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1: [WARN] The recommended file /README is missing. See Section 03 (Modality agnostic files) of the BIDS specification. (code: 101 - README_FILE_MISSING)
 Please visit https://neurostars.org/search?q=README_FILE_MISSING for existing conversations about this issue.
Summary: Available Tasks: Available Modalities:
15 Files, 425.93MB Stroop T1w
1 - Subject T2w
1 - Session bold
events
sbref
fieldmap
 If you have any questions, please post on https://neurostars.org/tags/bids.
Making sure the input data is BIDS compliant (warnings can be ignored in most cases).
200323-10:29:30,897 nipype.workflow IMPORTANT:
Running fMRIPREP version 1.5.9:
* BIDS dataset path: /data.
* Participant list: ['01'].
* Run identifier: 20200323-102930_3c270d77-4be6-4757-ac12-9a7c370612af.
200323-10:29:31,405 nipype.utils INFO:
No new version available.
200323-10:29:33,381 nipype.workflow IMPORTANT:
Creating bold processing workflow for "/data/sub-01/ses-01/func/sub-01_ses-01_task-Stroop_run-01_bold.nii.gz" (0.37 GB / 540 TRs). Memory resampled/largemem=1.49/3.50 GB.
200323-10:29:33,408 nipype.workflow IMPORTANT:
Using single-band reference file sub-01_ses-01_task-Stroop_run-01_sbref.nii.gz
200323-10:29:35,776 nipype.workflow IMPORTANT:
Slice-timing correction will be included.
200323-10:29:36,995 nipype.workflow IMPORTANT:
Creating BOLD surface-sampling workflow.
200323-10:29:41,768 nipype.workflow IMPORTANT:
Works derived from this fMRIPrep execution should include the following boilerplate:
Results included in this manuscript come from preprocessing
performed using *fMRIPrep* 1.5.9
(@fmriprep1; @fmriprep2; RRID:SCR_016216),
which is based on *Nipype* 1.4.2
(@nipype1; @nipype2; RRID:SCR_002502).
Anatomical data preprocessing
: The T1-weighted (T1w) image was corrected for intensity non-uniformity (INU)
with `N4BiasFieldCorrection` [@n4], distributed with ANTs 2.2.0 [@ants, RRID:SCR_004757], and used as T1w-reference throughout the workflow.
The T1w-reference was then skull-stripped with a *Nipype* implementation of
the `antsBrainExtraction.sh` workflow (from ANTs), using OASIS30ANTs
as target template.
Brain tissue segmentation of cerebrospinal fluid (CSF),
white-matter (WM) and gray-matter (GM) was performed on
the brain-extracted T1w using `fast` [FSL 5.0.9, RRID:SCR_002823,
@fsl_fast].
Brain surfaces were reconstructed using `recon-all` [FreeSurfer 6.0.1,
RRID:SCR_001847, @fs_reconall], and the brain mask estimated
previously was refined with a custom variation of the method to reconcile
ANTs-derived and FreeSurfer-derived segmentations of the cortical
gray-matter of Mindboggle [RRID:SCR_002438, @mindboggle].
Volume-based spatial normalization to one standard space (MNI152NLin2009cAsym) was performed through
nonlinear registration with `antsRegistration` (ANTs 2.2.0),
using brain-extracted versions of both T1w reference and the T1w template.
The following template was selected for spatial normalization:
*ICBM 152 Nonlinear Asymmetrical template version 2009c* [@mni152nlin2009casym, RRID:SCR_008796; TemplateFlow ID: MNI152NLin2009cAsym].
Functional data preprocessing
: For each of the 1 BOLD runs found per subject (across all
tasks and sessions), the following preprocessing was performed.
First, a reference volume and its skull-stripped version were generated
using a custom methodology of *fMRIPrep*.
A B0-nonuniformity map (or *fieldmap*) was estimated based on two (or more)
echo-planar imaging (EPI) references with opposing phase-encoding
directions, with `3dQwarp` @afni (AFNI 20160207).
Based on the estimated susceptibility distortion, a corrected
EPI (echo-planar imaging) reference was calculated for a more
accurate co-registration with the anatomical reference.
The BOLD reference was then co-registered to the T1w reference using
`bbregister` (FreeSurfer) which implements boundary-based registration [@bbr].
Co-registration was configured with six degrees of freedom.
Head-motion parameters with respect to the BOLD reference
(transformation matrices, and six corresponding rotation and translation
parameters) are estimated before any spatiotemporal filtering using
`mcflirt` [FSL 5.0.9, @mcflirt].
BOLD runs were slice-time corrected using `3dTshift` from
AFNI 20160207 [@afni, RRID:SCR_005927].
The BOLD time-series, were resampled to surfaces on the following
spaces: *fsaverage5*.
*Grayordinates* files [@hcppipelines], which combine surface-sampled
data and volume-sampled data, were also generated.
The BOLD time-series (including slice-timing correction when applied)
were resampled onto their original, native space by applying
a single, composite transform to correct for head-motion and
susceptibility distortions.
These resampled BOLD time-series will be referred to as *preprocessed
BOLD in original space*, or just *preprocessed BOLD*.
The BOLD time-series were resampled into standard space,
generating a *preprocessed BOLD run in ['MNI152NLin2009cAsym'] space*.
First, a reference volume and its skull-stripped version were generated
using a custom methodology of *fMRIPrep*.
Several confounding time-series were calculated based on the
*preprocessed BOLD*: framewise displacement (FD), DVARS and
three region-wise global signals.
FD and DVARS are calculated for each functional run, both using their
implementations in *Nipype* [following the definitions by @power_fd_dvars].
The three global signals are extracted within the CSF, the WM, and
the whole-brain masks.
Additionally, a set of physiological regressors were extracted to
allow for component-based noise correction [*CompCor*, @compcor].
Principal components are estimated after high-pass filtering the
*preprocessed BOLD* time-series (using a discrete cosine filter with
128s cut-off) for the two *CompCor* variants: temporal (tCompCor)
and anatomical (aCompCor).
tCompCor components are then calculated from the top 5% variable
voxels within a mask covering the subcortical regions.
This subcortical mask is obtained by heavily eroding the brain mask,
which ensures it does not include cortical GM regions.
For aCompCor, components are calculated within the intersection of
the aforementioned mask and the union of CSF and WM masks calculated
in T1w space, after their projection to the native space of each
functional run (using the inverse BOLD-to-T1w transformation). Components
are also calculated separately within the WM and CSF masks.
For each CompCor decomposition, the *k* components with the largest singular
values are retained, such that the retained components' time series are
sufficient to explain 50 percent of variance across the nuisance mask (CSF,
WM, combined, or temporal). The remaining components are dropped from
consideration.
The head-motion estimates calculated in the correction step were also
placed within the corresponding confounds file.
The confound time series derived from head motion estimates and global
signals were expanded with the inclusion of temporal derivatives and
quadratic terms for each [@confounds_satterthwaite_2013].
Frames that exceeded a threshold of 0.5 mm FD or 1.5 standardised DVARS
were annotated as motion outliers.
All resamplings can be performed with *a single interpolation
step* by composing all the pertinent transformations (i.e. head-motion
transform matrices, susceptibility distortion correction when available,
and co-registrations to anatomical and output spaces).
Gridded (volumetric) resamplings were performed using `antsApplyTransforms` (ANTs),
configured with Lanczos interpolation to minimize the smoothing
effects of other kernels [@lanczos].
Non-gridded (surface) resamplings were performed using `mri_vol2surf`
(FreeSurfer).
Many internal operations of *fMRIPrep* use
*Nilearn* 0.6.1 [@nilearn, RRID:SCR_001362],
mostly within the functional processing workflow.
For more details of the pipeline, see [the section corresponding
to workflows in *fMRIPrep*'s documentation](https://fmriprep.readthedocs.io/en/latest/workflows.html "FMRIPrep's documentation").
### Copyright Waiver
The above boilerplate text was automatically generated by fMRIPrep
with the express intention that users should copy and paste this
text into their manuscripts *unchanged*.
It is released under the [CC0](https://creativecommons.org/publicdomain/zero/1.0/) license.
### References
200323-10:34:06,343 nipype.workflow INFO:
[Node] Setting-up "fmriprep_wf.single_subject_01_wf.anat_preproc_wf.surface_recon_wf.autorecon1" in "/gpfs/scratchfs1/jac18015/hw5/work/fmriprep_wf/single_subject_01_wf/anat_preproc_wf/surface_recon_wf/autorecon1".
200323-10:34:06,360 nipype.interface INFO:
recon-all complete : Not running
200323-10:34:06,360 nipype.workflow INFO:
[Node] Running "autorecon1" ("smriprep.interfaces.freesurfer.ReconAll"), a CommandLine Interface with command:
echo recon-all: nothing to do
200323-10:34:06,362 nipype.interface INFO:
recon-all complete : Not running
200323-10:34:06,476 nipype.workflow INFO:
[Node] Finished "fmriprep_wf.single_subject_01_wf.anat_preproc_wf.surface_recon_wf.autorecon1".
200323-10:34:09,782 nipype.workflow INFO:
[Node] Setting-up "fmriprep_wf.single_subject_01_wf.anat_preproc_wf.surface_recon_wf.skull_strip_extern" in "/gpfs/scratchfs1/jac18015/hw5/work/fmriprep_wf/single_subject_01_wf/anat_preproc_wf/surface_recon_wf/skull_strip_extern".
200323-10:34:09,790 nipype.workflow INFO:
[Node] Running "skull_strip_extern" ("niworkflows.interfaces.freesurfer.FSInjectBrainExtracted")
200323-10:34:09,794 nipype.workflow INFO:
[Node] Finished "fmriprep_wf.single_subject_01_wf.anat_preproc_wf.surface_recon_wf.skull_strip_extern".
200323-10:34:16,64 nipype.workflow INFO:
[Node] Setting-up "fmriprep_wf.single_subject_01_wf.anat_preproc_wf.surface_recon_wf.autorecon_resume_wf.autorecon2_vol" in "/gpfs/scratchfs1/jac18015/hw5/work/fmriprep_wf/single_subject_01_wf/anat_preproc_wf/surface_recon_wf/autorecon_resume_wf/autorecon2_vol".
200323-10:34:16,74 nipype.interface INFO:
recon-all complete : Not running
200323-10:34:16,74 nipype.workflow INFO:
[Node] Running "autorecon2_vol" ("smriprep.interfaces.freesurfer.ReconAll"), a CommandLine Interface with command:
echo recon-all: nothing to do
200323-10:34:16,76 nipype.interface INFO:
recon-all complete : Not running
200323-10:34:16,168 nipype.workflow INFO:
[Node] Finished "fmriprep_wf.single_subject_01_wf.anat_preproc_wf.surface_recon_wf.autorecon_resume_wf.autorecon2_vol".
200323-10:34:19,937 nipype.workflow INFO:
[Node] Setting-up "_autorecon_surfs0" in "/gpfs/scratchfs1/jac18015/hw5/work/fmriprep_wf/single_subject_01_wf/anat_preproc_wf/surface_recon_wf/autorecon_resume_wf/autorecon_surfs/mapflow/_autorecon_surfs0".
200323-10:34:19,946 nipype.interface INFO:
recon-all complete : Not running
200323-10:34:19,946 nipype.workflow INFO:
[Node] Running "_autorecon_surfs0" ("smriprep.interfaces.freesurfer.ReconAll"), a CommandLine Interface with command:
echo recon-all: nothing to do
200323-10:34:19,948 nipype.interface INFO:
recon-all complete : Not running
200323-10:34:20,33 nipype.workflow INFO:
[Node] Finished "_autorecon_surfs0".
200323-10:34:20,287 nipype.workflow INFO:
[Node] Setting-up "_autorecon_surfs1" in "/gpfs/scratchfs1/jac18015/hw5/work/fmriprep_wf/single_subject_01_wf/anat_preproc_wf/surface_recon_wf/autorecon_resume_wf/autorecon_surfs/mapflow/_autorecon_surfs1".
200323-10:34:20,296 nipype.interface INFO:
recon-all complete : Not running
200323-10:34:20,296 nipype.workflow INFO:
[Node] Running "_autorecon_surfs1" ("smriprep.interfaces.freesurfer.ReconAll"), a CommandLine Interface with command:
echo recon-all: nothing to do
200323-10:34:20,298 nipype.interface INFO:
recon-all complete : Not running
200323-10:34:20,369 nipype.workflow INFO:
[Node] Finished "_autorecon_surfs1".
200323-10:34:22,444 nipype.workflow INFO:
[Node] Setting-up "fmriprep_wf.single_subject_01_wf.anat_preproc_wf.surface_recon_wf.autorecon_resume_wf.autorecon_surfs" in "/gpfs/scratchfs1/jac18015/hw5/work/fmriprep_wf/single_subject_01_wf/anat_preproc_wf/surface_recon_wf/autorecon_resume_wf/autorecon_surfs".
200323-10:34:22,452 nipype.workflow INFO:
[Node] Setting-up "_autorecon_surfs0" in "/gpfs/scratchfs1/jac18015/hw5/work/fmriprep_wf/single_subject_01_wf/anat_preproc_wf/surface_recon_wf/autorecon_resume_wf/autorecon_surfs/mapflow/_autorecon_surfs0".
200323-10:34:22,456 nipype.interface INFO:
recon-all complete : Not running
200323-10:34:22,457 nipype.workflow INFO:
[Node] Running "_autorecon_surfs0" ("smriprep.interfaces.freesurfer.ReconAll"), a CommandLine Interface with command:
echo recon-all: nothing to do
200323-10:34:22,458 nipype.interface INFO:
recon-all complete : Not running
200323-10:34:22,544 nipype.workflow INFO:
[Node] Finished "_autorecon_surfs0".
200323-10:34:22,546 nipype.workflow INFO:
[Node] Setting-up "_autorecon_surfs1" in "/gpfs/scratchfs1/jac18015/hw5/work/fmriprep_wf/single_subject_01_wf/anat_preproc_wf/surface_recon_wf/autorecon_resume_wf/autorecon_surfs/mapflow/_autorecon_surfs1".
200323-10:34:22,550 nipype.interface INFO:
recon-all complete : Not running
200323-10:34:22,550 nipype.workflow INFO:
[Node] Running "_autorecon_surfs1" ("smriprep.interfaces.freesurfer.ReconAll"), a CommandLine Interface with command:
echo recon-all: nothing to do
200323-10:34:22,552 nipype.interface INFO:
recon-all complete : Not running
200323-10:34:22,621 nipype.workflow INFO:
[Node] Finished "_autorecon_surfs1".
200323-10:34:22,625 nipype.workflow INFO:
[Node] Finished "fmriprep_wf.single_subject_01_wf.anat_preproc_wf.surface_recon_wf.autorecon_resume_wf.autorecon_surfs".
200323-10:34:24,295 nipype.workflow INFO:
[Node] Setting-up "fmriprep_wf.single_subject_01_wf.anat_preproc_wf.surface_recon_wf.autorecon_resume_wf.cortribbon" in "/gpfs/scratchfs1/jac18015/hw5/work/fmriprep_wf/single_subject_01_wf/anat_preproc_wf/surface_recon_wf/autorecon_resume_wf/cortribbon".
200323-10:34:24,306 nipype.interface INFO:
recon-all complete : Not running
200323-10:34:24,306 nipype.workflow INFO:
[Node] Running "cortribbon" ("smriprep.interfaces.freesurfer.ReconAll"), a CommandLine Interface with command:
echo recon-all: nothing to do
200323-10:34:24,308 nipype.interface INFO:
recon-all complete : Not running
200323-10:34:24,381 nipype.workflow INFO:
[Node] Finished "fmriprep_wf.single_subject_01_wf.anat_preproc_wf.surface_recon_wf.autorecon_resume_wf.cortribbon".
200323-10:34:28,292 nipype.workflow INFO:
[Node] Setting-up "_parcstats0" in "/gpfs/scratchfs1/jac18015/hw5/work/fmriprep_wf/single_subject_01_wf/anat_preproc_wf/surface_recon_wf/autorecon_resume_wf/parcstats/mapflow/_parcstats0".
200323-10:34:28,303 nipype.interface INFO:
recon-all complete : Not running
200323-10:34:28,303 nipype.workflow INFO:
[Node] Running "_parcstats0" ("smriprep.interfaces.freesurfer.ReconAll"), a CommandLine Interface with command:
echo recon-all: nothing to do
200323-10:34:28,304 nipype.interface INFO:
recon-all complete : Not running
200323-10:34:28,374 nipype.workflow INFO:
[Node] Finished "_parcstats0".
200323-10:34:30,297 nipype.workflow INFO:
[Node] Setting-up "_parcstats1" in "/gpfs/scratchfs1/jac18015/hw5/work/fmriprep_wf/single_subject_01_wf/anat_preproc_wf/surface_recon_wf/autorecon_resume_wf/parcstats/mapflow/_parcstats1".
200323-10:34:30,308 nipype.interface INFO:
recon-all complete : Not running
200323-10:34:30,309 nipype.workflow INFO:
[Node] Running "_parcstats1" ("smriprep.interfaces.freesurfer.ReconAll"), a CommandLine Interface with command:
echo recon-all: nothing to do
200323-10:34:30,310 nipype.interface INFO:
recon-all complete : Not running
200323-10:34:30,381 nipype.workflow INFO:
[Node] Finished "_parcstats1".
200323-10:34:32,303 nipype.workflow INFO:
[Node] Setting-up "fmriprep_wf.single_subject_01_wf.anat_preproc_wf.surface_recon_wf.autorecon_resume_wf.parcstats" in "/gpfs/scratchfs1/jac18015/hw5/work/fmriprep_wf/single_subject_01_wf/anat_preproc_wf/surface_recon_wf/autorecon_resume_wf/parcstats".
200323-10:34:32,314 nipype.workflow INFO:
[Node] Setting-up "_parcstats0" in "/gpfs/scratchfs1/jac18015/hw5/work/fmriprep_wf/single_subject_01_wf/anat_preproc_wf/surface_recon_wf/autorecon_resume_wf/parcstats/mapflow/_parcstats0".
200323-10:34:32,318 nipype.interface INFO:
recon-all complete : Not running
200323-10:34:32,319 nipype.workflow INFO:
[Node] Running "_parcstats0" ("smriprep.interfaces.freesurfer.ReconAll"), a CommandLine Interface with command:
echo recon-all: nothing to do
200323-10:34:32,320 nipype.interface INFO:
recon-all complete : Not running
200323-10:34:32,390 nipype.workflow INFO:
[Node] Finished "_parcstats0".
200323-10:34:32,392 nipype.workflow INFO:
[Node] Setting-up "_parcstats1" in "/gpfs/scratchfs1/jac18015/hw5/work/fmriprep_wf/single_subject_01_wf/anat_preproc_wf/surface_recon_wf/autorecon_resume_wf/parcstats/mapflow/_parcstats1".
200323-10:34:32,396 nipype.interface INFO:
recon-all complete : Not running
200323-10:34:32,396 nipype.workflow INFO:
[Node] Running "_parcstats1" ("smriprep.interfaces.freesurfer.ReconAll"), a CommandLine Interface with command:
echo recon-all: nothing to do
200323-10:34:32,398 nipype.interface INFO:
recon-all complete : Not running
200323-10:34:32,464 nipype.workflow INFO:
[Node] Finished "_parcstats1".
200323-10:34:32,467 nipype.workflow INFO:
[Node] Finished "fmriprep_wf.single_subject_01_wf.anat_preproc_wf.surface_recon_wf.autorecon_resume_wf.parcstats".
200323-10:34:34,301 nipype.workflow INFO:
[Node] Setting-up "fmriprep_wf.single_subject_01_wf.anat_preproc_wf.surface_recon_wf.autorecon_resume_wf.autorecon3" in "/gpfs/scratchfs1/jac18015/hw5/work/fmriprep_wf/single_subject_01_wf/anat_preproc_wf/surface_recon_wf/autorecon_resume_wf/autorecon3".
200323-10:34:34,316 nipype.interface INFO:
recon-all complete : Not running
200323-10:34:34,317 nipype.workflow INFO:
[Node] Running "autorecon3" ("smriprep.interfaces.freesurfer.ReconAll"), a CommandLine Interface with command:
echo recon-all: nothing to do
200323-10:34:34,318 nipype.interface INFO:
recon-all complete : Not running
200323-10:34:34,393 nipype.workflow INFO:
[Node] Finished "fmriprep_wf.single_subject_01_wf.anat_preproc_wf.surface_recon_wf.autorecon_resume_wf.autorecon3".
200323-10:34:36,305 nipype.workflow INFO:
[Node] Setting-up "fmriprep_wf.single_subject_01_wf.anat_preproc_wf.anat_reports_wf.recon_report" in "/gpfs/scratchfs1/jac18015/hw5/work/fmriprep_wf/single_subject_01_wf/anat_preproc_wf/anat_reports_wf/recon_report".
200323-10:34:36,310 nipype.workflow INFO:
[Node] Setting-up "fmriprep_wf.single_subject_01_wf.anat_preproc_wf.surface_recon_wf.segs_to_native_aparc_aseg.fs_datasource" in "/gpfs/scratchfs1/jac18015/hw5/work/fmriprep_wf/single_subject_01_wf/anat_preproc_wf/surface_recon_wf/segs_to_native_aparc_aseg/fs_datasource".
200323-10:34:36,312 nipype.workflow INFO:
[Node] Setting-up "fmriprep_wf.single_subject_01_wf.anat_preproc_wf.surface_recon_wf.segs_to_native_aseg.fs_datasource" in "/gpfs/scratchfs1/jac18015/hw5/work/fmriprep_wf/single_subject_01_wf/anat_preproc_wf/surface_recon_wf/segs_to_native_aseg/fs_datasource".
200323-10:34:36,316 nipype.workflow INFO:
[Node] Running "recon_report" ("smriprep.interfaces.reports.FSSurfaceReport")
200323-10:34:36,320 nipype.workflow INFO:
[Node] Running "fs_datasource" ("nipype.interfaces.io.FreeSurferSource")
200323-10:34:36,320 nipype.workflow INFO:
[Node] Running "fs_datasource" ("nipype.interfaces.io.FreeSurferSource")
200323-10:34:36,332 nipype.workflow INFO:
[Node] Finished "fmriprep_wf.single_subject_01_wf.anat_preproc_wf.surface_recon_wf.segs_to_native_aparc_aseg.fs_datasource".
200323-10:34:36,335 nipype.workflow INFO:
[Node] Finished "fmriprep_wf.single_subject_01_wf.anat_preproc_wf.surface_recon_wf.segs_to_native_aseg.fs_datasource".
200323-10:34:38,330 nipype.workflow INFO:
[Node] Setting-up "fmriprep_wf.single_subject_01_wf.anat_preproc_wf.surface_recon_wf.gifti_surface_wf.get_surfaces" in "/gpfs/scratchfs1/jac18015/hw5/work/fmriprep_wf/single_subject_01_wf/anat_preproc_wf/surface_recon_wf/gifti_surface_wf/get_surfaces".
200323-10:34:38,340 nipype.workflow INFO:
[Node] Running "get_surfaces" ("nipype.interfaces.io.FreeSurferSource")
200323-10:34:38,352 nipype.workflow INFO:
[Node] Finished "fmriprep_wf.single_subject_01_wf.anat_preproc_wf.surface_recon_wf.gifti_surface_wf.get_surfaces".
200323-10:34:46,862 nipype.workflow INFO:
[Node] Finished "fmriprep_wf.single_subject_01_wf.anat_preproc_wf.anat_reports_wf.recon_report".
200323-10:34:47,969 nipype.workflow INFO:
[Node] Setting-up "_midthickness0" in "/gpfs/scratchfs1/jac18015/hw5/work/fmriprep_wf/single_subject_01_wf/anat_preproc_wf/surface_recon_wf/gifti_surface_wf/midthickness/mapflow/_midthickness0".
200323-10:34:47,969 nipype.workflow INFO:
[Node] Outdated cache found for "_midthickness0".
200323-10:34:47,973 nipype.workflow INFO:
[Node] Setting-up "_midthickness1" in "/gpfs/scratchfs1/jac18015/hw5/work/fmriprep_wf/single_subject_01_wf/anat_preproc_wf/surface_recon_wf/gifti_surface_wf/midthickness/mapflow/_midthickness1".
200323-10:34:47,973 nipype.workflow INFO:
[Node] Outdated cache found for "_midthickness1".
200323-10:34:47,981 nipype.workflow INFO:
[Node] Running "_midthickness0" ("niworkflows.interfaces.freesurfer.MakeMidthickness"), a CommandLine Interface with command:
cp /out/freesurfer/sub-01/surf/rh.midthickness /gpfs/scratchfs1/jac18015/hw5/work/fmriprep_wf/single_subject_01_wf/anat_preproc_wf/surface_recon_wf/gifti_surface_wf/midthickness/mapflow/_midthickness0/rh.midthickness
200323-10:34:47,990 nipype.workflow INFO:
[Node] Running "_midthickness1" ("niworkflows.interfaces.freesurfer.MakeMidthickness"), a CommandLine Interface with command:
cp /out/freesurfer/sub-01/surf/lh.midthickness /gpfs/scratchfs1/jac18015/hw5/work/fmriprep_wf/single_subject_01_wf/anat_preproc_wf/surface_recon_wf/gifti_surface_wf/midthickness/mapflow/_midthickness1/lh.midthickness
200323-10:34:48,140 nipype.workflow INFO:
[Node] Finished "_midthickness1".
200323-10:34:48,161 nipype.workflow INFO:
[Node] Finished "_midthickness0".
200323-10:34:52,81 nipype.workflow INFO:
[Node] Setting-up "fmriprep_wf.single_subject_01_wf.anat_preproc_wf.surface_recon_wf.gifti_surface_wf.midthickness" in "/gpfs/scratchfs1/jac18015/hw5/work/fmriprep_wf/single_subject_01_wf/anat_preproc_wf/surface_recon_wf/gifti_surface_wf/midthickness".
200323-10:34:52,82 nipype.workflow INFO:
[Node] Outdated cache found for "fmriprep_wf.single_subject_01_wf.anat_preproc_wf.surface_recon_wf.gifti_surface_wf.midthickness".
200323-10:34:52,92 nipype.workflow INFO:
[Node] Setting-up "_midthickness0" in "/gpfs/scratchfs1/jac18015/hw5/work/fmriprep_wf/single_subject_01_wf/anat_preproc_wf/surface_recon_wf/gifti_surface_wf/midthickness/mapflow/_midthickness0".
200323-10:34:52,93 nipype.workflow INFO:
[Node] Cached "_midthickness0" - collecting precomputed outputs
200323-10:34:52,93 nipype.workflow INFO:
[Node] "_midthickness0" found cached.
200323-10:34:52,93 nipype.workflow INFO:
[Node] Setting-up "_midthickness1" in "/gpfs/scratchfs1/jac18015/hw5/work/fmriprep_wf/single_subject_01_wf/anat_preproc_wf/surface_recon_wf/gifti_surface_wf/midthickness/mapflow/_midthickness1".
200323-10:34:52,94 nipype.workflow INFO:
[Node] Cached "_midthickness1" - collecting precomputed outputs
200323-10:34:52,94 nipype.workflow INFO:
[Node] "_midthickness1" found cached.
200323-10:34:52,96 nipype.workflow INFO:
[Node] Finished "fmriprep_wf.single_subject_01_wf.anat_preproc_wf.surface_recon_wf.gifti_surface_wf.midthickness".
200323-10:35:13,247 nipype.workflow INFO:
[Node] Setting-up "fmriprep_wf.single_subject_01_wf.anat_preproc_wf.surface_recon_wf.gifti_surface_wf.save_midthickness" in "/gpfs/scratchfs1/jac18015/hw5/work/fmriprep_wf/single_subject_01_wf/anat_preproc_wf/surface_recon_wf/gifti_surface_wf/save_midthickness".
200323-10:35:13,247 nipype.workflow INFO:
[Node] Outdated cache found for "fmriprep_wf.single_subject_01_wf.anat_preproc_wf.surface_recon_wf.gifti_surface_wf.save_midthickness".
200323-10:35:13,257 nipype.workflow INFO:
[Node] Running "save_midthickness" ("nipype.interfaces.io.DataSink")
200323-10:35:13,584 nipype.workflow INFO:
[Node] Finished "fmriprep_wf.single_subject_01_wf.anat_preproc_wf.surface_recon_wf.gifti_surface_wf.save_midthickness".
200323-10:35:38,210 nipype.workflow INFO:
[Node] Setting-up "fmriprep_wf.single_subject_01_wf.func_preproc_ses_01_task_Stroop_run_01_wf.bold_surf_wf.sampler" in "/gpfs/scratchfs1/jac18015/hw5/work/fmriprep_wf/single_subject_01_wf/func_preproc_ses_01_task_Stroop_run_01_wf/bold_surf_wf/_hemi_rh/sampler".
200323-10:35:38,214 nipype.workflow INFO:
[Node] Setting-up "fmriprep_wf.single_subject_01_wf.func_preproc_ses_01_task_Stroop_run_01_wf.bold_surf_wf.sampler" in "/gpfs/scratchfs1/jac18015/hw5/work/fmriprep_wf/single_subject_01_wf/func_preproc_ses_01_task_Stroop_run_01_wf/bold_surf_wf/_hemi_lh/sampler".
200323-10:35:38,225 nipype.workflow INFO:
[Node] Setting-up "_sampler0" in "/gpfs/scratchfs1/jac18015/hw5/work/fmriprep_wf/single_subject_01_wf/func_preproc_ses_01_task_Stroop_run_01_wf/bold_surf_wf/_hemi_rh/sampler/mapflow/_sampler0".
200323-10:35:38,228 nipype.workflow INFO:
[Node] Setting-up "_sampler0" in "/gpfs/scratchfs1/jac18015/hw5/work/fmriprep_wf/single_subject_01_wf/func_preproc_ses_01_task_Stroop_run_01_wf/bold_surf_wf/_hemi_lh/sampler/mapflow/_sampler0".
200323-10:35:38,238 nipype.workflow INFO:
[Node] Running "_sampler0" ("nipype.interfaces.freesurfer.utils.SampleToSurface"), a CommandLine Interface with command:
mri_vol2surf --cortex --hemi rh --interp trilinear --o /gpfs/scratchfs1/jac18015/hw5/work/fmriprep_wf/single_subject_01_wf/func_preproc_ses_01_task_Stroop_run_01_wf/bold_surf_wf/_hemi_rh/sampler/mapflow/_sampler0/rh.fsaverage5.gii --srcsubject sub-01 --reg /gpfs/scratchfs1/jac18015/hw5/work/fmriprep_wf/single_subject_01_wf/func_preproc_ses_01_task_Stroop_run_01_wf/bold_surf_wf/set_xfm_source/out_concat.lta --projfrac-avg 0.000 1.000 0.200 --mov /gpfs/scratchfs1/jac18015/hw5/work/fmriprep_wf/single_subject_01_wf/func_preproc_ses_01_task_Stroop_run_01_wf/bold_surf_wf/rename_src/mapflow/_rename_src0/fsaverage5.nii --trgsubject fsaverage5
200323-10:35:38,241 nipype.workflow INFO:
[Node] Running "_sampler0" ("nipype.interfaces.freesurfer.utils.SampleToSurface"), a CommandLine Interface with command:
mri_vol2surf --cortex --hemi lh --interp trilinear --o /gpfs/scratchfs1/jac18015/hw5/work/fmriprep_wf/single_subject_01_wf/func_preproc_ses_01_task_Stroop_run_01_wf/bold_surf_wf/_hemi_lh/sampler/mapflow/_sampler0/lh.fsaverage5.gii --srcsubject sub-01 --reg /gpfs/scratchfs1/jac18015/hw5/work/fmriprep_wf/single_subject_01_wf/func_preproc_ses_01_task_Stroop_run_01_wf/bold_surf_wf/set_xfm_source/out_concat.lta --projfrac-avg 0.000 1.000 0.200 --mov /gpfs/scratchfs1/jac18015/hw5/work/fmriprep_wf/single_subject_01_wf/func_preproc_ses_01_task_Stroop_run_01_wf/bold_surf_wf/rename_src/mapflow/_rename_src0/fsaverage5.nii --trgsubject fsaverage5
200323-10:35:40,215 nipype.workflow INFO:
[Node] Setting-up "fmriprep_wf.single_subject_01_wf.func_preproc_ses_01_task_Stroop_run_01_wf.bold_t1_trans_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.n4_correct" in "/gpfs/scratchfs1/jac18015/hw5/work/fmriprep_wf/single_subject_01_wf/func_preproc_ses_01_task_Stroop_run_01_wf/bold_t1_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/n4_correct".
200323-10:35:40,262 nipype.workflow INFO:
[Node] Running "n4_correct" ("niworkflows.interfaces.fixes.FixN4BiasFieldCorrection"), a CommandLine Interface with command:
N4BiasFieldCorrection --bspline-fitting [ 200 ] -d 3 --input-image /gpfs/scratchfs1/jac18015/hw5/work/fmriprep_wf/single_subject_01_wf/func_preproc_ses_01_task_Stroop_run_01_wf/bold_t1_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/n4_correct/ref_bold_scaled.nii.gz --mask-image /gpfs/scratchfs1/jac18015/hw5/work/fmriprep_wf/single_subject_01_wf/func_preproc_ses_01_task_Stroop_run_01_wf/bold_t1_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/check_hdr/ref_sbref_corrected_trans_corrected_brain_mask_maths_trans_dil_hdr.nii.gz --output ref_bold_corrected.nii.gz -r
200323-10:35:43,923 nipype.workflow INFO:
[Node] Finished "fmriprep_wf.single_subject_01_wf.func_preproc_ses_01_task_Stroop_run_01_wf.bold_t1_trans_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.n4_correct".
200323-10:35:44,217 nipype.workflow INFO:
[Node] Setting-up "fmriprep_wf.single_subject_01_wf.func_preproc_ses_01_task_Stroop_run_01_wf.bold_t1_trans_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_pass" in "/gpfs/scratchfs1/jac18015/hw5/work/fmriprep_wf/single_subject_01_wf/func_preproc_ses_01_task_Stroop_run_01_wf/bold_t1_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass".
200323-10:35:44,221 nipype.workflow INFO:
[Node] Running "skullstrip_first_pass" ("nipype.interfaces.fsl.preprocess.BET"), a CommandLine Interface with command:
bet /gpfs/scratchfs1/jac18015/hw5/work/fmriprep_wf/single_subject_01_wf/func_preproc_ses_01_task_Stroop_run_01_wf/bold_t1_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/n4_correct/ref_bold_corrected.nii.gz /gpfs/scratchfs1/jac18015/hw5/work/fmriprep_wf/single_subject_01_wf/func_preproc_ses_01_task_Stroop_run_01_wf/bold_t1_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass/ref_bold_corrected_brain.nii.gz -f 0.20 -m
200323-10:35:45,877 nipype.workflow INFO:
[Node] Finished "fmriprep_wf.single_subject_01_wf.func_preproc_ses_01_task_Stroop_run_01_wf.bold_t1_trans_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_pass".
200323-10:35:46,220 nipype.workflow INFO:
[Node] Setting-up "fmriprep_wf.single_subject_01_wf.func_preproc_ses_01_task_Stroop_run_01_wf.bold_t1_trans_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_dilate" in "/gpfs/scratchfs1/jac18015/hw5/work/fmriprep_wf/single_subject_01_wf/func_preproc_ses_01_task_Stroop_run_01_wf/bold_t1_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_dilate".
200323-10:35:46,225 nipype.workflow INFO:
[Node] Running "skullstrip_first_dilate" ("nipype.interfaces.fsl.maths.DilateImage"), a CommandLine Interface with command:
fslmaths -dt char /gpfs/scratchfs1/jac18015/hw5/work/fmriprep_wf/single_subject_01_wf/func_preproc_ses_01_task_Stroop_run_01_wf/bold_t1_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass/ref_bold_corrected_brain_mask.nii.gz -kernel sphere 6.0000 -dilF /gpfs/scratchfs1/jac18015/hw5/work/fmriprep_wf/single_subject_01_wf/func_preproc_ses_01_task_Stroop_run_01_wf/bold_t1_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_dilate/ref_bold_corrected_brain_mask_dil.nii.gz
200323-10:35:47,340 nipype.workflow INFO:
[Node] Finished "fmriprep_wf.single_subject_01_wf.func_preproc_ses_01_task_Stroop_run_01_wf.bold_t1_trans_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_dilate".
200323-10:35:48,224 nipype.workflow INFO:
[Node] Setting-up "fmriprep_wf.single_subject_01_wf.func_preproc_ses_01_task_Stroop_run_01_wf.bold_t1_trans_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_mask" in "/gpfs/scratchfs1/jac18015/hw5/work/fmriprep_wf/single_subject_01_wf/func_preproc_ses_01_task_Stroop_run_01_wf/bold_t1_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_mask".
200323-10:35:48,229 nipype.workflow INFO:
[Node] Running "skullstrip_first_mask" ("nipype.interfaces.fsl.maths.ApplyMask"), a CommandLine Interface with command:
fslmaths /gpfs/scratchfs1/jac18015/hw5/work/fmriprep_wf/single_subject_01_wf/func_preproc_ses_01_task_Stroop_run_01_wf/bold_t1_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass/ref_bold_corrected_brain.nii.gz -mas /gpfs/scratchfs1/jac18015/hw5/work/fmriprep_wf/single_subject_01_wf/func_preproc_ses_01_task_Stroop_run_01_wf/bold_t1_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_dilate/ref_bold_corrected_brain_mask_dil.nii.gz /gpfs/scratchfs1/jac18015/hw5/work/fmriprep_wf/single_subject_01_wf/func_preproc_ses_01_task_Stroop_run_01_wf/bold_t1_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_mask/ref_bold_corrected_brain_masked.nii.gz
200323-10:35:48,359 nipype.workflow INFO:
[Node] Finished "fmriprep_wf.single_subject_01_wf.func_preproc_ses_01_task_Stroop_run_01_wf.bold_t1_trans_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_mask".
200323-10:35:50,225 nipype.workflow INFO:
[Node] Setting-up "fmriprep_wf.single_subject_01_wf.func_preproc_ses_01_task_Stroop_run_01_wf.bold_t1_trans_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.unifize" in "/gpfs/scratchfs1/jac18015/hw5/work/fmriprep_wf/single_subject_01_wf/func_preproc_ses_01_task_Stroop_run_01_wf/bold_t1_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/unifize".
200323-10:35:50,229 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 /gpfs/scratchfs1/jac18015/hw5/work/fmriprep_wf/single_subject_01_wf/func_preproc_ses_01_task_Stroop_run_01_wf/bold_t1_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/unifize/ref_bold_corrected_brain_masked.nii.gz
200323-10:35:52,721 nipype.workflow INFO:
[Node] Finished "fmriprep_wf.single_subject_01_wf.func_preproc_ses_01_task_Stroop_run_01_wf.bold_t1_trans_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.unifize".
200323-10:35:54,226 nipype.workflow INFO:
[Node] Setting-up "fmriprep_wf.single_subject_01_wf.func_preproc_ses_01_task_Stroop_run_01_wf.bold_t1_trans_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.fixhdr_unifize" in "/gpfs/scratchfs1/jac18015/hw5/work/fmriprep_wf/single_subject_01_wf/func_preproc_ses_01_task_Stroop_run_01_wf/bold_t1_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/fixhdr_unifize".
200323-10:35:54,230 nipype.workflow INFO:
[Node] Running "fixhdr_unifize" ("niworkflows.interfaces.utils.CopyXForm")
200323-10:35:54,283 nipype.workflow INFO:
[Node] Finished "fmriprep_wf.single_subject_01_wf.func_preproc_ses_01_task_Stroop_run_01_wf.bold_t1_trans_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.fixhdr_unifize".
200323-10:35:56,227 nipype.workflow INFO:
[Node] Setting-up "fmriprep_wf.single_subject_01_wf.func_preproc_ses_01_task_Stroop_run_01_wf.bold_t1_trans_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.skullstrip_second_pass" in "/gpfs/scratchfs1/jac18015/hw5/work/fmriprep_wf/single_subject_01_wf/func_preproc_ses_01_task_Stroop_run_01_wf/bold_t1_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/skullstrip_second_pass".
200323-10:35:56,232 nipype.workflow INFO:
[Node] Running "skullstrip_second_pass" ("nipype.interfaces.afni.preprocess.Automask"), a CommandLine Interface with command:
3dAutomask -apply_prefix uni_xform_masked.nii.gz -dilate 1 -prefix uni_xform_mask.nii.gz /gpfs/scratchfs1/jac18015/hw5/work/fmriprep_wf/single_subject_01_wf/func_preproc_ses_01_task_Stroop_run_01_wf/bold_t1_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/skullstrip_second_pass/uni_xform.nii.gz
200323-10:35:56,410 nipype.workflow INFO:
[Node] Finished "fmriprep_wf.single_subject_01_wf.func_preproc_ses_01_task_Stroop_run_01_wf.bold_t1_trans_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.skullstrip_second_pass".
200323-10:35:58,228 nipype.workflow INFO:
[Node] Setting-up "fmriprep_wf.single_subject_01_wf.func_preproc_ses_01_task_Stroop_run_01_wf.bold_t1_trans_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.fixhdr_skullstrip2" in "/gpfs/scratchfs1/jac18015/hw5/work/fmriprep_wf/single_subject_01_wf/func_preproc_ses_01_task_Stroop_run_01_wf/bold_t1_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/fixhdr_skullstrip2".
200323-10:35:58,232 nipype.workflow INFO:
[Node] Running "fixhdr_skullstrip2" ("niworkflows.interfaces.utils.CopyXForm")
200323-10:35:58,250 nipype.workflow INFO:
[Node] Finished "fmriprep_wf.single_subject_01_wf.func_preproc_ses_01_task_Stroop_run_01_wf.bold_t1_trans_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.fixhdr_skullstrip2".
200323-10:36:00,232 nipype.workflow INFO:
[Node] Setting-up "fmriprep_wf.single_subject_01_wf.func_preproc_ses_01_task_Stroop_run_01_wf.bold_t1_trans_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.combine_masks" in "/gpfs/scratchfs1/jac18015/hw5/work/fmriprep_wf/single_subject_01_wf/func_preproc_ses_01_task_Stroop_run_01_wf/bold_t1_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/combine_masks".
200323-10:36:00,236 nipype.workflow INFO:
[Node] Running "combine_masks" ("nipype.interfaces.fsl.maths.BinaryMaths"), a CommandLine Interface with command:
fslmaths /gpfs/scratchfs1/jac18015/hw5/work/fmriprep_wf/single_subject_01_wf/func_preproc_ses_01_task_Stroop_run_01_wf/bold_t1_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass/ref_bold_corrected_brain_mask.nii.gz -mul /gpfs/scratchfs1/jac18015/hw5/work/fmriprep_wf/single_subject_01_wf/func_preproc_ses_01_task_Stroop_run_01_wf/bold_t1_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/fixhdr_skullstrip2/uni_xform_mask_xform.nii.gz /gpfs/scratchfs1/jac18015/hw5/work/fmriprep_wf/single_subject_01_wf/func_preproc_ses_01_task_Stroop_run_01_wf/bold_t1_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/combine_masks/ref_bold_corrected_brain_mask_maths.nii.gz
200323-10:36:00,330 nipype.workflow INFO:
[Node] Finished "fmriprep_wf.single_subject_01_wf.func_preproc_ses_01_task_Stroop_run_01_wf.bold_t1_trans_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.combine_masks".
200323-10:36:02,234 nipype.workflow INFO:
[Node] Setting-up "fmriprep_wf.single_subject_01_wf.func_preproc_ses_01_task_Stroop_run_01_wf.bold_t1_trans_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.apply_mask" in "/gpfs/scratchfs1/jac18015/hw5/work/fmriprep_wf/single_subject_01_wf/func_preproc_ses_01_task_Stroop_run_01_wf/bold_t1_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/apply_mask".
200323-10:36:02,238 nipype.workflow INFO:
[Node] Running "apply_mask" ("nipype.interfaces.fsl.maths.ApplyMask"), a CommandLine Interface with command:
fslmaths /gpfs/scratchfs1/jac18015/hw5/work/fmriprep_wf/single_subject_01_wf/func_preproc_ses_01_task_Stroop_run_01_wf/bold_t1_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/fixhdr_unifize/uni_xform.nii.gz -mas /gpfs/scratchfs1/jac18015/hw5/work/fmriprep_wf/single_subject_01_wf/func_preproc_ses_01_task_Stroop_run_01_wf/bold_t1_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/combine_masks/ref_bold_corrected_brain_mask_maths.nii.gz /gpfs/scratchfs1/jac18015/hw5/work/fmriprep_wf/single_subject_01_wf/func_preproc_ses_01_task_Stroop_run_01_wf/bold_t1_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/apply_mask/uni_xform_masked.nii.gz
200323-10:36:02,354 nipype.workflow INFO:
[Node] Finished "fmriprep_wf.single_subject_01_wf.func_preproc_ses_01_task_Stroop_run_01_wf.bold_t1_trans_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.apply_mask".
200323-10:37:17,880 nipype.workflow INFO:
[Node] Finished "_sampler0".
200323-10:37:17,882 nipype.workflow INFO:
[Node] Finished "fmriprep_wf.single_subject_01_wf.func_preproc_ses_01_task_Stroop_run_01_wf.bold_surf_wf.sampler".
200323-10:37:18,42 nipype.workflow INFO:
[Node] Finished "_sampler0".
200323-10:37:18,44 nipype.workflow INFO:
[Node] Finished "fmriprep_wf.single_subject_01_wf.func_preproc_ses_01_task_Stroop_run_01_wf.bold_surf_wf.sampler".
200323-10:37:18,408 nipype.workflow INFO:
[Node] Setting-up "fmriprep_wf.single_subject_01_wf.func_preproc_ses_01_task_Stroop_run_01_wf.bold_std_trans_wf.bold_to_std_transform" in "/gpfs/scratchfs1/jac18015/hw5/work/fmriprep_wf/single_subject_01_wf/func_preproc_ses_01_task_Stroop_run_01_wf/bold_std_trans_wf/_key_MNI152NLin2009cAsym/bold_to_std_transform".
200323-10:37:18,543 nipype.workflow INFO:
[Node] Running "bold_to_std_transform" ("niworkflows.interfaces.itk.MultiApplyTransforms")
200323-10:45:36,633 nipype.workflow INFO:
[Node] Finished "fmriprep_wf.single_subject_01_wf.func_preproc_ses_01_task_Stroop_run_01_wf.bold_std_trans_wf.bold_to_std_transform".
200323-10:45:36,809 nipype.workflow INFO:
[Node] Setting-up "fmriprep_wf.single_subject_01_wf.func_preproc_ses_01_task_Stroop_run_01_wf.bold_std_trans_wf.merge" in "/gpfs/scratchfs1/jac18015/hw5/work/fmriprep_wf/single_subject_01_wf/func_preproc_ses_01_task_Stroop_run_01_wf/bold_std_trans_wf/_key_MNI152NLin2009cAsym/merge".
200323-10:45:36,896 nipype.workflow INFO:
[Node] Running "merge" ("niworkflows.interfaces.nilearn.Merge")
200323-10:45:38,802 nipype.workflow INFO:
[Node] Setting-up "_update_metadata0" in "/gpfs/scratchfs1/jac18015/hw5/work/fmriprep_wf/single_subject_01_wf/func_preproc_ses_01_task_Stroop_run_01_wf/bold_surf_wf/update_metadata/mapflow/_update_metadata0".
200323-10:45:38,802 nipype.workflow INFO:
[Node] Setting-up "_update_metadata1" in "/gpfs/scratchfs1/jac18015/hw5/work/fmriprep_wf/single_subject_01_wf/func_preproc_ses_01_task_Stroop_run_01_wf/bold_surf_wf/update_metadata/mapflow/_update_metadata1".
200323-10:45:38,805 nipype.workflow INFO:
[Node] Running "_update_metadata0" ("niworkflows.interfaces.surf.GiftiSetAnatomicalStructure")
200323-10:45:38,805 nipype.workflow INFO:
[Node] Running "_update_metadata1" ("niworkflows.interfaces.surf.GiftiSetAnatomicalStructure")
200323-10:45:39,964 nipype.workflow INFO:
[Node] Finished "_update_metadata0".
200323-10:45:39,991 nipype.workflow INFO:
[Node] Finished "_update_metadata1".
200323-10:45:40,805 nipype.workflow INFO:
[Node] Setting-up "fmriprep_wf.single_subject_01_wf.func_preproc_ses_01_task_Stroop_run_01_wf.bold_surf_wf.update_metadata" in "/gpfs/scratchfs1/jac18015/hw5/work/fmriprep_wf/single_subject_01_wf/func_preproc_ses_01_task_Stroop_run_01_wf/bold_surf_wf/update_metadata".
200323-10:45:40,809 nipype.workflow INFO:
[Node] Setting-up "_update_metadata0" in "/gpfs/scratchfs1/jac18015/hw5/work/fmriprep_wf/single_subject_01_wf/func_preproc_ses_01_task_Stroop_run_01_wf/bold_surf_wf/update_metadata/mapflow/_update_metadata0".
200323-10:45:40,810 nipype.workflow INFO:
[Node] Cached "_update_metadata0" - collecting precomputed outputs
200323-10:45:40,810 nipype.workflow INFO:
[Node] "_update_metadata0" found cached.
200323-10:45:40,810 nipype.workflow INFO:
[Node] Setting-up "_update_metadata1" in "/gpfs/scratchfs1/jac18015/hw5/work/fmriprep_wf/single_subject_01_wf/func_preproc_ses_01_task_Stroop_run_01_wf/bold_surf_wf/update_metadata/mapflow/_update_metadata1".
200323-10:45:40,811 nipype.workflow INFO:
[Node] Cached "_update_metadata1" - collecting precomputed outputs
200323-10:45:40,811 nipype.workflow INFO:
[Node] "_update_metadata1" found cached.
200323-10:45:40,813 nipype.workflow INFO:
[Node] Finished "fmriprep_wf.single_subject_01_wf.func_preproc_ses_01_task_Stroop_run_01_wf.bold_surf_wf.update_metadata".
200323-10:47:16,494 nipype.workflow INFO:
[Node] Finished "fmriprep_wf.single_subject_01_wf.func_preproc_ses_01_task_Stroop_run_01_wf.bold_std_trans_wf.merge".
200323-10:48:11,258 nipype.workflow INFO:
[Node] Setting-up "fmriprep_wf.single_subject_01_wf.func_preproc_ses_01_task_Stroop_run_01_wf.bold_std_trans_wf.bold_reference_wf.validate" in "/gpfs/scratchfs1/jac18015/hw5/work/fmriprep_wf/single_subject_01_wf/func_preproc_ses_01_task_Stroop_run_01_wf/bold_std_trans_wf/bold_reference_wf/_key_MNI152NLin2009cAsym/validate".
200323-10:48:11,265 nipype.workflow INFO:
[Node] Running "validate" ("niworkflows.interfaces.images.ValidateImage")
200323-10:48:11,282 nipype.workflow INFO:
[Node] Finished "fmriprep_wf.single_subject_01_wf.func_preproc_ses_01_task_Stroop_run_01_wf.bold_std_trans_wf.bold_reference_wf.validate".
200323-10:48:13,354 nipype.workflow INFO:
[Node] Setting-up "fmriprep_wf.single_subject_01_wf.func_preproc_ses_01_task_Stroop_run_01_wf.bold_std_trans_wf.bold_reference_wf.gen_ref" in "/gpfs/scratchfs1/jac18015/hw5/work/fmriprep_wf/single_subject_01_wf/func_preproc_ses_01_task_Stroop_run_01_wf/bold_std_trans_wf/bold_reference_wf/_key_MNI152NLin2009cAsym/gen_ref".
200323-10:48:13,358 nipype.workflow INFO:
[Node] Running "gen_ref" ("niworkflows.interfaces.registration.EstimateReferenceImage")
200323-10:48:14,518 nipype.workflow INFO:
[Node] Finished "fmriprep_wf.single_subject_01_wf.func_preproc_ses_01_task_Stroop_run_01_wf.bold_std_trans_wf.bold_reference_wf.gen_ref".
200323-10:48:17,358 nipype.workflow INFO:
[Node] Setting-up "fmriprep_wf.single_subject_01_wf.func_preproc_ses_01_task_Stroop_run_01_wf.bold_std_trans_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.n4_correct" in "/gpfs/scratchfs1/jac18015/hw5/work/fmriprep_wf/single_subject_01_wf/func_preproc_ses_01_task_Stroop_run_01_wf/bold_std_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/_key_MNI152NLin2009cAsym/n4_correct".
200323-10:48:17,438 nipype.workflow INFO:
[Node] Running "n4_correct" ("niworkflows.interfaces.fixes.FixN4BiasFieldCorrection"), a CommandLine Interface with command:
N4BiasFieldCorrection --bspline-fitting [ 200 ] -d 3 --input-image /gpfs/scratchfs1/jac18015/hw5/work/fmriprep_wf/single_subject_01_wf/func_preproc_ses_01_task_Stroop_run_01_wf/bold_std_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/_key_MNI152NLin2009cAsym/n4_correct/ref_bold_scaled.nii.gz --mask-image /gpfs/scratchfs1/jac18015/hw5/work/fmriprep_wf/single_subject_01_wf/func_preproc_ses_01_task_Stroop_run_01_wf/bold_std_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/_key_MNI152NLin2009cAsym/check_hdr/ref_bold_corrected_brain_mask_maths_trans_dil_hdr.nii.gz --output ref_bold_corrected.nii.gz -r
200323-10:48:22,250 nipype.workflow INFO:
[Node] Finished "fmriprep_wf.single_subject_01_wf.func_preproc_ses_01_task_Stroop_run_01_wf.bold_std_trans_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.n4_correct".
200323-10:48:23,368 nipype.workflow INFO:
[Node] Setting-up "fmriprep_wf.single_subject_01_wf.func_preproc_ses_01_task_Stroop_run_01_wf.bold_std_trans_wf.outputnode" in "/gpfs/scratchfs1/jac18015/hw5/work/fmriprep_wf/single_subject_01_wf/func_preproc_ses_01_task_Stroop_run_01_wf/bold_std_trans_wf/outputnode".
200323-10:48:23,381 nipype.workflow INFO:
[Node] Running "outputnode" ("nipype.interfaces.utility.base.IdentityInterface")
200323-10:48:23,385 nipype.workflow INFO:
[Node] Finished "fmriprep_wf.single_subject_01_wf.func_preproc_ses_01_task_Stroop_run_01_wf.bold_std_trans_wf.outputnode".
200323-10:48:23,698 nipype.workflow INFO:
[Node] Setting-up "fmriprep_wf.single_subject_01_wf.func_preproc_ses_01_task_Stroop_run_01_wf.bold_std_trans_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_pass" in "/gpfs/scratchfs1/jac18015/hw5/work/fmriprep_wf/single_subject_01_wf/func_preproc_ses_01_task_Stroop_run_01_wf/bold_std_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/_key_MNI152NLin2009cAsym/skullstrip_first_pass".
200323-10:48:23,703 nipype.workflow INFO:
[Node] Running "skullstrip_first_pass" ("nipype.interfaces.fsl.preprocess.BET"), a CommandLine Interface with command:
bet /gpfs/scratchfs1/jac18015/hw5/work/fmriprep_wf/single_subject_01_wf/func_preproc_ses_01_task_Stroop_run_01_wf/bold_std_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/_key_MNI152NLin2009cAsym/n4_correct/ref_bold_corrected.nii.gz /gpfs/scratchfs1/jac18015/hw5/work/fmriprep_wf/single_subject_01_wf/func_preproc_ses_01_task_Stroop_run_01_wf/bold_std_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/_key_MNI152NLin2009cAsym/skullstrip_first_pass/ref_bold_corrected_brain.nii.gz -f 0.20 -m
200323-10:48:25,133 nipype.workflow INFO:
[Node] Finished "fmriprep_wf.single_subject_01_wf.func_preproc_ses_01_task_Stroop_run_01_wf.bold_std_trans_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_pass".
200323-10:48:25,470 nipype.workflow INFO:
[Node] Setting-up "fmriprep_wf.single_subject_01_wf.func_preproc_ses_01_task_Stroop_run_01_wf.bold_std_trans_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_dilate" in "/gpfs/scratchfs1/jac18015/hw5/work/fmriprep_wf/single_subject_01_wf/func_preproc_ses_01_task_Stroop_run_01_wf/bold_std_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/_key_MNI152NLin2009cAsym/skullstrip_first_dilate".
200323-10:48:25,474 nipype.workflow INFO:
[Node] Running "skullstrip_first_dilate" ("nipype.interfaces.fsl.maths.DilateImage"), a CommandLine Interface with command:
fslmaths -dt char /gpfs/scratchfs1/jac18015/hw5/work/fmriprep_wf/single_subject_01_wf/func_preproc_ses_01_task_Stroop_run_01_wf/bold_std_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/_key_MNI152NLin2009cAsym/skullstrip_first_pass/ref_bold_corrected_brain_mask.nii.gz -kernel sphere 6.0000 -dilF /gpfs/scratchfs1/jac18015/hw5/work/fmriprep_wf/single_subject_01_wf/func_preproc_ses_01_task_Stroop_run_01_wf/bold_std_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/_key_MNI152NLin2009cAsym/skullstrip_first_dilate/ref_bold_corrected_brain_mask_dil.nii.gz
200323-10:48:27,376 nipype.workflow INFO:
[Node] Setting-up "fmriprep_wf.single_subject_01_wf.func_preproc_ses_01_task_Stroop_run_01_wf.gen_cifti" in "/gpfs/scratchfs1/jac18015/hw5/work/fmriprep_wf/single_subject_01_wf/func_preproc_ses_01_task_Stroop_run_01_wf/gen_cifti".
200323-10:48:27,380 nipype.workflow INFO:
[Node] Setting-up "_gen_cifti0" in "/gpfs/scratchfs1/jac18015/hw5/work/fmriprep_wf/single_subject_01_wf/func_preproc_ses_01_task_Stroop_run_01_wf/gen_cifti/mapflow/_gen_cifti0".
200323-10:48:27,383 nipype.workflow INFO:
[Node] Running "_gen_cifti0" ("niworkflows.interfaces.cifti.GenerateCifti")
200323-10:48:28,164 nipype.workflow INFO:
[Node] Finished "fmriprep_wf.single_subject_01_wf.func_preproc_ses_01_task_Stroop_run_01_wf.bold_std_trans_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_dilate".
200323-10:48:29,382 nipype.workflow INFO:
[Node] Setting-up "fmriprep_wf.single_subject_01_wf.func_preproc_ses_01_task_Stroop_run_01_wf.bold_std_trans_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_mask" in "/gpfs/scratchfs1/jac18015/hw5/work/fmriprep_wf/single_subject_01_wf/func_preproc_ses_01_task_Stroop_run_01_wf/bold_std_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/_key_MNI152NLin2009cAsym/skullstrip_first_mask".
200323-10:48:29,387 nipype.workflow INFO:
[Node] Running "skullstrip_first_mask" ("nipype.interfaces.fsl.maths.ApplyMask"), a CommandLine Interface with command:
fslmaths /gpfs/scratchfs1/jac18015/hw5/work/fmriprep_wf/single_subject_01_wf/func_preproc_ses_01_task_Stroop_run_01_wf/bold_std_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/_key_MNI152NLin2009cAsym/skullstrip_first_pass/ref_bold_corrected_brain.nii.gz -mas /gpfs/scratchfs1/jac18015/hw5/work/fmriprep_wf/single_subject_01_wf/func_preproc_ses_01_task_Stroop_run_01_wf/bold_std_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/_key_MNI152NLin2009cAsym/skullstrip_first_dilate/ref_bold_corrected_brain_mask_dil.nii.gz /gpfs/scratchfs1/jac18015/hw5/work/fmriprep_wf/single_subject_01_wf/func_preproc_ses_01_task_Stroop_run_01_wf/bold_std_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/_key_MNI152NLin2009cAsym/skullstrip_first_mask/ref_bold_corrected_brain_masked.nii.gz
200323-10:48:29,537 nipype.workflow INFO:
[Node] Finished "fmriprep_wf.single_subject_01_wf.func_preproc_ses_01_task_Stroop_run_01_wf.bold_std_trans_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_mask".
200323-10:48:31,391 nipype.workflow INFO:
[Node] Setting-up "fmriprep_wf.single_subject_01_wf.func_preproc_ses_01_task_Stroop_run_01_wf.bold_std_trans_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.unifize" in "/gpfs/scratchfs1/jac18015/hw5/work/fmriprep_wf/single_subject_01_wf/func_preproc_ses_01_task_Stroop_run_01_wf/bold_std_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/_key_MNI152NLin2009cAsym/unifize".
200323-10:48:31,398 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 /gpfs/scratchfs1/jac18015/hw5/work/fmriprep_wf/single_subject_01_wf/func_preproc_ses_01_task_Stroop_run_01_wf/bold_std_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/_key_MNI152NLin2009cAsym/unifize/ref_bold_corrected_brain_masked.nii.gz
200323-10:48:35,603 nipype.workflow INFO:
[Node] Finished "fmriprep_wf.single_subject_01_wf.func_preproc_ses_01_task_Stroop_run_01_wf.bold_std_trans_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.unifize".
200323-10:48:37,384 nipype.workflow INFO:
[Node] Setting-up "fmriprep_wf.single_subject_01_wf.func_preproc_ses_01_task_Stroop_run_01_wf.bold_std_trans_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.fixhdr_unifize" in "/gpfs/scratchfs1/jac18015/hw5/work/fmriprep_wf/single_subject_01_wf/func_preproc_ses_01_task_Stroop_run_01_wf/bold_std_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/_key_MNI152NLin2009cAsym/fixhdr_unifize".
200323-10:48:37,388 nipype.workflow INFO:
[Node] Running "fixhdr_unifize" ("niworkflows.interfaces.utils.CopyXForm")
200323-10:48:37,467 nipype.workflow INFO:
[Node] Finished "fmriprep_wf.single_subject_01_wf.func_preproc_ses_01_task_Stroop_run_01_wf.bold_std_trans_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.fixhdr_unifize".
200323-10:48:39,385 nipype.workflow INFO:
[Node] Setting-up "fmriprep_wf.single_subject_01_wf.func_preproc_ses_01_task_Stroop_run_01_wf.bold_std_trans_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.skullstrip_second_pass" in "/gpfs/scratchfs1/jac18015/hw5/work/fmriprep_wf/single_subject_01_wf/func_preproc_ses_01_task_Stroop_run_01_wf/bold_std_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/_key_MNI152NLin2009cAsym/skullstrip_second_pass".
200323-10:48:39,389 nipype.workflow INFO:
[Node] Running "skullstrip_second_pass" ("nipype.interfaces.afni.preprocess.Automask"), a CommandLine Interface with command:
3dAutomask -apply_prefix uni_xform_masked.nii.gz -dilate 1 -prefix uni_xform_mask.nii.gz /gpfs/scratchfs1/jac18015/hw5/work/fmriprep_wf/single_subject_01_wf/func_preproc_ses_01_task_Stroop_run_01_wf/bold_std_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/_key_MNI152NLin2009cAsym/skullstrip_second_pass/uni_xform.nii.gz
200323-10:48:39,631 nipype.workflow INFO:
[Node] Finished "fmriprep_wf.single_subject_01_wf.func_preproc_ses_01_task_Stroop_run_01_wf.bold_std_trans_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.skullstrip_second_pass".
200323-10:48:41,389 nipype.workflow INFO:
[Node] Setting-up "fmriprep_wf.single_subject_01_wf.func_preproc_ses_01_task_Stroop_run_01_wf.bold_std_trans_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.fixhdr_skullstrip2" in "/gpfs/scratchfs1/jac18015/hw5/work/fmriprep_wf/single_subject_01_wf/func_preproc_ses_01_task_Stroop_run_01_wf/bold_std_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/_key_MNI152NLin2009cAsym/fixhdr_skullstrip2".
200323-10:48:41,394 nipype.workflow INFO:
[Node] Running "fixhdr_skullstrip2" ("niworkflows.interfaces.utils.CopyXForm")
200323-10:48:41,427 nipype.workflow INFO:
[Node] Finished "fmriprep_wf.single_subject_01_wf.func_preproc_ses_01_task_Stroop_run_01_wf.bold_std_trans_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.fixhdr_skullstrip2".
200323-10:48:43,391 nipype.workflow INFO:
[Node] Setting-up "fmriprep_wf.single_subject_01_wf.func_preproc_ses_01_task_Stroop_run_01_wf.bold_std_trans_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.combine_masks" in "/gpfs/scratchfs1/jac18015/hw5/work/fmriprep_wf/single_subject_01_wf/func_preproc_ses_01_task_Stroop_run_01_wf/bold_std_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/_key_MNI152NLin2009cAsym/combine_masks".
200323-10:48:43,396 nipype.workflow INFO:
[Node] Running "combine_masks" ("nipype.interfaces.fsl.maths.BinaryMaths"), a CommandLine Interface with command:
fslmaths /gpfs/scratchfs1/jac18015/hw5/work/fmriprep_wf/single_subject_01_wf/func_preproc_ses_01_task_Stroop_run_01_wf/bold_std_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/_key_MNI152NLin2009cAsym/skullstrip_first_pass/ref_bold_corrected_brain_mask.nii.gz -mul /gpfs/scratchfs1/jac18015/hw5/work/fmriprep_wf/single_subject_01_wf/func_preproc_ses_01_task_Stroop_run_01_wf/bold_std_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/_key_MNI152NLin2009cAsym/fixhdr_skullstrip2/uni_xform_mask_xform.nii.gz /gpfs/scratchfs1/jac18015/hw5/work/fmriprep_wf/single_subject_01_wf/func_preproc_ses_01_task_Stroop_run_01_wf/bold_std_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/_key_MNI152NLin2009cAsym/combine_masks/ref_bold_corrected_brain_mask_maths.nii.gz
200323-10:48:43,509 nipype.workflow INFO:
[Node] Finished "fmriprep_wf.single_subject_01_wf.func_preproc_ses_01_task_Stroop_run_01_wf.bold_std_trans_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.combine_masks".
200323-10:48:45,393 nipype.workflow INFO:
[Node] Setting-up "fmriprep_wf.single_subject_01_wf.func_preproc_ses_01_task_Stroop_run_01_wf.bold_std_trans_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.apply_mask" in "/gpfs/scratchfs1/jac18015/hw5/work/fmriprep_wf/single_subject_01_wf/func_preproc_ses_01_task_Stroop_run_01_wf/bold_std_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/_key_MNI152NLin2009cAsym/apply_mask".
200323-10:48:45,397 nipype.workflow INFO:
[Node] Running "apply_mask" ("nipype.interfaces.fsl.maths.ApplyMask"), a CommandLine Interface with command:
fslmaths /gpfs/scratchfs1/jac18015/hw5/work/fmriprep_wf/single_subject_01_wf/func_preproc_ses_01_task_Stroop_run_01_wf/bold_std_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/_key_MNI152NLin2009cAsym/fixhdr_unifize/uni_xform.nii.gz -mas /gpfs/scratchfs1/jac18015/hw5/work/fmriprep_wf/single_subject_01_wf/func_preproc_ses_01_task_Stroop_run_01_wf/bold_std_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/_key_MNI152NLin2009cAsym/combine_masks/ref_bold_corrected_brain_mask_maths.nii.gz /gpfs/scratchfs1/jac18015/hw5/work/fmriprep_wf/single_subject_01_wf/func_preproc_ses_01_task_Stroop_run_01_wf/bold_std_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/_key_MNI152NLin2009cAsym/apply_mask/uni_xform_masked.nii.gz
200323-10:48:45,541 nipype.workflow INFO:
[Node] Finished "fmriprep_wf.single_subject_01_wf.func_preproc_ses_01_task_Stroop_run_01_wf.bold_std_trans_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.apply_mask".
200323-10:51:49,776 nipype.workflow INFO:
[Node] Finished "_gen_cifti0".
200323-10:51:49,778 nipype.workflow INFO:
[Node] Finished "fmriprep_wf.single_subject_01_wf.func_preproc_ses_01_task_Stroop_run_01_wf.gen_cifti".
You can’t perform that action at this time.