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Minimal test for the multi-allelic reordering bug

This commit is contained in:
Joel Thibault 2014-02-11 13:12:54 -05:00
parent 6facf695ab
commit cc9477aedb
1 changed files with 12 additions and 0 deletions
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12
protected/gatk-protected/src/test/java/org/broadinstitute/sting/gatk/walkers/variantutils/SelectVariantsIntegrationTest.java
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@ -321,6 +321,18 @@ public class SelectVariantsIntegrationTest extends WalkerTest {
executeTest("test select from multi allelic with excludeNonVariants --" + testfile, spec); executeTest("test select from multi allelic with excludeNonVariants --" + testfile, spec);
} }
@Test
public void testMultiAllelicAnnotationOrdering() {
String testfile = privateTestDir + "multi-allelic-ordering.vcf";
WalkerTestSpec spec = new WalkerTestSpec(
"-T SelectVariants -R " + b37KGReference + " -o %s --no_cmdline_in_header " +
"-sn SAMPLE-CC -sn SAMPLE-CT -sn SAMPLE-CA --excludeNonVariants --variant " + testfile,
1,
Arrays.asList("8fe7cdca8638461909262cb0769b2527")
);
executeTest("test multi allelic annotation ordering --" + testfile, spec);
}
@Test() @Test()
public void testFileWithoutInfoLineInHeader() { public void testFileWithoutInfoLineInHeader() {
testFileWithoutInfoLineInHeader("testFileWithoutInfoLineInHeader", IllegalStateException.class); testFileWithoutInfoLineInHeader("testFileWithoutInfoLineInHeader", IllegalStateException.class);