Mercurial > repos > imgteam > binary2labelimage
comparison binary2label.py @ 2:938e2358eb80 draft
"planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tools/binary2labelimage/ commit 3d389fdec0db29cf6fbd783c0501455bf624fa90"
| author | imgteam |
|---|---|
| date | Wed, 18 Dec 2019 09:56:41 +0000 |
| parents | 37b99b904027 |
| children | a041e4e9d449 |
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| 1:37b99b904027 | 2:938e2358eb80 |
|---|---|
| 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) |