diff colocalization_viz.py @ 0:9ddb11b272ee draft

planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tools/colocalization_viz/ commit c3f4b766f03770f094fda6bda0a5882c0ebd4581

--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/colocalization_viz.py	Sat Feb 09 14:32:01 2019 -0500
@@ -0,0 +1,25 @@
+import skimage.io
+import skimage.color
+import numpy as np
+import os
+import sys
+import warnings
+
+#TODO make importable by python script
+
+args = sys.argv
+
+def readImg(path):
+    img = skimage.io.imread(path)
+    if len(img.shape) > 2:
+        img = skimage.color.rgb2gray(img)
+    img = np.expand_dims(img > 0, 3)
+    return img
+
+im1 = readImg(args[1])
+im2 = readImg(args[2])
+res = np.concatenate((im1, im2, np.zeros_like(im1)), axis=2) * 1.0
+
+with warnings.catch_warnings():
+    warnings.simplefilter("ignore")
+    skimage.io.imsave(args[3], res)