diff json2yolosegment.py @ 0:252fd085940d draft

planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools commit 67e0e1d123bcfffb10bab8cc04ae67259caec557
author bgruening
date Fri, 13 Jun 2025 11:23:35 +0000
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--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/json2yolosegment.py	Fri Jun 13 11:23:35 2025 +0000
@@ -0,0 +1,64 @@
+import argparse
+import json
+import os
+
+
+def convert_json_to_yolo(input_dir, save_dir, class_names_file):
+
+    with open(class_names_file, 'r') as f:
+        class_names = [line.strip() for line in f.readlines()]
+
+    class_to_index = {class_name: i for i, class_name in enumerate(class_names)}
+
+    for filename in os.listdir(input_dir):
+        json_filepath = os.path.join(input_dir, filename)
+
+        with open(json_filepath, 'r') as f:
+            data = json.load(f)
+
+        image_width = data.get('imageWidth')
+        image_height = data.get('imageHeight')
+        if image_width is None or image_height is None:
+            print(f"Skipping {filename}: missing image dimensions.")
+            return
+
+        annotations = data.get('shapes', [])
+
+        base, _ = os.path.splitext(filename)
+        output_file = f"{base}.txt"
+        output_filepath = os.path.join(save_dir, output_file)
+
+        with open(output_filepath, 'w') as f:
+            for annotation in annotations:
+                label = annotation.get('label')
+                class_index = class_to_index[label]
+
+                points = annotation.get('points', [])
+
+                if not points:
+                    print(f"No points found for annotation '{label}', skipping.")
+                    continue
+
+                x = [point[0] / (image_width - 1) for point in points]
+                y = [point[1] / (image_height - 1) for point in points]
+
+                segmentation_points = ['{} {}'.format(x[i], y[i]) for i in range(len(x))]
+                segmentation_points_string = ' '.join(segmentation_points)
+                line = '{} {}\n'.format(class_index, segmentation_points_string)
+                f.write(line)
+
+        print(f"Converted annotations saved to: {output_filepath}")
+
+
+def main():
+    parser = argparse.ArgumentParser(description="Convert JSON annotations to YOLO segment format.")
+    parser.add_argument('-i', '--input_dir', type=str, help='Full path of the folder containing AnyLabeling JSON files.')
+    parser.add_argument('-o', '--save_dir', type=str, help='Path to the directory to save converted YOLO files.')
+    parser.add_argument('-c', '--class_names_file', type=str, help='Path to the text file containing class names, one per line.')
+    args = parser.parse_args()
+
+    convert_json_to_yolo(args.input_dir, args.save_dir, args.class_names_file)
+
+
+if __name__ == "__main__":
+    main()