diff --git a/scala/qscript/fullCallingPipeline.q b/scala/qscript/fullCallingPipeline.q index 001fc0f2a..8e888e5e8 100755 --- a/scala/qscript/fullCallingPipeline.q +++ b/scala/qscript/fullCallingPipeline.q @@ -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("SimpleMetricsBySample", 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"