diff --git a/java/test/org/broadinstitute/sting/gatk/walkers/PileupWalkerIntegrationTest.java b/java/test/org/broadinstitute/sting/gatk/walkers/PileupWalkerIntegrationTest.java index 70692c597..4a73efbb6 100644 --- a/java/test/org/broadinstitute/sting/gatk/walkers/PileupWalkerIntegrationTest.java +++ b/java/test/org/broadinstitute/sting/gatk/walkers/PileupWalkerIntegrationTest.java @@ -23,4 +23,15 @@ public class PileupWalkerIntegrationTest extends WalkerTest { WalkerTestSpec spec = new WalkerTestSpec(gatk_args, 1, Arrays.asList(expected_md5)); executeTest("Testing the standard (no-indel) pileup on three merged FHS pools with 27 deletions in 969 bases", spec); } + + @Test + public void testExtendedEventPileup() { + String gatk_args = "-T Pileup -I " + validationDataLocation + "OV-0930.normal.chunk.bam " + + "-R " + seqLocation + "references/Homo_sapiens_assembly18/v0/Homo_sapiens_assembly18.fasta" + + " -show_indels -o %s"; + String expected_md5="afc9ef7f4668e82d0bf88ab8916944f4"; + WalkerTestSpec spec = new WalkerTestSpec(gatk_args,1,Arrays.asList(expected_md5)); + executeTest("Testing the extended pileup with indel records included on a small chunk of Ovarian dataset with 20 indels (1 D, 19 I)", spec); + + } }