Mercurial > repos > devteam > picard1106
changeset 119:a85055d20937 draft
Uploaded
| author | devteam |
|---|---|
| date | Tue, 25 Feb 2014 18:55:41 -0500 |
| parents | 21bf2afb895c |
| children | 9f95141d8f32 |
| files | mergebamalignment_wrapper.sh |
| diffstat | 1 files changed, 5 insertions(+), 0 deletions(-) [+] |
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--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/mergebamalignment_wrapper.sh Tue Feb 25 18:55:41 2014 -0500 @@ -0,0 +1,5 @@ +#!/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