From 0c06bf9dbc87647fa41dd98f652d1792ace60499 Mon Sep 17 00:00:00 2001
From: ebanks <ebanks@348d0f76-0448-11de-a6fe-93d51630548a>
Date: Tue, 13 Oct 2009 22:12:03 +0000
Subject: [PATCH] Explicitly set output to GELI now that default is VCF

git-svn-id: file:///humgen/gsa-scr1/gsa-engineering/svn_contents/trunk@1824 348d0f76-0448-11de-a6fe-93d51630548a
---
 .../walkers/genotyper/UnifiedGenotyperIntegrationTest.java     | 3 ++-
 1 file changed, 2 insertions(+), 1 deletion(-)

diff --git a/java/test/org/broadinstitute/sting/gatk/walkers/genotyper/UnifiedGenotyperIntegrationTest.java b/java/test/org/broadinstitute/sting/gatk/walkers/genotyper/UnifiedGenotyperIntegrationTest.java
index c0bab2ac6..9df3ae16b 100755
--- a/java/test/org/broadinstitute/sting/gatk/walkers/genotyper/UnifiedGenotyperIntegrationTest.java
+++ b/java/test/org/broadinstitute/sting/gatk/walkers/genotyper/UnifiedGenotyperIntegrationTest.java
@@ -47,7 +47,8 @@ public class UnifiedGenotyperIntegrationTest extends WalkerTest {
                         " -I /humgen/gsa-scr1/GATK_Data/Validation_Data/NA12878.1kg.p2.chr1_10mb_11_mb.allTechs.bam" +
                         " -varout %s" +
                         " -L 1:10,000,000-10,100,000" +
-                        " -bm empirical",
+                        " -bm empirical" +
+		        " -vf GELI",
                 1,
                 Arrays.asList("f490a407c9c62d43eb83107e83c858f6"));