From 4f283fcca159db1d6493e14a559d7731e300d6d9 Mon Sep 17 00:00:00 2001
From: polarbean <harry.carey95@gmail.com>
Date: Wed, 26 Mar 2025 16:47:48 +0100
Subject: [PATCH] remove damage mask argument to load quint json
---
PyNutil/io/read_and_write.py | 2 +-
PyNutil/processing/coordinate_extraction.py | 2 +-
2 files changed, 2 insertions(+), 2 deletions(-)
diff --git a/PyNutil/io/read_and_write.py b/PyNutil/io/read_and_write.py
index 7584296..0487e0b 100644
--- a/PyNutil/io/read_and_write.py
+++ b/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.
diff --git a/PyNutil/processing/coordinate_extraction.py b/PyNutil/processing/coordinate_extraction.py
index aecf158..f3c041b 100644
--- a/PyNutil/processing/coordinate_extraction.py
+++ b/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"]
--
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