Mercurial > repos > devteam > bwa

diff bwa-mem.xml @ 10:29299da15326 draft
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/bwa commit 4a306ebd8b7808ce963a69a3b15dd860c1fde585
author: iuc
date: Thu, 01 Feb 2018 12:35:18 -0500
parents: cbc665adcde4
children: 6def3ba376a7
--- a/bwa-mem.xml	Fri Dec 22 15:02:36 2017 -0500
+++ b/bwa-mem.xml	Thu Feb 01 12:35:18 2018 -0500
@@ -7,8 +7,7 @@
     </macros>
     <expand macro="requirements"/>
     <expand macro="stdio"/>
-    <command>
-<![CDATA[
+    <command><![CDATA[
 @set_reference_fasta_filename@
 
 ## Begin BWA-MEM command line
@@ -107,8 +106,7 @@
 #end if
 
 | samtools sort -@\${GALAXY_SLOTS:-2} -O bam -o '$bam_output'
-]]>
-    </command>
+    ]]></command>
 
     <inputs>
         <expand macro="reference_source_conditional" />