Upload Colony_Analyzer_AI2_HF.py

Colony_Analyzer_AI2_HF.py

@@ -274,7 +274,7 @@ def main(args):
     p = stitch(img_map, i_num, j_num)
     colonies = analyze_colonies(p, min_size, min_circ, np.array(args[0]))
     if len(colonies) <=0:
-    	img = np.array(pad(args[0]))
+    	img = pad(np.array(args[0]))
     	caption = np.ones((150, 2048, 3), dtype=np.uint8) * 255  # Multiply by 255 to make it white
     	cv2.putText(caption, 'No colonies detected.', (40, 40), cv2.FONT_HERSHEY_SIMPLEX, 1, (0, 0, 0), 3)
     	cv2.imwrite('results.png', np.vstack((img, caption)))
@@ -283,7 +283,7 @@ def main(args):
         	colonies.to_excel(writer, sheet_name="Colony data", index=False)
     	return(np.vstack((img, caption)), 'results.png', 'results.xlsx')
 
-    img = np.array(pad(args[0]))
+    img =pad(np.array(args[0]))
 
     img = cv2.copyMakeBorder(img,top=0, bottom=10,left=0,right=10, borderType=cv2.BORDER_CONSTANT,  value=[255, 255, 255]) 
     #print(colonies.to_string())