minor fixed to BBtemplate from wetrun testing

khanlab · Dec 18, 2024 · 69933e5 · 69933e5
1 parent cbf452c
commit 69933e5
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Showing 2 changed files with 10 additions and 9 deletions.
diff --git a/hippunfold/config/snakebids.yml b/hippunfold/config/snakebids.yml
@@ -418,12 +418,12 @@ template_files:
     dseg: tpl-ABAv3_hemi-{hemi}_space-corobl_desc-tissuemanual_dseg.nii.gz
     coords: tpl-ABAv3_dir-{dir}_hemi-{hemi}_space-corobl_label-{autotop}_desc-laplace_coords.nii.gz
   bigbrain:
-    T1w: tpl-bbhist_100um_T1w.nii.gz
-    xfm_corobl: tpl-bbhist_from-native_to-corobl_type-itk_affine.txt
-    crop_ref: tpl-bbhist_hemi-{hemi}_space-corobl_desc-tissuemanual_40um_dseg.nii.gz
-    Mask_crop: tpl-bbhist_hemi-{hemi}_space-corobl_desc-tissuemanual_40um_dseg.nii.gz
-    dseg: tpl-bbhist_hemi-{hemi}_space-corobl_desc-tissuemanual_40um_dseg.nii.gz
-    coords: tpl-bbhist_dir-{dir}_hemi-{hemi}_space-corobl_label-{autotop}_desc-laplace_coords.nii.gz
+    T1w: tpl-bigbrain_100um_T1w.nii.gz
+    xfm_corobl: tpl-bigbrain_from-native_to-corobl_type-itk_affine.txt
+    crop_ref: tpl-bigbrain_hemi-{hemi}_space-corobl_desc-tissuemanual_40um_dseg.nii.gz
+    Mask_crop: tpl-bigbrain_hemi-{hemi}_space-corobl_desc-tissuemanual_40um_dseg.nii.gz
+    dseg: tpl-bigbrain_hemi-{hemi}_space-corobl_desc-tissuemanual_40um_dseg.nii.gz
+    coords: tpl-bigbrain_dir-{dir}_hemi-{hemi}_space-corobl_label-{autotop}_desc-laplace_coords.nii.gz
 
 atlas_files:
   multihist7:

diff --git a/hippunfold/workflow/rules/preproc_manualseg.smk b/hippunfold/workflow/rules/preproc_manualseg.smk
@@ -4,9 +4,10 @@ rule import_manualseg_to_corobl:
         in_img=partial(get_single_bids_input, component="manualseg"),
         template_dir=Path(download_dir) / "template" / config["template"],
     params:
-        std_to_cor=lambda wildcards: config["template_files"][config["template"]][
-            "xfm_corobl"
-        ].format(**wildcards),
+        std_to_cor=lambda wildcards, input: Path(input.template_dir)
+        / config["template_files"][config["template"]]["xfm_corobl"].format(
+            **wildcards
+        ),
         ref=lambda wildcards, input: Path(input.template_dir)
         / config["template_files"][config["template"]]["crop_ref"].format(**wildcards),
     output: