From bbb890dd6c2d644a5bfe58ba7e2294203257dbf9 Mon Sep 17 00:00:00 2001
From: depristo <depristo@348d0f76-0448-11de-a6fe-93d51630548a>
Date: Fri, 5 Nov 2010 12:43:25 +0000
Subject: [PATCH] Bug fix for variants in VCF header fetching to avoid null
 pointer when a VariantContext tribble codec doesn't have a header

git-svn-id: file:///humgen/gsa-scr1/gsa-engineering/svn_contents/trunk@4630 348d0f76-0448-11de-a6fe-93d51630548a
---
 java/src/org/broadinstitute/sting/utils/vcf/VCFUtils.java | 4 +++-
 1 file changed, 3 insertions(+), 1 deletion(-)

diff --git a/java/src/org/broadinstitute/sting/utils/vcf/VCFUtils.java b/java/src/org/broadinstitute/sting/utils/vcf/VCFUtils.java
index 5746b03b5..d43492da9 100755
--- a/java/src/org/broadinstitute/sting/utils/vcf/VCFUtils.java
+++ b/java/src/org/broadinstitute/sting/utils/vcf/VCFUtils.java
@@ -98,7 +98,9 @@ public class VCFUtils {
 
             RMDTrack rod = source.getReferenceOrderedData();
             if ( rod.getRecordType().equals(VariantContext.class)) {
-                fields.addAll(((VCFHeader)rod.getHeader()).getMetaData());
+                VCFHeader header = (VCFHeader)rod.getHeader();
+                if ( header != null )
+                    fields.addAll(header.getMetaData());
             }
         }