Mercurial > repos > biomonika > linkyx

diff sort_bam.sh @ 20:ea52ef8d7f3a

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added perl dependency since galaxy A seems working and added samtools sort
author biomonika <biomonika@psu.edu>
date Thu, 11 Sep 2014 19:17:11 -0400
parents
children cf0d2b74769e
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--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/sort_bam.sh	Thu Sep 11 19:17:11 2014 -0400
@@ -0,0 +1,6 @@
+#!/bin/bash
+results=$1;
+bam_file=$2;
+
+samtools sort $bam_file $results 2>log.txt
+