From d0cab795b7784bca88e5543d24b85e760ef60549 Mon Sep 17 00:00:00 2001 From: Mark DePristo Date: Wed, 5 Dec 2012 14:49:01 -0500 Subject: [PATCH] Got caught in the middle of a bad integration test, that was fixed in independent push. Moved test bam into testdata. --- .../gatk/walkers/genotyper/UnifiedGenotyperIntegrationTest.java | 2 +- 1 file changed, 1 insertion(+), 1 deletion(-) diff --git a/protected/java/test/org/broadinstitute/sting/gatk/walkers/genotyper/UnifiedGenotyperIntegrationTest.java b/protected/java/test/org/broadinstitute/sting/gatk/walkers/genotyper/UnifiedGenotyperIntegrationTest.java index 9e9c7e37e..7459d131b 100755 --- a/protected/java/test/org/broadinstitute/sting/gatk/walkers/genotyper/UnifiedGenotyperIntegrationTest.java +++ b/protected/java/test/org/broadinstitute/sting/gatk/walkers/genotyper/UnifiedGenotyperIntegrationTest.java @@ -436,7 +436,7 @@ public class UnifiedGenotyperIntegrationTest extends WalkerTest { @Test public void testNsInCigar() { WalkerTest.WalkerTestSpec spec = new WalkerTest.WalkerTestSpec( - "-T UnifiedGenotyper -R " + b37KGReference + " --no_cmdline_in_header -I " + validationDataLocation + "testWithNs.bam -o %s -L 8:141813600-141813700 -out_mode EMIT_ALL_SITES", 1, + "-T UnifiedGenotyper -R " + b37KGReference + " --no_cmdline_in_header -I " + privateTestDir + "testWithNs.bam -o %s -L 8:141813600-141813700 -out_mode EMIT_ALL_SITES", 1, Arrays.asList("32f18ba50406cd8c8069ba07f2f89558")); executeTest("test calling on reads with Ns in CIGAR", spec); }