Merge branch 'cuttlefish-atlas' of https://github.com/kjungwoo5/brain…

…globe-atlasapi into cuttlefish-atlas

validation.py

@@ -1,4 +1,3 @@
-import shutil
 from pathlib import Path
 
 import napari
@@ -16,12 +15,11 @@
     validate_atlas_files,
     validate_checksum,
     validate_image_dimensions,
-    validate_mesh_matches_image_extents,
 )
 
 all_validation_functions = [
     validate_atlas_files,
-    #validate_mesh_matches_image_extents,
+    # validate_mesh_matches_image_extents,
     open_for_visual_check,
     validate_checksum,
     validate_image_dimensions,
@@ -42,16 +40,16 @@
 
 # make sure we have the latest packaged version in .brainglobe
 # by replacing it with the working_dir version if needed
-#atlas_name_with_version = f"{atlas_name}_{resolution}um_v1.{minor_version}"
-#source_dir = working_dir / atlas_name / atlas_name_with_version
-#destination_dir = brainglobe_dir / atlas_name_with_version
-#destination_dir = working_dir / atlas_name_with_version
-#if destination_dir.exists() and destination_dir.is_dir():
+# atlas_name_with_version = f"{atlas_name}_{resolution}um_v1.{minor_version}"
+# source_dir = working_dir / atlas_name / atlas_name_with_version
+# destination_dir = brainglobe_dir / atlas_name_with_version
+# destination_dir = working_dir / atlas_name_with_version
+# if destination_dir.exists() and destination_dir.is_dir():
 #    shutil.rmtree(destination_dir)
-#assert source_dir.exists()
-#if source_dir.exists():
+# assert source_dir.exists()
+# if source_dir.exists():
 #    shutil.copytree(source_dir, destination_dir)
-#assert destination_dir.exists()
+# assert destination_dir.exists()
 
 # run validation functions on the new atlas
 atlas = BrainGlobeAtlas(f"{atlas_name}_{resolution}um")
@@ -88,13 +86,11 @@
 
 viewer = Viewer()
 viewer.dims.ndisplay = 3
-napari_atlas = NapariAtlasRepresentation(
-    atlas, viewer
-)
+napari_atlas = NapariAtlasRepresentation(atlas, viewer)
 napari_atlas.add_structure_to_viewer("AAB")
 napari_atlas.add_structure_to_viewer("V")
 napari_atlas.add_structure_to_viewer("Or")
 napari_atlas.add_structure_to_viewer("BPCl")
 napari_atlas.add_to_viewer()
 
-napari.run()
+napari.run()