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Adding by sample metrics. Not sure why we didn't have this in here in the first place 

git-svn-id: file:///humgen/gsa-scr1/gsa-engineering/svn_contents/trunk@4723 348d0f76-0448-11de-a6fe-93d51630548a
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corin 2010-11-23 21:36:03 +00:00
parent ea6e2218c1
commit e15d18129c
1 changed files with 1 additions and 1 deletions
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2
scala/qscript/fullCallingPipeline.q
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@ -359,7 +359,7 @@ class fullCallingPipeline extends QScript {
eval.jobOutputFile = new File(".queue/logs/SNPCalling/VariantEval.out")
eval.rodBind :+= RodBind("evalOptimized", "VCF", cut.out)
eval.rodBind :+= RodBind("evalHandFiltered", "VCF", handFilter.out)
eval.evalModule ++= List("CountFunctionalClasses", "CompOverlap", "CountVariants", "TiTvVariantEvaluator")
eval.evalModule ++= List("SimpleMetricsBySample", CountFunctionalClasses", "CompOverlap", "CountVariants", "TiTvVariantEvaluator")
eval.reportLocation = new File("SnpCalls", base+".eval")
eval.reportType = Option(org.broadinstitute.sting.utils.report.VE2ReportFactory.VE2TemplateType.R)
eval.analysisName = base+"_VariantEval"