Mercurial > repos > devteam > picard1106

view mergebamalignment_wrapper.sh @ 16:0260ca585cef draft

Find changesets by keywords (author, files, the commit message), revision number or hash, or revset expression.
Deleted selected files
author devteam
date Tue, 04 Feb 2014 15:34:11 -0500
parents 11e69ba20b85
children
line wrap: on
line source

#!/bin/bash
reference_without_extension=${3%.*}
java -jar $JAVA_JAR_PATH/CreateSequenceDictionary.jar R=$3 O=$reference_without_extension.dict
eval java -Xmx2G -jar $JAVA_JAR_PATH/MergeBamAlignment.jar O=$1.$2 R=$3 ${*:4}
mv $1.$2 $1