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Merge pull request #2866 from effigies/ci/fix/21_0_x
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CI: Fix non-fasttrack outputs for maint/21.0.x
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@effigies
effigies authored Sep 28, 2022
2 parents 3209f62 + 08c2326 commit bf7ba66
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Showing 5 changed files with 76 additions and 173 deletions.
5 changes: 4 additions & 1 deletion .circleci/config.yml
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@@ -1,6 +1,6 @@
version: 2.1
orbs:
docker: circleci/docker@1.6.0
docker: circleci/docker@2.1.4

jobs:
build:
Expand Down Expand Up @@ -506,6 +506,9 @@ jobs:
sudo cp -a /tmp/${DATASET}/work /tmp/${DATASET}/work_partial
sudo cp -a /tmp/${DATASET}/work /tmp/${DATASET}/work_bids
sudo rm -rf /tmp/${DATASET}/work_partial/fmriprep_wf/single_subject_01_wf/func_preproc_task_mixedgamblestask_run_02_wf/ica_aroma_wf
# Nipype sometimes fails to pick up when the base directory changes
# This is a cheap workflow, so let's not fuss
sudo rm -rf /tmp/${DATASET}/work /tmp/${DATASET}/work_bids/fmriprep_wf/single_subject_01_wf/anat_preproc_wf/surface_recon_wf/gifti_surface_wf || true
- run:
name: Checking outputs of full fMRIPrep run
command: |
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36 changes: 8 additions & 28 deletions .circleci/ds005_bids_outputs.txt
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Expand Up @@ -32,41 +32,21 @@ bids/sub-01/anat/sub-01_hemi-R_smoothwm.surf.gii
bids/sub-01/anat/sub-01_label-CSF_probseg.nii.gz
bids/sub-01/anat/sub-01_label-GM_probseg.nii.gz
bids/sub-01/anat/sub-01_label-WM_probseg.nii.gz
bids/sub-01/anat/sub-01_space-MNI152NLin2009cAsym_desc-brain_mask.json
bids/sub-01/anat/sub-01_space-MNI152NLin2009cAsym_desc-brain_mask.nii.gz
bids/sub-01/anat/sub-01_space-MNI152NLin2009cAsym_desc-preproc_T1w.json
bids/sub-01/anat/sub-01_space-MNI152NLin2009cAsym_desc-preproc_T1w.nii.gz
bids/sub-01/anat/sub-01_space-MNI152NLin2009cAsym_dseg.nii.gz
bids/sub-01/anat/sub-01_space-MNI152NLin2009cAsym_label-CSF_probseg.nii.gz
bids/sub-01/anat/sub-01_space-MNI152NLin2009cAsym_label-GM_probseg.nii.gz
bids/sub-01/anat/sub-01_space-MNI152NLin2009cAsym_label-WM_probseg.nii.gz
bids/sub-01/fmap
bids/sub-01/fmap/sub-01_fmapid-auto00000_desc-coeff0_fieldmap.nii.gz
bids/sub-01/fmap/sub-01_fmapid-auto00000_desc-coeff1_fieldmap.nii.gz
bids/sub-01/fmap/sub-01_fmapid-auto00000_desc-magnitude_fieldmap.nii.gz
bids/sub-01/fmap/sub-01_fmapid-auto00000_desc-preproc_fieldmap.json
bids/sub-01/fmap/sub-01_fmapid-auto00000_desc-preproc_fieldmap.nii.gz
bids/sub-01/func
bids/sub-01/func/sub-01_task-mixedgamblestask_run-1_desc-confounds_timeseries.json
bids/sub-01/func/sub-01_task-mixedgamblestask_run-1_desc-confounds_timeseries.tsv
bids/sub-01/func/sub-01_task-mixedgamblestask_run-1_from-scanner_to-T1w_mode-image_xfm.txt
bids/sub-01/func/sub-01_task-mixedgamblestask_run-1_from-T1w_to-scanner_mode-image_xfm.txt
bids/sub-01/func/sub-01_task-mixedgamblestask_run-1_space-MNI152NLin2009cAsym_boldref.nii.gz
bids/sub-01/func/sub-01_task-mixedgamblestask_run-1_space-MNI152NLin2009cAsym_desc-aparcaseg_dseg.nii.gz
bids/sub-01/func/sub-01_task-mixedgamblestask_run-1_space-MNI152NLin2009cAsym_desc-aseg_dseg.nii.gz
bids/sub-01/func/sub-01_task-mixedgamblestask_run-1_space-MNI152NLin2009cAsym_desc-brain_mask.json
bids/sub-01/func/sub-01_task-mixedgamblestask_run-1_space-MNI152NLin2009cAsym_desc-brain_mask.nii.gz
bids/sub-01/func/sub-01_task-mixedgamblestask_run-1_space-MNI152NLin2009cAsym_desc-preproc_bold.json
bids/sub-01/func/sub-01_task-mixedgamblestask_run-1_space-MNI152NLin2009cAsym_desc-preproc_bold.nii.gz
bids/sub-01/func/sub-01_task-mixedgamblestask_run-1_hemi-L_space-fsaverage5_bold.func.gii
bids/sub-01/func/sub-01_task-mixedgamblestask_run-1_hemi-L_space-fsaverage5_bold.json
bids/sub-01/func/sub-01_task-mixedgamblestask_run-1_hemi-R_space-fsaverage5_bold.func.gii
bids/sub-01/func/sub-01_task-mixedgamblestask_run-1_hemi-R_space-fsaverage5_bold.json
bids/sub-01/func/sub-01_task-mixedgamblestask_run-2_desc-confounds_timeseries.json
bids/sub-01/func/sub-01_task-mixedgamblestask_run-2_desc-confounds_timeseries.tsv
bids/sub-01/func/sub-01_task-mixedgamblestask_run-2_from-scanner_to-T1w_mode-image_xfm.txt
bids/sub-01/func/sub-01_task-mixedgamblestask_run-2_from-T1w_to-scanner_mode-image_xfm.txt
bids/sub-01/func/sub-01_task-mixedgamblestask_run-2_space-MNI152NLin2009cAsym_boldref.nii.gz
bids/sub-01/func/sub-01_task-mixedgamblestask_run-2_space-MNI152NLin2009cAsym_desc-aparcaseg_dseg.nii.gz
bids/sub-01/func/sub-01_task-mixedgamblestask_run-2_space-MNI152NLin2009cAsym_desc-aseg_dseg.nii.gz
bids/sub-01/func/sub-01_task-mixedgamblestask_run-2_space-MNI152NLin2009cAsym_desc-brain_mask.json
bids/sub-01/func/sub-01_task-mixedgamblestask_run-2_space-MNI152NLin2009cAsym_desc-brain_mask.nii.gz
bids/sub-01/func/sub-01_task-mixedgamblestask_run-2_space-MNI152NLin2009cAsym_desc-preproc_bold.json
bids/sub-01/func/sub-01_task-mixedgamblestask_run-2_space-MNI152NLin2009cAsym_desc-preproc_bold.nii.gz
bids/sub-01/func/sub-01_task-mixedgamblestask_run-2_hemi-L_space-fsaverage5_bold.func.gii
bids/sub-01/func/sub-01_task-mixedgamblestask_run-2_hemi-L_space-fsaverage5_bold.json
bids/sub-01/func/sub-01_task-mixedgamblestask_run-2_hemi-R_space-fsaverage5_bold.func.gii
bids/sub-01/func/sub-01_task-mixedgamblestask_run-2_hemi-R_space-fsaverage5_bold.json
bids/sub-01.html
112 changes: 16 additions & 96 deletions .circleci/ds005_legacy_outputs.txt
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Expand Up @@ -19,10 +19,8 @@ fmriprep/sub-01/anat/sub-01_desc-preproc_T1w.nii.gz
fmriprep/sub-01/anat/sub-01_dseg.nii.gz
fmriprep/sub-01/anat/sub-01_from-fsnative_to-T1w_mode-image_xfm.txt
fmriprep/sub-01/anat/sub-01_from-MNI152NLin2009cAsym_to-T1w_mode-image_xfm.h5
fmriprep/sub-01/anat/sub-01_from-MNI152NLin6Asym_to-T1w_mode-image_xfm.h5
fmriprep/sub-01/anat/sub-01_from-T1w_to-fsnative_mode-image_xfm.txt
fmriprep/sub-01/anat/sub-01_from-T1w_to-MNI152NLin2009cAsym_mode-image_xfm.h5
fmriprep/sub-01/anat/sub-01_from-T1w_to-MNI152NLin6Asym_mode-image_xfm.h5
fmriprep/sub-01/anat/sub-01_hemi-L_inflated.surf.gii
fmriprep/sub-01/anat/sub-01_hemi-L_midthickness.surf.gii
fmriprep/sub-01/anat/sub-01_hemi-L_pial.surf.gii
Expand All @@ -34,108 +32,30 @@ fmriprep/sub-01/anat/sub-01_hemi-R_smoothwm.surf.gii
fmriprep/sub-01/anat/sub-01_label-CSF_probseg.nii.gz
fmriprep/sub-01/anat/sub-01_label-GM_probseg.nii.gz
fmriprep/sub-01/anat/sub-01_label-WM_probseg.nii.gz
fmriprep/sub-01/anat/sub-01_space-MNI152NLin2009cAsym_desc-brain_mask.json
fmriprep/sub-01/anat/sub-01_space-MNI152NLin2009cAsym_desc-brain_mask.nii.gz
fmriprep/sub-01/anat/sub-01_space-MNI152NLin2009cAsym_desc-preproc_T1w.json
fmriprep/sub-01/anat/sub-01_space-MNI152NLin2009cAsym_desc-preproc_T1w.nii.gz
fmriprep/sub-01/anat/sub-01_space-MNI152NLin2009cAsym_dseg.nii.gz
fmriprep/sub-01/anat/sub-01_space-MNI152NLin2009cAsym_label-CSF_probseg.nii.gz
fmriprep/sub-01/anat/sub-01_space-MNI152NLin2009cAsym_label-GM_probseg.nii.gz
fmriprep/sub-01/anat/sub-01_space-MNI152NLin2009cAsym_label-WM_probseg.nii.gz
fmriprep/sub-01/anat/sub-01_space-MNI152NLin6Asym_desc-brain_mask.json
fmriprep/sub-01/anat/sub-01_space-MNI152NLin6Asym_desc-brain_mask.nii.gz
fmriprep/sub-01/anat/sub-01_space-MNI152NLin6Asym_desc-preproc_T1w.json
fmriprep/sub-01/anat/sub-01_space-MNI152NLin6Asym_desc-preproc_T1w.nii.gz
fmriprep/sub-01/anat/sub-01_space-MNI152NLin6Asym_dseg.nii.gz
fmriprep/sub-01/anat/sub-01_space-MNI152NLin6Asym_label-CSF_probseg.nii.gz
fmriprep/sub-01/anat/sub-01_space-MNI152NLin6Asym_label-GM_probseg.nii.gz
fmriprep/sub-01/anat/sub-01_space-MNI152NLin6Asym_label-WM_probseg.nii.gz
fmriprep/sub-01/fmap
fmriprep/sub-01/fmap/sub-01_fmapid-auto00000_desc-coeff0_fieldmap.nii.gz
fmriprep/sub-01/fmap/sub-01_fmapid-auto00000_desc-coeff1_fieldmap.nii.gz
fmriprep/sub-01/fmap/sub-01_fmapid-auto00000_desc-magnitude_fieldmap.nii.gz
fmriprep/sub-01/fmap/sub-01_fmapid-auto00000_desc-preproc_fieldmap.json
fmriprep/sub-01/fmap/sub-01_fmapid-auto00000_desc-preproc_fieldmap.nii.gz
fmriprep/sub-01/func
fmriprep/sub-01/func/sub-01_task-mixedgamblestask_run-1_AROMAnoiseICs.csv
fmriprep/sub-01/func/sub-01_task-mixedgamblestask_run-1_desc-confounds_timeseries.json
fmriprep/sub-01/func/sub-01_task-mixedgamblestask_run-1_desc-confounds_timeseries.tsv
fmriprep/sub-01/func/sub-01_task-mixedgamblestask_run-1_desc-MELODIC_mixing.tsv
fmriprep/sub-01/func/sub-01_task-mixedgamblestask_run-1_from-scanner_to-T1w_mode-image_xfm.txt
fmriprep/sub-01/func/sub-01_task-mixedgamblestask_run-1_from-T1w_to-scanner_mode-image_xfm.txt
fmriprep/sub-01/func/sub-01_task-mixedgamblestask_run-1_space-fsaverage5_hemi-L_bold.func.gii
fmriprep/sub-01/func/sub-01_task-mixedgamblestask_run-1_space-fsaverage5_hemi-L_bold.json
fmriprep/sub-01/func/sub-01_task-mixedgamblestask_run-1_space-fsaverage5_hemi-R_bold.func.gii
fmriprep/sub-01/func/sub-01_task-mixedgamblestask_run-1_space-fsaverage5_hemi-R_bold.json
fmriprep/sub-01/func/sub-01_task-mixedgamblestask_run-1_space-fsLR_den-91k_bold.dtseries.json
fmriprep/sub-01/func/sub-01_task-mixedgamblestask_run-1_space-fsLR_den-91k_bold.dtseries.nii
fmriprep/sub-01/func/sub-01_task-mixedgamblestask_run-1_space-fsLR_den-91k_bold.json
fmriprep/sub-01/func/sub-01_task-mixedgamblestask_run-1_space-fsnative_hemi-L_bold.func.gii
fmriprep/sub-01/func/sub-01_task-mixedgamblestask_run-1_space-fsnative_hemi-L_bold.json
fmriprep/sub-01/func/sub-01_task-mixedgamblestask_run-1_space-fsnative_hemi-R_bold.func.gii
fmriprep/sub-01/func/sub-01_task-mixedgamblestask_run-1_space-fsnative_hemi-R_bold.json
fmriprep/sub-01/func/sub-01_task-mixedgamblestask_run-1_space-MNI152NLin2009cAsym_boldref.nii.gz
fmriprep/sub-01/func/sub-01_task-mixedgamblestask_run-1_space-MNI152NLin2009cAsym_desc-aparcaseg_dseg.nii.gz
fmriprep/sub-01/func/sub-01_task-mixedgamblestask_run-1_space-MNI152NLin2009cAsym_desc-aseg_dseg.nii.gz
fmriprep/sub-01/func/sub-01_task-mixedgamblestask_run-1_space-MNI152NLin2009cAsym_desc-brain_mask.json
fmriprep/sub-01/func/sub-01_task-mixedgamblestask_run-1_space-MNI152NLin2009cAsym_desc-brain_mask.nii.gz
fmriprep/sub-01/func/sub-01_task-mixedgamblestask_run-1_space-MNI152NLin2009cAsym_desc-preproc_bold.json
fmriprep/sub-01/func/sub-01_task-mixedgamblestask_run-1_space-MNI152NLin2009cAsym_desc-preproc_bold.nii.gz
fmriprep/sub-01/func/sub-01_task-mixedgamblestask_run-1_space-MNI152NLin6Asym_boldref.nii.gz
fmriprep/sub-01/func/sub-01_task-mixedgamblestask_run-1_space-MNI152NLin6Asym_desc-aparcaseg_dseg.nii.gz
fmriprep/sub-01/func/sub-01_task-mixedgamblestask_run-1_space-MNI152NLin6Asym_desc-aseg_dseg.nii.gz
fmriprep/sub-01/func/sub-01_task-mixedgamblestask_run-1_space-MNI152NLin6Asym_desc-brain_mask.json
fmriprep/sub-01/func/sub-01_task-mixedgamblestask_run-1_space-MNI152NLin6Asym_desc-brain_mask.nii.gz
fmriprep/sub-01/func/sub-01_task-mixedgamblestask_run-1_space-MNI152NLin6Asym_desc-preproc_bold.json
fmriprep/sub-01/func/sub-01_task-mixedgamblestask_run-1_space-MNI152NLin6Asym_desc-preproc_bold.nii.gz
fmriprep/sub-01/func/sub-01_task-mixedgamblestask_run-1_space-MNI152NLin6Asym_desc-smoothAROMAnonaggr_bold.json
fmriprep/sub-01/func/sub-01_task-mixedgamblestask_run-1_space-MNI152NLin6Asym_desc-smoothAROMAnonaggr_bold.nii.gz
fmriprep/sub-01/func/sub-01_task-mixedgamblestask_run-1_space-T1w_boldref.nii.gz
fmriprep/sub-01/func/sub-01_task-mixedgamblestask_run-1_space-T1w_desc-aparcaseg_dseg.nii.gz
fmriprep/sub-01/func/sub-01_task-mixedgamblestask_run-1_space-T1w_desc-aseg_dseg.nii.gz
fmriprep/sub-01/func/sub-01_task-mixedgamblestask_run-1_space-T1w_desc-brain_mask.json
fmriprep/sub-01/func/sub-01_task-mixedgamblestask_run-1_space-T1w_desc-brain_mask.nii.gz
fmriprep/sub-01/func/sub-01_task-mixedgamblestask_run-1_space-T1w_desc-preproc_bold.json
fmriprep/sub-01/func/sub-01_task-mixedgamblestask_run-1_space-T1w_desc-preproc_bold.nii.gz
fmriprep/sub-01/func/sub-01_task-mixedgamblestask_run-2_AROMAnoiseICs.csv
fmriprep/sub-01/func/sub-01_task-mixedgamblestask_run-1_hemi-L_space-fsaverage5_bold.func.gii
fmriprep/sub-01/func/sub-01_task-mixedgamblestask_run-1_hemi-L_space-fsaverage5_bold.json
fmriprep/sub-01/func/sub-01_task-mixedgamblestask_run-1_hemi-L_space-fsnative_bold.func.gii
fmriprep/sub-01/func/sub-01_task-mixedgamblestask_run-1_hemi-L_space-fsnative_bold.json
fmriprep/sub-01/func/sub-01_task-mixedgamblestask_run-1_hemi-R_space-fsaverage5_bold.func.gii
fmriprep/sub-01/func/sub-01_task-mixedgamblestask_run-1_hemi-R_space-fsaverage5_bold.json
fmriprep/sub-01/func/sub-01_task-mixedgamblestask_run-1_hemi-R_space-fsnative_bold.func.gii
fmriprep/sub-01/func/sub-01_task-mixedgamblestask_run-1_hemi-R_space-fsnative_bold.json
fmriprep/sub-01/func/sub-01_task-mixedgamblestask_run-2_desc-confounds_timeseries.json
fmriprep/sub-01/func/sub-01_task-mixedgamblestask_run-2_desc-confounds_timeseries.tsv
fmriprep/sub-01/func/sub-01_task-mixedgamblestask_run-2_desc-MELODIC_mixing.tsv
fmriprep/sub-01/func/sub-01_task-mixedgamblestask_run-2_from-scanner_to-T1w_mode-image_xfm.txt
fmriprep/sub-01/func/sub-01_task-mixedgamblestask_run-2_from-T1w_to-scanner_mode-image_xfm.txt
fmriprep/sub-01/func/sub-01_task-mixedgamblestask_run-2_space-fsaverage5_hemi-L_bold.func.gii
fmriprep/sub-01/func/sub-01_task-mixedgamblestask_run-2_space-fsaverage5_hemi-L_bold.json
fmriprep/sub-01/func/sub-01_task-mixedgamblestask_run-2_space-fsaverage5_hemi-R_bold.func.gii
fmriprep/sub-01/func/sub-01_task-mixedgamblestask_run-2_space-fsaverage5_hemi-R_bold.json
fmriprep/sub-01/func/sub-01_task-mixedgamblestask_run-2_space-fsLR_den-91k_bold.dtseries.json
fmriprep/sub-01/func/sub-01_task-mixedgamblestask_run-2_space-fsLR_den-91k_bold.dtseries.nii
fmriprep/sub-01/func/sub-01_task-mixedgamblestask_run-2_space-fsLR_den-91k_bold.json
fmriprep/sub-01/func/sub-01_task-mixedgamblestask_run-2_space-fsnative_hemi-L_bold.func.gii
fmriprep/sub-01/func/sub-01_task-mixedgamblestask_run-2_space-fsnative_hemi-L_bold.json
fmriprep/sub-01/func/sub-01_task-mixedgamblestask_run-2_space-fsnative_hemi-R_bold.func.gii
fmriprep/sub-01/func/sub-01_task-mixedgamblestask_run-2_space-fsnative_hemi-R_bold.json
fmriprep/sub-01/func/sub-01_task-mixedgamblestask_run-2_space-MNI152NLin2009cAsym_boldref.nii.gz
fmriprep/sub-01/func/sub-01_task-mixedgamblestask_run-2_space-MNI152NLin2009cAsym_desc-aparcaseg_dseg.nii.gz
fmriprep/sub-01/func/sub-01_task-mixedgamblestask_run-2_space-MNI152NLin2009cAsym_desc-aseg_dseg.nii.gz
fmriprep/sub-01/func/sub-01_task-mixedgamblestask_run-2_space-MNI152NLin2009cAsym_desc-brain_mask.json
fmriprep/sub-01/func/sub-01_task-mixedgamblestask_run-2_space-MNI152NLin2009cAsym_desc-brain_mask.nii.gz
fmriprep/sub-01/func/sub-01_task-mixedgamblestask_run-2_space-MNI152NLin2009cAsym_desc-preproc_bold.json
fmriprep/sub-01/func/sub-01_task-mixedgamblestask_run-2_space-MNI152NLin2009cAsym_desc-preproc_bold.nii.gz
fmriprep/sub-01/func/sub-01_task-mixedgamblestask_run-2_space-MNI152NLin6Asym_boldref.nii.gz
fmriprep/sub-01/func/sub-01_task-mixedgamblestask_run-2_space-MNI152NLin6Asym_desc-aparcaseg_dseg.nii.gz
fmriprep/sub-01/func/sub-01_task-mixedgamblestask_run-2_space-MNI152NLin6Asym_desc-aseg_dseg.nii.gz
fmriprep/sub-01/func/sub-01_task-mixedgamblestask_run-2_space-MNI152NLin6Asym_desc-brain_mask.json
fmriprep/sub-01/func/sub-01_task-mixedgamblestask_run-2_space-MNI152NLin6Asym_desc-brain_mask.nii.gz
fmriprep/sub-01/func/sub-01_task-mixedgamblestask_run-2_space-MNI152NLin6Asym_desc-preproc_bold.json
fmriprep/sub-01/func/sub-01_task-mixedgamblestask_run-2_space-MNI152NLin6Asym_desc-preproc_bold.nii.gz
fmriprep/sub-01/func/sub-01_task-mixedgamblestask_run-2_space-MNI152NLin6Asym_desc-smoothAROMAnonaggr_bold.json
fmriprep/sub-01/func/sub-01_task-mixedgamblestask_run-2_space-MNI152NLin6Asym_desc-smoothAROMAnonaggr_bold.nii.gz
fmriprep/sub-01/func/sub-01_task-mixedgamblestask_run-2_space-T1w_boldref.nii.gz
fmriprep/sub-01/func/sub-01_task-mixedgamblestask_run-2_space-T1w_desc-aparcaseg_dseg.nii.gz
fmriprep/sub-01/func/sub-01_task-mixedgamblestask_run-2_space-T1w_desc-aseg_dseg.nii.gz
fmriprep/sub-01/func/sub-01_task-mixedgamblestask_run-2_space-T1w_desc-brain_mask.json
fmriprep/sub-01/func/sub-01_task-mixedgamblestask_run-2_space-T1w_desc-brain_mask.nii.gz
fmriprep/sub-01/func/sub-01_task-mixedgamblestask_run-2_space-T1w_desc-preproc_bold.json
fmriprep/sub-01/func/sub-01_task-mixedgamblestask_run-2_space-T1w_desc-preproc_bold.nii.gz
fmriprep/sub-01/func/sub-01_task-mixedgamblestask_run-2_hemi-L_space-fsaverage5_bold.func.gii
fmriprep/sub-01/func/sub-01_task-mixedgamblestask_run-2_hemi-L_space-fsaverage5_bold.json
fmriprep/sub-01/func/sub-01_task-mixedgamblestask_run-2_hemi-L_space-fsnative_bold.func.gii
fmriprep/sub-01/func/sub-01_task-mixedgamblestask_run-2_hemi-L_space-fsnative_bold.json
fmriprep/sub-01/func/sub-01_task-mixedgamblestask_run-2_hemi-R_space-fsaverage5_bold.func.gii
fmriprep/sub-01/func/sub-01_task-mixedgamblestask_run-2_hemi-R_space-fsaverage5_bold.json
fmriprep/sub-01/func/sub-01_task-mixedgamblestask_run-2_hemi-R_space-fsnative_bold.func.gii
fmriprep/sub-01/func/sub-01_task-mixedgamblestask_run-2_hemi-R_space-fsnative_bold.json
fmriprep/sub-01.html
/tmp/ds005/derivatives
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