58:40.462066:++ last 9 x-planes are zero [from L]
201113-09:58:40,462 nipype.interface INFO:
stderr 2020-11-13T09:58:40.462220:++ first 1 y-planes are zero [from P]
201113-09:58:40,462 nipype.interface INFO:
stderr 2020-11-13T09:58:40.462388:++ last 9 y-planes are zero [from A]
201113-09:58:40,462 nipype.interface INFO:
stderr 2020-11-13T09:58:40.462542:++ first 0 z-planes are zero [from I]
201113-09:58:40,462 nipype.interface INFO:
stderr 2020-11-13T09:58:40.462691:++ last 2 z-planes are zero [from S]
201113-09:58:40,467 nipype.interface INFO:
stderr 2020-11-13T09:58:40.467141:++ Output dataset ./uni_mask.nii.gz
201113-09:58:40,467 nipype.interface INFO:
stderr 2020-11-13T09:58:40.467363:++ applying mask to original data
201113-09:58:40,468 nipype.interface INFO:
stderr 2020-11-13T09:58:40.468240:++ Writing masked data
201113-09:58:40,482 nipype.interface INFO:
stderr 2020-11-13T09:58:40.482201:++ Output dataset ./uni_masked.nii.gz
201113-09:58:40,482 nipype.interface INFO:
stderr 2020-11-13T09:58:40.482548:++ CPU time = 0.000000 sec
201113-09:58:40,672 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-2.func_preproc_fsl_afni_mean_mcflirt_0.func_preproc_fsl_afni_mean_mcflirt_0_skullstrip.skullstrip_second_pass".
201113-09:58:40,673 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-2.func_preproc_fsl_afni_mean_mcflirt_0.func_preproc_fsl_afni_mean_mcflirt_0_skullstrip.combine_masks" in "/outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_fsl_afni_mean_mcflirt_0/func_preproc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_tgng_run-1/combine_masks".
201113-09:58:40,679 nipype.workflow INFO:
[Node] Running "combine_masks" ("nipype.interfaces.fsl.maths.BinaryMaths"), a CommandLine Interface with command:
fslmaths /outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_fsl_afni_mean_mcflirt_0/func_preproc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_tgng_run-1/skullstrip_first_pass/sub-018_ses-2_task-tgng_run-1_bold_calc_despike_tshift_resample_mcf_tstat_brain_mask.nii.gz -mul /outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_fsl_afni_mean_mcflirt_0/func_preproc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_tgng_run-1/skullstrip_second_pass/uni_mask.nii.gz /outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_fsl_afni_mean_mcflirt_0/func_preproc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_tgng_run-1/combine_masks/sub-018_ses-2_task-tgng_run-1_bold_calc_despike_tshift_resample_mcf_tstat_brain_mask_maths.nii.gz
201113-09:58:41,116 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-2.func_preproc_fsl_afni_mean_mcflirt_0.func_preproc_fsl_afni_mean_mcflirt_0_skullstrip.combine_masks".
201113-09:58:41,118 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-2.nuisance_regressor_0_0.GlobalSignal_merge_masks" in "/outputs/tmp/resting_preproc_sub-018_ses-2/nuisance_regressor_0_0/_scan_tgng_run-1/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/GlobalSignal_merge_masks".
201113-09:58:41,123 nipype.workflow INFO:
[Node] Running "GlobalSignal_merge_masks" ("nipype.interfaces.utility.base.Merge")
201113-09:58:41,353 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-2.nuisance_regressor_0_0.GlobalSignal_merge_masks".
201113-09:58:41,355 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-2.nuisance_regressor_0_0.GlobalSignal_union_masks" in "/outputs/tmp/resting_preproc_sub-018_ses-2/nuisance_regressor_0_0/_scan_tgng_run-1/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/GlobalSignal_union_masks".
201113-09:58:41,361 nipype.workflow INFO:
[Node] Running "GlobalSignal_union_masks" ("CPAC.utils.interfaces.masktool.MaskTool"), a CommandLine Interface with command:
3dmask_tool -prefix sub-018_ses-2_task-tgng_run-1_bold_calc_despike_tshift_resample_mcf_tstat_brain_mask_maths_mask.nii.gz -input /outputs/tmp/resting_preproc_sub-018_ses-2/nuisance_regressor_0_0/_scan_tgng_run-1/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/GlobalSignal_union_masks/sub-018_ses-2_task-tgng_run-1_bold_calc_despike_tshift_resample_mcf_tstat_brain_mask_maths.nii.gz
201113-09:58:41,609 nipype.interface INFO:
stderr 2020-11-13T09:58:41.608971:++ no -frac option: defaulting to -union
201113-09:58:41,609 nipype.interface INFO:
stderr 2020-11-13T09:58:41.609303:++ processing 1 input dataset(s), NN=2...
201113-09:58:41,609 nipype.interface INFO:
stderr 2020-11-13T09:58:41.609475:++ padding all datasets by 0 (for dilations)
201113-09:58:41,613 nipype.interface INFO:
stderr 2020-11-13T09:58:41.613849:++ frac 0 over 1 volumes gives min count 0
201113-09:58:41,614 nipype.interface INFO:
stderr 2020-11-13T09:58:41.614247:++ voxel limits: 0 clipped, 34860 survived, 104404 were zero
201113-09:58:41,614 nipype.interface INFO:
stderr 2020-11-13T09:58:41.614421:++ writing result sub-018_ses-2_task-tgng_run-1_bold_calc_despike_tshift_resample_mcf_tstat_brain_mask_maths_mask.nii.gz...
201113-09:58:41,618 nipype.interface INFO:
stderr 2020-11-13T09:58:41.618752:++ Output dataset ./sub-018_ses-2_task-tgng_run-1_bold_calc_despike_tshift_resample_mcf_tstat_brain_mask_maths_mask.nii.gz
201113-09:58:41,807 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-2.nuisance_regressor_0_0.GlobalSignal_union_masks".
201113-09:58:41,808 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-2.sinker_0_functional_brain_mask" in "/outputs/tmp/resting_preproc_sub-018_ses-2/_scan_tgng_run-1/sinker_0_functional_brain_mask".
201113-09:58:41,815 nipype.workflow INFO:
[Node] Running "sinker_0_functional_brain_mask" ("CPAC.utils.interfaces.datasink.DataSink")
201113-09:58:42,45 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-2.sinker_0_functional_brain_mask".
201113-09:58:42,47 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-2.functional_brain_mask_derivative_0" in "/outputs/tmp/resting_preproc_sub-018_ses-2/_scan_tgng_run-1/functional_brain_mask_derivative_0".
201113-09:58:42,51 nipype.workflow INFO:
[Node] Running "functional_brain_mask_derivative_0" ("CPAC.utils.interfaces.function.Function")
201113-09:58:42,260 nipype.workflow INFO:
[Node] Setting-up "functional_brain_mask_derivative" in "/outputs/tmp/resting_preproc_sub-018_ses-2/_scan_tgng_run-1/functional_brain_mask_derivative_0/functional_brain_mask_derivative".
201113-09:58:42,264 nipype.workflow INFO:
[Node] Running "functional_brain_mask_derivative" ("nipype.interfaces.afni.utils.Resample"), a CommandLine Interface with command:
3dresample -prefix sub-018_ses-2_task-tgng_run-1_bold_calc_despike_tshift_resample_mcf_tstat_brain_mask_maths_resample.nii.gz -rmode Cu -dxyz 2.000000 2.000000 2.000000 -inset /outputs/tmp/resting_preproc_sub-018_ses-2/_scan_tgng_run-1/functional_brain_mask_derivative_0/functional_brain_mask_derivative/sub-018_ses-2_task-tgng_run-1_bold_calc_despike_tshift_resample_mcf_tstat_brain_mask_maths.nii.gz
201113-09:58:42,789 nipype.workflow INFO:
[Node] Finished "functional_brain_mask_derivative".
201113-09:58:42,805 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-2.functional_brain_mask_derivative_0".
201113-09:58:42,807 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-2.func_preproc_fsl_afni_mean_mcflirt_0.func_preproc_fsl_afni_mean_mcflirt_0_skullstrip.func_extract_brain" in "/outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_fsl_afni_mean_mcflirt_0/func_preproc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_tgng_run-1/func_extract_brain".
201113-09:58:42,814 nipype.workflow INFO:
[Node] Running "func_extract_brain" ("nipype.interfaces.afni.utils.Calc"), a CommandLine Interface with command:
3dcalc -a /outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_fsl_afni_mean_mcflirt_0/_scan_tgng_run-1/func_motion_correct_mcflirt/sub-018_ses-2_task-tgng_run-1_bold_calc_despike_tshift_resample_mcf.nii.gz -b /outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_fsl_afni_mean_mcflirt_0/func_preproc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_tgng_run-1/combine_masks/sub-018_ses-2_task-tgng_run-1_bold_calc_despike_tshift_resample_mcf_tstat_brain_mask_maths.nii.gz -expr "a*b" -prefix sub-018_ses-2_task-tgng_run-1_bold_calc_despike_tshift_resample_mcf_calc.nii.gz
201113-09:58:43,64 nipype.interface INFO:
stderr 2020-11-13T09:58:43.064599:++ 3dcalc: AFNI version=AFNI_20.2.19 (Sep 27 2020) [64-bit]
201113-09:58:43,64 nipype.interface INFO:
stderr 2020-11-13T09:58:43.064956:++ Authored by: A cast of thousands
201113-09:58:46,115 nipype.interface INFO:
stderr 2020-11-13T09:58:46.115529:++ Output dataset ./sub-018_ses-2_task-tgng_run-1_bold_calc_despike_tshift_resample_mcf_calc.nii.gz
201113-09:58:46,308 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-2.func_preproc_fsl_afni_mean_mcflirt_0.func_preproc_fsl_afni_mean_mcflirt_0_skullstrip.func_extract_brain".
201113-09:58:46,309 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-2.func_preproc_fsl_afni_mean_mcflirt_0.func_normalize" in "/outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_fsl_afni_mean_mcflirt_0/_scan_tgng_run-1/func_normalize".
201113-09:58:46,315 nipype.workflow INFO:
[Node] Running "func_normalize" ("nipype.interfaces.fsl.utils.ImageMaths"), a CommandLine Interface with command:
fslmaths /outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_fsl_afni_mean_mcflirt_0/func_preproc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_tgng_run-1/func_extract_brain/sub-018_ses-2_task-tgng_run-1_bold_calc_despike_tshift_resample_mcf_calc.nii.gz -ing 10000 /outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_fsl_afni_mean_mcflirt_0/_scan_tgng_run-1/func_normalize/sub-018_ses-2_task-tgng_run-1_bold_calc_despike_tshift_resample_mcf_calc_maths.nii.gz -odt float
201113-09:58:48,592 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-2.func_preproc_fsl_afni_mean_mcflirt_0.func_normalize".
201113-09:58:48,593 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-2.nuisance_regressor_0_0.GlobalSignal_mean" in "/outputs/tmp/resting_preproc_sub-018_ses-2/nuisance_regressor_0_0/_scan_tgng_run-1/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/GlobalSignal_mean".
201113-09:58:48,599 nipype.workflow INFO:
[Node] Running "GlobalSignal_mean" ("nipype.interfaces.afni.preprocess.ROIStats"), a CommandLine Interface with command:
3dROIstats -mask /outputs/tmp/resting_preproc_sub-018_ses-2/nuisance_regressor_0_0/_scan_tgng_run-1/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/GlobalSignal_union_masks/sub-018_ses-2_task-tgng_run-1_bold_calc_despike_tshift_resample_mcf_tstat_brain_mask_maths_mask.nii.gz -1Dformat /outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_fsl_afni_mean_mcflirt_0/_scan_tgng_run-1/func_normalize/sub-018_ses-2_task-tgng_run-1_bold_calc_despike_tshift_resample_mcf_calc_maths.nii.gz
201113-09:58:49,499 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-2.nuisance_regressor_0_0.GlobalSignal_mean".
201113-09:58:49,501 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-2.nuisance_regressor_0_0.functional_mean" in "/outputs/tmp/resting_preproc_sub-018_ses-2/nuisance_regressor_0_0/_scan_tgng_run-1/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/functional_mean".
201113-09:58:49,507 nipype.workflow INFO:
[Node] Running "functional_mean" ("nipype.interfaces.afni.utils.TStat"), a CommandLine Interface with command:
3dTstat -mean -prefix sub-018_ses-2_task-tgng_run-1_bold_calc_despike_tshift_resample_mcf_calc_maths_tstat.nii.gz /outputs/tmp/resting_preproc_sub-018_ses-2/nuisance_regressor_0_0/_scan_tgng_run-1/_selector_WM-2mm-M-SDB_CSF-2mm-M-SDB_G-M-SDB_M-SDB_P-2_BP-B0.01-T0.08/functional_mean/sub-018_ses-2_task-tgng_run-1_bold_calc_despike_tshift_resample_mcf_calc_maths.nii.gz
201113-09:58:49,752 nipype.interface INFO:
stderr 2020-11-13T09:58:49.752532:++ 3dTstat: AFNI version=AFNI_20.2.19 (Sep 27 2020) [64-bit]
201113-09:58:49,752 nipype.interface INFO:
stderr 2020-11-13T09:58:49.752914:++ Authored by: KR Hammett & RW Cox
201113-09:58:50,318 nipype.interface INFO:
stderr 2020-11-13T09:58:50.318016:++ Output dataset ./sub-018_ses-2_task-tgng_run-1_bold_calc_despike_tshift_resample_mcf_calc_maths_tstat.nii.gz
201113-09:58:50,517 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-2.nuisance_regressor_0_0.functional_mean".
201113-09:58:50,519 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-2.qc_snr_0.std_dev" in "/outputs/tmp/resting_preproc_sub-018_ses-2/qc_snr_0/_scan_tgng_run-1/std_dev".
201113-09:58:50,525 nipype.workflow INFO:
[Node] Running "std_dev" ("nipype.interfaces.afni.utils.TStat"), a CommandLine Interface with command:
3dTstat -stdev -mask /outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_fsl_afni_mean_mcflirt_0/func_preproc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_tgng_run-1/combine_masks/sub-018_ses-2_task-tgng_run-1_bold_calc_despike_tshift_resample_mcf_tstat_brain_mask_maths.nii.gz -prefix sub-018_ses-2_task-tgng_run-1_bold_calc_despike_tshift_resample_mcf_calc_maths_tstat.nii.gz /outputs/tmp/resting_preproc_sub-018_ses-2/qc_snr_0/_scan_tgng_run-1/std_dev/sub-018_ses-2_task-tgng_run-1_bold_calc_despike_tshift_resample_mcf_calc_maths.nii.gz
201113-09:58:50,770 nipype.interface INFO:
stderr 2020-11-13T09:58:50.770484:++ 3dTstat: AFNI version=AFNI_20.2.19 (Sep 27 2020) [64-bit]
201113-09:58:50,770 nipype.interface INFO:
stderr 2020-11-13T09:58:50.770804:++ Authored by: KR Hammett & RW Cox
201113-09:58:51,282 nipype.interface INFO:
stderr 2020-11-13T09:58:51.282255:++ Output dataset ./sub-018_ses-2_task-tgng_run-1_bold_calc_despike_tshift_resample_mcf_calc_maths_tstat.nii.gz
201113-09:58:51,476 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-2.qc_snr_0.std_dev".
201113-09:58:51,478 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-2.sinker_0_functional_preprocessed" in "/outputs/tmp/resting_preproc_sub-018_ses-2/_scan_tgng_run-1/sinker_0_functional_preprocessed".
201113-09:58:51,485 nipype.workflow INFO:
[Node] Running "sinker_0_functional_preprocessed" ("CPAC.utils.interfaces.datasink.DataSink")
201113-09:58:51,716 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-2.sinker_0_functional_preprocessed".
201113-09:58:51,717 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-2.func_preproc_fsl_afni_mean_mcflirt_0.func_mask_normalize" in "/outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_fsl_afni_mean_mcflirt_0/_scan_tgng_run-1/func_mask_normalize".
201113-09:58:51,723 nipype.workflow INFO:
[Node] Running "func_mask_normalize" ("nipype.interfaces.fsl.utils.ImageMaths"), a CommandLine Interface with command:
fslmaths /outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_fsl_afni_mean_mcflirt_0/_scan_tgng_run-1/func_normalize/sub-018_ses-2_task-tgng_run-1_bold_calc_despike_tshift_resample_mcf_calc_maths.nii.gz -Tmin -bin /outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_fsl_afni_mean_mcflirt_0/_scan_tgng_run-1/func_mask_normalize/sub-018_ses-2_task-tgng_run-1_bold_calc_despike_tshift_resample_mcf_calc_maths_maths.nii.gz -odt char
201113-09:58:52,793 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-2.func_preproc_fsl_afni_mean_mcflirt_0.func_mask_normalize".
201113-09:58:52,794 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-2.sinker_0_functional_preprocessed_mask" in "/outputs/tmp/resting_preproc_sub-018_ses-2/_scan_tgng_run-1/sinker_0_functional_preprocessed_mask".
201113-09:58:52,801 nipype.workflow INFO:
[Node] Running "sinker_0_functional_preprocessed_mask" ("CPAC.utils.interfaces.datasink.DataSink")
201113-09:58:53,31 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-2.sinker_0_functional_preprocessed_mask".
201113-09:58:53,33 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-2.func_preproc_fsl_afni_mean_mcflirt_0.func_mean" in "/outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_fsl_afni_mean_mcflirt_0/_scan_tgng_run-1/func_mean".
201113-09:58:53,38 nipype.workflow INFO:
[Node] Running "func_mean" ("nipype.interfaces.afni.utils.TStat"), a CommandLine Interface with command:
3dTstat -mean -prefix sub-018_ses-2_task-tgng_run-1_bold_calc_despike_tshift_resample_mcf_calc_tstat.nii.gz /outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_fsl_afni_mean_mcflirt_0/_scan_tgng_run-1/func_mean/sub-018_ses-2_task-tgng_run-1_bold_calc_despike_tshift_resample_mcf_calc.nii.gz
201113-09:58:53,279 nipype.interface INFO:
stderr 2020-11-13T09:58:53.279596:++ 3dTstat: AFNI version=AFNI_20.2.19 (Sep 27 2020) [64-bit]
201113-09:58:53,279 nipype.interface INFO:
stderr 2020-11-13T09:58:53.279917:++ Authored by: KR Hammett & RW Cox
201113-09:58:53,840 nipype.interface INFO:
stderr 2020-11-13T09:58:53.840422:++ Output dataset ./sub-018_ses-2_task-tgng_run-1_bold_calc_despike_tshift_resample_mcf_calc_tstat.nii.gz
201113-09:58:54,59 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-2.func_preproc_fsl_afni_mean_mcflirt_0.func_mean".
201113-09:58:54,60 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-2.sinker_0_mean_functional" in "/outputs/tmp/resting_preproc_sub-018_ses-2/_scan_tgng_run-1/sinker_0_mean_functional".
201113-09:58:54,67 nipype.workflow INFO:
[Node] Running "sinker_0_mean_functional" ("CPAC.utils.interfaces.datasink.DataSink")
201113-09:58:54,295 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-2.sinker_0_mean_functional".
201113-09:58:54,297 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-2.func_preproc_fsl_afni_mean_mcflirt_0.norm_motion_params" in "/outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_fsl_afni_mean_mcflirt_0/_scan_tgng_run-1/norm_motion_params".
201113-09:58:54,302 nipype.workflow INFO:
[Node] Running "norm_motion_params" ("CPAC.utils.interfaces.function.Function")
201113-09:58:54,536 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-2.func_preproc_fsl_afni_mean_mcflirt_0.norm_motion_params".
201113-09:58:54,538 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-2.sinker_0_slice_time_corrected" in "/outputs/tmp/resting_preproc_sub-018_ses-2/_scan_tgng_run-1/sinker_0_slice_time_corrected".
201113-09:58:54,544 nipype.workflow INFO:
[Node] Running "sinker_0_slice_time_corrected" ("CPAC.utils.interfaces.datasink.DataSink")
201113-09:58:54,776 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-2.sinker_0_slice_time_corrected".
201113-09:58:54,778 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-2.sinker_0_raw_functional" in "/outputs/tmp/resting_preproc_sub-018_ses-2/_scan_tgng_run-1/sinker_0_raw_functional".
201113-09:58:54,784 nipype.workflow INFO:
[Node] Running "sinker_0_raw_functional" ("CPAC.utils.interfaces.datasink.DataSink")
201113-09:58:55,141 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-2.sinker_0_raw_functional".
201113-09:58:55,143 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-2.func_gather_0.check_func_scan" in "/outputs/tmp/resting_preproc_sub-018_ses-2/func_gather_0/_scan_tgng_run-1/check_func_scan".
201113-09:58:55,175 nipype.workflow INFO:
[Node] Running "check_func_scan" ("CPAC.utils.interfaces.function.Function")
201113-09:58:55,415 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-2.func_gather_0.check_func_scan".
201113-09:58:55,426 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-2.func_gather_0.select_scan_params" in "/outputs/tmp/resting_preproc_sub-018_ses-2/func_gather_0/_scan_rest_run-1/select_scan_params".
201113-09:58:55,452 nipype.workflow INFO:
[Node] Running "select_scan_params" ("CPAC.utils.interfaces.function.Function")
201113-09:58:55,690 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-2.func_gather_0.select_scan_params".
201113-09:58:55,701 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-2.func_gather_0.s3_scan_params" in "/outputs/tmp/resting_preproc_sub-018_ses-2/func_gather_0/_scan_rest_run-1/s3_scan_params".
201113-09:58:55,709 nipype.workflow INFO:
[Node] Running "s3_scan_params" ("CPAC.utils.interfaces.function.Function")
201113-09:58:55,938 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-2.func_gather_0.s3_scan_params".
201113-09:58:55,942 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-2.scan_params_0" in "/outputs/tmp/resting_preproc_sub-018_ses-2/_scan_rest_run-1/scan_params_0".
201113-09:58:55,950 nipype.workflow INFO:
[Node] Running "scan_params_0" ("CPAC.utils.interfaces.function.Function")
201113-09:58:56,179 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-2.scan_params_0".
201113-09:58:56,181 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-2.func_gather_0.selectrest" in "/outputs/tmp/resting_preproc_sub-018_ses-2/func_gather_0/_scan_rest_run-1/selectrest".
201113-09:58:56,212 nipype.workflow INFO:
[Node] Running "selectrest" ("CPAC.utils.interfaces.function.Function")
201113-09:58:56,451 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-2.func_gather_0.selectrest".
201113-09:58:56,461 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-2.func_gather_0.check_for_s3" in "/outputs/tmp/resting_preproc_sub-018_ses-2/func_gather_0/_scan_rest_run-1/check_for_s3".
201113-09:58:56,467 nipype.workflow INFO:
[Node] Running "check_for_s3" ("CPAC.utils.interfaces.function.Function")
201113-09:58:56,740 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-2.func_gather_0.check_for_s3".
201113-09:58:56,741 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-2.edit_func_0.func_get_idx" in "/outputs/tmp/resting_preproc_sub-018_ses-2/edit_func_0/_scan_rest_run-1/func_get_idx".
201113-09:58:56,747 nipype.workflow INFO:
[Node] Running "func_get_idx" ("nipype.interfaces.utility.wrappers.Function")
201113-09:58:56,978 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-2.edit_func_0.func_get_idx".
201113-09:58:56,979 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-2.edit_func_0.func_drop_trs" in "/outputs/tmp/resting_preproc_sub-018_ses-2/edit_func_0/_scan_rest_run-1/func_drop_trs".
201113-09:58:56,985 nipype.workflow INFO:
[Node] Running "func_drop_trs" ("nipype.interfaces.afni.utils.Calc"), a CommandLine Interface with command:
3dcalc -a /bids_dataset/sub-018/ses-2/func/sub-018_ses-2_task-rest_run-1_bold.nii.gz[0..179] -expr "a" -prefix sub-018_ses-2_task-rest_run-1_bold_calc.nii.gz
201113-09:58:57,238 nipype.interface INFO:
stderr 2020-11-13T09:58:57.238004:++ 3dcalc: AFNI version=AFNI_20.2.19 (Sep 27 2020) [64-bit]
201113-09:58:57,238 nipype.interface INFO:
stderr 2020-11-13T09:58:57.238387:++ Authored by: A cast of thousands
201113-09:59:05,409 nipype.interface INFO:
stderr 2020-11-13T09:59:05.409604:++ Output dataset ./sub-018_ses-2_task-rest_run-1_bold_calc.nii.gz
201113-09:59:05,630 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-2.edit_func_0.func_drop_trs".
201113-09:59:05,631 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-2.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_deoblique" in "/outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/_scan_rest_run-1/func_deoblique".
201113-09:59:05,680 nipype.workflow INFO:
[Node] Running "func_deoblique" ("nipype.interfaces.afni.utils.Refit"), a CommandLine Interface with command:
3drefit -deoblique /outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/_scan_rest_run-1/func_deoblique/sub-018_ses-2_task-rest_run-1_bold_calc.nii.gz
201113-09:59:05,926 nipype.interface INFO:
stderr 2020-11-13T09:59:05.926662:++ 3drefit: AFNI version=AFNI_20.2.19 (Sep 27 2020) [64-bit]
201113-09:59:05,927 nipype.interface INFO:
stderr 2020-11-13T09:59:05.927010:++ Authored by: RW Cox
201113-09:59:05,938 nipype.interface INFO:
stderr 2020-11-13T09:59:05.938832:++ Processing AFNI dataset /outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/_scan_rest_run-1/func_deoblique/sub-018_ses-2_task-rest_run-1_bold_calc.nii.gz
201113-09:59:05,940 nipype.interface INFO:
stderr 2020-11-13T09:59:05.940024: + deoblique
201113-09:59:05,940 nipype.interface INFO:
stderr 2020-11-13T09:59:05.940318: + loading and re-writing dataset /outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/_scan_rest_run-1/func_deoblique/sub-018_ses-2_task-rest_run-1_bold_calc.nii.gz (/outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/_scan_rest_run-1/func_deoblique/sub-018_ses-2_task-rest_run-1_bold_calc.nii.gz in NIFTI storage)
201113-09:59:11,627 nipype.interface INFO:
stderr 2020-11-13T09:59:11.627687:++ 3drefit processed 1 datasets
201113-09:59:11,813 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-2.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_deoblique".
201113-09:59:11,815 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-2.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_reorient" in "/outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/_scan_rest_run-1/func_reorient".
201113-09:59:11,821 nipype.workflow INFO:
[Node] Running "func_reorient" ("nipype.interfaces.afni.utils.Resample"), a CommandLine Interface with command:
3dresample -orient RPI -prefix sub-018_ses-2_task-rest_run-1_bold_calc_resample.nii.gz -inset /outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/_scan_rest_run-1/func_reorient/sub-018_ses-2_task-rest_run-1_bold_calc.nii.gz
201113-09:59:18,268 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-2.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_reorient".
201113-09:59:18,270 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-2.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_get_mean_RPI" in "/outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/_scan_rest_run-1/func_get_mean_RPI".
201113-09:59:18,277 nipype.workflow INFO:
[Node] Running "func_get_mean_RPI" ("nipype.interfaces.afni.utils.TStat"), a CommandLine Interface with command:
3dTstat -mean -prefix sub-018_ses-2_task-rest_run-1_bold_calc_resample_tstat.nii.gz /outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/_scan_rest_run-1/func_get_mean_RPI/sub-018_ses-2_task-rest_run-1_bold_calc_resample.nii.gz
201113-09:59:18,522 nipype.interface INFO:
stderr 2020-11-13T09:59:18.522493:++ 3dTstat: AFNI version=AFNI_20.2.19 (Sep 27 2020) [64-bit]
201113-09:59:18,522 nipype.interface INFO:
stderr 2020-11-13T09:59:18.522836:++ Authored by: KR Hammett & RW Cox
201113-09:59:19,86 nipype.interface INFO:
stderr 2020-11-13T09:59:19.086103:++ Output dataset ./sub-018_ses-2_task-rest_run-1_bold_calc_resample_tstat.nii.gz
201113-09:59:19,272 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-2.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_get_mean_RPI".
201113-09:59:19,273 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-2.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_generate_ref" in "/outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/_scan_rest_run-1/func_generate_ref".
201113-09:59:19,281 nipype.workflow INFO:
[Node] Running "func_generate_ref" ("nipype.interfaces.afni.preprocess.Volreg"), a CommandLine Interface with command:
3dvolreg -twopass -Fourier -1Dfile sub-018_ses-2_task-rest_run-1_bold_calc_resample.1D -1Dmatrix_save sub-018_ses-2_task-rest_run-1_bold_calc_resample.aff12.1D -prefix sub-018_ses-2_task-rest_run-1_bold_calc_resample_volreg.nii.gz -base /outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/_scan_rest_run-1/func_get_mean_RPI/sub-018_ses-2_task-rest_run-1_bold_calc_resample_tstat.nii.gz -zpad 4 -maxdisp1D sub-018_ses-2_task-rest_run-1_bold_calc_resample_md.1D /outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/_scan_rest_run-1/func_generate_ref/sub-018_ses-2_task-rest_run-1_bold_calc_resample.nii.gz
201113-09:59:19,531 nipype.interface INFO:
stderr 2020-11-13T09:59:19.531521:++ 3dvolreg: AFNI version=AFNI_20.2.19 (Sep 27 2020) [64-bit]
201113-09:59:19,531 nipype.interface INFO:
stderr 2020-11-13T09:59:19.531945:++ Authored by: RW Cox
201113-09:59:19,544 nipype.interface INFO:
stderr 2020-11-13T09:59:19.544775:++ Coarse del was 10, replaced with 3
201113-10:01:45,162 nipype.interface INFO:
stderr 2020-11-13T10:01:45.162005:++ Max displacement in automask = 13.72 (mm) at sub-brick 150
201113-10:01:45,162 nipype.interface INFO:
stderr 2020-11-13T10:01:45.162582:++ Max delta displ in automask = 15.14 (mm) at sub-brick 71
201113-10:01:50,671 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-2.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_generate_ref".
201113-10:01:50,673 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-2.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_get_mean_motion" in "/outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/_scan_rest_run-1/func_get_mean_motion".
201113-10:01:50,680 nipype.workflow INFO:
[Node] Running "func_get_mean_motion" ("nipype.interfaces.afni.utils.TStat"), a CommandLine Interface with command:
3dTstat -mean -prefix sub-018_ses-2_task-rest_run-1_bold_calc_resample_volreg_tstat.nii.gz /outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/_scan_rest_run-1/func_get_mean_motion/sub-018_ses-2_task-rest_run-1_bold_calc_resample_volreg.nii.gz
201113-10:01:50,944 nipype.interface INFO:
stderr 2020-11-13T10:01:50.944031:++ 3dTstat: AFNI version=AFNI_20.2.19 (Sep 27 2020) [64-bit]
201113-10:01:50,944 nipype.interface INFO:
stderr 2020-11-13T10:01:50.944916:++ Authored by: KR Hammett & RW Cox
201113-10:01:51,519 nipype.interface INFO:
stderr 2020-11-13T10:01:51.519152:++ Output dataset ./sub-018_ses-2_task-rest_run-1_bold_calc_resample_volreg_tstat.nii.gz
201113-10:01:51,706 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-2.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_get_mean_motion".
201113-10:01:51,707 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-2.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_motion_correct_mcflirt" in "/outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/_scan_rest_run-1/func_motion_correct_mcflirt".
201113-10:01:51,714 nipype.workflow INFO:
[Node] Running "func_motion_correct_mcflirt" ("nipype.interfaces.fsl.preprocess.MCFLIRT"), a CommandLine Interface with command:
mcflirt -in /outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/_scan_rest_run-1/func_reorient/sub-018_ses-2_task-rest_run-1_bold_calc_resample.nii.gz -out /outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/_scan_rest_run-1/func_motion_correct_mcflirt/sub-018_ses-2_task-rest_run-1_bold_calc_resample_mcf.nii.gz -reffile /outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/_scan_rest_run-1/func_get_mean_motion/sub-018_ses-2_task-rest_run-1_bold_calc_resample_volreg_tstat.nii.gz -mats -plots -rmsabs -rmsrel
201113-10:02:37,114 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-2.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_motion_correct_mcflirt".
201113-10:02:37,125 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-2.gen_motion_stats_before_stc_fsl_afni_mean_mcflirt_0.calculate_FDJ" in "/outputs/tmp/resting_preproc_sub-018_ses-2/gen_motion_stats_before_stc_fsl_afni_mean_mcflirt_0/_scan_rest_run-1/calculate_FDJ".
201113-10:02:37,131 nipype.workflow INFO:
[Node] Running "calculate_FDJ" ("CPAC.utils.interfaces.function.Function")
201113-10:02:37,360 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-2.gen_motion_stats_before_stc_fsl_afni_mean_mcflirt_0.calculate_FDJ".
201113-10:02:37,362 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-2.sinker_0_frame_wise_displacement_jenkinson" in "/outputs/tmp/resting_preproc_sub-018_ses-2/_scan_rest_run-1/sinker_0_frame_wise_displacement_jenkinson".
201113-10:02:37,370 nipype.workflow INFO:
[Node] Running "sinker_0_frame_wise_displacement_jenkinson" ("CPAC.utils.interfaces.datasink.DataSink")
201113-10:02:37,596 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-2.sinker_0_frame_wise_displacement_jenkinson".
201113-10:02:37,598 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-2.sinker_0_max_displacement" in "/outputs/tmp/resting_preproc_sub-018_ses-2/_scan_rest_run-1/sinker_0_max_displacement".
201113-10:02:37,607 nipype.workflow INFO:
[Node] Running "sinker_0_max_displacement" ("CPAC.utils.interfaces.datasink.DataSink")
201113-10:02:37,836 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-2.sinker_0_max_displacement".
201113-10:02:37,838 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-2.sinker_0_coordinate_transformation" in "/outputs/tmp/resting_preproc_sub-018_ses-2/_scan_rest_run-1/sinker_0_coordinate_transformation".
201113-10:02:37,863 nipype.workflow INFO:
[Node] Running "sinker_0_coordinate_transformation" ("CPAC.utils.interfaces.datasink.DataSink")
201113-10:02:38,143 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-2.sinker_0_coordinate_transformation".
201113-10:02:38,157 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-2.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip.func_mean_skull" in "/outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_rest_run-1/func_mean_skull".
201113-10:02:38,164 nipype.workflow INFO:
[Node] Running "func_mean_skull" ("nipype.interfaces.afni.utils.TStat"), a CommandLine Interface with command:
3dTstat -mean -prefix sub-018_ses-2_task-rest_run-1_bold_calc_resample_mcf_tstat.nii.gz /outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_rest_run-1/func_mean_skull/sub-018_ses-2_task-rest_run-1_bold_calc_resample_mcf.nii.gz
201113-10:02:38,423 nipype.interface INFO:
stderr 2020-11-13T10:02:38.423334:++ 3dTstat: AFNI version=AFNI_20.2.19 (Sep 27 2020) [64-bit]
201113-10:02:38,423 nipype.interface INFO:
stderr 2020-11-13T10:02:38.423833:++ Authored by: KR Hammett & RW Cox
201113-10:02:39,50 nipype.interface INFO:
stderr 2020-11-13T10:02:39.050215:++ Output dataset ./sub-018_ses-2_task-rest_run-1_bold_calc_resample_mcf_tstat.nii.gz
201113-10:02:39,242 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-2.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip.func_mean_skull".
201113-10:02:39,243 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-2.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip.skullstrip_first_pass" in "/outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_rest_run-1/skullstrip_first_pass".
201113-10:02:39,249 nipype.workflow INFO:
[Node] Running "skullstrip_first_pass" ("nipype.interfaces.fsl.preprocess.BET"), a CommandLine Interface with command:
bet /outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_rest_run-1/func_mean_skull/sub-018_ses-2_task-rest_run-1_bold_calc_resample_mcf_tstat.nii.gz /outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_rest_run-1/skullstrip_first_pass/sub-018_ses-2_task-rest_run-1_bold_calc_resample_mcf_tstat_brain.nii.gz -f 0.20 -m
201113-10:02:41,103 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-2.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip.skullstrip_first_pass".
201113-10:02:41,104 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-2.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip.skullstrip_first_dilate" in "/outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_rest_run-1/skullstrip_first_dilate".
201113-10:02:41,110 nipype.workflow INFO:
[Node] Running "skullstrip_first_dilate" ("nipype.interfaces.fsl.maths.DilateImage"), a CommandLine Interface with command:
fslmaths -dt char /outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_rest_run-1/skullstrip_first_pass/sub-018_ses-2_task-rest_run-1_bold_calc_resample_mcf_tstat_brain_mask.nii.gz -kernel sphere 6.0000 -dilF /outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_rest_run-1/skullstrip_first_dilate/sub-018_ses-2_task-rest_run-1_bold_calc_resample_mcf_tstat_brain_mask_dil.nii.gz
201113-10:02:41,672 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-2.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip.skullstrip_first_dilate".
201113-10:02:41,673 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-2.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip.skullstrip_first_mask" in "/outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_rest_run-1/skullstrip_first_mask".
201113-10:02:41,679 nipype.workflow INFO:
[Node] Running "skullstrip_first_mask" ("nipype.interfaces.fsl.maths.ApplyMask"), a CommandLine Interface with command:
fslmaths /outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_rest_run-1/skullstrip_first_pass/sub-018_ses-2_task-rest_run-1_bold_calc_resample_mcf_tstat_brain.nii.gz -mas /outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_rest_run-1/skullstrip_first_dilate/sub-018_ses-2_task-rest_run-1_bold_calc_resample_mcf_tstat_brain_mask_dil.nii.gz /outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_rest_run-1/skullstrip_first_mask/sub-018_ses-2_task-rest_run-1_bold_calc_resample_mcf_tstat_brain_masked.nii.gz
201113-10:02:42,129 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-2.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip.skullstrip_first_mask".
201113-10:02:42,131 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-2.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip.unifize" in "/outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_rest_run-1/unifize".
201113-10:02:42,136 nipype.workflow INFO:
[Node] Running "unifize" ("nipype.interfaces.afni.utils.Unifize"), a CommandLine Interface with command:
3dUnifize -clfrac 0.2 -rbt 18.3 65.0 90.0 -prefix uni.nii.gz -T2 -input /outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_rest_run-1/unifize/sub-018_ses-2_task-rest_run-1_bold_calc_resample_mcf_tstat_brain_masked.nii.gz
201113-10:02:42,390 nipype.interface INFO:
stderr 2020-11-13T10:02:42.390229:++ 3dUnifize: AFNI version=AFNI_20.2.19 (Sep 27 2020) [64-bit]
201113-10:03:35,398 nipype.interface INFO:
stderr 2020-11-13T10:03:35.398398: + Pre-processing: IAV..UW[s3133]Im
201113-10:03:35,410 nipype.interface INFO:
stderr 2020-11-13T10:03:35.409995:++ Output dataset ./uni.nii.gz
201113-10:03:35,410 nipype.interface INFO:
stderr 2020-11-13T10:03:35.410280:++ ===== Elapsed = 53.0 sec
201113-10:03:35,626 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-2.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip.unifize".
201113-10:03:35,628 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-2.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip.skullstrip_second_pass" in "/outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_rest_run-1/skullstrip_second_pass".
201113-10:03:35,634 nipype.workflow INFO:
[Node] Running "skullstrip_second_pass" ("nipype.interfaces.afni.preprocess.Automask"), a CommandLine Interface with command:
3dAutomask -apply_prefix uni_masked.nii.gz -dilate 1 -prefix uni_mask.nii.gz /outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_rest_run-1/skullstrip_second_pass/uni.nii.gz
201113-10:03:35,886 nipype.interface INFO:
stderr 2020-11-13T10:03:35.886272:++ 3dAutomask: AFNI version=AFNI_20.2.19 (Sep 27 2020) [64-bit]
201113-10:03:35,886 nipype.interface INFO:
stderr 2020-11-13T10:03:35.886954:++ Authored by: Emperor Zhark
201113-10:03:35,889 nipype.interface INFO:
stderr 2020-11-13T10:03:35.889391:++ Loading dataset /outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_rest_run-1/skullstrip_second_pass/uni.nii.gz
201113-10:03:35,894 nipype.interface INFO:
stderr 2020-11-13T10:03:35.894415:++ Forming automask
201113-10:03:35,896 nipype.interface INFO:
stderr 2020-11-13T10:03:35.896362: + Fixed clip level = 487.968842
201113-10:03:35,900 nipype.interface INFO:
stderr 2020-11-13T10:03:35.900365: + Used gradual clip level = 437.359619 .. 548.325439
201113-10:03:35,900 nipype.interface INFO:
stderr 2020-11-13T10:03:35.900627: + Number voxels above clip level = 16385
201113-10:03:35,900 nipype.interface INFO:
stderr 2020-11-13T10:03:35.900817: + Clustering voxels ...
201113-10:03:35,901 nipype.interface INFO:
stderr 2020-11-13T10:03:35.901846: + Largest cluster has 16377 voxels
201113-10:03:35,903 nipype.interface INFO:
stderr 2020-11-13T10:03:35.903411: + Clustering voxels ...
201113-10:03:35,904 nipype.interface INFO:
stderr 2020-11-13T10:03:35.904671: + Largest cluster has 16203 voxels
201113-10:03:35,908 nipype.interface INFO:
stderr 2020-11-13T10:03:35.908009: + Filled 266 voxels in small holes; now have 16469 voxels
201113-10:03:35,909 nipype.interface INFO:
stderr 2020-11-13T10:03:35.909919: + Clustering voxels ...
201113-10:03:35,910 nipype.interface INFO:
stderr 2020-11-13T10:03:35.910714: + Largest cluster has 16469 voxels
201113-10:03:35,910 nipype.interface INFO:
stderr 2020-11-13T10:03:35.910939: + Clustering non-brain voxels ...
201113-10:03:35,911 nipype.interface INFO:
stderr 2020-11-13T10:03:35.911083: + Clustering voxels ...
201113-10:03:35,914 nipype.interface INFO:
stderr 2020-11-13T10:03:35.914184: + Largest cluster has 118699 voxels
201113-10:03:35,914 nipype.interface INFO:
stderr 2020-11-13T10:03:35.914517: + Mask now has 16469 voxels
201113-10:03:35,914 nipype.interface INFO:
stderr 2020-11-13T10:03:35.914671:++ Dilating automask
201113-10:03:35,919 nipype.interface INFO:
stderr 2020-11-13T10:03:35.919121: + Clustering voxels ...
201113-10:03:35,921 nipype.interface INFO:
stderr 2020-11-13T10:03:35.921673: + Largest cluster has 114824 voxels
201113-10:03:35,922 nipype.interface INFO:
stderr 2020-11-13T10:03:35.921997:++ 20344 voxels in the mask [out of 135168: 15.05%]
201113-10:03:35,922 nipype.interface INFO:
stderr 2020-11-13T10:03:35.922170:++ first 13 x-planes are zero [from R]
201113-10:03:35,922 nipype.interface INFO:
stderr 2020-11-13T10:03:35.922335:++ last 12 x-planes are zero [from L]
201113-10:03:35,922 nipype.interface INFO:
stderr 2020-11-13T10:03:35.922482:++ first 4 y-planes are zero [from P]
201113-10:03:35,922 nipype.interface INFO:
stderr 2020-11-13T10:03:35.922639:++ last 13 y-planes are zero [from A]
201113-10:03:35,922 nipype.interface INFO:
stderr 2020-11-13T10:03:35.922777:++ first 2 z-planes are zero [from I]
201113-10:03:35,922 nipype.interface INFO:
stderr 2020-11-13T10:03:35.922922:++ last 5 z-planes are zero [from S]
201113-10:03:35,927 nipype.interface INFO:
stderr 2020-11-13T10:03:35.927167:++ Output dataset ./uni_mask.nii.gz
201113-10:03:35,927 nipype.interface INFO:
stderr 2020-11-13T10:03:35.927380:++ applying mask to original data
201113-10:03:35,928 nipype.interface INFO:
stderr 2020-11-13T10:03:35.928213:++ Writing masked data
201113-10:03:35,938 nipype.interface INFO:
stderr 2020-11-13T10:03:35.938322:++ Output dataset ./uni_masked.nii.gz
201113-10:03:35,938 nipype.interface INFO:
stderr 2020-11-13T10:03:35.938645:++ CPU time = 0.000000 sec
201113-10:03:36,127 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-2.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip.skullstrip_second_pass".
201113-10:03:36,129 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-2.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip.combine_masks" in "/outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_rest_run-1/combine_masks".
201113-10:03:36,135 nipype.workflow INFO:
[Node] Running "combine_masks" ("nipype.interfaces.fsl.maths.BinaryMaths"), a CommandLine Interface with command:
fslmaths /outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_rest_run-1/skullstrip_first_pass/sub-018_ses-2_task-rest_run-1_bold_calc_resample_mcf_tstat_brain_mask.nii.gz -mul /outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_rest_run-1/skullstrip_second_pass/uni_mask.nii.gz /outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_rest_run-1/combine_masks/sub-018_ses-2_task-rest_run-1_bold_calc_resample_mcf_tstat_brain_mask_maths.nii.gz
201113-10:03:36,576 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-2.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip.combine_masks".
201113-10:03:36,578 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-2.gen_motion_stats_before_stc_fsl_afni_mean_mcflirt_0.cal_DVARS" in "/outputs/tmp/resting_preproc_sub-018_ses-2/gen_motion_stats_before_stc_fsl_afni_mean_mcflirt_0/_scan_rest_run-1/cal_DVARS".
201113-10:03:36,585 nipype.workflow INFO:
[Node] Running "cal_DVARS" ("CPAC.utils.interfaces.function.Function")
201113-10:03:37,347 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-2.gen_motion_stats_before_stc_fsl_afni_mean_mcflirt_0.cal_DVARS".
201113-10:03:37,349 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-2.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip.func_extract_brain" in "/outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_rest_run-1/func_extract_brain".
201113-10:03:37,357 nipype.workflow INFO:
[Node] Running "func_extract_brain" ("nipype.interfaces.afni.utils.Calc"), a CommandLine Interface with command:
3dcalc -a /outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/_scan_rest_run-1/func_motion_correct_mcflirt/sub-018_ses-2_task-rest_run-1_bold_calc_resample_mcf.nii.gz -b /outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_rest_run-1/combine_masks/sub-018_ses-2_task-rest_run-1_bold_calc_resample_mcf_tstat_brain_mask_maths.nii.gz -expr "a*b" -prefix sub-018_ses-2_task-rest_run-1_bold_calc_resample_mcf_calc.nii.gz
201113-10:03:37,601 nipype.interface INFO:
stderr 2020-11-13T10:03:37.601919:++ 3dcalc: AFNI version=AFNI_20.2.19 (Sep 27 2020) [64-bit]
201113-10:03:37,602 nipype.interface INFO:
stderr 2020-11-13T10:03:37.602244:++ Authored by: A cast of thousands
201113-10:03:40,898 nipype.interface INFO:
stderr 2020-11-13T10:03:40.898004:++ Output dataset ./sub-018_ses-2_task-rest_run-1_bold_calc_resample_mcf_calc.nii.gz
201113-10:03:41,118 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-2.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip.func_extract_brain".
201113-10:03:41,119 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-2.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_normalize" in "/outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/_scan_rest_run-1/func_normalize".
201113-10:03:41,125 nipype.workflow INFO:
[Node] Running "func_normalize" ("nipype.interfaces.fsl.utils.ImageMaths"), a CommandLine Interface with command:
fslmaths /outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/func_preproc_before_stc_fsl_afni_mean_mcflirt_0_skullstrip/_scan_rest_run-1/func_extract_brain/sub-018_ses-2_task-rest_run-1_bold_calc_resample_mcf_calc.nii.gz -ing 10000 /outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/_scan_rest_run-1/func_normalize/sub-018_ses-2_task-rest_run-1_bold_calc_resample_mcf_calc_maths.nii.gz -odt float
201113-10:03:43,319 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-2.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_normalize".
201113-10:03:43,321 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-2.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_mask_normalize" in "/outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/_scan_rest_run-1/func_mask_normalize".
201113-10:03:43,327 nipype.workflow INFO:
[Node] Running "func_mask_normalize" ("nipype.interfaces.fsl.utils.ImageMaths"), a CommandLine Interface with command:
fslmaths /outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/_scan_rest_run-1/func_normalize/sub-018_ses-2_task-rest_run-1_bold_calc_resample_mcf_calc_maths.nii.gz -Tmin -bin /outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/_scan_rest_run-1/func_mask_normalize/sub-018_ses-2_task-rest_run-1_bold_calc_resample_mcf_calc_maths_maths.nii.gz -odt char
201113-10:03:44,606 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-2.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_mask_normalize".
201113-10:03:44,608 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-2.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_mean" in "/outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/_scan_rest_run-1/func_mean".
201113-10:03:44,613 nipype.workflow INFO:
[Node] Running "func_mean" ("nipype.interfaces.afni.utils.TStat"), a CommandLine Interface with command:
3dTstat -mean -prefix sub-018_ses-2_task-rest_run-1_bold_calc_resample_mcf_calc_tstat.nii.gz /outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/_scan_rest_run-1/func_mean/sub-018_ses-2_task-rest_run-1_bold_calc_resample_mcf_calc.nii.gz
201113-10:03:44,858 nipype.interface INFO:
stderr 2020-11-13T10:03:44.858694:++ 3dTstat: AFNI version=AFNI_20.2.19 (Sep 27 2020) [64-bit]
201113-10:03:44,859 nipype.interface INFO:
stderr 2020-11-13T10:03:44.859014:++ Authored by: KR Hammett & RW Cox
201113-10:03:45,220 nipype.interface INFO:
stderr 2020-11-13T10:03:45.220806:++ Output dataset ./sub-018_ses-2_task-rest_run-1_bold_calc_resample_mcf_calc_tstat.nii.gz
201113-10:03:45,428 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-2.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.func_mean".
201113-10:03:45,430 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-2.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.norm_motion_params" in "/outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_before_stc_fsl_afni_mean_mcflirt_0/_scan_rest_run-1/norm_motion_params".
201113-10:03:45,437 nipype.workflow INFO:
[Node] Running "norm_motion_params" ("CPAC.utils.interfaces.function.Function")
201113-10:03:45,669 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-2.func_preproc_before_stc_fsl_afni_mean_mcflirt_0.norm_motion_params".
201113-10:03:45,670 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-2.qc_motion_0.motion_plot" in "/outputs/tmp/resting_preproc_sub-018_ses-2/qc_motion_0/_scan_rest_run-1/motion_plot".
201113-10:03:45,676 nipype.workflow INFO:
[Node] Running "motion_plot" ("CPAC.utils.interfaces.function.Function")
201113-10:03:46,122 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-2.qc_motion_0.motion_plot".
201113-10:03:46,123 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-2.sinker_0_qc___movement_trans_plot" in "/outputs/tmp/resting_preproc_sub-018_ses-2/_scan_rest_run-1/sinker_0_qc___movement_trans_plot".
201113-10:03:46,130 nipype.workflow INFO:
[Node] Running "sinker_0_qc___movement_trans_plot" ("CPAC.utils.interfaces.datasink.DataSink")
201113-10:03:46,341 nipype.interface INFO:
sub: /outputs/output/pipeline_cpac_fmriprep-options/sub-018_ses-2/qc___movement_trans_plot/_scan_rest_run-1/motion_trans_plot.png -> /outputs/output/pipeline_cpac_fmriprep-options/sub-018_ses-2/qc/movement_trans_plot/_scan_rest_run-1/motion_trans_plot.png
201113-10:03:46,360 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-2.sinker_0_qc___movement_trans_plot".
201113-10:03:46,362 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-2.sinker_0_qc___movement_rot_plot" in "/outputs/tmp/resting_preproc_sub-018_ses-2/_scan_rest_run-1/sinker_0_qc___movement_rot_plot".
201113-10:03:46,369 nipype.workflow INFO:
[Node] Running "sinker_0_qc___movement_rot_plot" ("CPAC.utils.interfaces.datasink.DataSink")
201113-10:03:46,579 nipype.interface INFO:
sub: /outputs/output/pipeline_cpac_fmriprep-options/sub-018_ses-2/qc___movement_rot_plot/_scan_rest_run-1/motion_rot_plot.png -> /outputs/output/pipeline_cpac_fmriprep-options/sub-018_ses-2/qc/movement_rot_plot/_scan_rest_run-1/motion_rot_plot.png
201113-10:03:46,596 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-2.sinker_0_qc___movement_rot_plot".
201113-10:03:46,598 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-2.gen_motion_stats_before_stc_fsl_afni_mean_mcflirt_0.calc_motion_parameters" in "/outputs/tmp/resting_preproc_sub-018_ses-2/gen_motion_stats_before_stc_fsl_afni_mean_mcflirt_0/_scan_rest_run-1/calc_motion_parameters".
201113-10:03:46,605 nipype.workflow INFO:
[Node] Running "calc_motion_parameters" ("CPAC.utils.interfaces.function.Function")
201113-10:03:46,839 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-2.gen_motion_stats_before_stc_fsl_afni_mean_mcflirt_0.calc_motion_parameters".
201113-10:03:46,840 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-2.sinker_0_motion_params" in "/outputs/tmp/resting_preproc_sub-018_ses-2/_scan_rest_run-1/sinker_0_motion_params".
201113-10:03:46,846 nipype.workflow INFO:
[Node] Running "sinker_0_motion_params" ("CPAC.utils.interfaces.datasink.DataSink")
201113-10:03:47,76 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-2.sinker_0_motion_params".
201113-10:03:47,78 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-2.gen_motion_stats_before_stc_fsl_afni_mean_mcflirt_0.calculate_FD" in "/outputs/tmp/resting_preproc_sub-018_ses-2/gen_motion_stats_before_stc_fsl_afni_mean_mcflirt_0/_scan_rest_run-1/calculate_FD".
201113-10:03:47,82 nipype.workflow INFO:
[Node] Running "calculate_FD" ("CPAC.utils.interfaces.function.Function")
201113-10:03:47,319 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-2.gen_motion_stats_before_stc_fsl_afni_mean_mcflirt_0.calculate_FD".
201113-10:03:47,320 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-2.sinker_0_frame_wise_displacement_power" in "/outputs/tmp/resting_preproc_sub-018_ses-2/_scan_rest_run-1/sinker_0_frame_wise_displacement_power".
201113-10:03:47,327 nipype.workflow INFO:
[Node] Running "sinker_0_frame_wise_displacement_power" ("CPAC.utils.interfaces.datasink.DataSink")
201113-10:03:47,558 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-2.sinker_0_frame_wise_displacement_power".
201113-10:03:47,560 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-2.gen_motion_stats_before_stc_fsl_afni_mean_mcflirt_0.calc_power_parameters" in "/outputs/tmp/resting_preproc_sub-018_ses-2/gen_motion_stats_before_stc_fsl_afni_mean_mcflirt_0/_scan_rest_run-1/calc_power_parameters".
201113-10:03:47,566 nipype.workflow INFO:
[Node] Running "calc_power_parameters" ("CPAC.utils.interfaces.function.Function")
201113-10:03:47,800 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-2.gen_motion_stats_before_stc_fsl_afni_mean_mcflirt_0.calc_power_parameters".
201113-10:03:47,802 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-2.sinker_0_power_params" in "/outputs/tmp/resting_preproc_sub-018_ses-2/_scan_rest_run-1/sinker_0_power_params".
201113-10:03:47,808 nipype.workflow INFO:
[Node] Running "sinker_0_power_params" ("CPAC.utils.interfaces.datasink.DataSink")
201113-10:03:48,40 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-2.sinker_0_power_params".
201113-10:03:48,42 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-2.sinker_0_movement_parameters" in "/outputs/tmp/resting_preproc_sub-018_ses-2/_scan_rest_run-1/sinker_0_movement_parameters".
201113-10:03:48,49 nipype.workflow INFO:
[Node] Running "sinker_0_movement_parameters" ("CPAC.utils.interfaces.datasink.DataSink")
201113-10:03:48,280 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-2.sinker_0_movement_parameters".
201113-10:03:48,281 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-2.func_despiked_0" in "/outputs/tmp/resting_preproc_sub-018_ses-2/_scan_rest_run-1/func_despiked_0".
201113-10:03:48,288 nipype.workflow INFO:
[Node] Running "func_despiked_0" ("nipype.interfaces.afni.preprocess.Despike"), a CommandLine Interface with command:
3dDespike -prefix sub-018_ses-2_task-rest_run-1_bold_calc_despike.nii.gz /outputs/tmp/resting_preproc_sub-018_ses-2/_scan_rest_run-1/func_despiked_0/sub-018_ses-2_task-rest_run-1_bold_calc.nii.gz
201113-10:03:48,551 nipype.interface INFO:
stderr 2020-11-13T10:03:48.551243:++ 3dDespike: AFNI version=AFNI_20.2.19 (Sep 27 2020) [64-bit]
201113-10:03:48,551 nipype.interface INFO:
stderr 2020-11-13T10:03:48.551626:++ Authored by: RW Cox
201113-10:03:48,553 nipype.interface INFO:
stderr 2020-11-13T10:03:48.553907:[7m*+ WARNING:[0m If you are performing spatial transformations on an oblique dset,
201113-10:03:48,554 nipype.interface INFO:
stderr 2020-11-13T10:03:48.553907: such as /outputs/tmp/resting_preproc_sub-018_ses-2/_scan_rest_run-1/func_despiked_0/sub-018_ses-2_task-rest_run-1_bold_calc.nii.gz,
201113-10:03:48,554 nipype.interface INFO:
stderr 2020-11-13T10:03:48.553907: or viewing/combining it with volumes of differing obliquity,
201113-10:03:48,554 nipype.interface INFO:
stderr 2020-11-13T10:03:48.553907: you should consider running:
201113-10:03:48,554 nipype.interface INFO:
stderr 2020-11-13T10:03:48.553907: 3dWarp -deoblique
201113-10:03:48,554 nipype.interface INFO:
stderr 2020-11-13T10:03:48.553907: on this and other oblique datasets in the same session.
201113-10:03:48,554 nipype.interface INFO:
stderr 2020-11-13T10:03:48.553907: See 3dWarp -help for details.
201113-10:03:48,554 nipype.interface INFO:
stderr 2020-11-13T10:03:48.554744:++ Oblique dataset:/outputs/tmp/resting_preproc_sub-018_ses-2/_scan_rest_run-1/func_despiked_0/sub-018_ses-2_task-rest_run-1_bold_calc.nii.gz is 30.348724 degrees from plumb.
201113-10:03:48,554 nipype.interface INFO:
stderr 2020-11-13T10:03:48.554926:++ Input dataset is in short format, but output will be in float format
201113-10:03:48,555 nipype.interface INFO:
stderr 2020-11-13T10:03:48.555091:++ ignoring first 0 time points, using last 180
201113-10:03:48,555 nipype.interface INFO:
stderr 2020-11-13T10:03:48.555253:++ using 180 time points => -corder 6
201113-10:03:48,555 nipype.interface INFO:
stderr 2020-11-13T10:03:48.555411:++ Loading dataset /outputs/tmp/resting_preproc_sub-018_ses-2/_scan_rest_run-1/func_despiked_0/sub-018_ses-2_task-rest_run-1_bold_calc.nii.gz
201113-10:03:49,143 nipype.interface INFO:
stderr 2020-11-13T10:03:49.143258:++ 18784 voxels in the automask [out of 135168 in dataset]
201113-10:03:49,149 nipype.interface INFO:
stderr 2020-11-13T10:03:49.149405:++ 36289 voxels in the dilated automask [out of 135168 in dataset]
201113-10:03:49,164 nipype.interface INFO:
stderr 2020-11-13T10:03:49.164475:++ Procesing time series with OLD model fit algorithm
201113-10:03:49,164 nipype.interface INFO:
stderr 2020-11-13T10:03:49.164683:++ smash edit thresholds: 3.1 .. 5.0 MADs
201113-10:03:49,164 nipype.interface INFO:
stderr 2020-11-13T10:03:49.164844: + [ 3.457% .. 0.072% of normal distribution]
201113-10:03:49,165 nipype.interface INFO:
stderr 2020-11-13T10:03:49.164997: + [ 8.839% .. 3.125% of Laplace distribution]
201113-10:03:49,165 nipype.interface INFO:
stderr 2020-11-13T10:03:49.165154:++ start OpenMP thread #0
201113-10:03:56,756 nipype.interface INFO:
stderr 2020-11-13T10:03:56.756706:.............
201113-10:03:56,757 nipype.interface INFO:
stderr 2020-11-13T10:03:56.757007:++ Elapsed despike time = 7s 591ms
201113-10:03:56,757 nipype.interface INFO:
stderr 2020-11-13T10:03:56.757154:
201113-10:03:56,758 nipype.interface INFO:
stderr 2020-11-13T10:03:56.758293:++ FINAL: 6532020 data points, 832390 edits [12.743%], 325240 big edits [4.979%]
201113-10:04:00,24 nipype.interface INFO:
stderr 2020-11-13T10:04:00.024126:++ Output dataset ./sub-018_ses-2_task-rest_run-1_bold_calc_despike.nii.gz
201113-10:04:00,238 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-2.func_despiked_0".
201113-10:04:00,239 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-2.func_slice_timing_correction_0.slice_timing" in "/outputs/tmp/resting_preproc_sub-018_ses-2/func_slice_timing_correction_0/_scan_rest_run-1/slice_timing".
201113-10:04:00,248 nipype.interface WARNING:
Passing a file prefixed by "@" will be deprecated; please use the `slice_timing` input
201113-10:04:00,249 nipype.workflow INFO:
[Node] Running "slice_timing" ("nipype.interfaces.afni.preprocess.TShift"), a CommandLine Interface with command:
3dTshift -prefix sub-018_ses-2_task-rest_run-1_bold_calc_despike_tshift.nii.gz -tpattern @/outputs/tmp/resting_preproc_sub-018_ses-2/_scan_rest_run-1/scan_params_0/tpattern.txt -TR 2.0s /outputs/tmp/resting_preproc_sub-018_ses-2/func_slice_timing_correction_0/_scan_rest_run-1/slice_timing/sub-018_ses-2_task-rest_run-1_bold_calc_despike.nii.gz
201113-10:04:00,459 nipype.interface WARNING:
Passing a file prefixed by "@" will be deprecated; please use the `slice_timing` input
201113-10:04:00,495 nipype.interface INFO:
stderr 2020-11-13T10:04:00.495651:++ 3dTshift: AFNI version=AFNI_20.2.19 (Sep 27 2020) [64-bit]
201113-10:04:00,498 nipype.interface INFO:
stderr 2020-11-13T10:04:00.498810:[7m*+ WARNING:[0m If you are performing spatial transformations on an oblique dset,
201113-10:04:00,499 nipype.interface INFO:
stderr 2020-11-13T10:04:00.498810: such as /outputs/tmp/resting_preproc_sub-018_ses-2/func_slice_timing_correction_0/_scan_rest_run-1/slice_timing/sub-018_ses-2_task-rest_run-1_bold_calc_despike.nii.gz,
201113-10:04:00,499 nipype.interface INFO:
stderr 2020-11-13T10:04:00.498810: or viewing/combining it with volumes of differing obliquity,
201113-10:04:00,499 nipype.interface INFO:
stderr 2020-11-13T10:04:00.498810: you should consider running:
201113-10:04:00,499 nipype.interface INFO:
stderr 2020-11-13T10:04:00.498810: 3dWarp -deoblique
201113-10:04:00,499 nipype.interface INFO:
stderr 2020-11-13T10:04:00.498810: on this and other oblique datasets in the same session.
201113-10:04:00,499 nipype.interface INFO:
stderr 2020-11-13T10:04:00.498810: See 3dWarp -help for details.
201113-10:04:00,499 nipype.interface INFO:
stderr 2020-11-13T10:04:00.499889:++ Oblique dataset:/outputs/tmp/resting_preproc_sub-018_ses-2/func_slice_timing_correction_0/_scan_rest_run-1/slice_timing/sub-018_ses-2_task-rest_run-1_bold_calc_despike.nii.gz is 30.348724 degrees from plumb.
201113-10:04:05,237 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-2.func_slice_timing_correction_0.slice_timing".
201113-10:04:05,239 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-2.func_preproc_fsl_afni_mean_mcflirt_0.func_deoblique" in "/outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_fsl_afni_mean_mcflirt_0/_scan_rest_run-1/func_deoblique".
201113-10:04:05,290 nipype.workflow INFO:
[Node] Running "func_deoblique" ("nipype.interfaces.afni.utils.Refit"), a CommandLine Interface with command:
3drefit -deoblique /outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_fsl_afni_mean_mcflirt_0/_scan_rest_run-1/func_deoblique/sub-018_ses-2_task-rest_run-1_bold_calc_despike_tshift.nii.gz
201113-10:04:05,538 nipype.interface INFO:
stderr 2020-11-13T10:04:05.538258:++ 3drefit: AFNI version=AFNI_20.2.19 (Sep 27 2020) [64-bit]
201113-10:04:05,538 nipype.interface INFO:
stderr 2020-11-13T10:04:05.538635:++ Authored by: RW Cox
201113-10:04:05,540 nipype.interface INFO:
stderr 2020-11-13T10:04:05.540827:++ Processing AFNI dataset /outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_fsl_afni_mean_mcflirt_0/_scan_rest_run-1/func_deoblique/sub-018_ses-2_task-rest_run-1_bold_calc_despike_tshift.nii.gz
201113-10:04:05,541 nipype.interface INFO:
stderr 2020-11-13T10:04:05.541437: + deoblique
201113-10:04:05,541 nipype.interface INFO:
stderr 2020-11-13T10:04:05.541631: + loading and re-writing dataset /outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_fsl_afni_mean_mcflirt_0/_scan_rest_run-1/func_deoblique/sub-018_ses-2_task-rest_run-1_bold_calc_despike_tshift.nii.gz (/outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_fsl_afni_mean_mcflirt_0/_scan_rest_run-1/func_deoblique/sub-018_ses-2_task-rest_run-1_bold_calc_despike_tshift.nii.gz in NIFTI storage)
201113-10:04:07,801 nipype.interface INFO:
stderr 2020-11-13T10:04:07.801784:++ 3drefit processed 1 datasets
201113-10:04:07,989 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-2.func_preproc_fsl_afni_mean_mcflirt_0.func_deoblique".
201113-10:04:07,991 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-2.func_preproc_fsl_afni_mean_mcflirt_0.func_reorient" in "/outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_fsl_afni_mean_mcflirt_0/_scan_rest_run-1/func_reorient".
201113-10:04:07,998 nipype.workflow INFO:
[Node] Running "func_reorient" ("nipype.interfaces.afni.utils.Resample"), a CommandLine Interface with command:
3dresample -orient RPI -prefix sub-018_ses-2_task-rest_run-1_bold_calc_despike_tshift_resample.nii.gz -inset /outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_fsl_afni_mean_mcflirt_0/_scan_rest_run-1/func_reorient/sub-018_ses-2_task-rest_run-1_bold_calc_despike_tshift.nii.gz
201113-10:04:10,967 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-2.func_preproc_fsl_afni_mean_mcflirt_0.func_reorient".
201113-10:04:10,968 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-2.func_preproc_fsl_afni_mean_mcflirt_0.func_get_mean_RPI" in "/outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_fsl_afni_mean_mcflirt_0/_scan_rest_run-1/func_get_mean_RPI".
201113-10:04:10,975 nipype.workflow INFO:
[Node] Running "func_get_mean_RPI" ("nipype.interfaces.afni.utils.TStat"), a CommandLine Interface with command:
3dTstat -mean -prefix sub-018_ses-2_task-rest_run-1_bold_calc_despike_tshift_resample_tstat.nii.gz /outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_fsl_afni_mean_mcflirt_0/_scan_rest_run-1/func_get_mean_RPI/sub-018_ses-2_task-rest_run-1_bold_calc_despike_tshift_resample.nii.gz
201113-10:04:11,245 nipype.interface INFO:
stderr 2020-11-13T10:04:11.244906:++ 3dTstat: AFNI version=AFNI_20.2.19 (Sep 27 2020) [64-bit]
201113-10:04:11,245 nipype.interface INFO:
stderr 2020-11-13T10:04:11.245325:++ Authored by: KR Hammett & RW Cox
201113-10:04:11,967 nipype.interface INFO:
stderr 2020-11-13T10:04:11.967417:++ Output dataset ./sub-018_ses-2_task-rest_run-1_bold_calc_despike_tshift_resample_tstat.nii.gz
201113-10:04:12,160 nipype.workflow INFO:
[Node] Finished "resting_preproc_sub-018_ses-2.func_preproc_fsl_afni_mean_mcflirt_0.func_get_mean_RPI".
201113-10:04:12,162 nipype.workflow INFO:
[Node] Setting-up "resting_preproc_sub-018_ses-2.func_preproc_fsl_afni_mean_mcflirt_0.func_generate_ref" in "/outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_fsl_afni_mean_mcflirt_0/_scan_rest_run-1/func_generate_ref".
201113-10:04:12,169 nipype.workflow INFO:
[Node] Running "func_generate_ref" ("nipype.interfaces.afni.preprocess.Volreg"), a CommandLine Interface with command:
3dvolreg -twopass -Fourier -1Dfile sub-018_ses-2_task-rest_run-1_bold_calc_despike_tshift_resample.1D -1Dmatrix_save sub-018_ses-2_task-rest_run-1_bold_calc_despike_tshift_resample.aff12.1D -prefix sub-018_ses-2_task-rest_run-1_bold_calc_despike_tshift_resample_volreg.nii.gz -base /outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_fsl_afni_mean_mcflirt_0/_scan_rest_run-1/func_get_mean_RPI/sub-018_ses-2_task-rest_run-1_bold_calc_despike_tshift_resample_tstat.nii.gz -zpad 4 -maxdisp1D sub-018_ses-2_task-rest_run-1_bold_calc_despike_tshift_resample_md.1D /outputs/tmp/resting_preproc_sub-018_ses-2/func_preproc_fsl_afni_mean_mcflirt_0/_scan_rest_run-1/func_generate_ref/sub-018_ses-2_task-rest_run-1_bold_calc_despike_tshift_resample.nii.gz
201113-10:04:12,413 nipype.interface INFO:
stderr 2020-11-13T10:04:12.413076:++ 3dvolreg: AFNI version=AFNI_20.2.19 (Sep 27 2020) [64-bit]
201113-10:04:12,413 nipype.interface INFO:
stderr 2020-11-13T10:04:12.413391:++ Authored by: RW Cox
201113-10:04:12,420 nipype.interface INFO:
stderr 2020-11-13T10:04:12.420553:++ Coarse del was 10, replaced with 3
slurmstepd: error: *** JOB 22509337 ON node095 CANCELLED AT 2020-11-13T10:05:20 DUE TO TIME LIMIT ***