[ImageJ-bugs] [Bug 1114] severe performance and memory issues

bugzilla at fiji.sc bugzilla at fiji.sc
Thu Nov 5 03:00:42 CST 2015 

http://fiji.sc/bugzilla/show_bug.cgi?id=1114

--- Comment #3 from Radoslaw Ejsmont <radoslaw at ejsmont.net> ---
I guess as more than 1 user has experienced this it makes it confirmed :)

I do not know if it helps, but here is the stack trace:

"AWT-EventQueue-0" prio=6 id=15 group=main
   java.lang.Thread.State: WAITING
    at sun.misc.Unsafe.park(Native Method)
    at java.util.concurrent.locks.LockSupport.park(LockSupport.java:175)
    at
java.util.concurrent.locks.AbstractQueuedSynchronizer$ConditionObject.await(AbstractQueuedSynchronizer.java:2039)
    at java.awt.EventQueue.getNextEvent(EventQueue.java:554)
    at
java.awt.EventDispatchThread.pumpOneEventForFilters(EventDispatchThread.java:170)
    at
java.awt.EventDispatchThread.pumpEventsForFilter(EventDispatchThread.java:116)
    at
java.awt.EventDispatchThread.pumpEventsForHierarchy(EventDispatchThread.java:105)
    at java.awt.EventDispatchThread.pumpEvents(EventDispatchThread.java:101)
    at java.awt.EventDispatchThread.pumpEvents(EventDispatchThread.java:93)
    at java.awt.EventDispatchThread.run(EventDispatchThread.java:82)

"AWT-Shutdown" prio=5 id=12 group=system
   java.lang.Thread.State: WAITING
    at java.lang.Object.wait(Native Method)
    at java.lang.Object.wait(Object.java:502)
    at sun.awt.AWTAutoShutdown.run(AWTAutoShutdown.java:295)
    at java.lang.Thread.run(Thread.java:745)

"AppKit Thread" daemon prio=5 id=11 group=system
   java.lang.Thread.State: RUNNABLE

"DestroyJavaVM" prio=5 id=27 group=main
   java.lang.Thread.State: RUNNABLE

"Finalizer" daemon prio=8 id=3 group=system
   java.lang.Thread.State: WAITING
    at java.lang.Object.wait(Native Method)
    at java.lang.ref.ReferenceQueue.remove(ReferenceQueue.java:143)
    at java.lang.ref.ReferenceQueue.remove(ReferenceQueue.java:164)
    at java.lang.ref.Finalizer$FinalizerThread.run(Finalizer.java:209)

"GC Daemon" daemon prio=2 id=26 group=system
   java.lang.Thread.State: TIMED_WAITING
    at java.lang.Object.wait(Native Method)
    at sun.misc.GC$Daemon.run(GC.java:117)

"Java2D Disposer" daemon prio=10 id=14 group=system
   java.lang.Thread.State: WAITING
    at java.lang.Object.wait(Native Method)
    at java.lang.ref.ReferenceQueue.remove(ReferenceQueue.java:143)
    at java.lang.ref.ReferenceQueue.remove(ReferenceQueue.java:164)
    at sun.java2d.Disposer.run(Disposer.java:148)
    at java.lang.Thread.run(Thread.java:745)

"Java2D Queue Flusher" daemon prio=10 id=13 group=system
   java.lang.Thread.State: TIMED_WAITING
    at java.lang.Object.wait(Native Method)
    at
sun.java2d.opengl.OGLRenderQueue$QueueFlusher.run(OGLRenderQueue.java:203)

"RMI Reaper" prio=5 id=25 group=system
   java.lang.Thread.State: WAITING
    at java.lang.Object.wait(Native Method)
    at java.lang.ref.ReferenceQueue.remove(ReferenceQueue.java:143)
    at java.lang.ref.ReferenceQueue.remove(ReferenceQueue.java:164)
    at sun.rmi.transport.ObjectTable$Reaper.run(ObjectTable.java:351)
    at java.lang.Thread.run(Thread.java:745)

"RMI TCP Accept-0" daemon prio=5 id=24 group=system
   java.lang.Thread.State: RUNNABLE
    at java.net.PlainSocketImpl.socketAccept(Native Method)
    at
java.net.AbstractPlainSocketImpl.accept(AbstractPlainSocketImpl.java:404)
    at java.net.ServerSocket.implAccept(ServerSocket.java:545)
    at java.net.ServerSocket.accept(ServerSocket.java:513)
    at
sun.rmi.transport.tcp.TCPTransport$AcceptLoop.executeAcceptLoop(TCPTransport.java:400)
    at sun.rmi.transport.tcp.TCPTransport$AcceptLoop.run(TCPTransport.java:372)
    at java.lang.Thread.run(Thread.java:745)

"Reference Handler" daemon prio=10 id=2 group=system
   java.lang.Thread.State: WAITING
    at java.lang.Object.wait(Native Method)
    at java.lang.Object.wait(Object.java:502)
    at java.lang.ref.Reference$ReferenceHandler.run(Reference.java:157)

"SciJava-477710de-Thread-2" prio=6 id=95 group=main
   java.lang.Thread.State: RUNNABLE
    at java.lang.Thread.dumpThreads(Native Method)
    at java.lang.Thread.getAllStackTraces(Thread.java:1603)
    at org.scijava.plugins.commands.debug.DumpStack.run(DumpStack.java:80)
    at org.scijava.command.CommandModule.run(CommandModule.java:201)
    at org.scijava.module.ModuleRunner.run(ModuleRunner.java:167)
    at org.scijava.module.ModuleRunner.call(ModuleRunner.java:126)
    at org.scijava.module.ModuleRunner.call(ModuleRunner.java:65)
    at
org.scijava.thread.DefaultThreadService$2.call(DefaultThreadService.java:191)
    at java.util.concurrent.FutureTask.run(FutureTask.java:266)
    at
java.util.concurrent.ThreadPoolExecutor.runWorker(ThreadPoolExecutor.java:1142)
    at
java.util.concurrent.ThreadPoolExecutor$Worker.run(ThreadPoolExecutor.java:617)
    at java.lang.Thread.run(Thread.java:745)

"SciJava-477710de-Thread-3" prio=6 id=96 group=main
   java.lang.Thread.State: TIMED_WAITING
    at sun.misc.Unsafe.park(Native Method)
    at java.util.concurrent.locks.LockSupport.parkNanos(LockSupport.java:215)
    at
java.util.concurrent.SynchronousQueue$TransferStack.awaitFulfill(SynchronousQueue.java:460)
    at
java.util.concurrent.SynchronousQueue$TransferStack.transfer(SynchronousQueue.java:362)
    at java.util.concurrent.SynchronousQueue.poll(SynchronousQueue.java:941)
    at
java.util.concurrent.ThreadPoolExecutor.getTask(ThreadPoolExecutor.java:1066)
    at
java.util.concurrent.ThreadPoolExecutor.runWorker(ThreadPoolExecutor.java:1127)
    at
java.util.concurrent.ThreadPoolExecutor$Worker.run(ThreadPoolExecutor.java:617)
    at java.lang.Thread.run(Thread.java:745)

"Signal Dispatcher" daemon prio=9 id=5 group=system
   java.lang.Thread.State: RUNNABLE

"Timer-0" daemon prio=5 id=18 group=main
   java.lang.Thread.State: WAITING
    at java.lang.Object.wait(Native Method)
    at java.lang.Object.wait(Object.java:502)
    at java.util.TimerThread.mainLoop(Timer.java:526)
    at java.util.TimerThread.run(Timer.java:505)

"TimerQueue" daemon prio=5 id=29 group=system
   java.lang.Thread.State: WAITING
    at sun.misc.Unsafe.park(Native Method)
    at java.util.concurrent.locks.LockSupport.park(LockSupport.java:175)
    at
java.util.concurrent.locks.AbstractQueuedSynchronizer$ConditionObject.await(AbstractQueuedSynchronizer.java:2039)
    at java.util.concurrent.DelayQueue.take(DelayQueue.java:211)
    at javax.swing.TimerQueue.run(TimerQueue.java:171)
    at java.lang.Thread.run(Thread.java:745)

"zSelector" prio=4 id=90 group=main
   java.lang.Thread.State: WAITING
    at java.lang.Object.wait(Native Method)
    at java.lang.Object.wait(Object.java:502)
    at ij.gui.StackWindow.run(StackWindow.java:228)
    at java.lang.Thread.run(Thread.java:745)

"zSelector" prio=4 id=89 group=main
   java.lang.Thread.State: WAITING
    at java.lang.Object.wait(Native Method)
    at java.lang.Object.wait(Object.java:502)
    at ij.gui.StackWindow.run(StackWindow.java:228)
    at java.lang.Thread.run(Thread.java:745)

"zSelector" prio=4 id=87 group=main
   java.lang.Thread.State: WAITING
    at java.lang.Object.wait(Native Method)
    at java.lang.Object.wait(Object.java:502)
    at ij.gui.StackWindow.run(StackWindow.java:228)
    at java.lang.Thread.run(Thread.java:745)

u0078517 at gbw-l-m0237 ~ $ ps aux | grep Fiji
USER              PID  %CPU %MEM      VSZ    RSS   TT  STAT STARTED      TIME
COMMAND
u0078517        11228   0.0 26.3 13121576 2202100   ??  S     7:23AM   9:48.64
/Applications/Fiji.app/Contents/MacOS/ImageJ-macosx

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