diff --git a/public/java/test/org/broadinstitute/sting/gatk/walkers/filters/VariantFiltrationIntegrationTest.java b/public/java/test/org/broadinstitute/sting/gatk/walkers/filters/VariantFiltrationIntegrationTest.java index ae5128c75..97b985a29 100755 --- a/public/java/test/org/broadinstitute/sting/gatk/walkers/filters/VariantFiltrationIntegrationTest.java +++ b/public/java/test/org/broadinstitute/sting/gatk/walkers/filters/VariantFiltrationIntegrationTest.java @@ -99,4 +99,13 @@ public class VariantFiltrationIntegrationTest extends WalkerTest { Arrays.asList("8077eb3bab5ff98f12085eb04176fdc9")); executeTest("test deletions", spec); } + + @Test + public void testUnfilteredBecomesFilteredAndPass() { + WalkerTestSpec spec = new WalkerTestSpec( + "-T VariantFiltration -o %s --no_cmdline_in_header -R " + b37KGReference + + " --filterExpression 'FS > 60.0' --filterName SNP_FS -V " + privateTestDir + "unfilteredForFiltering.vcf", 1, + Arrays.asList("8ed32a2272bab8043a255362335395ef")); + executeTest("testUnfilteredBecomesFilteredAndPass", spec); + } }