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Task #12482 (closed)

Opened 10 years ago

Closed 10 years ago

Bug: AbnormalExit on 231 search

Reported by: jamoore Owned by: jburel
Priority: blocker Milestone: 5.0.3
Component: Insight Version: 5.0.2
Keywords: n.a. Cc: java@…
Resources: n.a. Referenced By: n.a.
References: n.a. Remaining Time: n.a.
Sprint: n.a.

Description

​https://docs.google.com/a/glencoesoftware.com/spreadsheets/d/1Segxsec1uP-XR9IlJVecQpP8p3tAWfkaE3_2jZgVKHA/edit#gid=2071602124
Row: 31 (Colin)

Searching for the number 231 in Insight causes an instant crash! Other numbers appear to be okay (I've not tried them all!)
and 231 works okay in Web. It should return a Dataset (found by ID) and two LEI images. The exception (fuller stack trace on request) in the Insight log is below.

Digging a little this happens for any number that would return a Dataset or project by their ID.

2014-07-21 15:22:22,800 ERROR [ o.o.shoola.env.AbnormalExitHandler] (entQueue-0) Abnormal termination due to an uncaught exception.
java.lang.IllegalStateException: Event does not contain timestamp.
at pojos.DataObject.timeOfEvent(DataObject.java:351)
at pojos.DataObject.getCreated(DataObject.java:382)
at org.openmicroscopy.shoola.agents.dataBrowser.view.SearchResultTableModel.getIDate(SearchResultTableModel.java:149)
at org.openmicroscopy.shoola.agents.dataBrowser.view.SearchResultTableModel.getValueAt(SearchResultTableModel.java:116)
at org.jdesktop.swingx.JXTable.getValueAt(JXTable.java:1381)
...

Change History (5)

comment:1 Changed 10 years ago by cblackburn

Full stack trace:

2014-07-21 15:22:22,800 ERROR [      o.o.shoola.env.AbnormalExitHandler] (entQueue-0) Abnormal termination due to an uncaught exception.
java.lang.IllegalStateException: Event does not contain timestamp.
	at pojos.DataObject.timeOfEvent(DataObject.java:351)
	at pojos.DataObject.getCreated(DataObject.java:382)
	at org.openmicroscopy.shoola.agents.dataBrowser.view.SearchResultTableModel.getIDate(SearchResultTableModel.java:149)
	at org.openmicroscopy.shoola.agents.dataBrowser.view.SearchResultTableModel.getValueAt(SearchResultTableModel.java:116)
	at org.jdesktop.swingx.JXTable.getValueAt(JXTable.java:1381)
	at javax.swing.JTable.prepareRenderer(JTable.java:5701)
	at org.jdesktop.swingx.JXTable.prepareRenderer(JXTable.java:3382)
	at javax.swing.plaf.basic.BasicTableUI.paintCell(BasicTableUI.java:2072)
	at javax.swing.plaf.basic.BasicTableUI.paintCells(BasicTableUI.java:1974)
	at javax.swing.plaf.basic.BasicTableUI.paint(BasicTableUI.java:1770)
	at javax.swing.plaf.ComponentUI.update(ComponentUI.java:153)
	at javax.swing.JComponent.paintComponent(JComponent.java:760)
	at javax.swing.JComponent.paint(JComponent.java:1037)
	at javax.swing.JComponent.paintChildren(JComponent.java:870)
	at javax.swing.JComponent.paint(JComponent.java:1046)
	at javax.swing.JViewport.paint(JViewport.java:795)
	at javax.swing.JComponent.paintChildren(JComponent.java:870)
	at javax.swing.JComponent.paint(JComponent.java:1046)
	at javax.swing.JComponent.paintChildren(JComponent.java:870)
	at javax.swing.JComponent.paint(JComponent.java:1046)
	at javax.swing.JComponent.paintChildren(JComponent.java:870)
	at javax.swing.JComponent.paint(JComponent.java:1046)
	at javax.swing.JComponent.paintChildren(JComponent.java:870)
	at javax.swing.JComponent.paint(JComponent.java:1046)
	at javax.swing.JViewport.paint(JViewport.java:795)
	at javax.swing.JComponent.paintChildren(JComponent.java:870)
	at javax.swing.JComponent.paint(JComponent.java:1046)
	at javax.swing.JComponent._paintImmediately(JComponent.java:5106)
	at javax.swing.JComponent.paintImmediately(JComponent.java:4890)
	at javax.swing.RepaintManager$3.run(RepaintManager.java:814)
	at javax.swing.RepaintManager$3.run(RepaintManager.java:802)
	at java.security.AccessController.doPrivileged(Native Method)
	at java.security.AccessControlContext$1.doIntersectionPrivilege(AccessControlContext.java:86)
	at javax.swing.RepaintManager.paintDirtyRegions(RepaintManager.java:802)
	at javax.swing.RepaintManager.paintDirtyRegions(RepaintManager.java:745)
	at javax.swing.RepaintManager.prePaintDirtyRegions(RepaintManager.java:725)
	at javax.swing.RepaintManager.access$1000(RepaintManager.java:46)
	at javax.swing.RepaintManager$ProcessingRunnable.run(RepaintManager.java:1680)
	at java.awt.event.InvocationEvent.dispatch(InvocationEvent.java:209)
	at java.awt.EventQueue.dispatchEventImpl(EventQueue.java:715)
	at java.awt.EventQueue.access$400(EventQueue.java:82)
	at java.awt.EventQueue$2.run(EventQueue.java:676)
	at java.awt.EventQueue$2.run(EventQueue.java:674)
	at java.security.AccessController.doPrivileged(Native Method)
	at java.security.AccessControlContext$1.doIntersectionPrivilege(AccessControlContext.java:86)
	at java.awt.EventQueue.dispatchEvent(EventQueue.java:685)
	at java.awt.EventDispatchThread.pumpOneEventForFilters(EventDispatchThread.java:296)
	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)
Abnormal termination due to an uncaught exception.
java.lang.IllegalStateException: Event does not contain timestamp.
	at pojos.DataObject.timeOfEvent(DataObject.java:351)
	at pojos.DataObject.getCreated(DataObject.java:382)
	at org.openmicroscopy.shoola.agents.dataBrowser.view.SearchResultTableModel.getIDate(SearchResultTableModel.java:149)
	at org.openmicroscopy.shoola.agents.dataBrowser.view.SearchResultTableModel.getValueAt(SearchResultTableModel.java:116)
	at org.jdesktop.swingx.JXTable.getValueAt(JXTable.java:1381)
	at javax.swing.JTable.prepareRenderer(JTable.java:5701)
	at org.jdesktop.swingx.JXTable.prepareRenderer(JXTable.java:3382)
	at javax.swing.plaf.basic.BasicTableUI.paintCell(BasicTableUI.java:2072)
	at javax.swing.plaf.basic.BasicTableUI.paintCells(BasicTableUI.java:1974)
	at javax.swing.plaf.basic.BasicTableUI.paint(BasicTableUI.java:1770)
	at javax.swing.plaf.ComponentUI.update(ComponentUI.java:153)
	at javax.swing.JComponent.paintComponent(JComponent.java:760)
	at javax.swing.JComponent.paint(JComponent.java:1037)
	at javax.swing.JComponent.paintChildren(JComponent.java:870)
	at javax.swing.JComponent.paint(JComponent.java:1046)
	at javax.swing.JViewport.paint(JViewport.java:795)
	at javax.swing.JComponent.paintChildren(JComponent.java:870)
	at javax.swing.JComponent.paint(JComponent.java:1046)
	at javax.swing.JComponent.paintChildren(JComponent.java:870)
	at javax.swing.JComponent.paint(JComponent.java:1046)
	at javax.swing.JComponent.paintChildren(JComponent.java:870)
	at javax.swing.JComponent.paint(JComponent.java:1046)
	at javax.swing.JComponent.paintChildren(JComponent.java:870)
	at javax.swing.JComponent.paint(JComponent.java:1046)
	at javax.swing.JViewport.paint(JViewport.java:795)
	at javax.swing.JComponent.paintChildren(JComponent.java:870)
	at javax.swing.JComponent.paint(JComponent.java:1046)
	at javax.swing.JComponent._paintImmediately(JComponent.java:5106)
	at javax.swing.JComponent.paintImmediately(JComponent.java:4890)
	at javax.swing.RepaintManager$3.run(RepaintManager.java:814)
	at javax.swing.RepaintManager$3.run(RepaintManager.java:802)
	at java.security.AccessController.doPrivileged(Native Method)
	at java.security.AccessControlContext$1.doIntersectionPrivilege(AccessControlContext.java:86)
	at javax.swing.RepaintManager.paintDirtyRegions(RepaintManager.java:802)
	at javax.swing.RepaintManager.paintDirtyRegions(RepaintManager.java:745)
	at javax.swing.RepaintManager.prePaintDirtyRegions(RepaintManager.java:725)
	at javax.swing.RepaintManager.access$1000(RepaintManager.java:46)
	at javax.swing.RepaintManager$ProcessingRunnable.run(RepaintManager.java:1680)
	at java.awt.event.InvocationEvent.dispatch(InvocationEvent.java:209)
	at java.awt.EventQueue.dispatchEventImpl(EventQueue.java:715)
	at java.awt.EventQueue.access$400(EventQueue.java:82)
	at java.awt.EventQueue$2.run(EventQueue.java:676)
	at java.awt.EventQueue$2.run(EventQueue.java:674)
	at java.security.AccessController.doPrivileged(Native Method)
	at java.security.AccessControlContext$1.doIntersectionPrivilege(AccessControlContext.java:86)
	at java.awt.EventQueue.dispatchEvent(EventQueue.java:685)
	at java.awt.EventDispatchThread.pumpOneEventForFilters(EventDispatchThread.java:296)
	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)
Exception in thread "AWT-EventQueue-0"
 
2014-07-21 15:22:22,978 ERROR [o.o.s.e.data.views.calls.ThumbnailLoader] ( Thread-16) Cannot retrieve thumbnailIce.CommunicatorDestroyedException
	at IceInternal.ConnectRequestHandler.initialized(ConnectRequestHandler.java:370)
	at IceInternal.ConnectRequestHandler.connect(ConnectRequestHandler.java:47)
	at Ice._ObjectDelM.setup(_ObjectDelM.java:264)
	at Ice.ObjectPrxHelperBase.createDelegate(ObjectPrxHelperBase.java:2299)
	at Ice.ObjectPrxHelperBase.__getDelegate(ObjectPrxHelperBase.java:2204)
	at omero.api.ThumbnailStorePrxHelper.getThumbnail(ThumbnailStorePrxHelper.java:1814)
	at omero.api.ThumbnailStorePrxHelper.getThumbnail(ThumbnailStorePrxHelper.java:1788)
	at org.openmicroscopy.shoola.env.data.views.calls.ThumbnailLoader.loadThumbail(ThumbnailLoader.java:144)
	at org.openmicroscopy.shoola.env.data.views.calls.ThumbnailLoader.access$700(ThumbnailLoader.java:77)
	at org.openmicroscopy.shoola.env.data.views.calls.ThumbnailLoader$2.doCall(ThumbnailLoader.java:241)
	at org.openmicroscopy.shoola.env.data.views.BatchCall.doStep(BatchCall.java:144)
	at org.openmicroscopy.shoola.util.concur.tasks.CompositeTask.doStep(CompositeTask.java:226)
	at org.openmicroscopy.shoola.env.data.views.CompositeBatchCall.doStep(CompositeBatchCall.java:126)
	at org.openmicroscopy.shoola.util.concur.tasks.ExecCommand.exec(ExecCommand.java:165)
	at org.openmicroscopy.shoola.util.concur.tasks.ExecCommand.run(ExecCommand.java:276)
	at org.openmicroscopy.shoola.util.concur.tasks.AsyncProcessor$Runner.run(AsyncProcessor.java:91)
	at java.lang.Thread.run(Thread.java:695)
Cannot retrieve thumbnailIce.CommunicatorDestroyedException
	at IceInternal.ConnectRequestHandler.initialized(ConnectRequestHandler.java:370)
	at IceInternal.ConnectRequestHandler.connect(ConnectRequestHandler.java:47)
	at Ice._ObjectDelM.setup(_ObjectDelM.java:264)
	at Ice.ObjectPrxHelperBase.createDelegate(ObjectPrxHelperBase.java:2299)
	at Ice.ObjectPrxHelperBase.__getDelegate(ObjectPrxHelperBase.java:2204)
	at omero.api.ThumbnailStorePrxHelper.getThumbnail(ThumbnailStorePrxHelper.java:1814)
	at omero.api.ThumbnailStorePrxHelper.getThumbnail(ThumbnailStorePrxHelper.java:1788)
	at org.openmicroscopy.shoola.env.data.views.calls.ThumbnailLoader.loadThumbail(ThumbnailLoader.java:144)
	at org.openmicroscopy.shoola.env.data.views.calls.ThumbnailLoader.access$700(ThumbnailLoader.java:77)
	at org.openmicroscopy.shoola.env.data.views.calls.ThumbnailLoader$2.doCall(ThumbnailLoader.java:241)
	at org.openmicroscopy.shoola.env.data.views.BatchCall.doStep(BatchCall.java:144)
	at org.openmicroscopy.shoola.util.concur.tasks.CompositeTask.doStep(CompositeTask.java:226)
	at org.openmicroscopy.shoola.env.data.views.CompositeBatchCall.doStep(CompositeBatchCall.java:126)
	at org.openmicroscopy.shoola.util.concur.tasks.ExecCommand.exec(ExecCommand.java:165)
	at org.openmicroscopy.shoola.util.concur.tasks.ExecCommand.run(ExecCommand.java:276)
	at org.openmicroscopy.shoola.util.concur.tasks.AsyncProcessor$Runner.run(AsyncProcessor.java:91)
	at java.lang.Thread.run(Thread.java:695)
Exception in thread "Thread-16"
 
2014-07-21 15:22:22,979 ERROR [o.o.s.e.data.views.calls.ThumbnailLoader] ( Thread-16) Cannot retrieve thumbnailIce.CommunicatorDestroyedException
	at IceInternal.ConnectRequestHandler.initialized(ConnectRequestHandler.java:370)
	at IceInternal.ConnectRequestHandler.connect(ConnectRequestHandler.java:47)
	at Ice._ObjectDelM.setup(_ObjectDelM.java:264)
	at Ice.ObjectPrxHelperBase.createDelegate(ObjectPrxHelperBase.java:2299)
	at Ice.ObjectPrxHelperBase.__getDelegate(ObjectPrxHelperBase.java:2204)
	at omero.api.ThumbnailStorePrxHelper.setPixelsId(ThumbnailStorePrxHelper.java:3565)
	at omero.api.ThumbnailStorePrxHelper.setPixelsId(ThumbnailStorePrxHelper.java:3539)
	at org.openmicroscopy.shoola.env.data.views.calls.ThumbnailLoader.loadThumbail(ThumbnailLoader.java:136)
	at org.openmicroscopy.shoola.env.data.views.calls.ThumbnailLoader.access$700(ThumbnailLoader.java:77)
	at org.openmicroscopy.shoola.env.data.views.calls.ThumbnailLoader$2.doCall(ThumbnailLoader.java:241)
	at org.openmicroscopy.shoola.env.data.views.BatchCall.doStep(BatchCall.java:144)
	at org.openmicroscopy.shoola.util.concur.tasks.CompositeTask.doStep(CompositeTask.java:226)
	at org.openmicroscopy.shoola.env.data.views.CompositeBatchCall.doStep(CompositeBatchCall.java:126)
	at org.openmicroscopy.shoola.util.concur.tasks.ExecCommand.exec(ExecCommand.java:165)
	at org.openmicroscopy.shoola.util.concur.tasks.ExecCommand.run(ExecCommand.java:276)
	at org.openmicroscopy.shoola.util.concur.tasks.AsyncProcessor$Runner.run(AsyncProcessor.java:91)
	at java.lang.Thread.run(Thread.java:695)
Cannot retrieve thumbnailIce.CommunicatorDestroyedException
	at IceInternal.ConnectRequestHandler.initialized(ConnectRequestHandler.java:370)
	at IceInternal.ConnectRequestHandler.connect(ConnectRequestHandler.java:47)
	at Ice._ObjectDelM.setup(_ObjectDelM.java:264)
	at Ice.ObjectPrxHelperBase.createDelegate(ObjectPrxHelperBase.java:2299)
	at Ice.ObjectPrxHelperBase.__getDelegate(ObjectPrxHelperBase.java:2204)
	at omero.api.ThumbnailStorePrxHelper.setPixelsId(ThumbnailStorePrxHelper.java:3565)
	at omero.api.ThumbnailStorePrxHelper.setPixelsId(ThumbnailStorePrxHelper.java:3539)
	at org.openmicroscopy.shoola.env.data.views.calls.ThumbnailLoader.loadThumbail(ThumbnailLoader.java:136)
	at org.openmicroscopy.shoola.env.data.views.calls.ThumbnailLoader.access$700(ThumbnailLoader.java:77)
	at org.openmicroscopy.shoola.env.data.views.calls.ThumbnailLoader$2.doCall(ThumbnailLoader.java:241)
	at org.openmicroscopy.shoola.env.data.views.BatchCall.doStep(BatchCall.java:144)
	at org.openmicroscopy.shoola.util.concur.tasks.CompositeTask.doStep(CompositeTask.java:226)
	at org.openmicroscopy.shoola.env.data.views.CompositeBatchCall.doStep(CompositeBatchCall.java:126)
	at org.openmicroscopy.shoola.util.concur.tasks.ExecCommand.exec(ExecCommand.java:165)
	at org.openmicroscopy.shoola.util.concur.tasks.ExecCommand.run(ExecCommand.java:276)
	at org.openmicroscopy.shoola.util.concur.tasks.AsyncProcessor$Runner.run(AsyncProcessor.java:91)
	at java.lang.Thread.run(Thread.java:695)
Exception in thread "Thread-16"
 
2014-07-21 15:22:22,979 DEBUG [          o.o.shoola.util.NetworkChecker] ( Thread-16) Cached networkup: true 
2014-07-21 15:22:22,980 DEBUG [           o.o.shoola.env.data.Connector] ( Thread-16) Failed to close db31b8e1-0255-40ab-b0ae-fe5ece362b79/71742420-3817-46ec-be38-5159616a254comero.api.ThumbnailStore -t -e 1.0:tcp -h 192.168.56.1 -p 36349:tcp -h 134.36.65.241 -p 36349(Ice.CommunicatorDestroyedException
	at IceInternal.ConnectRequestHandler.initialized(ConnectRequestHandler.java:370)
	at IceInternal.ConnectRequestHandler.connect(ConnectRequestHandler.java:47)
	at Ice._ObjectDelM.setup(_ObjectDelM.java:264)
	at Ice.ObjectPrxHelperBase.createDelegate(ObjectPrxHelperBase.java:2299)
	at Ice.ObjectPrxHelperBase.__getDelegate(ObjectPrxHelperBase.java:2204)
	at omero.api.ThumbnailStorePrxHelper.close(ThumbnailStorePrxHelper.java:354)
	at omero.api.ThumbnailStorePrxHelper.close(ThumbnailStorePrxHelper.java:318)
	at org.openmicroscopy.shoola.env.data.Connector.close(Connector.java:706)
	at org.openmicroscopy.shoola.env.data.OMEROGateway.closeService(OMEROGateway.java:3841)
	at org.openmicroscopy.shoola.env.data.OmeroDataServiceImpl.closeService(OmeroDataServiceImpl.java:1209)
	at org.openmicroscopy.shoola.env.data.views.calls.ThumbnailLoader.loadThumbail(ThumbnailLoader.java:155)
	at org.openmicroscopy.shoola.env.data.views.calls.ThumbnailLoader.access$700(ThumbnailLoader.java:77)
	at org.openmicroscopy.shoola.env.data.views.calls.ThumbnailLoader$2.doCall(ThumbnailLoader.java:241)
	at org.openmicroscopy.shoola.env.data.views.BatchCall.doStep(BatchCall.java:144)
	at org.openmicroscopy.shoola.util.concur.tasks.CompositeTask.doStep(CompositeTask.java:226)
	at org.openmicroscopy.shoola.env.data.views.CompositeBatchCall.doStep(CompositeBatchCall.java:126)
	at org.openmicroscopy.shoola.util.concur.tasks.ExecCommand.exec(ExecCommand.java:165)
	at org.openmicroscopy.shoola.util.concur.tasks.ExecCommand.run(ExecCommand.java:276)
	at org.openmicroscopy.shoola.util.concur.tasks.AsyncProcessor$Runner.run(AsyncProcessor.java:91)
	at java.lang.Thread.run(Thread.java:695)
)

comment:2 Changed 10 years ago by dlindner

Cause: When searching for IDs, I use the IQueryPrx.find() method, this doesn't seem to initialize the object properly (creation data not initialized).

comment:3 Changed 10 years ago by dlindner

This PR would at least prevent the crash: ​https://github.com/openmicroscopy/openmicroscopy/pull/2841

comment:4 Changed 10 years ago by jamoore

Dominik, query.findByQuery("select i from Image i join fetch i.details.creationEvent", ...) should get you that data. I'm not sure if there's an existing method for doing that.

comment:5 Changed 10 years ago by dlindner

  • Resolution set to fixed
  • Status changed from new to closed

Fixed by PR ​https://github.com/openmicroscopy/openmicroscopy/pull/2841

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