From 24ec35deaf9318db9c32c17783fcf1f77c2da8a5 Mon Sep 17 00:00:00 2001
From: hanna <hanna@348d0f76-0448-11de-a6fe-93d51630548a>
Date: Tue, 16 Nov 2010 19:55:20 +0000
Subject: [PATCH] - Reintroduce test dependency so that the tests passing /
 failing is not   dependent on the contents of the integrationtest directory. 
 Will figure   out how to better manage the integrationtest directory at some
 point in   the future. - Up the max heap size for tests.

git-svn-id: file:///humgen/gsa-scr1/gsa-engineering/svn_contents/trunk@4691 348d0f76-0448-11de-a6fe-93d51630548a
---
 build.xml                                                     | 3 ++-
 .../VariantRecalibrationWalkersIntegrationTest.java           | 4 ++--
 2 files changed, 4 insertions(+), 3 deletions(-)

diff --git a/build.xml b/build.xml
index 03cd0a33e..bb66f0d18 100644
--- a/build.xml
+++ b/build.xml
@@ -493,7 +493,8 @@
                     workingDir="${basedir}"
                     useDefaultListeners="false"
                     listeners="org.testng.reporters.FailedReporter,org.testng.reporters.JUnitXMLReporter,org.broadinstitute.sting.StingTextReporter">
-                <jvmarg value="-Djava.awt.headless=true"/>
+                <jvmarg value="-Xmx${test.maxmemory}" />
+                <jvmarg value="-Djava.awt.headless=true" />
 <!--
                 <jvmarg value="-Xdebug"/>
                 <jvmarg value="-Xrunjdwp:transport=dt_socket,server=y,suspend=y,address=5005"/>
diff --git a/java/test/org/broadinstitute/sting/gatk/walkers/variantrecalibration/VariantRecalibrationWalkersIntegrationTest.java b/java/test/org/broadinstitute/sting/gatk/walkers/variantrecalibration/VariantRecalibrationWalkersIntegrationTest.java
index 0024149bb..f37a664f4 100755
--- a/java/test/org/broadinstitute/sting/gatk/walkers/variantrecalibration/VariantRecalibrationWalkersIntegrationTest.java
+++ b/java/test/org/broadinstitute/sting/gatk/walkers/variantrecalibration/VariantRecalibrationWalkersIntegrationTest.java
@@ -64,7 +64,7 @@ public class VariantRecalibrationWalkersIntegrationTest extends WalkerTest {
         executeTest("testGenerateVariantClusters-"+params.inVCF, spec).getFirst();
     }
 
-    @Test(dataProvider = "VRTest", enabled = true)
+    @Test(dataProvider = "VRTest",dependsOnMethods="testGenerateVariantClusters")
     public void testVariantRecalibrator(VRTest params) {
         //System.out.printf("PARAMS FOR %s is %s%n", vcf, clusterFile);
         WalkerTest.WalkerTestSpec spec = new WalkerTest.WalkerTestSpec(
@@ -85,7 +85,7 @@ public class VariantRecalibrationWalkersIntegrationTest extends WalkerTest {
         executeTest("testVariantRecalibrator-"+params.inVCF, spec).getFirst();
     }
 
-    @Test(dataProvider = "VRTest", enabled = true)
+    @Test(dataProvider = "VRTest",dependsOnMethods="testVariantRecalibrator")
     public void testApplyVariantCuts(VRTest params) {
         WalkerTest.WalkerTestSpec spec = new WalkerTest.WalkerTestSpec(
                 "-R " + b36KGReference +