From 798596257b76d51730b8948c9e35624faad8bb44 Mon Sep 17 00:00:00 2001
From: Christopher Hartl <chartl@broadinstitute.org>
Date: Mon, 23 Jan 2012 10:50:16 -0500
Subject: [PATCH] Enable the Genotype Phasing Evaluator. Because it didn't have
 the same argument structure as the base class, update2 of VariantEvaluator
 was being called, rather than update2 of the actual module.

---
 .../varianteval/evaluators/GenotypePhasingEvaluator.java      | 4 ++++
 1 file changed, 4 insertions(+)

diff --git a/public/java/src/org/broadinstitute/sting/gatk/walkers/varianteval/evaluators/GenotypePhasingEvaluator.java b/public/java/src/org/broadinstitute/sting/gatk/walkers/varianteval/evaluators/GenotypePhasingEvaluator.java
index ea12ada48..07cd95997 100755
--- a/public/java/src/org/broadinstitute/sting/gatk/walkers/varianteval/evaluators/GenotypePhasingEvaluator.java
+++ b/public/java/src/org/broadinstitute/sting/gatk/walkers/varianteval/evaluators/GenotypePhasingEvaluator.java
@@ -80,6 +80,10 @@ public class GenotypePhasingEvaluator extends VariantEvaluator {
         return getName() + ": <table>";
     }
 
+    public String update2(VariantContext eval, VariantContext comp, RefMetaDataTracker tracker, ReferenceContext ref, AlignmentContext context) {
+        return update2(eval,comp,tracker,ref,context,null);
+    }
+
     public String update2(VariantContext eval, VariantContext comp, RefMetaDataTracker tracker, ReferenceContext ref, AlignmentContext context, NewEvaluationContext group) {
     //public String update2(VariantContext eval, VariantContext comp, RefMetaDataTracker tracker, ReferenceContext ref, AlignmentContext context, VariantEvalWalker.EvaluationContext group) {
         Reasons interesting = new Reasons();