Mercurial > repos > imgteam > binary2labelimage

comparison binary2label.py @ 2:6e65fd971e13 draft

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"planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tools/binary2labelimage/ commit 3d389fdec0db29cf6fbd783c0501455bf624fa90"
author imgteam
date Wed, 18 Dec 2019 05:01:27 -0500
parents 6c92ac9ce868
children 9bb446db4a1e
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1:6c92ac9ce868 2:6e65fd971e13
7 from PIL import Image 7 from PIL import Image
8 import skimage.util 8 import skimage.util
9 9
10 parser = argparse.ArgumentParser() 10 parser = argparse.ArgumentParser()
11 parser.add_argument('input_file', type=argparse.FileType('r'), default=sys.stdin, help='input file') 11 parser.add_argument('input_file', type=argparse.FileType('r'), default=sys.stdin, help='input file')
12 parser.add_argument('out_file', type=argparse.FileType('w'), default=sys.stdin, help='out file (TIFF)') 12 parser.add_argument('out_file', type=argparse.FileType('w'), default=sys.stdin, help='out file (TIFF)')
13 args = parser.parse_args() 13 args = parser.parse_args()
14 14
15 img_in = skimage.io.imread(args.input_file.name) > 0 15 img_in = skimage.io.imread(args.input_file.name) > 0
16 res = label(img_in) 16 res = label(img_in)
17 res = skimage.util.img_as_uint(res) 17 res = skimage.util.img_as_uint(res)