Change "ciftiSubcortical" atlas name to "HCP" (#932)

PennLINC · Aug 1, 2023 · e7d9bab · e7d9bab
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diff --git a/docs/workflows.rst b/docs/workflows.rst
@@ -394,10 +394,11 @@ Parcellation and functional connectivity estimation
 The ``filtered, denoised BOLD`` is fed into a functional connectivity workflow,
 which extracts parcel-wise time series from the BOLD using several atlases:
 
-   a.  Schaefer 100,200,300,400,500,600,700,800,900,1000
-   b.  Glasser 360
-   c.  Gordon 333
-   d.  Tian Subcortical Atlas :footcite:p:`tian2020topographic`
+   a. Schaefer 100, 200, 300, 400, 500, 600, 700, 800, 900, and 1000 parcel resolutions
+   b. Glasser 360
+   c. Gordon 333
+   d. Tian Subcortical Atlas :footcite:p:`tian2020topographic`
+   e. HCP Subcortical Atlas :footcite:p:`glasser2013minimal`
 
 The resulting parcellated time series for each atlas is then used to generate static functional
 connectivity matrices, as measured with Pearson correlation coefficients.

diff --git a/...a/atlases/atlas-ciftiSubcortical_dseg.tsv → xcp_d/data/atlases/atlas-HCP_dseg.tsv b/...a/atlases/atlas-ciftiSubcortical_dseg.tsv → xcp_d/data/atlases/atlas-HCP_dseg.tsv
diff --git a/...m_atlas-ciftiSubcortical_res-02_dseg.json → ...NI152NLin6Asym_atlas-HCP_res-02_dseg.json b/...m_atlas-ciftiSubcortical_res-02_dseg.json → ...NI152NLin6Asym_atlas-HCP_res-02_dseg.json
@@ -1,8 +1,9 @@
 {
     "BIDSVersion": "1.8.0",
-    "Description": "The subcortical labels from the CIFTI template.",
-    "Name": "CIFTI Subcortical",
+    "Description": "The subcortical labels from the HCP CIFTI template. This should match 'tpl-MNI152NLin6Asym_res-02_atlas-HCP_dseg.nii.gz' from templateflow.",
+    "Name": "HCP CIFTI Subcortical",
     "ReferencesAndLinks": [
+        "https://doi.org/10.1016/j.neuroimage.2013.04.127",
         "https://github.com/DCAN-Labs/dcan_bold_processing/blob/6a4739bfa4580fd4593f6c786c539ba9c582779b/templates/parcellations/subcortical/fsLR/subcortical.subcortical.32k_fs_LR.dlabel.nii"
     ],
     "Resolution": {

diff --git a/...atlas-ciftiSubcortical_res-02_dseg.nii.gz → ...152NLin6Asym_atlas-HCP_res-02_dseg.nii.gz b/...atlas-ciftiSubcortical_res-02_dseg.nii.gz → ...152NLin6Asym_atlas-HCP_res-02_dseg.nii.gz
diff --git a/...-ciftiSubcortical_den-32k_dseg.dlabel.nii → ...pl-fsLR_atlas-HCP_den-32k_dseg.dlabel.nii b/...-ciftiSubcortical_den-32k_dseg.dlabel.nii → ...pl-fsLR_atlas-HCP_den-32k_dseg.dlabel.nii
diff --git a/..._atlas-ciftiSubcortical_den-32k_dseg.json → ...ases/tpl-fsLR_atlas-HCP_den-32k_dseg.json b/..._atlas-ciftiSubcortical_den-32k_dseg.json → ...ases/tpl-fsLR_atlas-HCP_den-32k_dseg.json
@@ -3,9 +3,10 @@
     "Density": {
         "32k": "2 mm3 subcortical data."
     },
-    "Description": "The subcortical labels from the CIFTI template.",
-    "Name": "CIFTI Subcortical",
+    "Description": "The subcortical labels from the HCP CIFTI template.",
+    "Name": "HCP CIFTI Subcortical",
     "ReferencesAndLinks": [
+        "https://doi.org/10.1016/j.neuroimage.2013.04.127",
         "https://github.com/DCAN-Labs/dcan_bold_processing/blob/6a4739bfa4580fd4593f6c786c539ba9c582779b/templates/parcellations/subcortical/fsLR/subcortical.subcortical.32k_fs_LR.dlabel.nii"
     ],
     "SpatialReference": {

diff --git a/xcp_d/data/boilerplate.bib b/xcp_d/data/boilerplate.bib
@@ -209,7 +209,7 @@ @article{power_fd_dvars
 	file = {Accepted Version:/Users/adebimpe/Zotero/storage/2GWXNAAS/Power et al. - 2014 - Methods to detect, characterize, and remove motion.pdf:application/pdf},
 }
 
-@article{hcppipelines,
+@article{glasser2013minimal,
 	title = {The minimal preprocessing pipelines for the {Human} {Connectome} {Project}},
 	volume = {80},
 	issn = {1095-9572},

diff --git a/xcp_d/tests/data/test_ds001419_cifti_outputs.txt b/xcp_d/tests/data/test_ds001419_cifti_outputs.txt
@@ -15,7 +15,7 @@ xcp_d/space-fsLR_atlas-Schaefer717_den-91k_dseg.dlabel.nii
 xcp_d/space-fsLR_atlas-Schaefer817_den-91k_dseg.dlabel.nii
 xcp_d/space-fsLR_atlas-Schaefer917_den-91k_dseg.dlabel.nii
 xcp_d/space-fsLR_atlas-Tian_den-91k_dseg.dlabel.nii
-xcp_d/space-fsLR_atlas-ciftiSubcortical_den-91k_dseg.dlabel.nii
+xcp_d/space-fsLR_atlas-HCP_den-91k_dseg.dlabel.nii
 xcp_d/sub-01
 xcp_d/sub-01.html
 xcp_d/sub-01/anat
@@ -122,13 +122,13 @@ xcp_d/sub-01/func/sub-01_task-imagery_run-01_space-fsLR_atlas-Tian_den-91k_times
 xcp_d/sub-01/func/sub-01_task-imagery_run-01_space-fsLR_atlas-Tian_measure-pearsoncorrelation_conmat.tsv
 xcp_d/sub-01/func/sub-01_task-imagery_run-01_space-fsLR_atlas-Tian_reho.tsv
 xcp_d/sub-01/func/sub-01_task-imagery_run-01_space-fsLR_atlas-Tian_timeseries.tsv
-xcp_d/sub-01/func/sub-01_task-imagery_run-01_space-fsLR_atlas-ciftiSubcortical_coverage.tsv
-xcp_d/sub-01/func/sub-01_task-imagery_run-01_space-fsLR_atlas-ciftiSubcortical_den-91k_coverage.pscalar.nii
-xcp_d/sub-01/func/sub-01_task-imagery_run-01_space-fsLR_atlas-ciftiSubcortical_den-91k_measure-pearsoncorrelation_conmat.pconn.nii
-xcp_d/sub-01/func/sub-01_task-imagery_run-01_space-fsLR_atlas-ciftiSubcortical_den-91k_timeseries.ptseries.nii
-xcp_d/sub-01/func/sub-01_task-imagery_run-01_space-fsLR_atlas-ciftiSubcortical_measure-pearsoncorrelation_conmat.tsv
-xcp_d/sub-01/func/sub-01_task-imagery_run-01_space-fsLR_atlas-ciftiSubcortical_reho.tsv
-xcp_d/sub-01/func/sub-01_task-imagery_run-01_space-fsLR_atlas-ciftiSubcortical_timeseries.tsv
+xcp_d/sub-01/func/sub-01_task-imagery_run-01_space-fsLR_atlas-HCP_coverage.tsv
+xcp_d/sub-01/func/sub-01_task-imagery_run-01_space-fsLR_atlas-HCP_den-91k_coverage.pscalar.nii
+xcp_d/sub-01/func/sub-01_task-imagery_run-01_space-fsLR_atlas-HCP_den-91k_measure-pearsoncorrelation_conmat.pconn.nii
+xcp_d/sub-01/func/sub-01_task-imagery_run-01_space-fsLR_atlas-HCP_den-91k_timeseries.ptseries.nii
+xcp_d/sub-01/func/sub-01_task-imagery_run-01_space-fsLR_atlas-HCP_measure-pearsoncorrelation_conmat.tsv
+xcp_d/sub-01/func/sub-01_task-imagery_run-01_space-fsLR_atlas-HCP_reho.tsv
+xcp_d/sub-01/func/sub-01_task-imagery_run-01_space-fsLR_atlas-HCP_timeseries.tsv
 xcp_d/sub-01/func/sub-01_task-imagery_run-01_space-fsLR_den-91k_desc-denoisedSmoothed_bold.dtseries.nii
 xcp_d/sub-01/func/sub-01_task-imagery_run-01_space-fsLR_den-91k_desc-denoisedSmoothed_bold.json
 xcp_d/sub-01/func/sub-01_task-imagery_run-01_space-fsLR_den-91k_desc-denoised_bold.dtseries.nii
@@ -234,13 +234,13 @@ xcp_d/sub-01/func/sub-01_task-imagery_run-02_space-fsLR_atlas-Tian_den-91k_times
 xcp_d/sub-01/func/sub-01_task-imagery_run-02_space-fsLR_atlas-Tian_measure-pearsoncorrelation_conmat.tsv
 xcp_d/sub-01/func/sub-01_task-imagery_run-02_space-fsLR_atlas-Tian_reho.tsv
 xcp_d/sub-01/func/sub-01_task-imagery_run-02_space-fsLR_atlas-Tian_timeseries.tsv
-xcp_d/sub-01/func/sub-01_task-imagery_run-02_space-fsLR_atlas-ciftiSubcortical_coverage.tsv
-xcp_d/sub-01/func/sub-01_task-imagery_run-02_space-fsLR_atlas-ciftiSubcortical_den-91k_coverage.pscalar.nii
-xcp_d/sub-01/func/sub-01_task-imagery_run-02_space-fsLR_atlas-ciftiSubcortical_den-91k_measure-pearsoncorrelation_conmat.pconn.nii
-xcp_d/sub-01/func/sub-01_task-imagery_run-02_space-fsLR_atlas-ciftiSubcortical_den-91k_timeseries.ptseries.nii
-xcp_d/sub-01/func/sub-01_task-imagery_run-02_space-fsLR_atlas-ciftiSubcortical_measure-pearsoncorrelation_conmat.tsv
-xcp_d/sub-01/func/sub-01_task-imagery_run-02_space-fsLR_atlas-ciftiSubcortical_reho.tsv
-xcp_d/sub-01/func/sub-01_task-imagery_run-02_space-fsLR_atlas-ciftiSubcortical_timeseries.tsv
+xcp_d/sub-01/func/sub-01_task-imagery_run-02_space-fsLR_atlas-HCP_coverage.tsv
+xcp_d/sub-01/func/sub-01_task-imagery_run-02_space-fsLR_atlas-HCP_den-91k_coverage.pscalar.nii
+xcp_d/sub-01/func/sub-01_task-imagery_run-02_space-fsLR_atlas-HCP_den-91k_measure-pearsoncorrelation_conmat.pconn.nii
+xcp_d/sub-01/func/sub-01_task-imagery_run-02_space-fsLR_atlas-HCP_den-91k_timeseries.ptseries.nii
+xcp_d/sub-01/func/sub-01_task-imagery_run-02_space-fsLR_atlas-HCP_measure-pearsoncorrelation_conmat.tsv
+xcp_d/sub-01/func/sub-01_task-imagery_run-02_space-fsLR_atlas-HCP_reho.tsv
+xcp_d/sub-01/func/sub-01_task-imagery_run-02_space-fsLR_atlas-HCP_timeseries.tsv
 xcp_d/sub-01/func/sub-01_task-imagery_run-02_space-fsLR_den-91k_desc-denoisedSmoothed_bold.dtseries.nii
 xcp_d/sub-01/func/sub-01_task-imagery_run-02_space-fsLR_den-91k_desc-denoisedSmoothed_bold.json
 xcp_d/sub-01/func/sub-01_task-imagery_run-02_space-fsLR_den-91k_desc-denoised_bold.dtseries.nii
@@ -275,8 +275,8 @@ xcp_d/sub-01/func/sub-01_task-imagery_space-fsLR_atlas-Schaefer917_den-91k_times
 xcp_d/sub-01/func/sub-01_task-imagery_space-fsLR_atlas-Schaefer917_timeseries.tsv
 xcp_d/sub-01/func/sub-01_task-imagery_space-fsLR_atlas-Tian_den-91k_timeseries.ptseries.nii
 xcp_d/sub-01/func/sub-01_task-imagery_space-fsLR_atlas-Tian_timeseries.tsv
-xcp_d/sub-01/func/sub-01_task-imagery_space-fsLR_atlas-ciftiSubcortical_den-91k_timeseries.ptseries.nii
-xcp_d/sub-01/func/sub-01_task-imagery_space-fsLR_atlas-ciftiSubcortical_timeseries.tsv
+xcp_d/sub-01/func/sub-01_task-imagery_space-fsLR_atlas-HCP_den-91k_timeseries.ptseries.nii
+xcp_d/sub-01/func/sub-01_task-imagery_space-fsLR_atlas-HCP_timeseries.tsv
 xcp_d/sub-01/func/sub-01_task-imagery_space-fsLR_den-91k_desc-denoisedSmoothed_bold.dtseries.nii
 xcp_d/sub-01/func/sub-01_task-imagery_space-fsLR_den-91k_desc-denoised_bold.dtseries.nii
 xcp_d/sub-01/func/sub-01_task-imagery_space-fsLR_den-91k_desc-interpolated_bold.dtseries.nii

diff --git a/xcp_d/tests/data/test_ds001419_nifti_outputs.txt b/xcp_d/tests/data/test_ds001419_nifti_outputs.txt
@@ -15,7 +15,7 @@ xcp_d/space-MNI152NLin2009cAsym_atlas-Schaefer717_res-2_dseg.nii.gz
 xcp_d/space-MNI152NLin2009cAsym_atlas-Schaefer817_res-2_dseg.nii.gz
 xcp_d/space-MNI152NLin2009cAsym_atlas-Schaefer917_res-2_dseg.nii.gz
 xcp_d/space-MNI152NLin2009cAsym_atlas-Tian_res-2_dseg.nii.gz
-xcp_d/space-MNI152NLin2009cAsym_atlas-ciftiSubcortical_res-2_dseg.nii.gz
+xcp_d/space-MNI152NLin2009cAsym_atlas-HCP_res-2_dseg.nii.gz
 xcp_d/sub-01
 xcp_d/sub-01.html
 xcp_d/sub-01/anat
@@ -37,7 +37,7 @@ xcp_d/sub-01/func/sub-01_task-imagery_space-MNI152NLin2009cAsym_atlas-Schaefer71
 xcp_d/sub-01/func/sub-01_task-imagery_space-MNI152NLin2009cAsym_atlas-Schaefer817_timeseries.tsv
 xcp_d/sub-01/func/sub-01_task-imagery_space-MNI152NLin2009cAsym_atlas-Schaefer917_timeseries.tsv
 xcp_d/sub-01/func/sub-01_task-imagery_space-MNI152NLin2009cAsym_atlas-Tian_timeseries.tsv
-xcp_d/sub-01/func/sub-01_task-imagery_space-MNI152NLin2009cAsym_atlas-ciftiSubcortical_timeseries.tsv
+xcp_d/sub-01/func/sub-01_task-imagery_space-MNI152NLin2009cAsym_atlas-HCP_timeseries.tsv
 xcp_d/sub-01/func/sub-01_task-imagery_space-MNI152NLin2009cAsym_res-2_desc-denoisedSmoothed_bold.json
 xcp_d/sub-01/func/sub-01_task-imagery_space-MNI152NLin2009cAsym_res-2_desc-denoisedSmoothed_bold.nii.gz
 xcp_d/sub-01/func/sub-01_task-imagery_space-MNI152NLin2009cAsym_res-2_desc-denoised_bold.json
@@ -125,12 +125,12 @@ xcp_d/sub-01/func/sub-01_task-imagery_run-01_space-MNI152NLin2009cAsym_atlas-Tia
 xcp_d/sub-01/func/sub-01_task-imagery_run-01_space-MNI152NLin2009cAsym_atlas-Tian_measure-pearsoncorrelation_desc-33volumes_conmat.tsv
 xcp_d/sub-01/func/sub-01_task-imagery_run-01_space-MNI152NLin2009cAsym_atlas-Tian_reho.tsv
 xcp_d/sub-01/func/sub-01_task-imagery_run-01_space-MNI152NLin2009cAsym_atlas-Tian_timeseries.tsv
-xcp_d/sub-01/func/sub-01_task-imagery_run-01_space-MNI152NLin2009cAsym_atlas-ciftiSubcortical_coverage.tsv
-xcp_d/sub-01/func/sub-01_task-imagery_run-01_space-MNI152NLin2009cAsym_atlas-ciftiSubcortical_measure-pearsoncorrelation_conmat.tsv
-xcp_d/sub-01/func/sub-01_task-imagery_run-01_space-MNI152NLin2009cAsym_atlas-ciftiSubcortical_measure-pearsoncorrelation_desc-26volumes_conmat.tsv
-xcp_d/sub-01/func/sub-01_task-imagery_run-01_space-MNI152NLin2009cAsym_atlas-ciftiSubcortical_measure-pearsoncorrelation_desc-33volumes_conmat.tsv
-xcp_d/sub-01/func/sub-01_task-imagery_run-01_space-MNI152NLin2009cAsym_atlas-ciftiSubcortical_reho.tsv
-xcp_d/sub-01/func/sub-01_task-imagery_run-01_space-MNI152NLin2009cAsym_atlas-ciftiSubcortical_timeseries.tsv
+xcp_d/sub-01/func/sub-01_task-imagery_run-01_space-MNI152NLin2009cAsym_atlas-HCP_coverage.tsv
+xcp_d/sub-01/func/sub-01_task-imagery_run-01_space-MNI152NLin2009cAsym_atlas-HCP_measure-pearsoncorrelation_conmat.tsv
+xcp_d/sub-01/func/sub-01_task-imagery_run-01_space-MNI152NLin2009cAsym_atlas-HCP_measure-pearsoncorrelation_desc-26volumes_conmat.tsv
+xcp_d/sub-01/func/sub-01_task-imagery_run-01_space-MNI152NLin2009cAsym_atlas-HCP_measure-pearsoncorrelation_desc-33volumes_conmat.tsv
+xcp_d/sub-01/func/sub-01_task-imagery_run-01_space-MNI152NLin2009cAsym_atlas-HCP_reho.tsv
+xcp_d/sub-01/func/sub-01_task-imagery_run-01_space-MNI152NLin2009cAsym_atlas-HCP_timeseries.tsv
 xcp_d/sub-01/func/sub-01_task-imagery_run-01_space-MNI152NLin2009cAsym_desc-linc_qc.csv
 xcp_d/sub-01/func/sub-01_task-imagery_run-01_space-MNI152NLin2009cAsym_res-2_desc-denoisedSmoothed_bold.json
 xcp_d/sub-01/func/sub-01_task-imagery_run-01_space-MNI152NLin2009cAsym_res-2_desc-denoisedSmoothed_bold.nii.gz
@@ -221,12 +221,12 @@ xcp_d/sub-01/func/sub-01_task-imagery_run-02_space-MNI152NLin2009cAsym_atlas-Tia
 xcp_d/sub-01/func/sub-01_task-imagery_run-02_space-MNI152NLin2009cAsym_atlas-Tian_measure-pearsoncorrelation_desc-33volumes_conmat.tsv
 xcp_d/sub-01/func/sub-01_task-imagery_run-02_space-MNI152NLin2009cAsym_atlas-Tian_reho.tsv
 xcp_d/sub-01/func/sub-01_task-imagery_run-02_space-MNI152NLin2009cAsym_atlas-Tian_timeseries.tsv
-xcp_d/sub-01/func/sub-01_task-imagery_run-02_space-MNI152NLin2009cAsym_atlas-ciftiSubcortical_coverage.tsv
-xcp_d/sub-01/func/sub-01_task-imagery_run-02_space-MNI152NLin2009cAsym_atlas-ciftiSubcortical_measure-pearsoncorrelation_conmat.tsv
-xcp_d/sub-01/func/sub-01_task-imagery_run-02_space-MNI152NLin2009cAsym_atlas-ciftiSubcortical_measure-pearsoncorrelation_desc-26volumes_conmat.tsv
-xcp_d/sub-01/func/sub-01_task-imagery_run-02_space-MNI152NLin2009cAsym_atlas-ciftiSubcortical_measure-pearsoncorrelation_desc-33volumes_conmat.tsv
-xcp_d/sub-01/func/sub-01_task-imagery_run-02_space-MNI152NLin2009cAsym_atlas-ciftiSubcortical_reho.tsv
-xcp_d/sub-01/func/sub-01_task-imagery_run-02_space-MNI152NLin2009cAsym_atlas-ciftiSubcortical_timeseries.tsv
+xcp_d/sub-01/func/sub-01_task-imagery_run-02_space-MNI152NLin2009cAsym_atlas-HCP_coverage.tsv
+xcp_d/sub-01/func/sub-01_task-imagery_run-02_space-MNI152NLin2009cAsym_atlas-HCP_measure-pearsoncorrelation_conmat.tsv
+xcp_d/sub-01/func/sub-01_task-imagery_run-02_space-MNI152NLin2009cAsym_atlas-HCP_measure-pearsoncorrelation_desc-26volumes_conmat.tsv
+xcp_d/sub-01/func/sub-01_task-imagery_run-02_space-MNI152NLin2009cAsym_atlas-HCP_measure-pearsoncorrelation_desc-33volumes_conmat.tsv
+xcp_d/sub-01/func/sub-01_task-imagery_run-02_space-MNI152NLin2009cAsym_atlas-HCP_reho.tsv
+xcp_d/sub-01/func/sub-01_task-imagery_run-02_space-MNI152NLin2009cAsym_atlas-HCP_timeseries.tsv
 xcp_d/sub-01/func/sub-01_task-imagery_run-02_space-MNI152NLin2009cAsym_desc-linc_qc.csv
 xcp_d/sub-01/func/sub-01_task-imagery_run-02_space-MNI152NLin2009cAsym_res-2_desc-denoisedSmoothed_bold.json
 xcp_d/sub-01/func/sub-01_task-imagery_run-02_space-MNI152NLin2009cAsym_res-2_desc-denoisedSmoothed_bold.nii.gz
@@ -317,12 +317,12 @@ xcp_d/sub-01/func/sub-01_task-rest_space-MNI152NLin2009cAsym_atlas-Tian_measure-
 xcp_d/sub-01/func/sub-01_task-rest_space-MNI152NLin2009cAsym_atlas-Tian_measure-pearsoncorrelation_desc-33volumes_conmat.tsv
 xcp_d/sub-01/func/sub-01_task-rest_space-MNI152NLin2009cAsym_atlas-Tian_reho.tsv
 xcp_d/sub-01/func/sub-01_task-rest_space-MNI152NLin2009cAsym_atlas-Tian_timeseries.tsv
-xcp_d/sub-01/func/sub-01_task-rest_space-MNI152NLin2009cAsym_atlas-ciftiSubcortical_coverage.tsv
-xcp_d/sub-01/func/sub-01_task-rest_space-MNI152NLin2009cAsym_atlas-ciftiSubcortical_measure-pearsoncorrelation_conmat.tsv
-xcp_d/sub-01/func/sub-01_task-rest_space-MNI152NLin2009cAsym_atlas-ciftiSubcortical_measure-pearsoncorrelation_desc-26volumes_conmat.tsv
-xcp_d/sub-01/func/sub-01_task-rest_space-MNI152NLin2009cAsym_atlas-ciftiSubcortical_measure-pearsoncorrelation_desc-33volumes_conmat.tsv
-xcp_d/sub-01/func/sub-01_task-rest_space-MNI152NLin2009cAsym_atlas-ciftiSubcortical_reho.tsv
-xcp_d/sub-01/func/sub-01_task-rest_space-MNI152NLin2009cAsym_atlas-ciftiSubcortical_timeseries.tsv
+xcp_d/sub-01/func/sub-01_task-rest_space-MNI152NLin2009cAsym_atlas-HCP_coverage.tsv
+xcp_d/sub-01/func/sub-01_task-rest_space-MNI152NLin2009cAsym_atlas-HCP_measure-pearsoncorrelation_conmat.tsv
+xcp_d/sub-01/func/sub-01_task-rest_space-MNI152NLin2009cAsym_atlas-HCP_measure-pearsoncorrelation_desc-26volumes_conmat.tsv
+xcp_d/sub-01/func/sub-01_task-rest_space-MNI152NLin2009cAsym_atlas-HCP_measure-pearsoncorrelation_desc-33volumes_conmat.tsv
+xcp_d/sub-01/func/sub-01_task-rest_space-MNI152NLin2009cAsym_atlas-HCP_reho.tsv
+xcp_d/sub-01/func/sub-01_task-rest_space-MNI152NLin2009cAsym_atlas-HCP_timeseries.tsv
 xcp_d/sub-01/func/sub-01_task-rest_space-MNI152NLin2009cAsym_desc-linc_qc.csv
 xcp_d/sub-01/func/sub-01_task-rest_space-MNI152NLin2009cAsym_res-2_desc-denoisedSmoothed_bold.json
 xcp_d/sub-01/func/sub-01_task-rest_space-MNI152NLin2009cAsym_res-2_desc-denoisedSmoothed_bold.nii.gz

diff --git a/xcp_d/tests/data/test_fmriprep_without_freesurfer_outputs.txt b/xcp_d/tests/data/test_fmriprep_without_freesurfer_outputs.txt
@@ -18,7 +18,7 @@ xcp_d/space-MNI152NLin2009cAsym_atlas-Schaefer717_dseg.nii.gz
 xcp_d/space-MNI152NLin2009cAsym_atlas-Schaefer817_dseg.nii.gz
 xcp_d/space-MNI152NLin2009cAsym_atlas-Schaefer917_dseg.nii.gz
 xcp_d/space-MNI152NLin2009cAsym_atlas-Tian_dseg.nii.gz
-xcp_d/space-MNI152NLin2009cAsym_atlas-ciftiSubcortical_dseg.nii.gz
+xcp_d/space-MNI152NLin2009cAsym_atlas-HCP_dseg.nii.gz
 xcp_d/sub-01
 xcp_d/sub-01.html
 xcp_d/sub-01/anat
@@ -83,10 +83,10 @@ xcp_d/sub-01/func/sub-01_task-mixedgamblestask_run-1_space-MNI152NLin2009cAsym_a
 xcp_d/sub-01/func/sub-01_task-mixedgamblestask_run-1_space-MNI152NLin2009cAsym_atlas-Tian_measure-pearsoncorrelation_conmat.tsv
 xcp_d/sub-01/func/sub-01_task-mixedgamblestask_run-1_space-MNI152NLin2009cAsym_atlas-Tian_reho.tsv
 xcp_d/sub-01/func/sub-01_task-mixedgamblestask_run-1_space-MNI152NLin2009cAsym_atlas-Tian_timeseries.tsv
-xcp_d/sub-01/func/sub-01_task-mixedgamblestask_run-1_space-MNI152NLin2009cAsym_atlas-ciftiSubcortical_coverage.tsv
-xcp_d/sub-01/func/sub-01_task-mixedgamblestask_run-1_space-MNI152NLin2009cAsym_atlas-ciftiSubcortical_measure-pearsoncorrelation_conmat.tsv
-xcp_d/sub-01/func/sub-01_task-mixedgamblestask_run-1_space-MNI152NLin2009cAsym_atlas-ciftiSubcortical_reho.tsv
-xcp_d/sub-01/func/sub-01_task-mixedgamblestask_run-1_space-MNI152NLin2009cAsym_atlas-ciftiSubcortical_timeseries.tsv
+xcp_d/sub-01/func/sub-01_task-mixedgamblestask_run-1_space-MNI152NLin2009cAsym_atlas-HCP_coverage.tsv
+xcp_d/sub-01/func/sub-01_task-mixedgamblestask_run-1_space-MNI152NLin2009cAsym_atlas-HCP_measure-pearsoncorrelation_conmat.tsv
+xcp_d/sub-01/func/sub-01_task-mixedgamblestask_run-1_space-MNI152NLin2009cAsym_atlas-HCP_reho.tsv
+xcp_d/sub-01/func/sub-01_task-mixedgamblestask_run-1_space-MNI152NLin2009cAsym_atlas-HCP_timeseries.tsv
 xcp_d/sub-01/func/sub-01_task-mixedgamblestask_run-1_space-MNI152NLin2009cAsym_desc-denoisedSmoothed_bold.json
 xcp_d/sub-01/func/sub-01_task-mixedgamblestask_run-1_space-MNI152NLin2009cAsym_desc-denoisedSmoothed_bold.nii.gz
 xcp_d/sub-01/func/sub-01_task-mixedgamblestask_run-1_space-MNI152NLin2009cAsym_desc-denoised_bold.json
@@ -154,10 +154,10 @@ xcp_d/sub-01/func/sub-01_task-mixedgamblestask_run-2_space-MNI152NLin2009cAsym_a
 xcp_d/sub-01/func/sub-01_task-mixedgamblestask_run-2_space-MNI152NLin2009cAsym_atlas-Tian_measure-pearsoncorrelation_conmat.tsv
 xcp_d/sub-01/func/sub-01_task-mixedgamblestask_run-2_space-MNI152NLin2009cAsym_atlas-Tian_reho.tsv
 xcp_d/sub-01/func/sub-01_task-mixedgamblestask_run-2_space-MNI152NLin2009cAsym_atlas-Tian_timeseries.tsv
-xcp_d/sub-01/func/sub-01_task-mixedgamblestask_run-2_space-MNI152NLin2009cAsym_atlas-ciftiSubcortical_coverage.tsv
-xcp_d/sub-01/func/sub-01_task-mixedgamblestask_run-2_space-MNI152NLin2009cAsym_atlas-ciftiSubcortical_measure-pearsoncorrelation_conmat.tsv
-xcp_d/sub-01/func/sub-01_task-mixedgamblestask_run-2_space-MNI152NLin2009cAsym_atlas-ciftiSubcortical_reho.tsv
-xcp_d/sub-01/func/sub-01_task-mixedgamblestask_run-2_space-MNI152NLin2009cAsym_atlas-ciftiSubcortical_timeseries.tsv
+xcp_d/sub-01/func/sub-01_task-mixedgamblestask_run-2_space-MNI152NLin2009cAsym_atlas-HCP_coverage.tsv
+xcp_d/sub-01/func/sub-01_task-mixedgamblestask_run-2_space-MNI152NLin2009cAsym_atlas-HCP_measure-pearsoncorrelation_conmat.tsv
+xcp_d/sub-01/func/sub-01_task-mixedgamblestask_run-2_space-MNI152NLin2009cAsym_atlas-HCP_reho.tsv
+xcp_d/sub-01/func/sub-01_task-mixedgamblestask_run-2_space-MNI152NLin2009cAsym_atlas-HCP_timeseries.tsv
 xcp_d/sub-01/func/sub-01_task-mixedgamblestask_run-2_space-MNI152NLin2009cAsym_desc-denoisedSmoothed_bold.json
 xcp_d/sub-01/func/sub-01_task-mixedgamblestask_run-2_space-MNI152NLin2009cAsym_desc-denoisedSmoothed_bold.nii.gz
 xcp_d/sub-01/func/sub-01_task-mixedgamblestask_run-2_space-MNI152NLin2009cAsym_desc-denoised_bold.json