Track Sources for standard-space outputs (#3262)

References #3261. ## Changes proposed in this pull request - Track `Sources` for standard-space outputs --------- Co-authored-by: Chris Markiewicz <[email protected]>
nipreps · Mar 27, 2024 · 8eb8215 · 8eb8215
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diff --git a/.circleci/ds005_partial_fasttrack_outputs.txt b/.circleci/ds005_partial_fasttrack_outputs.txt
@@ -73,15 +73,21 @@ sub-01/func/sub-01_task-mixedgamblestask_run-02_hemi-R_space-fsnative_bold.func.
 sub-01/func/sub-01_task-mixedgamblestask_run-02_hemi-R_space-fsnative_bold.json
 sub-01/func/sub-01_task-mixedgamblestask_run-02_space-fsLR_den-91k_bold.dtseries.nii
 sub-01/func/sub-01_task-mixedgamblestask_run-02_space-fsLR_den-91k_bold.json
+sub-01/func/sub-01_task-mixedgamblestask_run-02_space-MNI152NLin2009cAsym_boldref.json
 sub-01/func/sub-01_task-mixedgamblestask_run-02_space-MNI152NLin2009cAsym_boldref.nii.gz
+sub-01/func/sub-01_task-mixedgamblestask_run-02_space-MNI152NLin2009cAsym_desc-brain_mask.json
 sub-01/func/sub-01_task-mixedgamblestask_run-02_space-MNI152NLin2009cAsym_desc-brain_mask.nii.gz
 sub-01/func/sub-01_task-mixedgamblestask_run-02_space-MNI152NLin2009cAsym_desc-preproc_bold.json
 sub-01/func/sub-01_task-mixedgamblestask_run-02_space-MNI152NLin2009cAsym_desc-preproc_bold.nii.gz
+sub-01/func/sub-01_task-mixedgamblestask_run-02_space-MNI152NLin6Asym_boldref.json
 sub-01/func/sub-01_task-mixedgamblestask_run-02_space-MNI152NLin6Asym_boldref.nii.gz
+sub-01/func/sub-01_task-mixedgamblestask_run-02_space-MNI152NLin6Asym_desc-brain_mask.json
 sub-01/func/sub-01_task-mixedgamblestask_run-02_space-MNI152NLin6Asym_desc-brain_mask.nii.gz
 sub-01/func/sub-01_task-mixedgamblestask_run-02_space-MNI152NLin6Asym_desc-preproc_bold.json
 sub-01/func/sub-01_task-mixedgamblestask_run-02_space-MNI152NLin6Asym_desc-preproc_bold.nii.gz
+sub-01/func/sub-01_task-mixedgamblestask_run-02_space-T1w_boldref.json
 sub-01/func/sub-01_task-mixedgamblestask_run-02_space-T1w_boldref.nii.gz
+sub-01/func/sub-01_task-mixedgamblestask_run-02_space-T1w_desc-brain_mask.json
 sub-01/func/sub-01_task-mixedgamblestask_run-02_space-T1w_desc-brain_mask.nii.gz
 sub-01/func/sub-01_task-mixedgamblestask_run-02_space-T1w_desc-preproc_bold.json
 sub-01/func/sub-01_task-mixedgamblestask_run-02_space-T1w_desc-preproc_bold.nii.gz

diff --git a/.circleci/ds005_partial_outputs.txt b/.circleci/ds005_partial_outputs.txt
@@ -95,15 +95,21 @@ sub-01/func/sub-01_task-mixedgamblestask_run-02_hemi-R_space-fsnative_bold.func.
 sub-01/func/sub-01_task-mixedgamblestask_run-02_hemi-R_space-fsnative_bold.json
 sub-01/func/sub-01_task-mixedgamblestask_run-02_space-fsLR_den-91k_bold.dtseries.nii
 sub-01/func/sub-01_task-mixedgamblestask_run-02_space-fsLR_den-91k_bold.json
+sub-01/func/sub-01_task-mixedgamblestask_run-02_space-MNI152NLin2009cAsym_boldref.json
 sub-01/func/sub-01_task-mixedgamblestask_run-02_space-MNI152NLin2009cAsym_boldref.nii.gz
+sub-01/func/sub-01_task-mixedgamblestask_run-02_space-MNI152NLin2009cAsym_desc-brain_mask.json
 sub-01/func/sub-01_task-mixedgamblestask_run-02_space-MNI152NLin2009cAsym_desc-brain_mask.nii.gz
 sub-01/func/sub-01_task-mixedgamblestask_run-02_space-MNI152NLin2009cAsym_desc-preproc_bold.json
 sub-01/func/sub-01_task-mixedgamblestask_run-02_space-MNI152NLin2009cAsym_desc-preproc_bold.nii.gz
+sub-01/func/sub-01_task-mixedgamblestask_run-02_space-MNI152NLin6Asym_boldref.json
 sub-01/func/sub-01_task-mixedgamblestask_run-02_space-MNI152NLin6Asym_boldref.nii.gz
+sub-01/func/sub-01_task-mixedgamblestask_run-02_space-MNI152NLin6Asym_desc-brain_mask.json
 sub-01/func/sub-01_task-mixedgamblestask_run-02_space-MNI152NLin6Asym_desc-brain_mask.nii.gz
 sub-01/func/sub-01_task-mixedgamblestask_run-02_space-MNI152NLin6Asym_desc-preproc_bold.json
 sub-01/func/sub-01_task-mixedgamblestask_run-02_space-MNI152NLin6Asym_desc-preproc_bold.nii.gz
+sub-01/func/sub-01_task-mixedgamblestask_run-02_space-T1w_boldref.json
 sub-01/func/sub-01_task-mixedgamblestask_run-02_space-T1w_boldref.nii.gz
+sub-01/func/sub-01_task-mixedgamblestask_run-02_space-T1w_desc-brain_mask.json
 sub-01/func/sub-01_task-mixedgamblestask_run-02_space-T1w_desc-brain_mask.nii.gz
 sub-01/func/sub-01_task-mixedgamblestask_run-02_space-T1w_desc-preproc_bold.json
 sub-01/func/sub-01_task-mixedgamblestask_run-02_space-T1w_desc-preproc_bold.nii.gz

diff --git a/.circleci/ds054_fasttrack_outputs.txt b/.circleci/ds054_fasttrack_outputs.txt
@@ -46,7 +46,9 @@ sub-100185/func/sub-100185_task-machinegame_run-01_space-MNI152NLin2009cAsym_res
 sub-100185/func/sub-100185_task-machinegame_run-01_space-MNI152NLin2009cAsym_res-2_desc-brain_mask.nii.gz
 sub-100185/func/sub-100185_task-machinegame_run-01_space-MNI152NLin2009cAsym_res-2_desc-preproc_bold.json
 sub-100185/func/sub-100185_task-machinegame_run-01_space-MNI152NLin2009cAsym_res-2_desc-preproc_bold.nii.gz
+sub-100185/func/sub-100185_task-machinegame_run-01_space-T1w_boldref.json
 sub-100185/func/sub-100185_task-machinegame_run-01_space-T1w_boldref.nii.gz
+sub-100185/func/sub-100185_task-machinegame_run-01_space-T1w_desc-brain_mask.json
 sub-100185/func/sub-100185_task-machinegame_run-01_space-T1w_desc-brain_mask.nii.gz
 sub-100185/func/sub-100185_task-machinegame_run-01_space-T1w_desc-preproc_bold.json
 sub-100185/func/sub-100185_task-machinegame_run-01_space-T1w_desc-preproc_bold.nii.gz
@@ -72,7 +74,9 @@ sub-100185/func/sub-100185_task-machinegame_run-02_space-MNI152NLin2009cAsym_res
 sub-100185/func/sub-100185_task-machinegame_run-02_space-MNI152NLin2009cAsym_res-2_desc-brain_mask.nii.gz
 sub-100185/func/sub-100185_task-machinegame_run-02_space-MNI152NLin2009cAsym_res-2_desc-preproc_bold.json
 sub-100185/func/sub-100185_task-machinegame_run-02_space-MNI152NLin2009cAsym_res-2_desc-preproc_bold.nii.gz
+sub-100185/func/sub-100185_task-machinegame_run-02_space-T1w_boldref.json
 sub-100185/func/sub-100185_task-machinegame_run-02_space-T1w_boldref.nii.gz
+sub-100185/func/sub-100185_task-machinegame_run-02_space-T1w_desc-brain_mask.json
 sub-100185/func/sub-100185_task-machinegame_run-02_space-T1w_desc-brain_mask.nii.gz
 sub-100185/func/sub-100185_task-machinegame_run-02_space-T1w_desc-preproc_bold.json
 sub-100185/func/sub-100185_task-machinegame_run-02_space-T1w_desc-preproc_bold.nii.gz

diff --git a/.circleci/ds054_outputs.txt b/.circleci/ds054_outputs.txt
@@ -56,7 +56,9 @@ sub-100185/func/sub-100185_task-machinegame_run-01_space-MNI152NLin2009cAsym_res
 sub-100185/func/sub-100185_task-machinegame_run-01_space-MNI152NLin2009cAsym_res-2_desc-brain_mask.nii.gz
 sub-100185/func/sub-100185_task-machinegame_run-01_space-MNI152NLin2009cAsym_res-2_desc-preproc_bold.json
 sub-100185/func/sub-100185_task-machinegame_run-01_space-MNI152NLin2009cAsym_res-2_desc-preproc_bold.nii.gz
+sub-100185/func/sub-100185_task-machinegame_run-01_space-T1w_boldref.json
 sub-100185/func/sub-100185_task-machinegame_run-01_space-T1w_boldref.nii.gz
+sub-100185/func/sub-100185_task-machinegame_run-01_space-T1w_desc-brain_mask.json
 sub-100185/func/sub-100185_task-machinegame_run-01_space-T1w_desc-brain_mask.nii.gz
 sub-100185/func/sub-100185_task-machinegame_run-01_space-T1w_desc-preproc_bold.json
 sub-100185/func/sub-100185_task-machinegame_run-01_space-T1w_desc-preproc_bold.nii.gz
@@ -82,7 +84,9 @@ sub-100185/func/sub-100185_task-machinegame_run-02_space-MNI152NLin2009cAsym_res
 sub-100185/func/sub-100185_task-machinegame_run-02_space-MNI152NLin2009cAsym_res-2_desc-brain_mask.nii.gz
 sub-100185/func/sub-100185_task-machinegame_run-02_space-MNI152NLin2009cAsym_res-2_desc-preproc_bold.json
 sub-100185/func/sub-100185_task-machinegame_run-02_space-MNI152NLin2009cAsym_res-2_desc-preproc_bold.nii.gz
+sub-100185/func/sub-100185_task-machinegame_run-02_space-T1w_boldref.json
 sub-100185/func/sub-100185_task-machinegame_run-02_space-T1w_boldref.nii.gz
+sub-100185/func/sub-100185_task-machinegame_run-02_space-T1w_desc-brain_mask.json
 sub-100185/func/sub-100185_task-machinegame_run-02_space-T1w_desc-brain_mask.nii.gz
 sub-100185/func/sub-100185_task-machinegame_run-02_space-T1w_desc-preproc_bold.json
 sub-100185/func/sub-100185_task-machinegame_run-02_space-T1w_desc-preproc_bold.nii.gz

diff --git a/.circleci/ds210_fasttrack_outputs.txt b/.circleci/ds210_fasttrack_outputs.txt
@@ -43,7 +43,9 @@ sub-02/func/sub-02_task-cuedSGT_run-01_from-boldref_to-T1w_mode-image_desc-coreg
 sub-02/func/sub-02_task-cuedSGT_run-01_from-boldref_to-T1w_mode-image_desc-coreg_xfm.txt
 sub-02/func/sub-02_task-cuedSGT_run-01_from-orig_to-boldref_mode-image_desc-hmc_xfm.json
 sub-02/func/sub-02_task-cuedSGT_run-01_from-orig_to-boldref_mode-image_desc-hmc_xfm.txt
+sub-02/func/sub-02_task-cuedSGT_run-01_space-MNI152NLin2009cAsym_boldref.json
 sub-02/func/sub-02_task-cuedSGT_run-01_space-MNI152NLin2009cAsym_boldref.nii.gz
+sub-02/func/sub-02_task-cuedSGT_run-01_space-MNI152NLin2009cAsym_desc-brain_mask.json
 sub-02/func/sub-02_task-cuedSGT_run-01_space-MNI152NLin2009cAsym_desc-brain_mask.nii.gz
 sub-02/func/sub-02_task-cuedSGT_run-01_space-MNI152NLin2009cAsym_desc-preproc_bold.json
 sub-02/func/sub-02_task-cuedSGT_run-01_space-MNI152NLin2009cAsym_desc-preproc_bold.nii.gz

diff --git a/.circleci/ds210_outputs.txt b/.circleci/ds210_outputs.txt
@@ -53,7 +53,9 @@ sub-02/func/sub-02_task-cuedSGT_run-01_from-boldref_to-T1w_mode-image_desc-coreg
 sub-02/func/sub-02_task-cuedSGT_run-01_from-boldref_to-T1w_mode-image_desc-coreg_xfm.txt
 sub-02/func/sub-02_task-cuedSGT_run-01_from-orig_to-boldref_mode-image_desc-hmc_xfm.json
 sub-02/func/sub-02_task-cuedSGT_run-01_from-orig_to-boldref_mode-image_desc-hmc_xfm.txt
+sub-02/func/sub-02_task-cuedSGT_run-01_space-MNI152NLin2009cAsym_boldref.json
 sub-02/func/sub-02_task-cuedSGT_run-01_space-MNI152NLin2009cAsym_boldref.nii.gz
+sub-02/func/sub-02_task-cuedSGT_run-01_space-MNI152NLin2009cAsym_desc-brain_mask.json
 sub-02/func/sub-02_task-cuedSGT_run-01_space-MNI152NLin2009cAsym_desc-brain_mask.nii.gz
 sub-02/func/sub-02_task-cuedSGT_run-01_space-MNI152NLin2009cAsym_desc-preproc_bold.json
 sub-02/func/sub-02_task-cuedSGT_run-01_space-MNI152NLin2009cAsym_desc-preproc_bold.nii.gz

diff --git a/fmriprep/workflows/bold/outputs.py b/fmriprep/workflows/bold/outputs.py
@@ -790,6 +790,7 @@ def init_ds_volumes_wf(
             ('cohort', 'cohort'),
             ('resolution', 'resolution'),
         ]),
+        (sources, ds_bold, [('out', 'Sources')]),
     ])  # fmt:skip
 
     resample_ref = pe.Node(
@@ -881,6 +882,9 @@ def init_ds_volumes_wf(
                 ('resolution', 'resolution'),
             ])
             for datasink in datasinks
+        ] + [
+            (sources, datasink, [('out', 'Sources')])
+            for datasink in datasinks
         ] + [
             (resampler, datasink, [('output_image', 'in_file')])
             for resampler, datasink in zip(resamplers, datasinks, strict=False)