Mercurial > repos > imgteam > 2d_feature_extraction

diff 2d_feature_extraction.py @ 1:f03b4da203d0 draft

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planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tools/2d_feature_extraction/ commit e45ba62aae80d942bbf1cbf572bd9aec64297900
author imgteam
date Tue, 09 Jul 2019 08:35:50 -0400
parents 96909b9d1df1
children 6fdb3542a406
line wrap: on
line diff
--- a/2d_feature_extraction.py	Sat Feb 09 14:28:26 2019 -0500
+++ b/2d_feature_extraction.py	Tue Jul 09 08:35:50 2019 -0400
@@ -118,7 +118,9 @@
 if args.moments or args.all_features:
     df['moments'] = df['it'].map(lambda ait: regions[ait].moments)
 if args.convexity or args.all_features:
-    df['convexity'] = df.area/(df.perimeter*df.perimeter)
+    perimeter = df['it'].map(lambda ait: regions[ait].perimeter)
+    area = df['it'].map(lambda ait: regions[ait].area)
+    df['convexity'] = area/(perimeter*perimeter)
 
 del df['it']
 df.to_csv(out_file, sep='\t', line_terminator='\n', index=False)