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Another case of reordering of read groups blowing up checksums. 

git-svn-id: file:///humgen/gsa-scr1/gsa-engineering/svn_contents/trunk@2030 348d0f76-0448-11de-a6fe-93d51630548a
This commit is contained in:
hanna 2009-11-13 00:07:35 +00:00
parent 8145ed4672
commit 7c386fa428
1 changed files with 3 additions and 3 deletions
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6
java/test/org/broadinstitute/sting/gatk/walkers/indels/IntervalCleanerIntegrationTest.java
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@ -9,21 +9,21 @@ public class IntervalCleanerIntegrationTest extends WalkerTest {
@Test
public void testIntervals() {
String[] md5lod5 = {"54ba9ef0d90659475f7d694fb97b5f2b", "4aa3637e86822c95af3e2c9b414530c3"};
String[] md5lod5 = {"163d2f1b04741986151636d3c7e04c94", "4aa3637e86822c95af3e2c9b414530c3"};
WalkerTestSpec spec1 = new WalkerTestSpec(
"-T IntervalCleaner -LOD 5 -maxConsensuses 100 -greedy 100 -R /broad/1KG/reference/human_b36_both.fasta -I /humgen/gsa-scr1/GATK_Data/Validation_Data/NA12878.chrom1.SLX.SRP000032.2009_06.bam -L /humgen/gsa-scr1/GATK_Data/Validation_Data/cleaner.test.intervals --OutputCleaned %s -snps %s",
2,
Arrays.asList(md5lod5));
executeTest("testLod5", spec1);
String[] md5lod200 = {"55097ed556f41c5d527d7381b8e858dd", "e39aa718c9810364ebe30964d878d5ff"};
String[] md5lod200 = {"1d89ee2af03df79eb5de494c77767221", "e39aa718c9810364ebe30964d878d5ff"};
WalkerTestSpec spec2 = new WalkerTestSpec(
"-T IntervalCleaner -LOD 200 -maxConsensuses 100 -greedy 100 -R /broad/1KG/reference/human_b36_both.fasta -I /humgen/gsa-scr1/GATK_Data/Validation_Data/NA12878.chrom1.SLX.SRP000032.2009_06.bam -L /humgen/gsa-scr1/GATK_Data/Validation_Data/cleaner.test.intervals --OutputCleaned %s -snps %s",
2,
Arrays.asList(md5lod200));
executeTest("testLod200", spec2);
String[] md5cleanedOnly = {"1f844be094cd30c351586ebf0f8ff38c", "4aa3637e86822c95af3e2c9b414530c3"};
String[] md5cleanedOnly = {"710f9114ec496c73f1c3782b5cb09757", "4aa3637e86822c95af3e2c9b414530c3"};
WalkerTestSpec spec3 = new WalkerTestSpec(
"-T IntervalCleaner -LOD 5 -cleanedOnly -maxConsensuses 100 -greedy 100 -R /broad/1KG/reference/human_b36_both.fasta -I /humgen/gsa-scr1/GATK_Data/Validation_Data/NA12878.chrom1.SLX.SRP000032.2009_06.bam -L /humgen/gsa-scr1/GATK_Data/Validation_Data/cleaner.test.intervals --OutputCleaned %s -snps %s",
2,