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Fixing md5s to reflect the new HapMap file

This commit is contained in:
Eric Banks 2012-10-30 14:27:10 -04:00
parent 8a402024c2
commit 2aa28abe0a
3 changed files with 9 additions and 9 deletions
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2
public/java/test/org/broadinstitute/sting/gatk/walkers/varianteval/VariantEvalIntegrationTest.java
View File

@ -354,7 +354,7 @@ public class VariantEvalIntegrationTest extends WalkerTest {
@Test
public void testCompOverlap() {
String extraArgs = "-T VariantEval -R " + b37KGReference + " -L " + variantEvalTestDataRoot + "pacbio.hg19.intervals --comp:comphapmap " + comparisonDataLocation + "Validated/HapMap/3.3/genotypes_r27_nr.b37_fwd.vcf --eval " + variantEvalTestDataRoot + "pacbio.ts.recalibrated.vcf -noEV -EV CompOverlap -sn NA12878 -noST -ST Novelty -o %s";
WalkerTestSpec spec = new WalkerTestSpec(extraArgs,1,Arrays.asList("59ad39e03678011b5f62492fa83ede04"));
WalkerTestSpec spec = new WalkerTestSpec(extraArgs,1,Arrays.asList("d0d9208060e69e157dac3bf01bdd83b0"));
executeTestParallel("testCompOverlap",spec);
}

12
public/java/test/org/broadinstitute/sting/gatk/walkers/variantrecalibration/VariantRecalibrationWalkersIntegrationTest.java
View File

@ -26,9 +26,9 @@ public class VariantRecalibrationWalkersIntegrationTest extends WalkerTest {
}
VRTest lowPass = new VRTest(validationDataLocation + "phase1.projectConsensus.chr20.raw.snps.vcf",
"f360ce3eb2b0b887301be917a9843e2b", // tranches
"287fea5ea066bf3fdd71f5ce9b58eab3", // recal file
"afa297c743437551cc2bd36ddd6d6d75"); // cut VCF
"4d08c8eee61dd1bdea8c5765f34e41f0", // tranches
"ce396fe4045e020b61471f6737dff36e", // recal file
"4f59bd61be900b25c6ecedaa68b9c8de"); // cut VCF
@DataProvider(name = "VRTest")
public Object[][] createData1() {
@ -75,9 +75,9 @@ public class VariantRecalibrationWalkersIntegrationTest extends WalkerTest {
}
VRTest bcfTest = new VRTest(privateTestDir + "vqsr.bcf_test.snps.unfiltered.bcf",
"a8ce3cd3dccafdf7d580bcce7d660a9a", // tranches
"74c10fc15f9739a938b7138909fbde04", // recal file
"c30d163871a37f2bbf8ee7f761e870b4"); // cut VCF
"6a1eef4d02857dbb117a15420b5c0ce9", // tranches
"238366af66b05b6d21749e799c25353d", // recal file
"3928d6bc5007becf52312ade70f14c42"); // cut VCF
@DataProvider(name = "VRBCFTest")
public Object[][] createVRBCFTest() {

4
public/java/test/org/broadinstitute/sting/gatk/walkers/variantutils/SelectVariantsIntegrationTest.java
View File

@ -20,7 +20,7 @@ public class SelectVariantsIntegrationTest extends WalkerTest {
+ b37hapmapGenotypes + " -disc " + testFile
+ " -o %s --no_cmdline_in_header -U LENIENT_VCF_PROCESSING",
1,
Arrays.asList("d88bdae45ae0e74e8d8fd196627e612c")
Arrays.asList("954415f84996d27b07d00855e96d33a2")
);
spec.disableShadowBCF();
@ -49,7 +49,7 @@ public class SelectVariantsIntegrationTest extends WalkerTest {
+ b37hapmapGenotypes + " -disc " + testFile
+ " -o %s --no_cmdline_in_header -U LENIENT_VCF_PROCESSING",
1,
Arrays.asList("c0b937edb6a8b6392d477511d4f1ebcf")
Arrays.asList("ca1b5226eaeaffb78d4abd9d2ee10c43")
);
spec.disableShadowBCF();