From 7dd55fbf13ed7f797f981149a4d154c2631213f4 Mon Sep 17 00:00:00 2001 From: ebanks Date: Tue, 27 Jul 2010 02:47:18 +0000 Subject: [PATCH] Archiving git-svn-id: file:///humgen/gsa-scr1/gsa-engineering/svn_contents/trunk@3882 348d0f76-0448-11de-a6fe-93d51630548a --- .../concordance/CallsetConcordanceWalker.java | 0 .../sting}/concordance/ConcordanceType.java | 0 .../concordance/SNPGenotypeConcordance.java | 0 .../CallsetConcordanceIntegrationTest.java | 20 ------------------- 4 files changed, 20 deletions(-) rename {java/src/org/broadinstitute/sting/gatk/walkers => archive/java/src/org/broadinstitute/sting}/concordance/CallsetConcordanceWalker.java (100%) rename {java/src/org/broadinstitute/sting/gatk/walkers => archive/java/src/org/broadinstitute/sting}/concordance/ConcordanceType.java (100%) rename {java/src/org/broadinstitute/sting/gatk/walkers => archive/java/src/org/broadinstitute/sting}/concordance/SNPGenotypeConcordance.java (100%) delete mode 100755 java/test/org/broadinstitute/sting/gatk/walkers/concordance/CallsetConcordanceIntegrationTest.java diff --git a/java/src/org/broadinstitute/sting/gatk/walkers/concordance/CallsetConcordanceWalker.java b/archive/java/src/org/broadinstitute/sting/concordance/CallsetConcordanceWalker.java similarity index 100% rename from java/src/org/broadinstitute/sting/gatk/walkers/concordance/CallsetConcordanceWalker.java rename to archive/java/src/org/broadinstitute/sting/concordance/CallsetConcordanceWalker.java diff --git a/java/src/org/broadinstitute/sting/gatk/walkers/concordance/ConcordanceType.java b/archive/java/src/org/broadinstitute/sting/concordance/ConcordanceType.java similarity index 100% rename from java/src/org/broadinstitute/sting/gatk/walkers/concordance/ConcordanceType.java rename to archive/java/src/org/broadinstitute/sting/concordance/ConcordanceType.java diff --git a/java/src/org/broadinstitute/sting/gatk/walkers/concordance/SNPGenotypeConcordance.java b/archive/java/src/org/broadinstitute/sting/concordance/SNPGenotypeConcordance.java similarity index 100% rename from java/src/org/broadinstitute/sting/gatk/walkers/concordance/SNPGenotypeConcordance.java rename to archive/java/src/org/broadinstitute/sting/concordance/SNPGenotypeConcordance.java diff --git a/java/test/org/broadinstitute/sting/gatk/walkers/concordance/CallsetConcordanceIntegrationTest.java b/java/test/org/broadinstitute/sting/gatk/walkers/concordance/CallsetConcordanceIntegrationTest.java deleted file mode 100755 index 182d9c230..000000000 --- a/java/test/org/broadinstitute/sting/gatk/walkers/concordance/CallsetConcordanceIntegrationTest.java +++ /dev/null @@ -1,20 +0,0 @@ -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); - } -}