2011-09-07 12:06:42 Full thread dump Java HotSpot(TM) 64-Bit Server VM (20.1-b02-384 mixed mode): "Attach Listener" daemon prio=9 tid=103bb0000 nid=0x123f8d000 waiting on condition [00000000] java.lang.Thread.State: RUNNABLE "pool-2-thread-1" prio=5 tid=103e94000 nid=0x11fb06000 runnable [11fb04000] java.lang.Thread.State: RUNNABLE at sun.nio.ch.FileDispatcher.pread0(Native Method) at sun.nio.ch.FileDispatcher.pread(FileDispatcher.java:31) at sun.nio.ch.IOUtil.readIntoNativeBuffer(IOUtil.java:199) at sun.nio.ch.IOUtil.read(IOUtil.java:175) at sun.nio.ch.FileChannelImpl.read(FileChannelImpl.java:612) at loci.common.NIOByteBufferProvider.allocateDirect(NIOByteBufferProvider.java:120) at loci.common.NIOByteBufferProvider.allocate(NIOByteBufferProvider.java:105) at loci.common.NIOFileHandle.buffer(NIOFileHandle.java:510) at loci.common.NIOFileHandle.(NIOFileHandle.java:108) at loci.common.NIOFileHandle.(NIOFileHandle.java:116) at loci.common.NIOFileHandle.(NIOFileHandle.java:125) at loci.common.Location.getHandle(Location.java:284) at loci.common.Location.getHandle(Location.java:255) at loci.common.RandomAccessInputStream.(RandomAccessInputStream.java:80) at loci.formats.in.CellSensReader.decodeTile(CellSensReader.java:406) at loci.formats.in.CellSensReader.openBytes(CellSensReader.java:218) at loci.formats.ImageReader.openBytes(ImageReader.java:396) at loci.formats.ChannelFiller.openBytes(ChannelFiller.java:183) at loci.formats.ChannelFiller.openBytes(ChannelFiller.java:175) at loci.formats.ChannelSeparator.openBytes(ChannelSeparator.java:180) at loci.formats.ReaderWrapper.openBytes(ReaderWrapper.java:304) at loci.formats.MinMaxCalculator.openBytes(MinMaxCalculator.java:260) at ome.formats.importer.ImportLibrary.writeDataTileBased(ImportLibrary.java:873) at ome.formats.importer.ImportLibrary.importData(ImportLibrary.java:798) at ome.formats.importer.ImportLibrary.importImage(ImportLibrary.java:575) at ome.formats.importer.gui.ImportHandler.importImages(ImportHandler.java:216) at ome.formats.importer.gui.ImportHandler.access$100(ImportHandler.java:59) at ome.formats.importer.gui.ImportHandler$2.run(ImportHandler.java:134) at java.util.concurrent.Executors$RunnableAdapter.call(Executors.java:441) at java.util.concurrent.FutureTask$Sync.innerRun(FutureTask.java:303) at java.util.concurrent.FutureTask.run(FutureTask.java:138) at java.util.concurrent.ScheduledThreadPoolExecutor$ScheduledFutureTask.access$301(ScheduledThreadPoolExecutor.java:98) at java.util.concurrent.ScheduledThreadPoolExecutor$ScheduledFutureTask.run(ScheduledThreadPoolExecutor.java:206) 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:680) "pool-1-thread-1" prio=5 tid=103d80800 nid=0x120ead000 waiting on condition [120eac000] java.lang.Thread.State: WAITING (parking) at sun.misc.Unsafe.park(Native Method) - parking to wait for <7dd7f3870> (a java.util.concurrent.locks.AbstractQueuedSynchronizer$ConditionObject) at java.util.concurrent.locks.LockSupport.park(LockSupport.java:158) at java.util.concurrent.locks.AbstractQueuedSynchronizer$ConditionObject.await(AbstractQueuedSynchronizer.java:1987) at java.util.concurrent.DelayQueue.take(DelayQueue.java:160) at java.util.concurrent.ScheduledThreadPoolExecutor$DelayedWorkQueue.take(ScheduledThreadPoolExecutor.java:609) at java.util.concurrent.ScheduledThreadPoolExecutor$DelayedWorkQueue.take(ScheduledThreadPoolExecutor.java:602) at java.util.concurrent.ThreadPoolExecutor.getTask(ThreadPoolExecutor.java:947) at java.util.concurrent.ThreadPoolExecutor$Worker.run(ThreadPoolExecutor.java:907) at java.lang.Thread.run(Thread.java:680) "pool-3-thread-1" prio=5 tid=104bf0000 nid=0x123b1c000 waiting on condition [123b1b000] java.lang.Thread.State: TIMED_WAITING (parking) at sun.misc.Unsafe.park(Native Method) - parking to wait for <7de1a0a30> (a java.util.concurrent.locks.AbstractQueuedSynchronizer$ConditionObject) at java.util.concurrent.locks.LockSupport.parkNanos(LockSupport.java:198) at java.util.concurrent.locks.AbstractQueuedSynchronizer$ConditionObject.awaitNanos(AbstractQueuedSynchronizer.java:2025) at java.util.concurrent.DelayQueue.take(DelayQueue.java:164) at java.util.concurrent.ScheduledThreadPoolExecutor$DelayedWorkQueue.take(ScheduledThreadPoolExecutor.java:609) at java.util.concurrent.ScheduledThreadPoolExecutor$DelayedWorkQueue.take(ScheduledThreadPoolExecutor.java:602) at java.util.concurrent.ThreadPoolExecutor.getTask(ThreadPoolExecutor.java:947) at java.util.concurrent.ThreadPoolExecutor$Worker.run(ThreadPoolExecutor.java:907) at java.lang.Thread.run(Thread.java:680) "Ice.Timer" prio=6 tid=103907000 nid=0x123a19000 in Object.wait() [123a18000] java.lang.Thread.State: WAITING (on object monitor) at java.lang.Object.wait(Native Method) - waiting on <7dde174b0> (a IceInternal.Timer) at java.lang.Object.wait(Object.java:485) at IceInternal.Timer.run(Timer.java:177) - locked <7dde174b0> (a IceInternal.Timer) "Ice.SelectorThread" prio=6 tid=1039f6800 nid=0x123916000 runnable [123915000] java.lang.Thread.State: RUNNABLE at sun.nio.ch.KQueueArrayWrapper.kevent0(Native Method) at sun.nio.ch.KQueueArrayWrapper.poll(KQueueArrayWrapper.java:136) at sun.nio.ch.KQueueSelectorImpl.doSelect(KQueueSelectorImpl.java:69) at sun.nio.ch.SelectorImpl.lockAndDoSelect(SelectorImpl.java:69) - locked <7ddff96a0> (a sun.nio.ch.Util$2) - locked <7ddff9688> (a java.util.Collections$UnmodifiableSet) - locked <7ddf4d090> (a sun.nio.ch.KQueueSelectorImpl) 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=6 tid=103979000 nid=0x123813000 runnable [123812000] java.lang.Thread.State: RUNNABLE at sun.nio.ch.KQueueArrayWrapper.kevent0(Native Method) at sun.nio.ch.KQueueArrayWrapper.poll(KQueueArrayWrapper.java:136) at sun.nio.ch.KQueueSelectorImpl.doSelect(KQueueSelectorImpl.java:69) at sun.nio.ch.SelectorImpl.lockAndDoSelect(SelectorImpl.java:69) - locked <7ddfc03e0> (a sun.nio.ch.Util$2) - locked <7ddfc03c8> (a java.util.Collections$UnmodifiableSet) - locked <7ddf4d0d8> (a sun.nio.ch.KQueueSelectorImpl) 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=6 tid=103d10000 nid=0x123710000 in Object.wait() [12370f000] java.lang.Thread.State: WAITING (on object monitor) at java.lang.Object.wait(Native Method) - waiting on <7de017b78> (a IceInternal.EndpointHostResolver) at java.lang.Object.wait(Object.java:485) at IceInternal.EndpointHostResolver.run(EndpointHostResolver.java:77) - locked <7de017b78> (a IceInternal.EndpointHostResolver) at IceInternal.EndpointHostResolver$HelperThread.run(EndpointHostResolver.java:146) "omero.ClientCallback.ThreadPool-4" prio=6 tid=103d0d000 nid=0x12360d000 in Object.wait() [12360c000] java.lang.Thread.State: WAITING (on object monitor) at java.lang.Object.wait(Native Method) - waiting on <7de00f988> (a IceInternal.ThreadPool) at java.lang.Object.wait(Object.java:485) at IceInternal.ThreadPool.run(ThreadPool.java:315) - locked <7de00f988> (a IceInternal.ThreadPool) at IceInternal.ThreadPool.access$100(ThreadPool.java:12) at IceInternal.ThreadPool$EventHandlerThread.run(ThreadPool.java:971) "omero.ClientCallback.ThreadPool-3" prio=6 tid=103d0c800 nid=0x12350a000 in Object.wait() [123509000] java.lang.Thread.State: WAITING (on object monitor) at java.lang.Object.wait(Native Method) - waiting on <7de00f988> (a IceInternal.ThreadPool) at java.lang.Object.wait(Object.java:485) at IceInternal.ThreadPool.run(ThreadPool.java:315) - locked <7de00f988> (a IceInternal.ThreadPool) at IceInternal.ThreadPool.access$100(ThreadPool.java:12) at IceInternal.ThreadPool$EventHandlerThread.run(ThreadPool.java:971) "omero.ClientCallback.ThreadPool-2" prio=6 tid=103be8800 nid=0x123407000 in Object.wait() [123406000] java.lang.Thread.State: WAITING (on object monitor) at java.lang.Object.wait(Native Method) - waiting on <7de00f988> (a IceInternal.ThreadPool) at java.lang.Object.wait(Object.java:485) at IceInternal.ThreadPool.run(ThreadPool.java:315) - locked <7de00f988> (a IceInternal.ThreadPool) at IceInternal.ThreadPool.access$100(ThreadPool.java:12) at IceInternal.ThreadPool$EventHandlerThread.run(ThreadPool.java:971) "omero.ClientCallback.ThreadPool-1" prio=6 tid=103ed2000 nid=0x123304000 in Object.wait() [123303000] java.lang.Thread.State: WAITING (on object monitor) at java.lang.Object.wait(Native Method) - waiting on <7de00f988> (a IceInternal.ThreadPool) at java.lang.Object.wait(Object.java:485) at IceInternal.ThreadPool.run(ThreadPool.java:315) - locked <7de00f988> (a IceInternal.ThreadPool) at IceInternal.ThreadPool.access$100(ThreadPool.java:12) at IceInternal.ThreadPool$EventHandlerThread.run(ThreadPool.java:971) "omero.ClientCallback.ThreadPool-0" prio=6 tid=103f2a800 nid=0x123201000 runnable [123200000] java.lang.Thread.State: RUNNABLE at sun.nio.ch.KQueueArrayWrapper.kevent0(Native Method) at sun.nio.ch.KQueueArrayWrapper.poll(KQueueArrayWrapper.java:136) at sun.nio.ch.KQueueSelectorImpl.doSelect(KQueueSelectorImpl.java:69) at sun.nio.ch.SelectorImpl.lockAndDoSelect(SelectorImpl.java:69) - locked <7ddfd8d68> (a sun.nio.ch.Util$2) - locked <7ddfd8db0> (a java.util.Collections$UnmodifiableSet) - locked <7ddfd0140> (a sun.nio.ch.KQueueSelectorImpl) 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) "Poller SunPKCS11-Darwin" daemon prio=1 tid=103c49000 nid=0x120fb0000 waiting on condition [120faf000] java.lang.Thread.State: TIMED_WAITING (sleeping) at java.lang.Thread.sleep(Native Method) at sun.security.pkcs11.SunPKCS11$TokenPoller.run(SunPKCS11.java:692) at java.lang.Thread.run(Thread.java:680) "DestroyJavaVM" prio=5 tid=104a1c000 nid=0x103001000 waiting on condition [00000000] java.lang.Thread.State: RUNNABLE "TimerQueue" daemon prio=5 tid=1038c2000 nid=0x11f842000 in Object.wait() [11f841000] java.lang.Thread.State: WAITING (on object monitor) at java.lang.Object.wait(Native Method) at javax.swing.TimerQueue.run(TimerQueue.java:232) - locked <7dd7b1090> (a javax.swing.TimerQueue) at java.lang.Thread.run(Thread.java:680) "AWT-EventQueue-0" prio=6 tid=103b52000 nid=0x11f73f000 in Object.wait() [11f73e000] java.lang.Thread.State: WAITING (on object monitor) at java.lang.Object.wait(Native Method) at java.lang.Object.wait(Object.java:485) at java.awt.EventQueue.getNextEvent(EventQueue.java:520) - locked <7dd7b7fe0> (a java.awt.EventQueue) at java.awt.EventDispatchThread.pumpOneEventForFilters(EventDispatchThread.java:263) at java.awt.EventDispatchThread.pumpEventsForFilter(EventDispatchThread.java:211) at java.awt.EventDispatchThread.pumpEventsForHierarchy(EventDispatchThread.java:201) at java.awt.EventDispatchThread.pumpEvents(EventDispatchThread.java:196) at java.awt.EventDispatchThread.pumpEvents(EventDispatchThread.java:188) at java.awt.EventDispatchThread.run(EventDispatchThread.java:122) "AWT-Shutdown" prio=5 tid=104aba800 nid=0x11f63c000 in Object.wait() [11f63b000] java.lang.Thread.State: WAITING (on object monitor) at java.lang.Object.wait(Native Method) at java.lang.Object.wait(Object.java:485) at sun.awt.AWTAutoShutdown.run(AWTAutoShutdown.java:265) - locked <7dd8edaa0> (a java.lang.Object) at java.lang.Thread.run(Thread.java:680) "Java2D Disposer" daemon prio=10 tid=103b45000 nid=0x11f411000 in Object.wait() [11f410000] java.lang.Thread.State: WAITING (on object monitor) at java.lang.Object.wait(Native Method) at java.lang.ref.ReferenceQueue.remove(ReferenceQueue.java:118) - locked <7dd7f7fd8> (a java.lang.ref.ReferenceQueue$Lock) at java.lang.ref.ReferenceQueue.remove(ReferenceQueue.java:134) at sun.java2d.Disposer.run(Disposer.java:127) at java.lang.Thread.run(Thread.java:680) "Timer-0" daemon prio=5 tid=1038bf800 nid=0x11e1fa000 in Object.wait() [11e1f9000] java.lang.Thread.State: WAITING (on object monitor) at java.lang.Object.wait(Native Method) - waiting on <7dd901ba0> (a java.util.TaskQueue) at java.lang.Object.wait(Object.java:485) at java.util.TimerThread.mainLoop(Timer.java:483) - locked <7dd901ba0> (a java.util.TaskQueue) at java.util.TimerThread.run(Timer.java:462) "AWT-AppKit" daemon prio=5 tid=104997800 nid=0x7fff7119aca0 runnable [00000000] java.lang.Thread.State: RUNNABLE "Low Memory Detector" daemon prio=5 tid=104895000 nid=0x10be99000 runnable [00000000] java.lang.Thread.State: RUNNABLE "C2 CompilerThread1" daemon prio=9 tid=104894000 nid=0x10bd96000 waiting on condition [00000000] java.lang.Thread.State: RUNNABLE "C2 CompilerThread0" daemon prio=9 tid=104893800 nid=0x10bc93000 waiting on condition [00000000] java.lang.Thread.State: RUNNABLE "Signal Dispatcher" daemon prio=9 tid=104892800 nid=0x10bb90000 runnable [00000000] java.lang.Thread.State: RUNNABLE "Surrogate Locker Thread (Concurrent GC)" daemon prio=5 tid=104891800 nid=0x10ba8d000 waiting on condition [00000000] java.lang.Thread.State: RUNNABLE "Finalizer" daemon prio=8 tid=103823000 nid=0x10b98a000 in Object.wait() [10b989000] java.lang.Thread.State: WAITING (on object monitor) at java.lang.Object.wait(Native Method) at java.lang.ref.ReferenceQueue.remove(ReferenceQueue.java:118) - locked <7dd901c90> (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=103822800 nid=0x10b887000 in Object.wait() [10b886000] java.lang.Thread.State: WAITING (on object monitor) at java.lang.Object.wait(Native Method) at java.lang.Object.wait(Object.java:485) at java.lang.ref.Reference$ReferenceHandler.run(Reference.java:116) - locked <7dd7b1078> (a java.lang.ref.Reference$Lock) "VM Thread" prio=9 tid=10381e000 nid=0x10b784000 runnable "Gang worker#0 (Parallel GC Threads)" prio=9 tid=104800800 nid=0x104304000 runnable "Gang worker#1 (Parallel GC Threads)" prio=9 tid=104801000 nid=0x104407000 runnable "Concurrent Mark-Sweep GC Thread" prio=9 tid=10484c000 nid=0x10b490000 runnable "VM Periodic Task Thread" prio=10 tid=1048a6800 nid=0x10bf9c000 waiting on condition "Exception Catcher Thread" prio=10 tid=103801800 nid=0x104201000 runnable JNI global references: 36883