Mercurial > repos > iuc > gatk4_mutect2

diff macros.xml @ 2:5f71f3690b95 draft

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"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tool_collections/gatk4 commit 093a027ca9e7d34e7d12cd14ca0d0dacadfcb78b"
author iuc
date Fri, 10 Apr 2020 18:10:33 +0000
parents 09393225f90f
children d2c0c2698f58
line wrap: on
line diff
--- a/macros.xml	Mon Nov 18 18:45:26 2019 +0000
+++ b/macros.xml	Fri Apr 10 18:10:33 2020 +0000
@@ -17,9 +17,6 @@
         <version_command>gatk SortSam --version 2>&amp;1 | grep Version | cut -d ':' -f 2</version_command>
     </xml>
 
-    <!--Command token, java options should not be hard coded here.-->
-    <token name="@CMD_BEGIN@">[[ -z \$_JAVA_OPTIONS ]] &amp;&amp; export JAVA_OPTS=\$_JAVA_OPTIONS &amp;&amp; gatk</token>
-
     <!--Define sections that parameters could exist within.-->
     <template name="set_sections">
         #set global $sections = ['', 'optional.', 'advanced.', 'deprecated.']