Mercurial > repos > devteam > picard1106
view mergevcf_wrapper.sh @ 150:896709401435 draft
dummy commit to attempt to merge multiple heads
author | Rayan Chikhi <chikhi@psu.edu> |
---|---|
date | Mon, 21 Jul 2014 16:28:40 -0400 |
parents | c803b1068fa6 |
children |
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#!/bin/bash #index all vcfs args="" for file in ${*:2} do cp $file $file.vcf java -Xmx1500m -jar `dirname $0`/igvtools.jar index $file.vcf args="$args I=$file.vcf" done eval java -Xmx2G -jar $JAVA_JAR_PATH/MergeVcfs.jar QUIET=True O=$1 $args for file in ${*:2} do rm -f $file.vcf rm -f $file.vcf.idx done