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Khalid pressured me into adding an integration test that makes sure we don't fail on reads with adjacent I and D events.

This commit is contained in:
Eric Banks 2012-04-17 21:21:29 -04:00
parent 00bef8f33b
commit ea793d8e27
1 changed files with 8 additions and 0 deletions
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8
public/java/test/org/broadinstitute/sting/gatk/walkers/genotyper/UnifiedGenotyperIntegrationTest.java
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@ -66,6 +66,14 @@ public class UnifiedGenotyperIntegrationTest extends WalkerTest {
executeTest("test Multiple SNP alleles", spec);
}
@Test
public void testBadRead() {
WalkerTest.WalkerTestSpec spec = new WalkerTest.WalkerTestSpec(
"-T UnifiedGenotyper -R " + b37KGReference + " -nosl -NO_HEADER -glm BOTH -I " + validationDataLocation + "badRead.test.bam -o %s -L 1:22753424-22753464", 1,
Arrays.asList("7678827a2ee21870a41c09d28d26b996"));
executeTest("test bad read", spec);
}
// --------------------------------------------------------------------------------------------------------------
//
// testing compressed output