From df1cadc4c9504cbac4cf5824ae5e992d1dc776c5 Mon Sep 17 00:00:00 2001
From: ebanks <ebanks@348d0f76-0448-11de-a6fe-93d51630548a>
Date: Mon, 21 Jun 2010 13:46:54 +0000
Subject: [PATCH] Fix NullPointerException when priority list is left out

git-svn-id: file:///humgen/gsa-scr1/gsa-engineering/svn_contents/trunk@3600 348d0f76-0448-11de-a6fe-93d51630548a
---
 .../org/broadinstitute/sting/gatk/walkers/vcf/VCFCombine.java   | 2 +-
 1 file changed, 1 insertion(+), 1 deletion(-)

diff --git a/java/src/org/broadinstitute/sting/gatk/walkers/vcf/VCFCombine.java b/java/src/org/broadinstitute/sting/gatk/walkers/vcf/VCFCombine.java
index c4ae8688d..3d32ef27d 100755
--- a/java/src/org/broadinstitute/sting/gatk/walkers/vcf/VCFCombine.java
+++ b/java/src/org/broadinstitute/sting/gatk/walkers/vcf/VCFCombine.java
@@ -116,7 +116,7 @@ public class VCFCombine extends RodWalker<VCFRecord, VCFWriter> {
 
     private void validateAnnotateUnionArguments(String[] priority) {
         Set<RMDTrack> rods = VCFUtils.getRodVCFs(getToolkit());
-        if ( rods.size() != priority.length ) {
+        if ( priority == null || rods.size() != priority.length ) {
             throw new StingException("A complete priority list must be provided when annotateUnion is provided");
         }
         if ( priority.length != 2 ) {