diff binary2label.py @ 0:668f8dabb346 draft

planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tools/\binary2labelimage commit 77f1ea5beca40d8b5851fe366e84c32d5df5d6f8

--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/binary2label.py	Sat Feb 11 17:28:57 2017 -0500
@@ -0,0 +1,18 @@
+import argparse
+import sys
+import skimage.io
+from skimage.measure import label
+import numpy as np
+import warnings
+from PIL import Image
+
+parser = argparse.ArgumentParser()
+parser.add_argument('input_file', type=argparse.FileType('r'), default=sys.stdin, help='input file')
+parser.add_argument('out_file', type=argparse.FileType('w'), default=sys.stdin, help='out file (TIFF)')
+args = parser.parse_args()
+
+img_in = skimage.io.imread(args.input_file.name) > 0
+res = label(img_in).astype(np.int32)
+
+res = Image.fromarray(res)
+res.save(args.out_file.name, "tiff")
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