From b7a3d1e61f8609283395891ca5170b135d461574 Mon Sep 17 00:00:00 2001
From: ebanks <ebanks@348d0f76-0448-11de-a6fe-93d51630548a>
Date: Thu, 8 Jul 2010 04:41:40 +0000
Subject: [PATCH] Bug fix: if the FORMAT field consisted of just GT, we were
 exceptioning out.  How did we not catch this until now?

git-svn-id: file:///humgen/gsa-scr1/gsa-engineering/svn_contents/trunk@3735 348d0f76-0448-11de-a6fe-93d51630548a
---
 .../sting/gatk/refdata/features/vcf4/VCF4Codec.java             | 2 +-
 1 file changed, 1 insertion(+), 1 deletion(-)

diff --git a/java/src/org/broadinstitute/sting/gatk/refdata/features/vcf4/VCF4Codec.java b/java/src/org/broadinstitute/sting/gatk/refdata/features/vcf4/VCF4Codec.java
index 11d5908f5..9dba4601d 100644
--- a/java/src/org/broadinstitute/sting/gatk/refdata/features/vcf4/VCF4Codec.java
+++ b/java/src/org/broadinstitute/sting/gatk/refdata/features/vcf4/VCF4Codec.java
@@ -448,7 +448,7 @@ public class VCF4Codec implements FeatureCodec, NameAwareCodec {
                 throw new VCFParserException("Too few keys for compared to the value string " + sampleName + ", keys = " + parts[8] + " values = " + parts[genotypeOffset]);
 
             int genotypeAlleleLocation = -1;
-            if (nGTKeys > 1) {
+            if (nGTKeys >= 1) {
                 gtAttributes = new HashMap<String, String>(nGTKeys - 1);
                 for (int i = 0; i < nGTKeys; i++) {
                     if (i >= GTValueSplitSize)