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Update to the UG integration test. Why I had to rm -rf my entire sting directory to get it to correctly fail we may never know. 

git-svn-id: file:///humgen/gsa-scr1/gsa-engineering/svn_contents/trunk@2128 348d0f76-0448-11de-a6fe-93d51630548a
This commit is contained in:
chartl 2009-11-23 21:23:00 +00:00
parent ed4cf3de57
commit 6a52ca3db6
1 changed files with 4 additions and 4 deletions
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8
java/test/org/broadinstitute/sting/gatk/walkers/genotyper/UnifiedGenotyperIntegrationTest.java
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@ -47,7 +47,7 @@ public class UnifiedGenotyperIntegrationTest extends WalkerTest {
public void testMultiSamplePilot1PointEM() {
WalkerTest.WalkerTestSpec spec = new WalkerTest.WalkerTestSpec(
"-T UnifiedGenotyper -R /broad/1KG/reference/human_b36_both.fasta -I /humgen/gsa-scr1/GATK_Data/Validation_Data/low_coverage_CEU.chr1.10k-11k.bam -varout %s -L 1:10,023,400-10,024,000 -bm empirical -gm EM_POINT_ESTIMATE -confidence 30", 1,
Arrays.asList("fbb3ae6e835df5cf9b99dae5bf1fa8e5"));
Arrays.asList("623d98aa3ad025b4bace1f5f3fe48a91"));
executeTest("testMultiSamplePilot1 - Point Estimate EM", spec);
}
@ -81,7 +81,7 @@ public class UnifiedGenotyperIntegrationTest extends WalkerTest {
public void testMultiSamplePilot1Joint() {
WalkerTest.WalkerTestSpec spec = new WalkerTest.WalkerTestSpec(
"-T UnifiedGenotyper -R /broad/1KG/reference/human_b36_both.fasta -I /humgen/gsa-scr1/GATK_Data/Validation_Data/low_coverage_CEU.chr1.10k-11k.bam -varout %s -L 1:10,022,000-10,025,000 -bm empirical -gm JOINT_ESTIMATE -confidence 30", 1,
Arrays.asList("e1a206a49982f7db5c3f4b65aa910b3a"));
Arrays.asList("348e874b121ce663404344290dd63d42"));
executeTest("testMultiSamplePilot1 - Joint Estimate", spec);
}
@ -89,7 +89,7 @@ public class UnifiedGenotyperIntegrationTest extends WalkerTest {
public void testMultiSamplePilot2Joint() {
WalkerTest.WalkerTestSpec spec = new WalkerTest.WalkerTestSpec(
"-T UnifiedGenotyper -R /broad/1KG/reference/human_b36_both.fasta -I /humgen/gsa-scr1/GATK_Data/Validation_Data/pilot2_daughters.chr20.10k-11k.bam -varout %s -L 20:10,000,000-10,050,000 -bm empirical -gm JOINT_ESTIMATE -confidence 30", 1,
Arrays.asList("cec6081d89ada9b2924fe38c7a021921"));
Arrays.asList("49653e64ac0999ff1c9c5b129c689dea"));
executeTest("testMultiSamplePilot2 - Joint Estimate", spec);
}
@ -97,7 +97,7 @@ public class UnifiedGenotyperIntegrationTest extends WalkerTest {
public void testSingleSamplePilot2Joint() {
WalkerTest.WalkerTestSpec spec = new WalkerTest.WalkerTestSpec(
"-T UnifiedGenotyper -R /broad/1KG/reference/human_b36_both.fasta -I /humgen/gsa-scr1/GATK_Data/Validation_Data/NA12878.1kg.p2.chr1_10mb_11_mb.SLX.bam -varout %s -L 1:10,000,000-10,100,000 -bm empirical -gm JOINT_ESTIMATE -confidence 30", 1,
Arrays.asList("0cd57b2b6272202db0eca45376fdb01d"));
Arrays.asList("b2e037adb2c6967d5eb041ae7268e035"));
executeTest("testSingleSamplePilot2 - Joint Estimate", spec);
}