Fix things up a bit.

nipreps · Aug 28, 2024 · d04dec5 · d04dec5
1 parent f403b1d
commit d04dec5
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Showing 4 changed files with 9 additions and 5 deletions.
diff --git a/src/fmripost_aroma/data/reports-spec-func.yml b/src/fmripost_aroma/data/reports-spec-func.yml
@@ -23,8 +23,8 @@ sections:
     subtitle: Alignment of functional and anatomical MRI data (coregistration)
   - bids:
       datatype: figures
-      desc: '[aggr,nonaggr,orthaggr]carpetplot'
-      extension: [.html]
+      desc: '[aggr,nonaggr,orthaggr]Carpetplot'
+      extension: [.svg]
       suffix: bold
 - name: About
   nested: true

diff --git a/src/fmripost_aroma/data/reports-spec.yml b/src/fmripost_aroma/data/reports-spec.yml
@@ -23,8 +23,8 @@ sections:
     subtitle: Alignment of functional and anatomical MRI data (coregistration)
   - bids:
       datatype: figures
-      desc: '[aggr,nonaggr,orthaggr]carpetplot'
-      extension: [.html]
+      desc: '[aggr,nonaggr,orthaggr]Carpetplot'
+      extension: [.svg]
       suffix: bold
 - name: About
   nested: true

diff --git a/src/fmripost_aroma/tests/test_base.py b/src/fmripost_aroma/tests/test_base.py
@@ -33,5 +33,8 @@ def test_init_denoise_wf(tmp_path_factory):
         config.execution.output_dir = tempdir / 'out'
         config.execution.work_dir = tempdir / 'work'
 
-        wf = init_denoise_wf(bold_file='sub-01_task-rest_bold.nii.gz')
+        wf = init_denoise_wf(
+            bold_file='sub-01_task-rest_bold.nii.gz',
+            metadata={'RepetitionTime': 2.0},
+        )
         assert wf.name == 'denoise_task_rest_wf'
diff --git a/src/fmripost_aroma/workflows/aroma.py b/src/fmripost_aroma/workflows/aroma.py
@@ -489,6 +489,7 @@ def init_denoise_wf(bold_file, metadata):
             (inputnode, carpetplot_wf, [
                 ('bold_mask', 'inputnode.bold_mask'),
                 ('confounds_file', 'inputnode.confounds_file'),
+                ('skip_vols', 'inputnode.dummy_scans'),
             ]),
             (ds_denoised, carpetplot_wf, [('out_file', 'inputnode.bold')]),
         ])  # fmt:skip