diff --git a/java/test/org/broadinstitute/sting/gatk/walkers/variantutils/LiftoverVariantsIntegrationTest.java b/java/test/org/broadinstitute/sting/gatk/walkers/variantutils/LiftoverVariantsIntegrationTest.java index 32dd48f8e..785763dbd 100755 --- a/java/test/org/broadinstitute/sting/gatk/walkers/variantutils/LiftoverVariantsIntegrationTest.java +++ b/java/test/org/broadinstitute/sting/gatk/walkers/variantutils/LiftoverVariantsIntegrationTest.java @@ -43,4 +43,13 @@ public class LiftoverVariantsIntegrationTest extends WalkerTest { Arrays.asList("1637877892a019061e74eb3d9a9d100f")); executeTest("test b36 to hg19", spec); } + + @Test + public void testhg18Tohg19Unsorted() { + WalkerTestSpec spec = new WalkerTestSpec( + "-T LiftoverVariants -o %s -R " + hg18Reference + " -B:variant,vcf " + validationDataLocation + "liftover_test.vcf -chain " + validationDataLocation + "hg18ToHg19.broad.over.chain -dict /seq/references/Homo_sapiens_assembly19/v0/Homo_sapiens_assembly19.dict", + 1, + Arrays.asList("ce71a6d40f7375826e31adb3832d2fe3")); + executeTest("test hg18 to hg19, unsorted", spec); + } } \ No newline at end of file