Mercurial > repos > iuc > bcftools_convert_from_vcf

changeset 1:bbca4d2b5fbe draft

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planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/bcftools commit a9550d87541eda8b909e6aef1ad8cbf9e9e20d06
author iuc
date Wed, 13 Jul 2016 10:56:42 -0400
parents 16f221807ecd
children 74f698d87c6b
files macros.xml
diffstat 1 files changed, 1 insertions(+), 1 deletions(-) [+]
line wrap: on
line diff
--- a/macros.xml	Wed Jul 06 07:02:27 2016 -0400
+++ b/macros.xml	Wed Jul 13 10:56:42 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
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