From 67b9e7319e9be26d49ae1d75ea68aedbb0a0cfd0 Mon Sep 17 00:00:00 2001 From: Guillermo del Angel Date: Sun, 21 Oct 2012 12:38:33 -0400 Subject: [PATCH] Fix for integration tests: new criterion in AF exact calculation model to trim alleles based on likelihoods does produce better results and resulting alleles changed in 2 sites at integration tests (and all subsequent sites after this had minor annotation differences due to RankSum dithering) --- .../UnifiedGenotyperGeneralPloidyIntegrationTest.java | 4 ++-- 1 file changed, 2 insertions(+), 2 deletions(-) diff --git a/protected/java/test/org/broadinstitute/sting/gatk/walkers/genotyper/UnifiedGenotyperGeneralPloidyIntegrationTest.java b/protected/java/test/org/broadinstitute/sting/gatk/walkers/genotyper/UnifiedGenotyperGeneralPloidyIntegrationTest.java index 989f06ec5..652489a71 100644 --- a/protected/java/test/org/broadinstitute/sting/gatk/walkers/genotyper/UnifiedGenotyperGeneralPloidyIntegrationTest.java +++ b/protected/java/test/org/broadinstitute/sting/gatk/walkers/genotyper/UnifiedGenotyperGeneralPloidyIntegrationTest.java @@ -70,12 +70,12 @@ public class UnifiedGenotyperGeneralPloidyIntegrationTest extends WalkerTest { @Test(enabled = true) public void testINDEL_maxAltAlleles2_ploidy3_Pools_noRef() { - PC_LSV_Test_NoRef(" -maxAltAlleles 2 -ploidy 3","LSV_INDEL_DISC_NOREF_p3","INDEL","9acfe0019efdc91217ee070acb071228"); + PC_LSV_Test_NoRef(" -maxAltAlleles 2 -ploidy 3","LSV_INDEL_DISC_NOREF_p3","INDEL","06a512271631c5b511314a2618de82d7"); } @Test(enabled = true) public void testINDEL_maxAltAlleles2_ploidy1_Pools_noRef() { - PC_LSV_Test_NoRef(" -maxAltAlleles 2 -ploidy 1","LSV_INDEL_DISC_NOREF_p1","INDEL","c1d4dd793f61710a1b1fc5d82803210f"); + PC_LSV_Test_NoRef(" -maxAltAlleles 2 -ploidy 1","LSV_INDEL_DISC_NOREF_p1","INDEL","36a383adfdbf1f59656138b538a9920d"); } @Test(enabled = true)