From e15d18129c3631d5c85208f622bc48998a3c2315 Mon Sep 17 00:00:00 2001
From: corin <corin@348d0f76-0448-11de-a6fe-93d51630548a>
Date: Tue, 23 Nov 2010 21:36:03 +0000
Subject: [PATCH] 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
---
 scala/qscript/fullCallingPipeline.q | 2 +-
 1 file changed, 1 insertion(+), 1 deletion(-)

diff --git a/scala/qscript/fullCallingPipeline.q b/scala/qscript/fullCallingPipeline.q
index 49aaf1f65..001fc0f2a 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("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"