Mercurial > repos > devteam > picard1106
view mergevcf_wrapper.sh @ 142:844fa42ad305 draft
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author | devteam |
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date | Thu, 27 Feb 2014 13:15:52 -0500 |
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