2010-11-09 07:42:51 Full thread dump Java HotSpot(TM) 64-Bit Server VM (14.3-b01 mixed mode): "Attach Listener" daemon prio=10 tid=0x00000000404a8800 nid=0x4d9c waiting on condition [0x0000000000000000] java.lang.Thread.State: RUNNABLE "SIGTERM handler" daemon prio=10 tid=0x0000000040bdf000 nid=0x635b waiting for monitor entry [0x00002b390e205000] java.lang.Thread.State: BLOCKED (on object monitor) at java.lang.Shutdown.exit(Shutdown.java:168) - waiting to lock <0x00002b38e20174d8> (a java.lang.Class for java.lang.Shutdown) at java.lang.Terminator$1.handle(Terminator.java:35) at sun.misc.Signal$1.run(Signal.java:195) at java.lang.Thread.run(Thread.java:619) "SIGTERM handler" daemon prio=10 tid=0x0000000040c51800 nid=0x6359 waiting for monitor entry [0x00002b3919b22000] java.lang.Thread.State: BLOCKED (on object monitor) at java.lang.Shutdown.exit(Shutdown.java:168) - waiting to lock <0x00002b38e20174d8> (a java.lang.Class for java.lang.Shutdown) at java.lang.Terminator$1.handle(Terminator.java:35) at sun.misc.Signal$1.run(Signal.java:195) at java.lang.Thread.run(Thread.java:619) "Thread-2" prio=10 tid=0x000000004103f000 nid=0x59c9 runnable [0x00002b3927b79000] java.lang.Thread.State: RUNNABLE at com.sun.net.ssl.internal.ssl.SSLEngineImpl.wrap(SSLEngineImpl.java:1047) at javax.net.ssl.SSLEngine.wrap(SSLEngine.java:452) at IceSSL.TransceiverI.writeNonBlocking(TransceiverI.java:537) at IceSSL.TransceiverI.write(TransceiverI.java:150) at Ice.ConnectionI.sendMessage(ConnectionI.java:1757) at Ice.ConnectionI.initiateShutdown(ConnectionI.java:1519) at Ice.ConnectionI.setState(ConnectionI.java:1488) at Ice.ConnectionI.setState(ConnectionI.java:1351) at Ice.ConnectionI.destroy(ConnectionI.java:149) - locked <0x00002b38eaafd9f8> (a Ice.ConnectionI) at IceInternal.OutgoingConnectionFactory.destroy(OutgoingConnectionFactory.java:37) - locked <0x00002b38eab50d70> (a IceInternal.OutgoingConnectionFactory) at IceInternal.Instance.destroy(Instance.java:895) at Ice.CommunicatorI.destroy(CommunicatorI.java:17) at omero.client.closeSession(client.java:829) at omero.client.__del__(client.java:431) at omero.client$1.run(client.java:92) "Ice.Timer" prio=10 tid=0x0000000040572000 nid=0x3ec5 in Object.wait() [0x00002b390f53b000] java.lang.Thread.State: WAITING (on object monitor) at java.lang.Object.wait(Native Method) - waiting on <0x00002b38eb927f70> (a IceInternal.Timer) at java.lang.Object.wait(Object.java:485) at IceInternal.Timer.run(Timer.java:177) - locked <0x00002b38eb927f70> (a IceInternal.Timer) "Ice.SelectorThread" prio=10 tid=0x00000000413d8000 nid=0x3ec4 runnable [0x00002b390f339000] java.lang.Thread.State: RUNNABLE at sun.nio.ch.EPollArrayWrapper.epollWait(Native Method) at sun.nio.ch.EPollArrayWrapper.poll(EPollArrayWrapper.java:215) at sun.nio.ch.EPollSelectorImpl.doSelect(EPollSelectorImpl.java:65) at sun.nio.ch.SelectorImpl.lockAndDoSelect(SelectorImpl.java:69) - locked <0x00002b38eb92bf88> (a sun.nio.ch.Util$1) - locked <0x00002b38eb92bfa0> (a java.util.Collections$UnmodifiableSet) - locked <0x00002b38eb92bf10> (a sun.nio.ch.EPollSelectorImpl) at sun.nio.ch.SelectorImpl.select(SelectorImpl.java:80) at sun.nio.ch.SelectorImpl.select(SelectorImpl.java:84) at IceInternal.Selector.select(Selector.java:139) at IceInternal.SelectorThread.run(SelectorThread.java:120) at IceInternal.SelectorThread$HelperThread.run(SelectorThread.java:273) "Ice.ThreadPool.Client-0" prio=10 tid=0x0000000040701000 nid=0x3ec3 runnable [0x00002b390ef35000] java.lang.Thread.State: RUNNABLE at sun.nio.ch.EPollArrayWrapper.epollWait(Native Method) at sun.nio.ch.EPollArrayWrapper.poll(EPollArrayWrapper.java:215) at sun.nio.ch.EPollSelectorImpl.doSelect(EPollSelectorImpl.java:65) at sun.nio.ch.SelectorImpl.lockAndDoSelect(SelectorImpl.java:69) - locked <0x00002b38eb92ba50> (a sun.nio.ch.Util$1) - locked <0x00002b38eb92ba38> (a java.util.Collections$UnmodifiableSet) - locked <0x00002b38eb92b4c8> (a sun.nio.ch.EPollSelectorImpl) at sun.nio.ch.SelectorImpl.select(SelectorImpl.java:80) at sun.nio.ch.SelectorImpl.select(SelectorImpl.java:84) at IceInternal.Selector.select(Selector.java:139) at IceInternal.ThreadPool.run(ThreadPool.java:335) at IceInternal.ThreadPool.access$100(ThreadPool.java:12) at IceInternal.ThreadPool$EventHandlerThread.run(ThreadPool.java:971) "Ice.EndpointHostResolverThread" prio=10 tid=0x00002b391c02c800 nid=0x3ec2 in Object.wait() [0x00002b390f036000] java.lang.Thread.State: WAITING (on object monitor) at java.lang.Object.wait(Native Method) - waiting on <0x00002b38eb936c18> (a IceInternal.EndpointHostResolver) at java.lang.Object.wait(Object.java:485) at IceInternal.EndpointHostResolver.run(EndpointHostResolver.java:77) - locked <0x00002b38eb936c18> (a IceInternal.EndpointHostResolver) at IceInternal.EndpointHostResolver$HelperThread.run(EndpointHostResolver.java:146) "omero.ClientCallback.ThreadPool-4" prio=10 tid=0x00002b391c0a1800 nid=0x3ec1 in Object.wait() [0x00002b390e80b000] java.lang.Thread.State: WAITING (on object monitor) at java.lang.Object.wait(Native Method) - waiting on <0x00002b38eb92da88> (a IceInternal.ThreadPool) at java.lang.Object.wait(Object.java:485) at IceInternal.ThreadPool.run(ThreadPool.java:315) - locked <0x00002b38eb92da88> (a IceInternal.ThreadPool) at IceInternal.ThreadPool.access$100(ThreadPool.java:12) at IceInternal.ThreadPool$EventHandlerThread.run(ThreadPool.java:971) "omero.ClientCallback.ThreadPool-3" prio=10 tid=0x00002b391c02a800 nid=0x3ec0 in Object.wait() [0x00002b390f238000] java.lang.Thread.State: WAITING (on object monitor) at java.lang.Object.wait(Native Method) - waiting on <0x00002b38eb92da88> (a IceInternal.ThreadPool) at java.lang.Object.wait(Object.java:485) at IceInternal.ThreadPool.run(ThreadPool.java:315) - locked <0x00002b38eb92da88> (a IceInternal.ThreadPool) at IceInternal.ThreadPool.access$100(ThreadPool.java:12) at IceInternal.ThreadPool$EventHandlerThread.run(ThreadPool.java:971) "omero.ClientCallback.ThreadPool-2" prio=10 tid=0x00002b391c026800 nid=0x3ebf in Object.wait() [0x00002b390ee34000] java.lang.Thread.State: WAITING (on object monitor) at java.lang.Object.wait(Native Method) - waiting on <0x00002b38eb92da88> (a IceInternal.ThreadPool) at java.lang.Object.wait(Object.java:485) at IceInternal.ThreadPool.run(ThreadPool.java:315) - locked <0x00002b38eb92da88> (a IceInternal.ThreadPool) at IceInternal.ThreadPool.access$100(ThreadPool.java:12) at IceInternal.ThreadPool$EventHandlerThread.run(ThreadPool.java:971) "omero.ClientCallback.ThreadPool-1" prio=10 tid=0x00002b391c084800 nid=0x3ebe in Object.wait() [0x00002b390eb31000] java.lang.Thread.State: WAITING (on object monitor) at java.lang.Object.wait(Native Method) - waiting on <0x00002b38eb92da88> (a IceInternal.ThreadPool) at java.lang.Object.wait(Object.java:485) at IceInternal.ThreadPool.run(ThreadPool.java:315) - locked <0x00002b38eb92da88> (a IceInternal.ThreadPool) at IceInternal.ThreadPool.access$100(ThreadPool.java:12) at IceInternal.ThreadPool$EventHandlerThread.run(ThreadPool.java:971) "omero.ClientCallback.ThreadPool-0" prio=10 tid=0x00002b391c09d800 nid=0x3ebd runnable [0x00002b390ed33000] java.lang.Thread.State: RUNNABLE at sun.nio.ch.EPollArrayWrapper.epollWait(Native Method) at sun.nio.ch.EPollArrayWrapper.poll(EPollArrayWrapper.java:215) at sun.nio.ch.EPollSelectorImpl.doSelect(EPollSelectorImpl.java:65) at sun.nio.ch.SelectorImpl.lockAndDoSelect(SelectorImpl.java:69) - locked <0x00002b38eb924df0> (a sun.nio.ch.Util$1) - locked <0x00002b38eb924e08> (a java.util.Collections$UnmodifiableSet) - locked <0x00002b38eb937100> (a sun.nio.ch.EPollSelectorImpl) at sun.nio.ch.SelectorImpl.select(SelectorImpl.java:80) at sun.nio.ch.SelectorImpl.select(SelectorImpl.java:84) at IceInternal.Selector.select(Selector.java:139) at IceInternal.ThreadPool.run(ThreadPool.java:335) at IceInternal.ThreadPool.access$100(ThreadPool.java:12) at IceInternal.ThreadPool$EventHandlerThread.run(ThreadPool.java:971) "TestNGInvoker-testImportSimpleImageMetadataOnly()" prio=10 tid=0x00002b391c02e800 nid=0x3a35 waiting for monitor entry [0x00002b390fe4a000] java.lang.Thread.State: BLOCKED (on object monitor) at IceInternal.OutgoingConnectionFactory.findConnectionByEndpoint(OutgoingConnectionFactory.java:449) - waiting to lock <0x00002b38eab50d70> (a IceInternal.OutgoingConnectionFactory) at IceInternal.OutgoingConnectionFactory.create(OutgoingConnectionFactory.java:265) at IceInternal.RoutableReference.createConnection(RoutableReference.java:848) at IceInternal.RoutableReference$1.setEndpoints(RoutableReference.java:484) at IceInternal.RouterInfo.getClientEndpoints(RouterInfo.java:92) at IceInternal.RoutableReference.getConnection(RoutableReference.java:476) at IceInternal.ConnectRequestHandler.connect(ConnectRequestHandler.java:41) at Ice._ObjectDelM.setup(_ObjectDelM.java:275) at Ice.ObjectPrxHelperBase.createDelegate(ObjectPrxHelperBase.java:1007) at Ice.ObjectPrxHelperBase.__getDelegate(ObjectPrxHelperBase.java:946) - locked <0x00002b38eaafdb40> (a omero.api.MetadataStorePrxHelper) at omero.api.MetadataStorePrxHelper.createRoot(MetadataStorePrxHelper.java:46) at omero.api.MetadataStorePrxHelper.createRoot(MetadataStorePrxHelper.java:20) at ome.formats.OMEROMetadataStoreClient.createRoot(OMEROMetadataStoreClient.java:935) at loci.formats.FormatReader.initFile(FormatReader.java:216) at loci.formats.in.OMEXMLReader.initFile(OMEXMLReader.java:215) at loci.formats.FormatReader.setId(FormatReader.java:1058) at loci.formats.ImageReader.setId(ImageReader.java:650) at loci.formats.ReaderWrapper.setId(ReaderWrapper.java:480) at loci.formats.ChannelFiller.setId(ChannelFiller.java:244) at loci.formats.ReaderWrapper.setId(ReaderWrapper.java:480) at loci.formats.ChannelSeparator.setId(ChannelSeparator.java:238) at loci.formats.ReaderWrapper.setId(ReaderWrapper.java:480) at ome.formats.importer.ImportLibrary.open(ImportLibrary.java:245) at ome.formats.importer.ImportLibrary.importImage(ImportLibrary.java:483) at integration.AbstractTest.importFile(AbstractTest.java:612) at integration.AbstractTest.importFile(AbstractTest.java:569) at integration.ImporterTest.testImportSimpleImageMetadataOnly(ImporterTest.java:728) at sun.reflect.NativeMethodAccessorImpl.invoke0(Native Method) at sun.reflect.NativeMethodAccessorImpl.invoke(NativeMethodAccessorImpl.java:39) at sun.reflect.DelegatingMethodAccessorImpl.invoke(DelegatingMethodAccessorImpl.java:25) at java.lang.reflect.Method.invoke(Method.java:597) at org.testng.internal.MethodHelper.invokeMethod(MethodHelper.java:644) at org.testng.internal.InvokeMethodRunnable.runOne(InvokeMethodRunnable.java:49) at org.testng.internal.InvokeMethodRunnable.run(InvokeMethodRunnable.java:40) at java.util.concurrent.Executors$RunnableAdapter.call(Executors.java:441) at java.util.concurrent.FutureTask$Sync.innerRun(FutureTask.java:303) at java.util.concurrent.FutureTask.run(FutureTask.java:138) at java.util.concurrent.ThreadPoolExecutor$Worker.runTask(ThreadPoolExecutor.java:886) at java.util.concurrent.ThreadPoolExecutor$Worker.run(ThreadPoolExecutor.java:908) at java.lang.Thread.run(Thread.java:619) "TestNGInvoker-testImportSimpleImage()" prio=10 tid=0x00002b391c08e800 nid=0x38a1 waiting for monitor entry [0x00002b392322f000] java.lang.Thread.State: BLOCKED (on object monitor) at Ice.ObjectPrxHelperBase.__handleExceptionWrapper(ObjectPrxHelperBase.java:872) - waiting to lock <0x00002b38eaafdb40> (a omero.api.MetadataStorePrxHelper) at omero.api.MetadataStorePrxHelper.createRoot(MetadataStorePrxHelper.java:53) at omero.api.MetadataStorePrxHelper.createRoot(MetadataStorePrxHelper.java:20) at ome.formats.OMEROMetadataStoreClient.createRoot(OMEROMetadataStoreClient.java:935) at loci.formats.FormatReader.initFile(FormatReader.java:216) at loci.formats.in.OMEXMLReader.initFile(OMEXMLReader.java:215) at loci.formats.FormatReader.setId(FormatReader.java:1058) at loci.formats.ImageReader.setId(ImageReader.java:650) at loci.formats.ReaderWrapper.setId(ReaderWrapper.java:480) at loci.formats.ChannelFiller.setId(ChannelFiller.java:244) at loci.formats.ReaderWrapper.setId(ReaderWrapper.java:480) at loci.formats.ChannelSeparator.setId(ChannelSeparator.java:238) at loci.formats.ReaderWrapper.setId(ReaderWrapper.java:480) at ome.formats.importer.ImportLibrary.open(ImportLibrary.java:245) at ome.formats.importer.ImportLibrary.importImage(ImportLibrary.java:483) at integration.AbstractTest.importFile(AbstractTest.java:612) at integration.AbstractTest.importFile(AbstractTest.java:554) at integration.ImporterTest.testImportSimpleImage(ImporterTest.java:669) at sun.reflect.NativeMethodAccessorImpl.invoke0(Native Method) at sun.reflect.NativeMethodAccessorImpl.invoke(NativeMethodAccessorImpl.java:39) at sun.reflect.DelegatingMethodAccessorImpl.invoke(DelegatingMethodAccessorImpl.java:25) at java.lang.reflect.Method.invoke(Method.java:597) at org.testng.internal.MethodHelper.invokeMethod(MethodHelper.java:644) at org.testng.internal.InvokeMethodRunnable.runOne(InvokeMethodRunnable.java:49) at org.testng.internal.InvokeMethodRunnable.run(InvokeMethodRunnable.java:40) at java.util.concurrent.Executors$RunnableAdapter.call(Executors.java:441) at java.util.concurrent.FutureTask$Sync.innerRun(FutureTask.java:303) at java.util.concurrent.FutureTask.run(FutureTask.java:138) at java.util.concurrent.ThreadPoolExecutor$Worker.runTask(ThreadPoolExecutor.java:886) at java.util.concurrent.ThreadPoolExecutor$Worker.run(ThreadPoolExecutor.java:908) at java.lang.Thread.run(Thread.java:619) "TestNGInvoker-testImportPlateWithReagent()" prio=10 tid=0x00002b391c082800 nid=0x37e6 waiting for monitor entry [0x00002b3928a87000] java.lang.Thread.State: BLOCKED (on object monitor) at Ice.ConnectionI.sendRequest(ConnectionI.java:336) - waiting to lock <0x00002b38eaafd9f8> (a Ice.ConnectionI) at IceInternal.ConnectionRequestHandler.sendRequest(ConnectionRequestHandler.java:36) at IceInternal.Outgoing.invoke(Outgoing.java:66) at omero.api._MetadataStoreDelM.createRoot(_MetadataStoreDelM.java:24) at omero.api.MetadataStorePrxHelper.createRoot(MetadataStorePrxHelper.java:48) at omero.api.MetadataStorePrxHelper.createRoot(MetadataStorePrxHelper.java:20) at ome.formats.OMEROMetadataStoreClient.createRoot(OMEROMetadataStoreClient.java:935) at loci.formats.FormatReader.initFile(FormatReader.java:216) at loci.formats.in.OMEXMLReader.initFile(OMEXMLReader.java:215) at loci.formats.FormatReader.setId(FormatReader.java:1058) at loci.formats.ImageReader.setId(ImageReader.java:650) at loci.formats.ReaderWrapper.setId(ReaderWrapper.java:480) at loci.formats.ChannelFiller.setId(ChannelFiller.java:244) at loci.formats.ReaderWrapper.setId(ReaderWrapper.java:480) at loci.formats.ChannelSeparator.setId(ChannelSeparator.java:238) at loci.formats.ReaderWrapper.setId(ReaderWrapper.java:480) at ome.formats.importer.ImportLibrary.open(ImportLibrary.java:245) at ome.formats.importer.ImportLibrary.importImage(ImportLibrary.java:483) at integration.AbstractTest.importFile(AbstractTest.java:612) at integration.AbstractTest.importFile(AbstractTest.java:554) at integration.ImporterTest.testImportPlateWithReagent(ImporterTest.java:1195) at sun.reflect.NativeMethodAccessorImpl.invoke0(Native Method) at sun.reflect.NativeMethodAccessorImpl.invoke(NativeMethodAccessorImpl.java:39) at sun.reflect.DelegatingMethodAccessorImpl.invoke(DelegatingMethodAccessorImpl.java:25) at java.lang.reflect.Method.invoke(Method.java:597) at org.testng.internal.MethodHelper.invokeMethod(MethodHelper.java:644) at org.testng.internal.InvokeMethodRunnable.runOne(InvokeMethodRunnable.java:49) at org.testng.internal.InvokeMethodRunnable.run(InvokeMethodRunnable.java:40) at java.util.concurrent.Executors$RunnableAdapter.call(Executors.java:441) at java.util.concurrent.FutureTask$Sync.innerRun(FutureTask.java:303) at java.util.concurrent.FutureTask.run(FutureTask.java:138) at java.util.concurrent.ThreadPoolExecutor$Worker.runTask(ThreadPoolExecutor.java:886) at java.util.concurrent.ThreadPoolExecutor$Worker.run(ThreadPoolExecutor.java:908) at java.lang.Thread.run(Thread.java:619) "TestNGInvoker-testImportPlateOnePlateAcquisition()" prio=10 tid=0x00002b391c039000 nid=0x36f1 waiting for monitor entry [0x00002b3927f7c000] java.lang.Thread.State: BLOCKED (on object monitor) at Ice.ObjectPrxHelperBase.__handleExceptionWrapper(ObjectPrxHelperBase.java:872) - waiting to lock <0x00002b38eaafdb40> (a omero.api.MetadataStorePrxHelper) at omero.api.MetadataStorePrxHelper.createRoot(MetadataStorePrxHelper.java:53) at omero.api.MetadataStorePrxHelper.createRoot(MetadataStorePrxHelper.java:20) at ome.formats.OMEROMetadataStoreClient.createRoot(OMEROMetadataStoreClient.java:935) at loci.formats.FormatReader.initFile(FormatReader.java:216) at loci.formats.in.OMEXMLReader.initFile(OMEXMLReader.java:215) at loci.formats.FormatReader.setId(FormatReader.java:1058) at loci.formats.ImageReader.setId(ImageReader.java:650) at loci.formats.ReaderWrapper.setId(ReaderWrapper.java:480) at loci.formats.ChannelFiller.setId(ChannelFiller.java:244) at loci.formats.ReaderWrapper.setId(ReaderWrapper.java:480) at loci.formats.ChannelSeparator.setId(ChannelSeparator.java:238) at loci.formats.ReaderWrapper.setId(ReaderWrapper.java:480) at ome.formats.importer.ImportLibrary.open(ImportLibrary.java:245) at ome.formats.importer.ImportLibrary.importImage(ImportLibrary.java:483) at integration.AbstractTest.importFile(AbstractTest.java:612) at integration.AbstractTest.importFile(AbstractTest.java:554) at integration.ImporterTest.testImportPlateOnePlateAcquisition(ImporterTest.java:1087) at sun.reflect.NativeMethodAccessorImpl.invoke0(Native Method) at sun.reflect.NativeMethodAccessorImpl.invoke(NativeMethodAccessorImpl.java:39) at sun.reflect.DelegatingMethodAccessorImpl.invoke(DelegatingMethodAccessorImpl.java:25) at java.lang.reflect.Method.invoke(Method.java:597) at org.testng.internal.MethodHelper.invokeMethod(MethodHelper.java:644) at org.testng.internal.InvokeMethodRunnable.runOne(InvokeMethodRunnable.java:49) at org.testng.internal.InvokeMethodRunnable.run(InvokeMethodRunnable.java:40) at java.util.concurrent.Executors$RunnableAdapter.call(Executors.java:441) at java.util.concurrent.FutureTask$Sync.innerRun(FutureTask.java:303) at java.util.concurrent.FutureTask.run(FutureTask.java:138) at java.util.concurrent.ThreadPoolExecutor$Worker.runTask(ThreadPoolExecutor.java:886) at java.util.concurrent.ThreadPoolExecutor$Worker.run(ThreadPoolExecutor.java:908) at java.lang.Thread.run(Thread.java:619) "TestNGInvoker-testImportPlateMultiplePlateAcquisitions()" prio=10 tid=0x00002b391c08d000 nid=0x35b3 waiting for monitor entry [0x00002b390e305000] java.lang.Thread.State: BLOCKED (on object monitor) at Ice.ObjectPrxHelperBase.__handleExceptionWrapper(ObjectPrxHelperBase.java:872) - waiting to lock <0x00002b38eaafdb40> (a omero.api.MetadataStorePrxHelper) at omero.api.MetadataStorePrxHelper.createRoot(MetadataStorePrxHelper.java:53) at omero.api.MetadataStorePrxHelper.createRoot(MetadataStorePrxHelper.java:20) at ome.formats.OMEROMetadataStoreClient.createRoot(OMEROMetadataStoreClient.java:935) at loci.formats.FormatReader.initFile(FormatReader.java:216) at loci.formats.in.OMEXMLReader.initFile(OMEXMLReader.java:215) at loci.formats.FormatReader.setId(FormatReader.java:1058) at loci.formats.ImageReader.setId(ImageReader.java:650) at loci.formats.ReaderWrapper.setId(ReaderWrapper.java:480) at loci.formats.ChannelFiller.setId(ChannelFiller.java:244) at loci.formats.ReaderWrapper.setId(ReaderWrapper.java:480) at loci.formats.ChannelSeparator.setId(ChannelSeparator.java:238) at loci.formats.ReaderWrapper.setId(ReaderWrapper.java:480) at ome.formats.importer.ImportLibrary.open(ImportLibrary.java:245) at ome.formats.importer.ImportLibrary.importImage(ImportLibrary.java:483) at integration.AbstractTest.importFile(AbstractTest.java:612) at integration.AbstractTest.importFile(AbstractTest.java:554) at integration.ImporterTest.testImportPlateMultiplePlateAcquisitions(ImporterTest.java:1131) at sun.reflect.NativeMethodAccessorImpl.invoke0(Native Method) at sun.reflect.NativeMethodAccessorImpl.invoke(NativeMethodAccessorImpl.java:39) at sun.reflect.DelegatingMethodAccessorImpl.invoke(DelegatingMethodAccessorImpl.java:25) at java.lang.reflect.Method.invoke(Method.java:597) at org.testng.internal.MethodHelper.invokeMethod(MethodHelper.java:644) at org.testng.internal.InvokeMethodRunnable.runOne(InvokeMethodRunnable.java:49) at org.testng.internal.InvokeMethodRunnable.run(InvokeMethodRunnable.java:40) at java.util.concurrent.Executors$RunnableAdapter.call(Executors.java:441) at java.util.concurrent.FutureTask$Sync.innerRun(FutureTask.java:303) at java.util.concurrent.FutureTask.run(FutureTask.java:138) at java.util.concurrent.ThreadPoolExecutor$Worker.runTask(ThreadPoolExecutor.java:886) at java.util.concurrent.ThreadPoolExecutor$Worker.run(ThreadPoolExecutor.java:908) at java.lang.Thread.run(Thread.java:619) "TestNGInvoker-testImportPlate()" prio=10 tid=0x00002b391c037000 nid=0x2e77 waiting for monitor entry [0x00002b392dbd8000] java.lang.Thread.State: BLOCKED (on object monitor) at Ice.ObjectPrxHelperBase.__handleExceptionWrapper(ObjectPrxHelperBase.java:872) - waiting to lock <0x00002b38eaafdb40> (a omero.api.MetadataStorePrxHelper) at omero.api.MetadataStorePrxHelper.createRoot(MetadataStorePrxHelper.java:53) at omero.api.MetadataStorePrxHelper.createRoot(MetadataStorePrxHelper.java:20) at ome.formats.OMEROMetadataStoreClient.createRoot(OMEROMetadataStoreClient.java:935) at loci.formats.FormatReader.initFile(FormatReader.java:216) at loci.formats.in.OMEXMLReader.initFile(OMEXMLReader.java:215) at loci.formats.FormatReader.setId(FormatReader.java:1058) at loci.formats.ImageReader.setId(ImageReader.java:650) at loci.formats.ReaderWrapper.setId(ReaderWrapper.java:480) at loci.formats.ChannelFiller.setId(ChannelFiller.java:244) at loci.formats.ReaderWrapper.setId(ReaderWrapper.java:480) at loci.formats.ChannelSeparator.setId(ChannelSeparator.java:238) at loci.formats.ReaderWrapper.setId(ReaderWrapper.java:480) at ome.formats.importer.ImportLibrary.open(ImportLibrary.java:245) at ome.formats.importer.ImportLibrary.importImage(ImportLibrary.java:483) at integration.AbstractTest.importFile(AbstractTest.java:612) at integration.AbstractTest.importFile(AbstractTest.java:554) at integration.ImporterTest.testImportPlate(ImporterTest.java:1054) at sun.reflect.NativeMethodAccessorImpl.invoke0(Native Method) at sun.reflect.NativeMethodAccessorImpl.invoke(NativeMethodAccessorImpl.java:39) at sun.reflect.DelegatingMethodAccessorImpl.invoke(DelegatingMethodAccessorImpl.java:25) at java.lang.reflect.Method.invoke(Method.java:597) at org.testng.internal.MethodHelper.invokeMethod(MethodHelper.java:644) at org.testng.internal.InvokeMethodRunnable.runOne(InvokeMethodRunnable.java:49) at org.testng.internal.InvokeMethodRunnable.run(InvokeMethodRunnable.java:40) at java.util.concurrent.Executors$RunnableAdapter.call(Executors.java:441) at java.util.concurrent.FutureTask$Sync.innerRun(FutureTask.java:303) at java.util.concurrent.FutureTask.run(FutureTask.java:138) at java.util.concurrent.ThreadPoolExecutor$Worker.runTask(ThreadPoolExecutor.java:886) at java.util.concurrent.ThreadPoolExecutor$Worker.run(ThreadPoolExecutor.java:908) at java.lang.Thread.run(Thread.java:619) "TestNGInvoker-testImportImageWithROI()" prio=10 tid=0x00002b391c023800 nid=0x2ce7 waiting for monitor entry [0x00002b3923a37000] java.lang.Thread.State: BLOCKED (on object monitor) at Ice.ConnectionI.sendRequest(ConnectionI.java:336) - waiting to lock <0x00002b38eaafd9f8> (a Ice.ConnectionI) at IceInternal.ConnectionRequestHandler.sendRequest(ConnectionRequestHandler.java:36) at IceInternal.Outgoing.invoke(Outgoing.java:66) at omero.api._MetadataStoreDelM.createRoot(_MetadataStoreDelM.java:24) at omero.api.MetadataStorePrxHelper.createRoot(MetadataStorePrxHelper.java:48) at omero.api.MetadataStorePrxHelper.createRoot(MetadataStorePrxHelper.java:20) at ome.formats.OMEROMetadataStoreClient.createRoot(OMEROMetadataStoreClient.java:935) at loci.formats.FormatReader.initFile(FormatReader.java:216) at loci.formats.in.OMEXMLReader.initFile(OMEXMLReader.java:215) at loci.formats.FormatReader.setId(FormatReader.java:1058) at loci.formats.ImageReader.setId(ImageReader.java:650) at loci.formats.ReaderWrapper.setId(ReaderWrapper.java:480) at loci.formats.ChannelFiller.setId(ChannelFiller.java:244) at loci.formats.ReaderWrapper.setId(ReaderWrapper.java:480) at loci.formats.ChannelSeparator.setId(ChannelSeparator.java:238) at loci.formats.ReaderWrapper.setId(ReaderWrapper.java:480) at ome.formats.importer.ImportLibrary.open(ImportLibrary.java:245) at ome.formats.importer.ImportLibrary.importImage(ImportLibrary.java:483) at integration.AbstractTest.importFile(AbstractTest.java:612) at integration.AbstractTest.importFile(AbstractTest.java:554) at integration.ImporterTest.testImportImageWithROI(ImporterTest.java:1013) at sun.reflect.NativeMethodAccessorImpl.invoke0(Native Method) at sun.reflect.NativeMethodAccessorImpl.invoke(NativeMethodAccessorImpl.java:39) at sun.reflect.DelegatingMethodAccessorImpl.invoke(DelegatingMethodAccessorImpl.java:25) at java.lang.reflect.Method.invoke(Method.java:597) at org.testng.internal.MethodHelper.invokeMethod(MethodHelper.java:644) at org.testng.internal.InvokeMethodRunnable.runOne(InvokeMethodRunnable.java:49) at org.testng.internal.InvokeMethodRunnable.run(InvokeMethodRunnable.java:40) at java.util.concurrent.Executors$RunnableAdapter.call(Executors.java:441) at java.util.concurrent.FutureTask$Sync.innerRun(FutureTask.java:303) at java.util.concurrent.FutureTask.run(FutureTask.java:138) at java.util.concurrent.ThreadPoolExecutor$Worker.runTask(ThreadPoolExecutor.java:886) at java.util.concurrent.ThreadPoolExecutor$Worker.run(ThreadPoolExecutor.java:908) at java.lang.Thread.run(Thread.java:619) "TestNGInvoker-testImportImageWithAcquisitionData()" prio=10 tid=0x00002b391c03d000 nid=0x2b98 in Object.wait() [0x00002b392e0dd000] java.lang.Thread.State: WAITING (on object monitor) at java.lang.Object.wait(Native Method) - waiting on <0x00002b38eaafd9b8> (a IceInternal.Outgoing) at java.lang.Object.wait(Object.java:485) at IceInternal.Outgoing.invoke(Outgoing.java:109) - locked <0x00002b38eaafd9b8> (a IceInternal.Outgoing) at omero.api._MetadataStoreDelM.createRoot(_MetadataStoreDelM.java:24) at omero.api.MetadataStorePrxHelper.createRoot(MetadataStorePrxHelper.java:48) at omero.api.MetadataStorePrxHelper.createRoot(MetadataStorePrxHelper.java:20) at ome.formats.OMEROMetadataStoreClient.createRoot(OMEROMetadataStoreClient.java:935) at loci.formats.FormatReader.initFile(FormatReader.java:216) at loci.formats.in.OMEXMLReader.initFile(OMEXMLReader.java:215) at loci.formats.FormatReader.setId(FormatReader.java:1058) at loci.formats.ImageReader.setId(ImageReader.java:650) at loci.formats.ReaderWrapper.setId(ReaderWrapper.java:480) at loci.formats.ChannelFiller.setId(ChannelFiller.java:244) at loci.formats.ReaderWrapper.setId(ReaderWrapper.java:480) at loci.formats.ChannelSeparator.setId(ChannelSeparator.java:238) at loci.formats.ReaderWrapper.setId(ReaderWrapper.java:480) at ome.formats.importer.ImportLibrary.open(ImportLibrary.java:245) at ome.formats.importer.ImportLibrary.importImage(ImportLibrary.java:483) at integration.AbstractTest.importFile(AbstractTest.java:612) at integration.AbstractTest.importFile(AbstractTest.java:554) at integration.ImporterTest.testImportImageWithAcquisitionData(ImporterTest.java:820) at sun.reflect.NativeMethodAccessorImpl.invoke0(Native Method) at sun.reflect.NativeMethodAccessorImpl.invoke(NativeMethodAccessorImpl.java:39) at sun.reflect.DelegatingMethodAccessorImpl.invoke(DelegatingMethodAccessorImpl.java:25) at java.lang.reflect.Method.invoke(Method.java:597) at org.testng.internal.MethodHelper.invokeMethod(MethodHelper.java:644) at org.testng.internal.InvokeMethodRunnable.runOne(InvokeMethodRunnable.java:49) at org.testng.internal.InvokeMethodRunnable.run(InvokeMethodRunnable.java:40) at java.util.concurrent.Executors$RunnableAdapter.call(Executors.java:441) at java.util.concurrent.FutureTask$Sync.innerRun(FutureTask.java:303) at java.util.concurrent.FutureTask.run(FutureTask.java:138) at java.util.concurrent.ThreadPoolExecutor$Worker.runTask(ThreadPoolExecutor.java:886) at java.util.concurrent.ThreadPoolExecutor$Worker.run(ThreadPoolExecutor.java:908) at java.lang.Thread.run(Thread.java:619) "pool-140-thread-1" prio=10 tid=0x00002b391c08b000 nid=0x29c5 waiting for monitor entry [0x00002b3924f4d000] java.lang.Thread.State: BLOCKED (on object monitor) at IceInternal.OutgoingConnectionFactory.findConnectionByEndpoint(OutgoingConnectionFactory.java:449) - waiting to lock <0x00002b38eab50d70> (a IceInternal.OutgoingConnectionFactory) at IceInternal.OutgoingConnectionFactory.create(OutgoingConnectionFactory.java:265) at IceInternal.RoutableReference.createConnection(RoutableReference.java:848) at IceInternal.RoutableReference$1.setEndpoints(RoutableReference.java:484) at IceInternal.RouterInfo.getClientEndpoints(RouterInfo.java:92) at IceInternal.RoutableReference.getConnection(RoutableReference.java:476) at IceInternal.ConnectRequestHandler.connect(ConnectRequestHandler.java:41) at Ice._ObjectDelM.setup(_ObjectDelM.java:275) at Ice.ObjectPrxHelperBase.createDelegate(ObjectPrxHelperBase.java:1007) at Ice.ObjectPrxHelperBase.__getDelegate(ObjectPrxHelperBase.java:946) - locked <0x00002b38eab24e98> (a omero.api.ServiceFactoryPrxHelper) at omero.api.ServiceFactoryPrxHelper.keepAllAlive(ServiceFactoryPrxHelper.java:1646) at omero.api.ServiceFactoryPrxHelper.keepAllAlive(ServiceFactoryPrxHelper.java:1620) at ome.formats.OMEROMetadataStoreClient.ping(OMEROMetadataStoreClient.java:610) at ome.formats.importer.util.ClientKeepAlive.run(ClientKeepAlive.java:69) - locked <0x00002b38eaafdb60> (a ome.formats.OMEROMetadataStoreClient) at java.util.concurrent.Executors$RunnableAdapter.call(Executors.java:441) at java.util.concurrent.FutureTask$Sync.innerRunAndReset(FutureTask.java:317) at java.util.concurrent.FutureTask.runAndReset(FutureTask.java:150) at java.util.concurrent.ScheduledThreadPoolExecutor$ScheduledFutureTask.access$101(ScheduledThreadPoolExecutor.java:98) at java.util.concurrent.ScheduledThreadPoolExecutor$ScheduledFutureTask.runPeriodic(ScheduledThreadPoolExecutor.java:181) at java.util.concurrent.ScheduledThreadPoolExecutor$ScheduledFutureTask.run(ScheduledThreadPoolExecutor.java:205) at java.util.concurrent.ThreadPoolExecutor$Worker.runTask(ThreadPoolExecutor.java:886) at java.util.concurrent.ThreadPoolExecutor$Worker.run(ThreadPoolExecutor.java:908) at java.lang.Thread.run(Thread.java:619) "Ice.Timer" prio=10 tid=0x0000000040bd1800 nid=0x29be in Object.wait() [0x00002b390f137000] java.lang.Thread.State: WAITING (on object monitor) at java.lang.Object.wait(Native Method) - waiting on <0x00002b38eab18e48> (a IceInternal.Timer) at java.lang.Object.wait(Object.java:485) at IceInternal.Timer.run(Timer.java:177) - locked <0x00002b38eab18e48> (a IceInternal.Timer) "Ice.SelectorThread" prio=10 tid=0x0000000040bdd000 nid=0x29bd runnable [0x00002b390e508000] java.lang.Thread.State: RUNNABLE at sun.nio.ch.EPollArrayWrapper.epollWait(Native Method) at sun.nio.ch.EPollArrayWrapper.poll(EPollArrayWrapper.java:215) at sun.nio.ch.EPollSelectorImpl.doSelect(EPollSelectorImpl.java:65) at sun.nio.ch.SelectorImpl.lockAndDoSelect(SelectorImpl.java:69) - locked <0x00002b38eab6cda8> (a sun.nio.ch.Util$1) - locked <0x00002b38eab6cdc0> (a java.util.Collections$UnmodifiableSet) - locked <0x00002b38eab6cd30> (a sun.nio.ch.EPollSelectorImpl) at sun.nio.ch.SelectorImpl.select(SelectorImpl.java:80) at sun.nio.ch.SelectorImpl.select(SelectorImpl.java:84) at IceInternal.Selector.select(Selector.java:139) at IceInternal.SelectorThread.run(SelectorThread.java:120) at IceInternal.SelectorThread$HelperThread.run(SelectorThread.java:273) "Ice.EndpointHostResolverThread" prio=10 tid=0x00002b391c03b000 nid=0x29bb in Object.wait() [0x00002b391b63d000] java.lang.Thread.State: WAITING (on object monitor) at java.lang.Object.wait(Native Method) - waiting on <0x00002b38eab75bc0> (a IceInternal.EndpointHostResolver) at java.lang.Object.wait(Object.java:485) at IceInternal.EndpointHostResolver.run(EndpointHostResolver.java:77) - locked <0x00002b38eab75bc0> (a IceInternal.EndpointHostResolver) at IceInternal.EndpointHostResolver$HelperThread.run(EndpointHostResolver.java:146) "omero.ClientCallback.ThreadPool-4" prio=10 tid=0x00002b391c0a5000 nid=0x29ba in Object.wait() [0x00002b3923e3c000] java.lang.Thread.State: WAITING (on object monitor) at java.lang.Object.wait(Native Method) - waiting on <0x00002b38eab53a88> (a IceInternal.ThreadPool) at java.lang.Object.wait(Object.java:485) at IceInternal.ThreadPool.run(ThreadPool.java:315) - locked <0x00002b38eab53a88> (a IceInternal.ThreadPool) at IceInternal.ThreadPool.access$100(ThreadPool.java:12) at IceInternal.ThreadPool$EventHandlerThread.run(ThreadPool.java:971) "omero.ClientCallback.ThreadPool-3" prio=10 tid=0x00002b391c090800 nid=0x29b9 in Object.wait() [0x00002b3920806000] java.lang.Thread.State: WAITING (on object monitor) at java.lang.Object.wait(Native Method) - waiting on <0x00002b38eab53a88> (a IceInternal.ThreadPool) at java.lang.Object.wait(Object.java:485) at IceInternal.ThreadPool.run(ThreadPool.java:315) - locked <0x00002b38eab53a88> (a IceInternal.ThreadPool) at IceInternal.ThreadPool.access$100(ThreadPool.java:12) at IceInternal.ThreadPool$EventHandlerThread.run(ThreadPool.java:971) "omero.ClientCallback.ThreadPool-2" prio=10 tid=0x00002b391c0a4000 nid=0x29b8 in Object.wait() [0x00002b3923c3a000] java.lang.Thread.State: WAITING (on object monitor) at java.lang.Object.wait(Native Method) - waiting on <0x00002b38eab53a88> (a IceInternal.ThreadPool) at java.lang.Object.wait(Object.java:485) at IceInternal.ThreadPool.run(ThreadPool.java:315) - locked <0x00002b38eab53a88> (a IceInternal.ThreadPool) at IceInternal.ThreadPool.access$100(ThreadPool.java:12) at IceInternal.ThreadPool$EventHandlerThread.run(ThreadPool.java:971) "omero.ClientCallback.ThreadPool-1" prio=10 tid=0x00002b391c080800 nid=0x29b7 runnable [0x00002b3922c2a000] java.lang.Thread.State: RUNNABLE at sun.nio.ch.EPollArrayWrapper.epollWait(Native Method) at sun.nio.ch.EPollArrayWrapper.poll(EPollArrayWrapper.java:215) at sun.nio.ch.EPollSelectorImpl.doSelect(EPollSelectorImpl.java:65) at sun.nio.ch.SelectorImpl.lockAndDoSelect(SelectorImpl.java:69) - locked <0x00002b38eab54748> (a sun.nio.ch.Util$1) - locked <0x00002b38eab54730> (a java.util.Collections$UnmodifiableSet) - locked <0x00002b38eab53bf8> (a sun.nio.ch.EPollSelectorImpl) at sun.nio.ch.SelectorImpl.select(SelectorImpl.java:80) at sun.nio.ch.SelectorImpl.select(SelectorImpl.java:84) at IceInternal.Selector.select(Selector.java:139) at IceInternal.ThreadPool.run(ThreadPool.java:335) at IceInternal.ThreadPool.access$100(ThreadPool.java:12) at IceInternal.ThreadPool$EventHandlerThread.run(ThreadPool.java:971) "omero.ClientCallback.ThreadPool-0" prio=10 tid=0x00002b391c045800 nid=0x29b6 in Object.wait() [0x00002b3925957000] java.lang.Thread.State: WAITING (on object monitor) at java.lang.Object.wait(Native Method) - waiting on <0x00002b38eab53a88> (a IceInternal.ThreadPool) at java.lang.Object.wait(Object.java:485) at IceInternal.ThreadPool.run(ThreadPool.java:710) - locked <0x00002b38eab53a88> (a IceInternal.ThreadPool) at IceInternal.ThreadPool.access$100(ThreadPool.java:12) at IceInternal.ThreadPool$EventHandlerThread.run(ThreadPool.java:971) "Java2D Disposer" daemon prio=10 tid=0x0000000040328000 nid=0x6f55 in Object.wait() [0x00002b390f43a000] java.lang.Thread.State: WAITING (on object monitor) at java.lang.Object.wait(Native Method) - waiting on <0x00002b38eab6da18> (a java.lang.ref.ReferenceQueue$Lock) at java.lang.ref.ReferenceQueue.remove(ReferenceQueue.java:118) - locked <0x00002b38eab6da18> (a java.lang.ref.ReferenceQueue$Lock) at java.lang.ref.ReferenceQueue.remove(ReferenceQueue.java:134) at sun.java2d.Disposer.run(Disposer.java:125) at java.lang.Thread.run(Thread.java:619) "Low Memory Detector" daemon prio=10 tid=0x00000000401bd000 nid=0x690a runnable [0x0000000000000000] java.lang.Thread.State: RUNNABLE "CompilerThread1" daemon prio=10 tid=0x00000000401ba000 nid=0x6909 waiting on condition [0x0000000000000000] java.lang.Thread.State: RUNNABLE "CompilerThread0" daemon prio=10 tid=0x00000000401b5800 nid=0x6908 waiting on condition [0x0000000000000000] java.lang.Thread.State: RUNNABLE "Signal Dispatcher" daemon prio=10 tid=0x00000000401b3800 nid=0x6907 runnable [0x0000000000000000] java.lang.Thread.State: RUNNABLE "Finalizer" daemon prio=10 tid=0x0000000040197000 nid=0x6906 in Object.wait() [0x00002b390d63c000] java.lang.Thread.State: WAITING (on object monitor) at java.lang.Object.wait(Native Method) - waiting on <0x00002b38e6de45e8> (a java.lang.ref.ReferenceQueue$Lock) at java.lang.ref.ReferenceQueue.remove(ReferenceQueue.java:118) - locked <0x00002b38e6de45e8> (a java.lang.ref.ReferenceQueue$Lock) at java.lang.ref.ReferenceQueue.remove(ReferenceQueue.java:134) at java.lang.ref.Finalizer$FinalizerThread.run(Finalizer.java:159) "Reference Handler" daemon prio=10 tid=0x000000004018f800 nid=0x6905 in Object.wait() [0x00002b390d53b000] java.lang.Thread.State: WAITING (on object monitor) at java.lang.Object.wait(Native Method) - waiting on <0x00002b38e6de4620> (a java.lang.ref.Reference$Lock) at java.lang.Object.wait(Object.java:485) at java.lang.ref.Reference$ReferenceHandler.run(Reference.java:116) - locked <0x00002b38e6de4620> (a java.lang.ref.Reference$Lock) "main" prio=10 tid=0x0000000040125000 nid=0x68fb in Object.wait() [0x00002b38de058000] java.lang.Thread.State: WAITING (on object monitor) at java.lang.Object.wait(Native Method) - waiting on <0x00002b38eabfbd98> (a omero.client$1) at java.lang.Thread.join(Thread.java:1143) - locked <0x00002b38eabfbd98> (a omero.client$1) at java.lang.Thread.join(Thread.java:1196) at java.lang.ApplicationShutdownHooks.runHooks(ApplicationShutdownHooks.java:79) at java.lang.ApplicationShutdownHooks$1.run(ApplicationShutdownHooks.java:24) at java.lang.Shutdown.runHooks(Shutdown.java:79) at java.lang.Shutdown.sequence(Shutdown.java:123) at java.lang.Shutdown.exit(Shutdown.java:168) - locked <0x00002b38e20174d8> (a java.lang.Class for java.lang.Shutdown) at java.lang.Runtime.exit(Runtime.java:90) at java.lang.System.exit(System.java:904) at org.testng.TestNG.main(TestNG.java:926) "VM Thread" prio=10 tid=0x0000000040189000 nid=0x6904 runnable "GC task thread#0 (ParallelGC)" prio=10 tid=0x000000004012f800 nid=0x68fc runnable "GC task thread#1 (ParallelGC)" prio=10 tid=0x0000000040131800 nid=0x68fd runnable "GC task thread#2 (ParallelGC)" prio=10 tid=0x0000000040133000 nid=0x68fe runnable "GC task thread#3 (ParallelGC)" prio=10 tid=0x0000000040135000 nid=0x68ff runnable "GC task thread#4 (ParallelGC)" prio=10 tid=0x0000000040137000 nid=0x6900 runnable "GC task thread#5 (ParallelGC)" prio=10 tid=0x0000000040138800 nid=0x6901 runnable "GC task thread#6 (ParallelGC)" prio=10 tid=0x000000004013a800 nid=0x6902 runnable "GC task thread#7 (ParallelGC)" prio=10 tid=0x000000004013c800 nid=0x6903 runnable "VM Periodic Task Thread" prio=10 tid=0x00002b3910001800 nid=0x690b waiting on condition JNI global references: 1363