From 27651d8dc2f10f34933c92bcfaf888cf7427f14f Mon Sep 17 00:00:00 2001
From: chartl <chartl@348d0f76-0448-11de-a6fe-93d51630548a>
Date: Sun, 29 Nov 2009 06:59:17 +0000
Subject: [PATCH] Oops. numReads is now called size

git-svn-id: file:///humgen/gsa-scr1/gsa-engineering/svn_contents/trunk@2175 348d0f76-0448-11de-a6fe-93d51630548a
---
 .../playground/gatk/walkers/PercentOfBasesCoveredWalker.java    | 2 +-
 1 file changed, 1 insertion(+), 1 deletion(-)

diff --git a/java/src/org/broadinstitute/sting/playground/gatk/walkers/PercentOfBasesCoveredWalker.java b/java/src/org/broadinstitute/sting/playground/gatk/walkers/PercentOfBasesCoveredWalker.java
index 9e77b5f04..f09e5bc31 100644
--- a/java/src/org/broadinstitute/sting/playground/gatk/walkers/PercentOfBasesCoveredWalker.java
+++ b/java/src/org/broadinstitute/sting/playground/gatk/walkers/PercentOfBasesCoveredWalker.java
@@ -32,7 +32,7 @@ public class PercentOfBasesCoveredWalker extends LocusWalker<Boolean, Pair<Integ
     }
 
     public Boolean map(RefMetaDataTracker tracker, ReferenceContext ref, AlignmentContext context) {
-        return context.numReads() > minDepth;
+        return context.size() > minDepth;
     }
 
     public Pair<Integer,Integer> reduce(Boolean map, Pair<Integer,Integer> prevReduce) {