remove damage mask argument to load quint json

PyNutil/io/read_and_write.py

@@ -182,7 +182,7 @@ def load_segmentation(segmentation_path: str):
 
 # related to read and write
 # this function reads a VisuAlign JSON and returns the slices
-def load_quint_json(filename, apply_damage_mask=True):
+def load_quint_json(filename):
     """
     Reads a VisuAlign JSON file (.waln or .wwrp) and extracts slice information.
     Slices may include anchoring, grid spacing, and other image metadata.

PyNutil/processing/coordinate_extraction.py

@@ -134,7 +134,7 @@ def folder_to_atlas_space(
     Returns:
         tuple: Various arrays and lists containing transformed coordinates and labels.
     """
-    quint_json = load_quint_json(quint_alignment, apply_damage_mask)
+    quint_json = load_quint_json(quint_alignment)
     slices = quint_json['slices']
     if apply_damage_mask and "gridspacing" in quint_json:
         gridspacing = quint_json["gridspacing"]