Class org.broadinstitute.hellbender.tools.walkers.annotator.DirichletAlleleDepthAndFractionIntegrationTest

all > org.broadinstitute.hellbender.tools.walkers.annotator > DirichletAlleleDepthAndFractionIntegrationTest

tests

failures

ignored

1.869s

duration

92%

successful

Failed tests
Tests
Standard error

Failed tests

testVCFModeIsConsistentWithPastResults[0](/home/runner/work/gatk/gatk/src/test/resources/large/CEUTrio.HiSeq.WGS.b37.NA12878.20.21.bam, /home/runner/work/gatk/gatk/src/test/resources/large/human_g1k_v37.20.21.fasta)

org.broadinstitute.hellbender.exceptions.UserException$HardwareFeatureException: Machine does not support AVX PairHMM.
	at app//org.broadinstitute.hellbender.utils.pairhmm.VectorLoglessPairHMM.<init>(VectorLoglessPairHMM.java:65)
	at app//org.broadinstitute.hellbender.utils.pairhmm.PairHMM$Implementation.lambda$static$3(PairHMM.java:62)
	at app//org.broadinstitute.hellbender.utils.pairhmm.PairHMM$Implementation.makeNewHMM(PairHMM.java:107)
	at app//org.broadinstitute.hellbender.tools.walkers.haplotypecaller.PairHMMLikelihoodCalculationEngine.<init>(PairHMMLikelihoodCalculationEngine.java:145)
	at app//org.broadinstitute.hellbender.tools.walkers.haplotypecaller.AssemblyBasedCallerUtils.createLikelihoodCalculationEngine(AssemblyBasedCallerUtils.java:269)
	at app//org.broadinstitute.hellbender.tools.walkers.haplotypecaller.HaplotypeCallerEngine.initialize(HaplotypeCallerEngine.java:337)
	at app//org.broadinstitute.hellbender.tools.walkers.haplotypecaller.HaplotypeCallerEngine.<init>(HaplotypeCallerEngine.java:254)
	at app//org.broadinstitute.hellbender.tools.walkers.haplotypecaller.HaplotypeCaller.buildHaplotypeCallerEngine(HaplotypeCaller.java:275)
	at app//org.broadinstitute.hellbender.tools.walkers.haplotypecaller.HaplotypeCaller.onTraversalStart(HaplotypeCaller.java:266)
	at app//org.broadinstitute.hellbender.engine.GATKTool.doWork(GATKTool.java:1117)
	at app//org.broadinstitute.hellbender.cmdline.CommandLineProgram.runTool(CommandLineProgram.java:150)
	at app//org.broadinstitute.hellbender.cmdline.CommandLineProgram.instanceMainPostParseArgs(CommandLineProgram.java:203)
	at app//org.broadinstitute.hellbender.cmdline.CommandLineProgram.instanceMain(CommandLineProgram.java:222)
	at app//org.broadinstitute.hellbender.Main.runCommandLineProgram(Main.java:166)
	at app//org.broadinstitute.hellbender.Main.instanceMain(Main.java:152)
	at app//org.broadinstitute.hellbender.Main.instanceMain(Main.java:193)
	at app//org.broadinstitute.hellbender.CommandLineProgramTest.runCommandLine(CommandLineProgramTest.java:27)
	at app//org.broadinstitute.hellbender.testutils.CommandLineProgramTester.runCommandLine(CommandLineProgramTester.java:108)
	at app//org.broadinstitute.hellbender.tools.walkers.annotator.DirichletAlleleDepthAndFractionIntegrationTest.testVCFModeIsConsistentWithPastResults(DirichletAlleleDepthAndFractionIntegrationTest.java:61)
	at java.base@17.0.6/jdk.internal.reflect.NativeMethodAccessorImpl.invoke0(Native Method)
	at java.base@17.0.6/jdk.internal.reflect.NativeMethodAccessorImpl.invoke(NativeMethodAccessorImpl.java:77)
	at java.base@17.0.6/jdk.internal.reflect.DelegatingMethodAccessorImpl.invoke(DelegatingMethodAccessorImpl.java:43)
	at java.base@17.0.6/java.lang.reflect.Method.invoke(Method.java:568)
	at app//org.testng.internal.invokers.MethodInvocationHelper.invokeMethod(MethodInvocationHelper.java:139)
	at app//org.testng.internal.invokers.TestInvoker.invokeMethod(TestInvoker.java:677)
	at app//org.testng.internal.invokers.TestInvoker.invokeTestMethod(TestInvoker.java:221)
	at app//org.testng.internal.invokers.MethodRunner.runInSequence(MethodRunner.java:50)
	at app//org.testng.internal.invokers.TestInvoker$MethodInvocationAgent.invoke(TestInvoker.java:969)
	at app//org.testng.internal.invokers.TestInvoker.invokeTestMethods(TestInvoker.java:194)
	at app//org.testng.internal.invokers.TestMethodWorker.invokeTestMethods(TestMethodWorker.java:148)
	at app//org.testng.internal.invokers.TestMethodWorker.run(TestMethodWorker.java:128)
	at java.base@17.0.6/java.util.ArrayList.forEach(ArrayList.java:1511)
	at app//org.testng.TestRunner.privateRun(TestRunner.java:829)
	at app//org.testng.TestRunner.run(TestRunner.java:602)
	at app//org.testng.SuiteRunner.runTest(SuiteRunner.java:437)
	at app//org.testng.SuiteRunner.runSequentially(SuiteRunner.java:431)
	at app//org.testng.SuiteRunner.privateRun(SuiteRunner.java:391)
	at app//org.testng.SuiteRunner.run(SuiteRunner.java:330)
	at app//org.testng.SuiteRunnerWorker.runSuite(SuiteRunnerWorker.java:52)
	at app//org.testng.SuiteRunnerWorker.run(SuiteRunnerWorker.java:95)
	at app//org.testng.TestNG.runSuitesSequentially(TestNG.java:1256)
	at app//org.testng.TestNG.runSuitesLocally(TestNG.java:1176)
	at app//org.testng.TestNG.runSuites(TestNG.java:1099)
	at app//org.testng.TestNG.run(TestNG.java:1067)
	at org.gradle.api.internal.tasks.testing.testng.TestNGTestClassProcessor.runTests(TestNGTestClassProcessor.java:153)
	at org.gradle.api.internal.tasks.testing.testng.TestNGTestClassProcessor.stop(TestNGTestClassProcessor.java:95)
	at org.gradle.api.internal.tasks.testing.SuiteTestClassProcessor.stop(SuiteTestClassProcessor.java:63)
	at java.base@17.0.6/jdk.internal.reflect.NativeMethodAccessorImpl.invoke0(Native Method)
	at java.base@17.0.6/jdk.internal.reflect.NativeMethodAccessorImpl.invoke(NativeMethodAccessorImpl.java:77)
	at java.base@17.0.6/jdk.internal.reflect.DelegatingMethodAccessorImpl.invoke(DelegatingMethodAccessorImpl.java:43)
	at java.base@17.0.6/java.lang.reflect.Method.invoke(Method.java:568)
	at org.gradle.internal.dispatch.ReflectionDispatch.dispatch(ReflectionDispatch.java:36)
	at org.gradle.internal.dispatch.ReflectionDispatch.dispatch(ReflectionDispatch.java:24)
	at org.gradle.internal.dispatch.ContextClassLoaderDispatch.dispatch(ContextClassLoaderDispatch.java:33)
	at org.gradle.internal.dispatch.ProxyDispatchAdapter$DispatchingInvocationHandler.invoke(ProxyDispatchAdapter.java:92)
	at jdk.proxy1/jdk.proxy1.$Proxy4.stop(Unknown Source)
	at org.gradle.api.internal.tasks.testing.worker.TestWorker$3.run(TestWorker.java:200)
	at org.gradle.api.internal.tasks.testing.worker.TestWorker.executeAndMaintainThreadName(TestWorker.java:132)
	at org.gradle.api.internal.tasks.testing.worker.TestWorker.execute(TestWorker.java:103)
	at org.gradle.api.internal.tasks.testing.worker.TestWorker.execute(TestWorker.java:63)
	at org.gradle.process.internal.worker.child.ActionExecutionWorker.execute(ActionExecutionWorker.java:56)
	at org.gradle.process.internal.worker.child.SystemApplicationClassLoaderWorker.call(SystemApplicationClassLoaderWorker.java:121)
	at org.gradle.process.internal.worker.child.SystemApplicationClassLoaderWorker.call(SystemApplicationClassLoaderWorker.java:71)
	at app//worker.org.gradle.process.internal.worker.GradleWorkerMain.run(GradleWorkerMain.java:69)
	at app//worker.org.gradle.process.internal.worker.GradleWorkerMain.main(GradleWorkerMain.java:74)

testVCFModeIsConsistentWithPastResults[1](/home/runner/work/gatk/gatk/src/test/resources/large/CEUTrio.HiSeq.WGS.b37.NA12878.20.21.v3.0.samtools.cram, /home/runner/work/gatk/gatk/src/test/resources/large/human_g1k_v37.20.21.fasta)

org.broadinstitute.hellbender.exceptions.UserException$HardwareFeatureException: Machine does not support AVX PairHMM.
	at app//org.broadinstitute.hellbender.utils.pairhmm.VectorLoglessPairHMM.<init>(VectorLoglessPairHMM.java:65)
	at app//org.broadinstitute.hellbender.utils.pairhmm.PairHMM$Implementation.lambda$static$3(PairHMM.java:62)
	at app//org.broadinstitute.hellbender.utils.pairhmm.PairHMM$Implementation.makeNewHMM(PairHMM.java:107)
	at app//org.broadinstitute.hellbender.tools.walkers.haplotypecaller.PairHMMLikelihoodCalculationEngine.<init>(PairHMMLikelihoodCalculationEngine.java:145)
	at app//org.broadinstitute.hellbender.tools.walkers.haplotypecaller.AssemblyBasedCallerUtils.createLikelihoodCalculationEngine(AssemblyBasedCallerUtils.java:269)
	at app//org.broadinstitute.hellbender.tools.walkers.haplotypecaller.HaplotypeCallerEngine.initialize(HaplotypeCallerEngine.java:337)
	at app//org.broadinstitute.hellbender.tools.walkers.haplotypecaller.HaplotypeCallerEngine.<init>(HaplotypeCallerEngine.java:254)
	at app//org.broadinstitute.hellbender.tools.walkers.haplotypecaller.HaplotypeCaller.buildHaplotypeCallerEngine(HaplotypeCaller.java:275)
	at app//org.broadinstitute.hellbender.tools.walkers.haplotypecaller.HaplotypeCaller.onTraversalStart(HaplotypeCaller.java:266)
	at app//org.broadinstitute.hellbender.engine.GATKTool.doWork(GATKTool.java:1117)
	at app//org.broadinstitute.hellbender.cmdline.CommandLineProgram.runTool(CommandLineProgram.java:150)
	at app//org.broadinstitute.hellbender.cmdline.CommandLineProgram.instanceMainPostParseArgs(CommandLineProgram.java:203)
	at app//org.broadinstitute.hellbender.cmdline.CommandLineProgram.instanceMain(CommandLineProgram.java:222)
	at app//org.broadinstitute.hellbender.Main.runCommandLineProgram(Main.java:166)
	at app//org.broadinstitute.hellbender.Main.instanceMain(Main.java:152)
	at app//org.broadinstitute.hellbender.Main.instanceMain(Main.java:193)
	at app//org.broadinstitute.hellbender.CommandLineProgramTest.runCommandLine(CommandLineProgramTest.java:27)
	at app//org.broadinstitute.hellbender.testutils.CommandLineProgramTester.runCommandLine(CommandLineProgramTester.java:108)
	at app//org.broadinstitute.hellbender.tools.walkers.annotator.DirichletAlleleDepthAndFractionIntegrationTest.testVCFModeIsConsistentWithPastResults(DirichletAlleleDepthAndFractionIntegrationTest.java:61)
	at java.base@17.0.6/jdk.internal.reflect.NativeMethodAccessorImpl.invoke0(Native Method)
	at java.base@17.0.6/jdk.internal.reflect.NativeMethodAccessorImpl.invoke(NativeMethodAccessorImpl.java:77)
	at java.base@17.0.6/jdk.internal.reflect.DelegatingMethodAccessorImpl.invoke(DelegatingMethodAccessorImpl.java:43)
	at java.base@17.0.6/java.lang.reflect.Method.invoke(Method.java:568)
	at app//org.testng.internal.invokers.MethodInvocationHelper.invokeMethod(MethodInvocationHelper.java:139)
	at app//org.testng.internal.invokers.TestInvoker.invokeMethod(TestInvoker.java:677)
	at app//org.testng.internal.invokers.TestInvoker.invokeTestMethod(TestInvoker.java:221)
	at app//org.testng.internal.invokers.MethodRunner.runInSequence(MethodRunner.java:50)
	at app//org.testng.internal.invokers.TestInvoker$MethodInvocationAgent.invoke(TestInvoker.java:969)
	at app//org.testng.internal.invokers.TestInvoker.invokeTestMethods(TestInvoker.java:194)
	at app//org.testng.internal.invokers.TestMethodWorker.invokeTestMethods(TestMethodWorker.java:148)
	at app//org.testng.internal.invokers.TestMethodWorker.run(TestMethodWorker.java:128)
	at java.base@17.0.6/java.util.ArrayList.forEach(ArrayList.java:1511)
	at app//org.testng.TestRunner.privateRun(TestRunner.java:829)
	at app//org.testng.TestRunner.run(TestRunner.java:602)
	at app//org.testng.SuiteRunner.runTest(SuiteRunner.java:437)
	at app//org.testng.SuiteRunner.runSequentially(SuiteRunner.java:431)
	at app//org.testng.SuiteRunner.privateRun(SuiteRunner.java:391)
	at app//org.testng.SuiteRunner.run(SuiteRunner.java:330)
	at app//org.testng.SuiteRunnerWorker.runSuite(SuiteRunnerWorker.java:52)
	at app//org.testng.SuiteRunnerWorker.run(SuiteRunnerWorker.java:95)
	at app//org.testng.TestNG.runSuitesSequentially(TestNG.java:1256)
	at app//org.testng.TestNG.runSuitesLocally(TestNG.java:1176)
	at app//org.testng.TestNG.runSuites(TestNG.java:1099)
	at app//org.testng.TestNG.run(TestNG.java:1067)
	at org.gradle.api.internal.tasks.testing.testng.TestNGTestClassProcessor.runTests(TestNGTestClassProcessor.java:153)
	at org.gradle.api.internal.tasks.testing.testng.TestNGTestClassProcessor.stop(TestNGTestClassProcessor.java:95)
	at org.gradle.api.internal.tasks.testing.SuiteTestClassProcessor.stop(SuiteTestClassProcessor.java:63)
	at java.base@17.0.6/jdk.internal.reflect.NativeMethodAccessorImpl.invoke0(Native Method)
	at java.base@17.0.6/jdk.internal.reflect.NativeMethodAccessorImpl.invoke(NativeMethodAccessorImpl.java:77)
	at java.base@17.0.6/jdk.internal.reflect.DelegatingMethodAccessorImpl.invoke(DelegatingMethodAccessorImpl.java:43)
	at java.base@17.0.6/java.lang.reflect.Method.invoke(Method.java:568)
	at org.gradle.internal.dispatch.ReflectionDispatch.dispatch(ReflectionDispatch.java:36)
	at org.gradle.internal.dispatch.ReflectionDispatch.dispatch(ReflectionDispatch.java:24)
	at org.gradle.internal.dispatch.ContextClassLoaderDispatch.dispatch(ContextClassLoaderDispatch.java:33)
	at org.gradle.internal.dispatch.ProxyDispatchAdapter$DispatchingInvocationHandler.invoke(ProxyDispatchAdapter.java:92)
	at jdk.proxy1/jdk.proxy1.$Proxy4.stop(Unknown Source)
	at org.gradle.api.internal.tasks.testing.worker.TestWorker$3.run(TestWorker.java:200)
	at org.gradle.api.internal.tasks.testing.worker.TestWorker.executeAndMaintainThreadName(TestWorker.java:132)
	at org.gradle.api.internal.tasks.testing.worker.TestWorker.execute(TestWorker.java:103)
	at org.gradle.api.internal.tasks.testing.worker.TestWorker.execute(TestWorker.java:63)
	at org.gradle.process.internal.worker.child.ActionExecutionWorker.execute(ActionExecutionWorker.java:56)
	at org.gradle.process.internal.worker.child.SystemApplicationClassLoaderWorker.call(SystemApplicationClassLoaderWorker.java:121)
	at org.gradle.process.internal.worker.child.SystemApplicationClassLoaderWorker.call(SystemApplicationClassLoaderWorker.java:71)
	at app//worker.org.gradle.process.internal.worker.GradleWorkerMain.run(GradleWorkerMain.java:69)
	at app//worker.org.gradle.process.internal.worker.GradleWorkerMain.main(GradleWorkerMain.java:74)

Tests

Test	Duration	Result
assertThatExpectedOutputUpdateToggleIsDisabled	0s	passed
testBrokenReferenceDictionaryErrorMessage	0.119s	passed
testNoInformativeMatrix	0.022s	passed
testSharding	0.133s	passed
testSitesOnlyMode	0.081s	passed
testVCFModeIsConsistentWithPastResults[0](/home/runner/work/gatk/gatk/src/test/resources/large/CEUTrio.HiSeq.WGS.b37.NA12878.20.21.bam, /home/runner/work/gatk/gatk/src/test/resources/large/human_g1k_v37.20.21.fasta)	0.085s	failed
testVCFModeIsConsistentWithPastResults[1](/home/runner/work/gatk/gatk/src/test/resources/large/CEUTrio.HiSeq.WGS.b37.NA12878.20.21.v3.0.samtools.cram, /home/runner/work/gatk/gatk/src/test/resources/large/human_g1k_v37.20.21.fasta)	0.104s	failed
testVcfOutputFilterMode[0]([1:101-10001, 2:201-20001], [], ANYWHERE, [1:10-15, 1:100-105, 1:1000-1005, 1:10000-10005, 2:20-25, 2:200-205, 2:2000-2005, 2:20000-20005, 3:20000-20000])	0.080s	passed
testVcfOutputFilterMode[10]([1:99-110], [], STARTS_IN, [1:100-105])	0.068s	passed
testVcfOutputFilterMode[11]([1:100-110], [], STARTS_IN, [1:100-105])	0.085s	passed
testVcfOutputFilterMode[12]([1:101-110], [], STARTS_IN, [])	0.068s	passed
testVcfOutputFilterMode[13]([3:19999-19999], [], STARTS_IN, [])	0.066s	passed
testVcfOutputFilterMode[14]([3:20000-20000], [], STARTS_IN, [3:20000-20000])	0.065s	passed
testVcfOutputFilterMode[15]([3:20001-20001], [], STARTS_IN, [])	0.066s	passed
testVcfOutputFilterMode[16]([3:19999-19999], [], ENDS_IN, [])	0.066s	passed
testVcfOutputFilterMode[17]([3:20000-20000], [], ENDS_IN, [3:20000-20000])	0.066s	passed
testVcfOutputFilterMode[18]([3:20001-20001], [], ENDS_IN, [])	0.065s	passed
testVcfOutputFilterMode[1]([1:101-10001, 2:201-20001], [], OVERLAPS, [1:100-105, 1:1000-1005, 1:10000-10005, 2:200-205, 2:2000-2005, 2:20000-20005])	0.077s	passed
testVcfOutputFilterMode[2]([1:101-10001, 2:201-20001], [], STARTS_IN, [1:1000-1005, 1:10000-10005, 2:2000-2005, 2:20000-20005])	0.072s	passed
testVcfOutputFilterMode[3]([1:101-10001, 2:201-20001], [], ENDS_IN, [1:100-105, 1:1000-1005, 2:200-205, 2:2000-2005])	0.076s	passed
testVcfOutputFilterMode[4]([1:101-10001, 2:201-20001], [], CONTAINED, [1:1000-1005, 2:2000-2005])	0.068s	passed
testVcfOutputFilterMode[5]([1:99-102, 1:103-110], [], CONTAINED, [1:100-105])	0.067s	passed
testVcfOutputFilterMode[6]([1:99-102, 1:103-110], [--interval-merging-rule, ALL], CONTAINED, [1:100-105])	0.069s	passed
testVcfOutputFilterMode[7]([1:99-102, 1:103-110], [--interval-merging-rule, OVERLAPPING_ONLY], CONTAINED, [])	0.066s	passed
testVcfOutputFilterMode[8]([1:99-102, 1:104-110], [--interval-merging-rule, OVERLAPPING_ONLY], CONTAINED, [])	0.068s	passed
testVcfOutputFilterMode[9]([1:99-102, 1:104-110], [--interval-merging-rule, OVERLAPPING_ONLY, --interval-padding, 10], CONTAINED, [1:100-105])	0.067s	passed

Standard error

[October 27, 2025 at 5:45:55 PM UTC] org.broadinstitute.hellbender.tools.walkers.mutect.Mutect2 done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=629145600
[October 27, 2025 at 5:45:55 PM UTC] org.broadinstitute.hellbender.tools.walkers.variantutils.SelectVariants done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=629145600
[October 27, 2025 at 5:45:55 PM UTC] org.broadinstitute.hellbender.tools.walkers.variantutils.SelectVariants done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=629145600
[October 27, 2025 at 5:45:55 PM UTC] org.broadinstitute.hellbender.engine.GatkToolIntegrationTest$VariantEmitter done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=629145600
[October 27, 2025 at 5:45:55 PM UTC] org.broadinstitute.hellbender.engine.GatkToolIntegrationTest$VariantEmitter done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=629145600
[October 27, 2025 at 5:45:55 PM UTC] org.broadinstitute.hellbender.engine.GatkToolIntegrationTest$VariantEmitter done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=629145600
[October 27, 2025 at 5:45:55 PM UTC] org.broadinstitute.hellbender.engine.GatkToolIntegrationTest$VariantEmitter done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=629145600
[October 27, 2025 at 5:45:55 PM UTC] org.broadinstitute.hellbender.engine.GatkToolIntegrationTest$VariantEmitter done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=629145600
[October 27, 2025 at 5:45:55 PM UTC] org.broadinstitute.hellbender.engine.GatkToolIntegrationTest$VariantEmitter done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=629145600
[October 27, 2025 at 5:45:56 PM UTC] org.broadinstitute.hellbender.engine.GatkToolIntegrationTest$VariantEmitter done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=629145600
[October 27, 2025 at 5:45:56 PM UTC] org.broadinstitute.hellbender.engine.GatkToolIntegrationTest$VariantEmitter done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=629145600
[October 27, 2025 at 5:45:56 PM UTC] org.broadinstitute.hellbender.engine.GatkToolIntegrationTest$VariantEmitter done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=629145600
[October 27, 2025 at 5:45:56 PM UTC] org.broadinstitute.hellbender.engine.GatkToolIntegrationTest$VariantEmitter done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=629145600
[October 27, 2025 at 5:45:56 PM UTC] org.broadinstitute.hellbender.engine.GatkToolIntegrationTest$VariantEmitter done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=629145600
[October 27, 2025 at 5:45:56 PM UTC] org.broadinstitute.hellbender.engine.GatkToolIntegrationTest$VariantEmitter done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=629145600
[October 27, 2025 at 5:45:56 PM UTC] org.broadinstitute.hellbender.engine.GatkToolIntegrationTest$VariantEmitter done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=629145600
[October 27, 2025 at 5:45:56 PM UTC] org.broadinstitute.hellbender.engine.GatkToolIntegrationTest$VariantEmitter done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=629145600
[October 27, 2025 at 5:45:56 PM UTC] org.broadinstitute.hellbender.engine.GatkToolIntegrationTest$VariantEmitter done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=629145600
[October 27, 2025 at 5:45:56 PM UTC] org.broadinstitute.hellbender.engine.GatkToolIntegrationTest$VariantEmitter done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=629145600
[October 27, 2025 at 5:45:56 PM UTC] org.broadinstitute.hellbender.engine.GatkToolIntegrationTest$VariantEmitter done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=629145600
[October 27, 2025 at 5:45:56 PM UTC] org.broadinstitute.hellbender.engine.GatkToolIntegrationTest$VariantEmitter done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=629145600
[October 27, 2025 at 5:45:56 PM UTC] org.broadinstitute.hellbender.engine.GatkToolIntegrationTest$VariantEmitter done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=629145600
[50.001, 50.001]
[October 27, 2025 at 5:45:56 PM UTC] org.broadinstitute.hellbender.tools.walkers.haplotypecaller.HaplotypeCaller done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=629145600
[October 27, 2025 at 5:45:57 PM UTC] org.broadinstitute.hellbender.tools.walkers.haplotypecaller.HaplotypeCaller done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=629145600