Mercurial > repos > iuc > bcftools_concat

diff macros.xml @ 1:c61d9e5366ec draft

Find changesets by keywords (author, files, the commit message), revision number or hash, or revset expression.
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/bcftools commit a9550d87541eda8b909e6aef1ad8cbf9e9e20d06
author iuc
date Wed, 13 Jul 2016 10:56:21 -0400
parents dda05d07d7d4
children 50ff4b18319c
line wrap: on
line diff
--- a/macros.xml	Wed Jul 06 07:01:43 2016 -0400
+++ b/macros.xml	Wed Jul 13 10:56:21 2016 -0400
@@ -77,7 +77,6 @@
 #set $vcfs_list_file = 'vcfs_list'
 #for (i,input_file) in enumerate($input_files):
   #set $input_vcf = 'input' + str($i) + '.vcf.gz'
-  echo '$input_vcf' >> $vcfs_list_file &&
   #if $input_file.datatype.file_ext == 'vcf'
     bgzip -c "$input_file" > $input_vcf &&
     bcftools index $input_vcf &&
@@ -95,6 +94,7 @@
   #elif $input_file.datatype.file_ext == 'bcfvcf_bgz'
     ln -s "$input_file" $input_vcf &&
   #end if
+  echo '$input_vcf' >> $vcfs_list_file &&
   $input_vcfs.append($input_vcf)
 #end for
 ]]>