update bids entities for custom dwi for snakedwi

- was different from prepdwi naming
akhanf · Aug 31, 2023 · 20f91b9 · 20f91b9
1 parent 0cea456
commit 20f91b9
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Showing 2 changed files with 14 additions and 2 deletions.
diff --git a/scattr/workflow/rules/mrtpipelines.smk b/scattr/workflow/rules/mrtpipelines.smk
@@ -24,10 +24,22 @@ bids_dwi = partial(
     root=dwi_dir,
     datatype="dwi",
     space="T1w",
-    desc="preproc",
+    desc="eddy",
+    res="orig",
     **inputs.subj_wildcards,
 )
 
+bids_dwi_mask = partial(
+    bids,
+    root=dwi_dir,
+    datatype="dwi",
+    space="T1w",
+    desc="brain",
+    res="orig",
+    **inputs.subj_wildcards,
+)
+
+
 bids_response_out = partial(
     bids,
     root=mrtrix_dir,

diff --git a/scattr/workflow/rules/mrtpipelines/preproc.smk b/scattr/workflow/rules/mrtpipelines/preproc.smk
@@ -16,7 +16,7 @@ rule nii2mif:
             else re.sub(".nii.gz", ".bvec", inputs["dwi"].path)
         ),
         mask=(
-            bids_dwi(suffix="mask.nii.gz") if dwi_dir else inputs["mask"].path
+            bids_dwi_mask(suffix="mask.nii.gz") if dwi_dir else inputs["mask"].path
         ),
     output:
         dwi=bids(