Mercurial > repos > imgteam > 2d_auto_threshold

diff auto_threshold.py @ 8:699a5e9146b3 draft default tip

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planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tree/master/tools/2d_auto_threshold/ commit c86a1b93cb7732f7331a981d13465653cc1a2790
author imgteam
date Wed, 24 Apr 2024 08:11:33 +0000
parents e5c8e7e72373
children
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line diff
--- a/auto_threshold.py	Thu Apr 04 15:23:18 2024 +0000
+++ b/auto_threshold.py	Wed Apr 24 08:11:33 2024 +0000
@@ -7,12 +7,13 @@
 
 import argparse
 
+import giatools.io
 import numpy as np
 import skimage.filters
-import skimage.io
 import skimage.util
 import tifffile
 
+
 th_methods = {
     'manual': lambda thres, **kwargs: thres,
 
@@ -28,7 +29,7 @@
 
 
 def do_thresholding(in_fn, out_fn, th_method, block_size, offset, threshold, invert_output=False):
-    img = skimage.io.imread(in_fn)
+    img = giatools.io.imread(in_fn)
     img = np.squeeze(img)
     assert img.ndim == 2