# HG changeset patch
# User gandres
# Date 1460472465 14400
# Node ID 13ef7e92cdf1daf93fa001fb09f4db22fb9205f0
# Parent  4980ad57ee363344b1afa239c58420060c7130f5
planemo upload

diff -r 4980ad57ee36 -r 13ef7e92cdf1 VCFToolFilter/find_indiv.py
--- a/VCFToolFilter/find_indiv.py	Tue Apr 12 05:40:26 2016 -0400
+++ b/VCFToolFilter/find_indiv.py	Tue Apr 12 10:47:45 2016 -0400
@@ -12,9 +12,8 @@
 
 def get_field_chrs_options(dataset):
         options = []
-        chrs=os.popen("grep '##contig' %s"%dataset.file_name).read()[:-1].split('\n')
+        chrs=os.popen("grep -v '#' %s | cut -f1 | sort -u "%dataset.file_name).read()[:-1].split('\n')
         for line in chrs:
-		opt=re.search('^##contig=<ID=(\w+),length=',line).group(1)
                 options.append((opt,opt, True))
         return options