Mercurial > repos > imgteam > 2d_histogram_equalization
comparison histogram_equalization.py @ 3:b1c2c210813c draft default tip
planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tree/master/tools/2d_histogram_equalization/ commit c86a1b93cb7732f7331a981d13465653cc1a2790
| author | imgteam |
|---|---|
| date | Wed, 24 Apr 2024 08:11:54 +0000 |
| parents | 77f7159d775a |
| children |
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| 2:3f3783846dc0 | 3:b1c2c210813c |
|---|---|
| 1 import argparse | 1 import argparse |
| 2 import sys | 2 import sys |
| 3 | 3 |
| 4 import giatools.io | |
| 4 import skimage.exposure | 5 import skimage.exposure |
| 5 import skimage.io | 6 import skimage.io |
| 6 import skimage.util | 7 import skimage.util |
| 7 | 8 |
| 8 hOptions = { | 9 hOptions = { |
| 15 parser.add_argument('input_file', type=argparse.FileType('r'), default=sys.stdin, help='input file') | 16 parser.add_argument('input_file', type=argparse.FileType('r'), default=sys.stdin, help='input file') |
| 16 parser.add_argument('out_file', type=argparse.FileType('w'), default=sys.stdin, help='out file (TIFF)') | 17 parser.add_argument('out_file', type=argparse.FileType('w'), default=sys.stdin, help='out file (TIFF)') |
| 17 parser.add_argument('h_type', choices=hOptions.keys(), help='histogram equalization method') | 18 parser.add_argument('h_type', choices=hOptions.keys(), help='histogram equalization method') |
| 18 args = parser.parse_args() | 19 args = parser.parse_args() |
| 19 | 20 |
| 20 img_in = skimage.io.imread(args.input_file.name) | 21 img_in = giatools.io.imread(args.input_file.name) |
| 21 res = hOptions[args.h_type](img_in) | 22 res = hOptions[args.h_type](img_in) |
| 22 res = skimage.util.img_as_uint(res) | 23 res = skimage.util.img_as_uint(res) |
| 23 skimage.io.imsave(args.out_file.name, res, plugin="tifffile") | 24 skimage.io.imsave(args.out_file.name, res, plugin="tifffile") |