Mercurial > repos > imgteam > binary2labelimage
view binary2label.py @ 0:b97a362ff321 draft
planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tools/binary2labelimage/ commit c3f4b766f03770f094fda6bda0a5882c0ebd4581
author | imgteam |
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date | Sat, 09 Feb 2019 14:30:31 -0500 |
parents | |
children | 6c92ac9ce868 |
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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")