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Adding HC integration test for _structural_ insertions and deletions.

This commit is contained in:
Ryan Poplin 2012-09-12 12:23:00 -04:00
parent bfbf1686cd
commit 849a2b8839
1 changed files with 8 additions and 0 deletions
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8
protected/java/test/org/broadinstitute/sting/gatk/walkers/haplotypecaller/HaplotypeCallerIntegrationTest.java
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@ -73,4 +73,12 @@ public class HaplotypeCallerIntegrationTest extends WalkerTest {
final WalkerTestSpec spec = new WalkerTestSpec(base, Arrays.asList("8d092b25f40456e618eef91fdce8adf0"));
executeTest("HCTestProblematicReadsModifiedInActiveRegions: ", spec);
}
@Test
public void HCTestStructuralIndels() {
final String base = String.format("-T HaplotypeCaller -R %s -I %s", REF, privateTestDir + "AFR.structural.indels.bam") + " --no_cmdline_in_header -o %s -minPruning 6 -L 20:8187565-8187800 -L 20:18670537-18670730";
final WalkerTestSpec spec = new WalkerTestSpec(base, Arrays.asList("c29e61810c056b52a47baae0696931ea"));
executeTest("HCTestStructuralIndels: ", spec);
}
}