From b99099f05c36b04df2edd67e839089ade957ee9f Mon Sep 17 00:00:00 2001
From: Ryan Poplin <rpoplin@broadinstitute.org>
Date: Wed, 19 Sep 2012 12:30:26 -0400
Subject: [PATCH] The BaseRecalibrator and DelocalizedBaseRecalibrator have
 gotten out of sync. Fixing.

---
 .../sting/gatk/walkers/bqsr/BQSRIntegrationTest.java            | 2 +-
 1 file changed, 1 insertion(+), 1 deletion(-)

diff --git a/protected/java/test/org/broadinstitute/sting/gatk/walkers/bqsr/BQSRIntegrationTest.java b/protected/java/test/org/broadinstitute/sting/gatk/walkers/bqsr/BQSRIntegrationTest.java
index b0e9ef4fe..c171c6973 100644
--- a/protected/java/test/org/broadinstitute/sting/gatk/walkers/bqsr/BQSRIntegrationTest.java
+++ b/protected/java/test/org/broadinstitute/sting/gatk/walkers/bqsr/BQSRIntegrationTest.java
@@ -137,7 +137,7 @@ public class BQSRIntegrationTest extends WalkerTest {
                 "-T PrintReads" +
                         " -R " + hg18Reference +
                         " -I " + privateTestDir + "HiSeq.1mb.1RG.bam" +
-                        " -BQSR " + privateTestDir + "HiSeq.1mb.1RG.table" +
+                        " -BQSR " + privateTestDir + "HiSeq.20mb.1RG.table" +
                         params.args +
                         " -o %s",
                 Arrays.asList(params.md5));