Mercurial > repos > timpalpant > java_genomics_toolkit

diff galaxy-conf/BaseAlignCounts.xml @ 25:b43c420a6135 draft default tip

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Incorporate fix: https://github.com/timpalpant/java-genomics-toolkit/commit/9a6c61b7c6b8d85a1cd3f595eed657a537b85dc9
author timpalpant
date Sat, 09 Feb 2019 14:02:24 -0500
parents 9d56b5b85740
children
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--- a/galaxy-conf/BaseAlignCounts.xml	Tue Jun 19 22:15:09 2012 -0400
+++ b/galaxy-conf/BaseAlignCounts.xml	Sat Feb 09 14:02:24 2019 -0500
@@ -1,6 +1,6 @@
 <tool id="BaseAlignCounts" name="Calculate coverage" version="2.0.0">
   <description>of sequencing reads</description>
-  <command interpreter="sh">galaxyToolRunner.sh ngs.BaseAlignCounts -i $input -a ${chromInfo} -x $X -o $output</command>
+  <command interpreter="bash">galaxyToolRunner.sh ngs.BaseAlignCounts -i $input -a ${chromInfo} -x $X -o $output</command>
   <inputs>
     <param name="input" type="data" format="sam,bam,bed,bedgraph" label="Sequencing reads" />
     <param name="X" type="integer" value="-1" label="In silico extension (-1 for fragment length)" />