From 38d9f7b9031cc5875dd69e92088417247b4354cb Mon Sep 17 00:00:00 2001
From: kiran <kiran@348d0f76-0448-11de-a6fe-93d51630548a>
Date: Fri, 11 Dec 2009 20:14:39 +0000
Subject: [PATCH] Renamed ReferenceContext's getSimpleBase() method to
 getBaseIndex()

git-svn-id: file:///humgen/gsa-scr1/gsa-engineering/svn_contents/trunk@2334 348d0f76-0448-11de-a6fe-93d51630548a
---
 .../broadinstitute/sting/gatk/contexts/ReferenceContext.java    | 2 +-
 1 file changed, 1 insertion(+), 1 deletion(-)

diff --git a/java/src/org/broadinstitute/sting/gatk/contexts/ReferenceContext.java b/java/src/org/broadinstitute/sting/gatk/contexts/ReferenceContext.java
index b4b6ab67a..87dd0f04f 100644
--- a/java/src/org/broadinstitute/sting/gatk/contexts/ReferenceContext.java
+++ b/java/src/org/broadinstitute/sting/gatk/contexts/ReferenceContext.java
@@ -95,7 +95,7 @@ public class ReferenceContext {
      * Get the base at the given locus.
      * @return The base at the given locus from the reference.
      */
-    public int getSimpleBase() {
+    public int getBaseIndex() {
         return BaseUtils.simpleBaseToBaseIndex(getBase());
     }