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limiting the number of reads in memory for the SamValidateFile.jar 

git-svn-id: file:///humgen/gsa-scr1/gsa-engineering/svn_contents/trunk@5976 348d0f76-0448-11de-a6fe-93d51630548a
This commit is contained in:
carneiro 2011-06-10 20:14:30 +00:00
parent 077862958d
commit 95f3da1126
1 changed files with 1 additions and 1 deletions
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2
scala/qscript/core/DataProcessingPipeline.scala
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@ -418,7 +418,7 @@ class DataProcessingPipeline extends QScript {
@Output(doc="validation log") var validate = outLog @Output(doc="validation log") var validate = outLog
override def inputBams = List(inBam) override def inputBams = List(inBam)
override def outputBam = outLog override def outputBam = outLog
override def commandLine = super.commandLine + " VALIDATE_INDEX=true MODE=SUMMARY REFERENCE_SEQUENCE=" + qscript.reference override def commandLine = super.commandLine + " VALIDATE_INDEX=true MAX_RECORDS_IN_RAM=100000 MODE=SUMMARY REFERENCE_SEQUENCE=" + qscript.reference
sortOrder = null sortOrder = null
this.jarFile = qscript.validateSamJar this.jarFile = qscript.validateSamJar
this.isIntermediate = false this.isIntermediate = false