Mercurial > repos > imgteam > concat_channels

comparison concat_channels.py @ 4:2592a29a785e draft default tip

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planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tree/master/tools/concat_channels/ commit c86a1b93cb7732f7331a981d13465653cc1a2790
author imgteam
date Wed, 24 Apr 2024 08:12:22 +0000
parents 4c43875c790c
children
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3:4c43875c790c 4:2592a29a785e
1 import argparse 1 import argparse
2 2
3 import giatools.io
3 import numpy as np 4 import numpy as np
4 import skimage.io 5 import skimage.io
5 import skimage.util 6 import skimage.util
6 7
7 8
8 def concat_channels(input_image_paths, output_image_path, axis, preserve_values): 9 def concat_channels(input_image_paths, output_image_path, axis, preserve_values):
9 images = [] 10 images = []
10 for image_path in input_image_paths: 11 for image_path in input_image_paths:
11 12
12 raw_image = skimage.io.imread(image_path) 13 raw_image = giatools.io.imread(image_path)
13 if len(raw_image.shape) == 2: 14 if len(raw_image.shape) == 2:
14 if axis == 0: 15 if axis == 0:
15 raw_image = [raw_image] 16 raw_image = [raw_image]
16 else: 17 else:
17 raw_image = np.expand_dims(raw_image, 2) 18 raw_image = np.expand_dims(raw_image, 2)