Permalink
Cannot retrieve contributors at this time
Name already in use
A tag already exists with the provided branch name. Many Git commands accept both tag and branch names, so creating this branch may cause unexpected behavior. Are you sure you want to create this branch?
hw5/output_3233100_4294967294.log
Go to fileThis commit does not belong to any branch on this repository, and may belong to a fork outside of the repository.
339 lines (317 sloc)
21.2 KB
This file contains bidirectional Unicode text that may be interpreted or compiled differently than what appears below. To review, open the file in an editor that reveals hidden Unicode characters.
Learn more about bidirectional Unicode characters
[33m1: [WARN] The recommended file /README is missing. See Section 03 (Modality agnostic files) of the BIDS specification. (code: 101 - README_FILE_MISSING)[39m | |
[36m Please visit https://neurostars.org/search?q=README_FILE_MISSING for existing conversations about this issue.[39m | |
[34m[4mSummary:[24m[39m [34m[4mAvailable Tasks:[24m[39m [34m[4mAvailable Modalities:[24m[39m | |
15 Files, 425.93MB Stroop T1w | |
1 - Subject T2w | |
1 - Session bold | |
events | |
sbref | |
fieldmap | |
[36m If you have any questions, please post on https://neurostars.org/tags/bids.[39m | |
Making sure the input data is BIDS compliant (warnings can be ignored in most cases). | |
200323-14:12:41,136 nipype.workflow IMPORTANT: | |
Running fMRIPREP version 1.5.9: | |
* BIDS dataset path: /data. | |
* Participant list: ['01']. | |
* Run identifier: 20200323-141240_b10fec1f-5ef1-46e0-8c72-9d2cdf31c02a. | |
200323-14:12:41,571 nipype.utils INFO: | |
No new version available. | |
200323-14:12:43,547 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. | |
200323-14:12:43,575 nipype.workflow IMPORTANT: | |
Using single-band reference file sub-01_ses-01_task-Stroop_run-01_sbref.nii.gz | |
200323-14:12:45,754 nipype.workflow IMPORTANT: | |
Slice-timing correction will be included. | |
200323-14:12:47,29 nipype.workflow IMPORTANT: | |
Creating BOLD surface-sampling workflow. | |
200323-14:12:52,77 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 | |
200323-14:17:18,216 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". | |
200323-14:17:18,233 nipype.interface INFO: | |
recon-all complete : Not running | |
200323-14:17:18,233 nipype.workflow INFO: | |
[Node] Running "autorecon1" ("smriprep.interfaces.freesurfer.ReconAll"), a CommandLine Interface with command: | |
echo recon-all: nothing to do | |
200323-14:17:18,235 nipype.interface INFO: | |
recon-all complete : Not running | |
200323-14:17:18,366 nipype.workflow INFO: | |
[Node] Finished "fmriprep_wf.single_subject_01_wf.anat_preproc_wf.surface_recon_wf.autorecon1". | |
200323-14:17:21,613 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". | |
200323-14:17:21,626 nipype.workflow INFO: | |
[Node] Running "skull_strip_extern" ("niworkflows.interfaces.freesurfer.FSInjectBrainExtracted") | |
200323-14:17:21,630 nipype.workflow INFO: | |
[Node] Finished "fmriprep_wf.single_subject_01_wf.anat_preproc_wf.surface_recon_wf.skull_strip_extern". | |
200323-14:17:27,925 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". | |
200323-14:17:27,943 nipype.interface INFO: | |
recon-all complete : Not running | |
200323-14:17:27,943 nipype.workflow INFO: | |
[Node] Running "autorecon2_vol" ("smriprep.interfaces.freesurfer.ReconAll"), a CommandLine Interface with command: | |
echo recon-all: nothing to do | |
200323-14:17:27,945 nipype.interface INFO: | |
recon-all complete : Not running | |
200323-14:17:28,57 nipype.workflow INFO: | |
[Node] Finished "fmriprep_wf.single_subject_01_wf.anat_preproc_wf.surface_recon_wf.autorecon_resume_wf.autorecon2_vol". | |
200323-14:17:33,804 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". | |
200323-14:17:33,819 nipype.interface INFO: | |
recon-all complete : Not running | |
200323-14:17:33,820 nipype.workflow INFO: | |
[Node] Running "_autorecon_surfs0" ("smriprep.interfaces.freesurfer.ReconAll"), a CommandLine Interface with command: | |
echo recon-all: nothing to do | |
200323-14:17:33,822 nipype.interface INFO: | |
recon-all complete : Not running | |
200323-14:17:33,930 nipype.workflow INFO: | |
[Node] Finished "_autorecon_surfs0". | |
200323-14:17:35,894 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". | |
200323-14:17:35,908 nipype.interface INFO: | |
recon-all complete : Not running | |
200323-14:17:35,909 nipype.workflow INFO: | |
[Node] Running "_autorecon_surfs1" ("smriprep.interfaces.freesurfer.ReconAll"), a CommandLine Interface with command: | |
echo recon-all: nothing to do | |
200323-14:17:35,910 nipype.interface INFO: | |
recon-all complete : Not running | |
200323-14:17:35,997 nipype.workflow INFO: | |
[Node] Finished "_autorecon_surfs1". | |
200323-14:17:38,63 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". | |
200323-14:17:38,75 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". | |
200323-14:17:38,79 nipype.interface INFO: | |
recon-all complete : Not running | |
200323-14:17:38,79 nipype.workflow INFO: | |
[Node] Running "_autorecon_surfs0" ("smriprep.interfaces.freesurfer.ReconAll"), a CommandLine Interface with command: | |
echo recon-all: nothing to do | |
200323-14:17:38,81 nipype.interface INFO: | |
recon-all complete : Not running | |
200323-14:17:38,185 nipype.workflow INFO: | |
[Node] Finished "_autorecon_surfs0". | |
200323-14:17:38,188 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". | |
200323-14:17:38,192 nipype.interface INFO: | |
recon-all complete : Not running | |
200323-14:17:38,192 nipype.workflow INFO: | |
[Node] Running "_autorecon_surfs1" ("smriprep.interfaces.freesurfer.ReconAll"), a CommandLine Interface with command: | |
echo recon-all: nothing to do | |
200323-14:17:38,194 nipype.interface INFO: | |
recon-all complete : Not running | |
200323-14:17:38,281 nipype.workflow INFO: | |
[Node] Finished "_autorecon_surfs1". | |
200323-14:17:38,285 nipype.workflow INFO: | |
[Node] Finished "fmriprep_wf.single_subject_01_wf.anat_preproc_wf.surface_recon_wf.autorecon_resume_wf.autorecon_surfs". | |
200323-14:17:39,897 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". | |
200323-14:17:39,907 nipype.interface INFO: | |
recon-all complete : Not running | |
200323-14:17:39,908 nipype.workflow INFO: | |
[Node] Running "cortribbon" ("smriprep.interfaces.freesurfer.ReconAll"), a CommandLine Interface with command: | |
echo recon-all: nothing to do | |
200323-14:17:39,909 nipype.interface INFO: | |
recon-all complete : Not running | |
200323-14:17:39,997 nipype.workflow INFO: | |
[Node] Finished "fmriprep_wf.single_subject_01_wf.anat_preproc_wf.surface_recon_wf.autorecon_resume_wf.cortribbon". | |
200323-14:17:43,904 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". | |
200323-14:17:43,918 nipype.interface INFO: | |
recon-all complete : Not running | |
200323-14:17:43,919 nipype.workflow INFO: | |
[Node] Running "_parcstats0" ("smriprep.interfaces.freesurfer.ReconAll"), a CommandLine Interface with command: | |
echo recon-all: nothing to do | |
200323-14:17:43,920 nipype.interface INFO: | |
recon-all complete : Not running | |
200323-14:17:44,6 nipype.workflow INFO: | |
[Node] Finished "_parcstats0". | |
200323-14:17:45,903 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". | |
200323-14:17:45,915 nipype.interface INFO: | |
recon-all complete : Not running | |
200323-14:17:45,916 nipype.workflow INFO: | |
[Node] Running "_parcstats1" ("smriprep.interfaces.freesurfer.ReconAll"), a CommandLine Interface with command: | |
echo recon-all: nothing to do | |
200323-14:17:45,917 nipype.interface INFO: | |
recon-all complete : Not running | |
200323-14:17:45,998 nipype.workflow INFO: | |
[Node] Finished "_parcstats1". | |
200323-14:17:47,907 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". | |
200323-14:17:47,919 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". | |
200323-14:17:47,924 nipype.interface INFO: | |
recon-all complete : Not running | |
200323-14:17:47,924 nipype.workflow INFO: | |
[Node] Running "_parcstats0" ("smriprep.interfaces.freesurfer.ReconAll"), a CommandLine Interface with command: | |
echo recon-all: nothing to do | |
200323-14:17:47,925 nipype.interface INFO: | |
recon-all complete : Not running | |
200323-14:17:48,11 nipype.workflow INFO: | |
[Node] Finished "_parcstats0". | |
200323-14:17:48,14 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". | |
200323-14:17:48,19 nipype.interface INFO: | |
recon-all complete : Not running | |
200323-14:17:48,19 nipype.workflow INFO: | |
[Node] Running "_parcstats1" ("smriprep.interfaces.freesurfer.ReconAll"), a CommandLine Interface with command: | |
echo recon-all: nothing to do | |
200323-14:17:48,21 nipype.interface INFO: | |
recon-all complete : Not running | |
200323-14:17:48,108 nipype.workflow INFO: | |
[Node] Finished "_parcstats1". | |
200323-14:17:48,112 nipype.workflow INFO: | |
[Node] Finished "fmriprep_wf.single_subject_01_wf.anat_preproc_wf.surface_recon_wf.autorecon_resume_wf.parcstats". | |
200323-14:17:49,907 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". | |
200323-14:17:49,921 nipype.interface INFO: | |
recon-all complete : Not running | |
200323-14:17:49,922 nipype.workflow INFO: | |
[Node] Running "autorecon3" ("smriprep.interfaces.freesurfer.ReconAll"), a CommandLine Interface with command: | |
echo recon-all: nothing to do | |
200323-14:17:49,923 nipype.interface INFO: | |
recon-all complete : Not running | |
200323-14:17:50,13 nipype.workflow INFO: | |
[Node] Finished "fmriprep_wf.single_subject_01_wf.anat_preproc_wf.surface_recon_wf.autorecon_resume_wf.autorecon3". | |
200323-14:17:51,913 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". | |
200323-14:17:51,919 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". | |
200323-14:17:51,922 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". | |
200323-14:17:51,926 nipype.workflow INFO: | |
[Node] Running "recon_report" ("smriprep.interfaces.reports.FSSurfaceReport") | |
200323-14:17:51,931 nipype.workflow INFO: | |
[Node] Running "fs_datasource" ("nipype.interfaces.io.FreeSurferSource") | |
200323-14:17:51,942 nipype.workflow INFO: | |
[Node] Running "fs_datasource" ("nipype.interfaces.io.FreeSurferSource") | |
200323-14:17:51,953 nipype.workflow INFO: | |
[Node] Finished "fmriprep_wf.single_subject_01_wf.anat_preproc_wf.surface_recon_wf.segs_to_native_aparc_aseg.fs_datasource". | |
200323-14:17:51,958 nipype.workflow INFO: | |
[Node] Finished "fmriprep_wf.single_subject_01_wf.anat_preproc_wf.surface_recon_wf.segs_to_native_aseg.fs_datasource". | |
200323-14:17:53,924 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". | |
200323-14:17:53,933 nipype.workflow INFO: | |
[Node] Running "get_surfaces" ("nipype.interfaces.io.FreeSurferSource") | |
200323-14:17:53,946 nipype.workflow INFO: | |
[Node] Finished "fmriprep_wf.single_subject_01_wf.anat_preproc_wf.surface_recon_wf.gifti_surface_wf.get_surfaces". | |
200323-14:18:03,428 nipype.workflow INFO: | |
[Node] Finished "fmriprep_wf.single_subject_01_wf.anat_preproc_wf.anat_reports_wf.recon_report". | |
200323-14:18:30,221 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". | |
200323-14:18:30,232 nipype.workflow INFO: | |
[Node] Running "save_midthickness" ("nipype.interfaces.io.DataSink") | |
200323-14:18:30,531 nipype.workflow INFO: | |
[Node] Finished "fmriprep_wf.single_subject_01_wf.anat_preproc_wf.surface_recon_wf.gifti_surface_wf.save_midthickness". |