Upload Colony_Analyzer_AI2_HF.py

Colony_Analyzer_AI2_HF.py

@@ -114,7 +114,7 @@ def find_colonies(mask, size_cutoff, circ_cutoff):
         mask = mask[0, :, :, 0]  # if there's an extra batch/channel dimension
 
     binary_mask = np.where(mask == 1, 255, 0).astype(np.uint8)
-    print(max(binary_mask))
+    print(np.max(binary_mask))
     contours, _ = cv2.findContours(binary_mask, cv2.RETR_EXTERNAL, cv2.CHAIN_APPROX_SIMPLE)
     contoursf = []
     for x in contours:
@@ -140,7 +140,7 @@ def find_necrosis(mask):
     elif mask.ndim == 4:
         mask = mask[0, :, :, 0]  # if there's an extra batch/channel dimension
     binary_mask = np.where(mask == 2, 255, 0).astype(np.uint8)
-    print(max(binary_mask))
+    print(np.max(binary_mask))
     contours, _ = cv2.findContours(binary_mask, cv2.RETR_EXTERNAL, cv2.CHAIN_APPROX_SIMPLE)
     return(contours)