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git-svn-id: file:///humgen/gsa-scr1/gsa-engineering/svn_contents/trunk@3882 348d0f76-0448-11de-a6fe-93d51630548a
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ebanks 2010-07-27 02:47:18 +00:00
parent 9667942e52
commit 7dd55fbf13
4 changed files with 0 additions and 20 deletions
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0
java/src/org/broadinstitute/sting/gatk/walkers/concordance/CallsetConcordanceWalker.java → archive/java/src/org/broadinstitute/sting/concordance/CallsetConcordanceWalker.java
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java/src/org/broadinstitute/sting/gatk/walkers/concordance/ConcordanceType.java → archive/java/src/org/broadinstitute/sting/concordance/ConcordanceType.java
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java/src/org/broadinstitute/sting/gatk/walkers/concordance/SNPGenotypeConcordance.java → archive/java/src/org/broadinstitute/sting/concordance/SNPGenotypeConcordance.java
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java/test/org/broadinstitute/sting/gatk/walkers/concordance/CallsetConcordanceIntegrationTest.java
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package org.broadinstitute.sting.gatk.walkers.concordance;
import org.broadinstitute.sting.WalkerTest;
import org.junit.Test;
import java.util.Arrays;
public class CallsetConcordanceIntegrationTest extends WalkerTest {
public static String baseTestString() {
return "-T CallsetConcordance -R " + oneKGLocation + "reference/human_b36_both.fasta -L 1:1-8000 -CO %s";
}
//@Test
public void testSNPConcordance() {
WalkerTestSpec spec = new WalkerTestSpec(
baseTestString() + " -B set1,VCF," + validationDataLocation + "NA12878.example1.vcf -B set2,VCF," + validationDataLocation + "NA12878.example2.vcf -CT SNPGenotypeConcordance:qscore=5", 1,
Arrays.asList("e7a0d52c266ba3c76283111674c7168f"));
executeTest("testSNPConcordance", spec);
}
}