From 0b4e51317b3c17a6469b8e5a936c67b6dd948de4 Mon Sep 17 00:00:00 2001 From: depristo Date: Mon, 7 Mar 2011 20:52:11 +0000 Subject: [PATCH] Now includes project consensus high sensitivity data set git-svn-id: file:///humgen/gsa-scr1/gsa-engineering/svn_contents/trunk@5394 348d0f76-0448-11de-a6fe-93d51630548a --- .../gatk/walkers/varianteval/evaluators/ValidationReport.java | 2 +- 1 file changed, 1 insertion(+), 1 deletion(-) diff --git a/java/src/org/broadinstitute/sting/gatk/walkers/varianteval/evaluators/ValidationReport.java b/java/src/org/broadinstitute/sting/gatk/walkers/varianteval/evaluators/ValidationReport.java index ba6d7397c..bbe2863f7 100755 --- a/java/src/org/broadinstitute/sting/gatk/walkers/varianteval/evaluators/ValidationReport.java +++ b/java/src/org/broadinstitute/sting/gatk/walkers/varianteval/evaluators/ValidationReport.java @@ -28,7 +28,6 @@ import java.util.*; @Analysis(description = "Assess site accuracy and sensitivity of callset against follow-up validation assay") public class ValidationReport extends VariantEvaluator implements StandardEval { // todo -- note this isn't strictly allele away. It's really focused on sites. A/T call at a validated A/G site is currently counted as a TP - @DataPoint(description = "nComp") int nComp = 0; @DataPoint(description = "TP") int TP = 0; @DataPoint(description = "FP") int FP = 0; @@ -110,6 +109,7 @@ public class ValidationReport extends VariantEvaluator implements StandardEval { counts[compStatus.ordinal()][evalStatus.ordinal()]++; } } + return null; // we don't capture any interesting sites }