From 68719615bef6b4ae94b3bbfabc400a071b3ebcfb Mon Sep 17 00:00:00 2001
From: weisburd <weisburd@348d0f76-0448-11de-a6fe-93d51630548a>
Date: Tue, 18 May 2010 02:41:50 +0000
Subject: [PATCH] For multiple matches, shifted counter to be 1-based

git-svn-id: file:///humgen/gsa-scr1/gsa-engineering/svn_contents/trunk@3370 348d0f76-0448-11de-a6fe-93d51630548a
---
 .../sting/gatk/walkers/annotator/VariantAnnotatorEngine.java    | 2 +-
 1 file changed, 1 insertion(+), 1 deletion(-)

diff --git a/java/src/org/broadinstitute/sting/gatk/walkers/annotator/VariantAnnotatorEngine.java b/java/src/org/broadinstitute/sting/gatk/walkers/annotator/VariantAnnotatorEngine.java
index 91e3a9329..962088598 100755
--- a/java/src/org/broadinstitute/sting/gatk/walkers/annotator/VariantAnnotatorEngine.java
+++ b/java/src/org/broadinstitute/sting/gatk/walkers/annotator/VariantAnnotatorEngine.java
@@ -301,7 +301,7 @@ public class VariantAnnotatorEngine {
                 // dbSNP.avHet=value1 from record 1 and dbSNP.avHet=value2 from record 2 will become dbSNP.avHet_1=value1 and dbSNP.avHet_2=value2 )
                 Map<String,String> annotationsForRecordWithRenamedKeys = new HashMap<String, String>();
                 for(Map.Entry<String, String> annotation : annotationsForRecord.entrySet()) {
-                    annotationsForRecordWithRenamedKeys.put(annotation.getKey() + "_" + i, annotation.getValue());
+                    annotationsForRecordWithRenamedKeys.put(annotation.getKey() + "_" + (i + 1), annotation.getValue());
                 }
 
                 annotationsForRecord = annotationsForRecordWithRenamedKeys;