16 lines
551 B
Bash
Executable File
16 lines
551 B
Bash
Executable File
#!/bin/sh
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STING_HOME=/humgen/gsa-hpprojects/dev/kshakir/src/Sting_CountRod
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TMP_DIR=/broad/shptmp/kshakir/CountRod
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JOB_QUEUE=
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STATUS_TO=
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#JOB_QUEUE="-jobQueue week"
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#STATUS_TO="-statusTo kshakir"
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if [ "$1" == "debug" ]; then
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JAVA_DEBUG="-Xdebug -Xrunjdwp:transport=dt_socket,server=y,suspend=n,address=8555"
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shift
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fi
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java $JAVA_DEBUG -Djava.io.tmpdir=${TMP_DIR} -jar ${STING_HOME}/dist/Queue.jar -jobPrefix QCountRodTest -S LinearIndexBinTests.scala -gatk ${STING_HOME}/dist/GenomeAnalysisTK.jar -jobQueue ${JOB_QUEUE} ${STATUS_TO} -bsub $@
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