Mercurial > repos > imgteam > 2d_feature_extraction

diff 2d_feature_extraction.py @ 6:5bc8cdc17fd0 draft default tip

Find changesets by keywords (author, files, the commit message), revision number or hash, or revset expression.
planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tree/master/tools/2d_feature_extraction/ commit c86a1b93cb7732f7331a981d13465653cc1a2790
author imgteam
date Wed, 24 Apr 2024 08:11:39 +0000
parents 2436a8807ad1
children
line wrap: on
line diff
--- a/2d_feature_extraction.py	Thu Apr 04 15:23:23 2024 +0000
+++ b/2d_feature_extraction.py	Wed Apr 24 08:11:39 2024 +0000
@@ -1,9 +1,9 @@
 import argparse
 
+import giatools.io
 import numpy as np
 import pandas as pd
 import skimage.feature
-import skimage.io
 import skimage.measure
 import skimage.morphology
 import skimage.segmentation
@@ -57,9 +57,9 @@
 
     raw_image = None
     if args.raw_file is not None:
-        raw_image = skimage.io.imread(args.raw_file.name)
+        raw_image = giatools.io.imread(args.raw_file.name)
 
-    raw_label_image = skimage.io.imread(label_file)
+    raw_label_image = giatools.io.imread(label_file)
 
     df = pd.DataFrame()
     if label_file_binary:
@@ -124,4 +124,4 @@
         df['convexity'] = area / (perimeter * perimeter)
 
     del df['it']
-    df.to_csv(out_file, sep='\t', line_terminator='\n', index=False)
+    df.to_csv(out_file, sep='\t', lineterminator='\n', index=False)