Class org.broadinstitute.hellbender.utils.pairhmm.PDPairHMMLikelihoodCalculationEngineUnitTest
Failed tests
testInputReconstitutionDRAGEN_GATK_TEST_FILE[1](AVX_LOGLESS_CACHING)
org.broadinstitute.hellbender.exceptions.UserException$HardwareFeatureException: Machine does not support OpenMP AVX PairHMM.
at app//org.broadinstitute.hellbender.utils.pairhmm.VectorLoglessPairPDHMM.<init>(VectorLoglessPairPDHMM.java:57)
at app//org.broadinstitute.hellbender.utils.pairhmm.PDPairHMM$Implementation.lambda$static$1(PDPairHMM.java:56)
at app//org.broadinstitute.hellbender.utils.pairhmm.PDPairHMM$Implementation.makeNewHMM(PDPairHMM.java:79)
at app//org.broadinstitute.hellbender.utils.pairhmm.PDPairHMMLikelihoodCalculationEngineUnitTest.testInputReconstitutionDRAGEN_GATK_TEST_FILE(PDPairHMMLikelihoodCalculationEngineUnitTest.java:36)
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 |
| testInputReconstitutionDRAGEN_GATK_TEST_FILE[0](LOGLESS_CACHING) |
7.707s |
passed |
| testInputReconstitutionDRAGEN_GATK_TEST_FILE[1](AVX_LOGLESS_CACHING) |
0.013s |
failed |
Standard error
17:48:04.893 WARN NativeLibraryLoader - Unable to load libgkl_utils.so from native/libgkl_utils.so (/tmp/libgkl_utils11529492442072920637.so: /tmp/libgkl_utils11529492442072920637.so: cannot open shared object file: No such file or directory (Possible cause: can't load AMD 64 .so on a AARCH64 platform))
17:48:04.893 WARN IntelPDHMM - Intel GKL Utils not loaded