Switch to distance image approach

uncbiag · Oct 29, 2024 · d0dc01c · d0dc01c
1 parent a2c6a64
commit d0dc01c
Showing 1 changed file with 3 additions and 3 deletions.
diff --git a/oai_analysis/pipeline.py b/oai_analysis/pipeline.py
@@ -146,7 +146,7 @@ def analysis_pipeline(input_path, output_path, laterality, keep_intermediate_out
     fc_mesh = mp.itk_mesh_to_vtk_mesh(fc_mesh_itk)
     tc_mesh = mp.itk_mesh_to_vtk_mesh(tc_mesh_itk)
 
-    thickness_via_mesh_splitting = True
+    thickness_via_mesh_splitting = False
     if thickness_via_mesh_splitting:
         print("Computing the thickness map via mesh splitting into inner and outer")
         _, fc_mesh = mp.get_thickness_mesh(FC_prob, mesh_type='FC')
@@ -170,8 +170,8 @@ def analysis_pipeline(input_path, output_path, laterality, keep_intermediate_out
         write_vtk_mesh(tc_mesh, output_path + "/tc_mesh_patient.vtk")
 
     print("Transforming meshes into atlas space")
-    fc_mesh_atlas = transform_mesh(fc_mesh, phi_BA, output_path + "/fc_mesh", keep_intermediate_outputs)
-    tc_mesh_atlas = transform_mesh(tc_mesh, phi_BA, output_path + "/tc_mesh", keep_intermediate_outputs)
+    fc_mesh_atlas = transform_mesh(fc_mesh, phi_BA, output_path + "/fc_mesh", False)
+    tc_mesh_atlas = transform_mesh(tc_mesh, phi_BA, output_path + "/tc_mesh", False)
     if keep_intermediate_outputs:
         write_vtk_mesh(fc_mesh_atlas, output_path + "/fc_mesh_atlas.vtk")
         write_vtk_mesh(tc_mesh_atlas, output_path + "/tc_mesh_atlas.vtk")