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UG now encoding NO_CALLs as ./. not ./.:.:4:0,0,0 

A few updated UGs integration tests
This commit is contained in:
Mark DePristo 2011-11-22 08:22:32 -05:00
parent 4ea74c42de
commit 29ca24694a
1 changed files with 2 additions and 2 deletions
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4
public/java/test/org/broadinstitute/sting/gatk/walkers/genotyper/UnifiedGenotyperIntegrationTest.java
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@ -29,7 +29,7 @@ public class UnifiedGenotyperIntegrationTest extends WalkerTest {
public void testMultiSamplePilot1() {
WalkerTest.WalkerTestSpec spec = new WalkerTest.WalkerTestSpec(
baseCommand + " -I " + validationDataLocation + "low_coverage_CEU.chr1.10k-11k.bam -o %s -L 1:10,022,000-10,025,000", 1,
Arrays.asList("f5c8bd653aed02059b9f377833eae5bb"));
Arrays.asList("286f0de92e4ce57986ba861390c6019d"));
executeTest("test MultiSample Pilot1", spec);
}
@ -45,7 +45,7 @@ public class UnifiedGenotyperIntegrationTest extends WalkerTest {
public void testWithAllelesPassedIn2() {
WalkerTest.WalkerTestSpec spec2 = new WalkerTest.WalkerTestSpec(
baseCommand + " --output_mode EMIT_ALL_SITES --genotyping_mode GENOTYPE_GIVEN_ALLELES -alleles " + validationDataLocation + "allelesForUG.vcf -I " + validationDataLocation + "pilot2_daughters.chr20.10k-11k.bam -o %s -L 20:10,000,000-10,025,000", 1,
Arrays.asList("030ce4feb4bbcf700caba82a45cc45f2"));
Arrays.asList("d0593483e85a7d815f4c5ee6db284d2a"));
executeTest("test MultiSample Pilot2 with alleles passed in and emitting all sites", spec2);
}