adding cfg as parameter in lesion_preproc

FCP-INDI · Oct 3, 2024 · 9095825 · 9095825
1 parent c593895
commit 9095825
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diff --git a/CHANGELOG.md b/CHANGELOG.md
@@ -26,7 +26,7 @@ and this project adheres to [Semantic Versioning](https://semver.org/spec/v2.0.0
 ### Changed
 
 - Moved `pygraphviz` from requirements to `graphviz` optional dependencies group.
-- Fixed-orientation-parameter `RPI` in resolve_resolution `freesurfer_fs_brain_connector`, `anatomical_init_T1`, `anatomical_init_T2`, `func_reorient` to take in whatever is set in the config `desired_orientation` field.
+- Fixed-orientation-parameter `RPI` in resolve_resolution `freesurfer_fs_brain_connector`, `anatomical_init_T1`, `lesion_preproc`, `anatomical_init_T2`, `func_reorient` to take in whatever is set in the config `desired_orientation` field.
 
 ### Fixed
 

diff --git a/CPAC/anat_preproc/lesion_preproc.py b/CPAC/anat_preproc/lesion_preproc.py
@@ -19,7 +19,6 @@
 import nipype.interfaces.utility as util
 
 from CPAC.pipeline import nipype_pipeline_engine as pe
-from CPAC.utils.configuration import Configuration as cfg
 from CPAC.utils.interfaces import Function
 
 
@@ -59,7 +58,7 @@ def inverse_lesion(lesion_path):
     return lesion_out
 
 
-def create_lesion_preproc(wf_name="lesion_preproc"):
+def create_lesion_preproc(wf_name="lesion_preproc", cfg="RPI"):
     """Process lesions masks.
 
     Lesion mask file is deobliqued and reoriented in the same way as the T1 in