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Update HaplotypeCaller and VariantAnnotator test MD5s 

There are a few innocuous test failures on this branch --
updating MD5s after reviewing the differences in output
This commit is contained in:
David Roazen 2014-03-07 10:54:27 -05:00
parent 6e98e9e589
commit f070583f29
3 changed files with 3 additions and 3 deletions
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2
protected/gatk-protected/src/test/java/org/broadinstitute/sting/gatk/walkers/annotator/VariantAnnotatorIntegrationTest.java
View File

@ -358,7 +358,7 @@ public class VariantAnnotatorIntegrationTest extends WalkerTest {
final File outputVCFNoQD = executeTest("testQualByDepth calling without QD", specNoQD).getFirst().get(0);
final String baseAnn = String.format("-T VariantAnnotator -R %s -V %s", REF, outputVCFNoQD.getAbsolutePath()) + " --no_cmdline_in_header -o %s -L 20:10130000-10134800 -A QualByDepth";
final WalkerTestSpec specAnn = new WalkerTestSpec(baseAnn, 1, Arrays.asList("388200d107fb47326df78a971a52698f"));
final WalkerTestSpec specAnn = new WalkerTestSpec(baseAnn, 1, Arrays.asList("d9304563b1152a6eee6221a016692cf9"));
specAnn.disableShadowBCF();
final File outputVCFAnn = executeTest("testQualByDepth re-annotation of QD", specAnn).getFirst().get(0);

2
protected/gatk-protected/src/test/java/org/broadinstitute/sting/gatk/walkers/haplotypecaller/HaplotypeCallerComplexAndSymbolicVariantsIntegrationTest.java
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@ -64,7 +64,7 @@ public class HaplotypeCallerComplexAndSymbolicVariantsIntegrationTest extends Wa
@Test
public void testHaplotypeCallerMultiSampleComplex1() {
HCTestComplexVariants(privateTestDir + "AFR.complex.variants.bam", "", "7278afd47e5851c954359441cac2f0b8");
HCTestComplexVariants(privateTestDir + "AFR.complex.variants.bam", "", "6764931523daf1bce11ee0349e434945");
}
private void HCTestSymbolicVariants(String bam, String args, String md5) {

2
protected/gatk-protected/src/test/java/org/broadinstitute/sting/gatk/walkers/haplotypecaller/HaplotypeCallerIntegrationTest.java
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@ -284,7 +284,7 @@ public class HaplotypeCallerIntegrationTest extends WalkerTest {
public void HCTestConservativePcrIndelModelWGS() {
WalkerTest.WalkerTestSpec spec = new WalkerTest.WalkerTestSpec(
"-T HaplotypeCaller --disableDithering --pcr_indel_model CONSERVATIVE -R " + b37KGReference + " --no_cmdline_in_header -I " + NA12878_BAM + " -o %s -L 20:10,000,000-10,300,000", 1,
Arrays.asList("dcb38cb9280f2c3059a09d323db1c633"));
Arrays.asList("ab89ca9309269cd6bb89a4f78e4d119f"));
executeTest("HC calling with conservative indel error modeling on WGS intervals", spec);
}