java.lang.UnsatisfiedLinkError: ncsa.hdf.hdf5lib.H5.H5dont_atexit()I

GitHub | lbergelson | 8 months ago
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    Root Cause Analysis

    1. java.lang.UnsatisfiedLinkError

      ncsa.hdf.hdf5lib.H5.H5dont_atexit()I

      at ncsa.hdf.hdf5lib.H5.H5dont_atexit()
    2. ncsa.hdf.hdf5lib
      HDF5Constants.<clinit>
      1. ncsa.hdf.hdf5lib.H5.H5dont_atexit(Native Method)
      2. ncsa.hdf.hdf5lib.H5.loadH5Lib(H5.java:333)
      3. ncsa.hdf.hdf5lib.H5.<clinit>(H5.java:254)
      4. ncsa.hdf.hdf5lib.HDF5Constants.<clinit>(HDF5Constants.java:28)
      4 frames
    3. org.broadinstitute.hdf5
      HDF5File$OpenMode.<clinit>
      1. org.broadinstitute.hdf5.HDF5File$OpenMode.<clinit>(HDF5File.java:502)
      1 frame
    4. org.broadinstitute.hellbender
      HDF5PCACoveragePoNCreationUtilsUnitTest.testCalculateVariance
      1. org.broadinstitute.hellbender.tools.pon.PoNTestUtils.createDummyHDF5FilePoN(PoNTestUtils.java:50)
      2. org.broadinstitute.hellbender.tools.pon.coverage.pca.HDF5PCACoveragePoNCreationUtilsUnitTest.testCalculateVariance(HDF5PCACoveragePoNCreationUtilsUnitTest.java:69)
      2 frames
    5. Java RT
      Method.invoke
      1. sun.reflect.NativeMethodAccessorImpl.invoke0(Native Method)
      2. sun.reflect.NativeMethodAccessorImpl.invoke(NativeMethodAccessorImpl.java:62)
      3. sun.reflect.DelegatingMethodAccessorImpl.invoke(DelegatingMethodAccessorImpl.java:43)
      4. java.lang.reflect.Method.invoke(Method.java:498)
      4 frames
    6. TestNG
      TestNG.run
      1. org.testng.internal.MethodInvocationHelper.invokeMethod(MethodInvocationHelper.java:85)
      2. org.testng.internal.Invoker.invokeMethod(Invoker.java:639)
      3. org.testng.internal.Invoker.invokeTestMethod(Invoker.java:821)
      4. org.testng.internal.Invoker.invokeTestMethods(Invoker.java:1131)
      5. org.testng.internal.TestMethodWorker.invokeTestMethods(TestMethodWorker.java:124)
      6. org.testng.internal.TestMethodWorker.run(TestMethodWorker.java:108)
      7. org.testng.TestRunner.privateRun(TestRunner.java:773)
      8. org.testng.TestRunner.run(TestRunner.java:623)
      9. org.testng.SuiteRunner.runTest(SuiteRunner.java:357)
      10. org.testng.SuiteRunner.runSequentially(SuiteRunner.java:352)
      11. org.testng.SuiteRunner.privateRun(SuiteRunner.java:310)
      12. org.testng.SuiteRunner.run(SuiteRunner.java:259)
      13. org.testng.SuiteRunnerWorker.runSuite(SuiteRunnerWorker.java:52)
      14. org.testng.SuiteRunnerWorker.run(SuiteRunnerWorker.java:86)
      15. org.testng.TestNG.runSuitesSequentially(TestNG.java:1185)
      16. org.testng.TestNG.runSuitesLocally(TestNG.java:1110)
      17. org.testng.TestNG.run(TestNG.java:1018)
      17 frames
    7. org.gradle.api
      SuiteTestClassProcessor.stop
      1. org.gradle.api.internal.tasks.testing.testng.TestNGTestClassProcessor.runTests(TestNGTestClassProcessor.java:133)
      2. org.gradle.api.internal.tasks.testing.testng.TestNGTestClassProcessor.stop(TestNGTestClassProcessor.java:83)
      3. org.gradle.api.internal.tasks.testing.SuiteTestClassProcessor.stop(SuiteTestClassProcessor.java:61)
      3 frames
    8. Java RT
      Method.invoke
      1. sun.reflect.NativeMethodAccessorImpl.invoke0(Native Method)
      2. sun.reflect.NativeMethodAccessorImpl.invoke(NativeMethodAccessorImpl.java:62)
      3. sun.reflect.DelegatingMethodAccessorImpl.invoke(DelegatingMethodAccessorImpl.java:43)
      4. java.lang.reflect.Method.invoke(Method.java:498)
      4 frames
    9. Gradle Core
      ProxyDispatchAdapter$DispatchingInvocationHandler.invoke
      1. org.gradle.messaging.dispatch.ReflectionDispatch.dispatch(ReflectionDispatch.java:35)
      2. org.gradle.messaging.dispatch.ReflectionDispatch.dispatch(ReflectionDispatch.java:24)
      3. org.gradle.messaging.dispatch.ContextClassLoaderDispatch.dispatch(ContextClassLoaderDispatch.java:32)
      4. org.gradle.messaging.dispatch.ProxyDispatchAdapter$DispatchingInvocationHandler.invoke(ProxyDispatchAdapter.java:93)
      4 frames
    10. com.sun.proxy
      $Proxy2.stop
      1. com.sun.proxy.$Proxy2.stop(Unknown Source)
      1 frame
    11. org.gradle.api
      TestWorker.stop
      1. org.gradle.api.internal.tasks.testing.worker.TestWorker.stop(TestWorker.java:120)
      1 frame
    12. Java RT
      Method.invoke
      1. sun.reflect.NativeMethodAccessorImpl.invoke0(Native Method)
      2. sun.reflect.NativeMethodAccessorImpl.invoke(NativeMethodAccessorImpl.java:62)
      3. sun.reflect.DelegatingMethodAccessorImpl.invoke(DelegatingMethodAccessorImpl.java:43)
      4. java.lang.reflect.Method.invoke(Method.java:498)
      4 frames
    13. Gradle Core
      ReflectionDispatch.dispatch
      1. org.gradle.messaging.dispatch.ReflectionDispatch.dispatch(ReflectionDispatch.java:35)
      2. org.gradle.messaging.dispatch.ReflectionDispatch.dispatch(ReflectionDispatch.java:24)
      2 frames
    14. org.gradle.messaging
      MessageHub$Handler.run
      1. org.gradle.messaging.remote.internal.hub.MessageHub$Handler.run(MessageHub.java:364)
      1 frame
    15. Gradle Core
      StoppableExecutorImpl$1.run
      1. org.gradle.internal.concurrent.ExecutorPolicy$CatchAndRecordFailures.onExecute(ExecutorPolicy.java:54)
      2. org.gradle.internal.concurrent.StoppableExecutorImpl$1.run(StoppableExecutorImpl.java:40)
      2 frames
    16. Java RT
      Thread.run
      1. java.util.concurrent.ThreadPoolExecutor.runWorker(ThreadPoolExecutor.java:1142)
      2. java.util.concurrent.ThreadPoolExecutor$Worker.run(ThreadPoolExecutor.java:617)
      3. java.lang.Thread.run(Thread.java:745)
      3 frames