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[protege-owl] Problem with viewing individuals in Protege

Tania Tudorache tudorache at stanford.edu
Tue Aug 28 17:17:53 PDT 2007


Bartek,

Thank you for the bug report. We have fixed this for the next Protege 
beta build.

Cheers,
Tania

Bartosz Porzuczek wrote:
> Hi,
>
> I have strange problem with viewing some individuals in Protege. When 
> I try to list individuals of given class (it happens for all 
> subclasses of EntityBiologicalMolecule class in my ontology), 
> sometimes I get exception [1] for every individual of that subclass.
> I attach simple file, where problem occurs. Problem doesn't occur 
> every time when I open file. I tried this with several versions of 
> Protege (including 3.3 beta, build 414, and latest 3.3.1 build 430).
> I validated file using http://www.mygrid.org.uk/OWL/Validator, and it 
> shows that ontology is OWL DL, with no errors or warnings.
>
> Do you have any idea how to eliminate this? Is this a problem with my 
> ontology?
>
> Best regards,
> Bartek
>
> [1] stack trace:
> WARNING: Error at getting browser slot pattern for 
> SimpleInstance(H___cytosol_ o
> f [DefaultOWLNamedClass(cso:SmallMolecule, FrameID(5:11586 1))]) -- 
> java.lang.Cl
> assCastException: 
> edu.stanford.smi.protegex.owl.model.impl.DefaultRDFProperty
> at edu.stanford.smi.protege.model.Project.getInheritedBrowserSlotPattern
> (Unknown Source)
> at edu.stanford.smi.protege.model.Project.getBrowserSlotPattern(Unknown
> Source)
> at edu.stanford.smi.protegex.owl.ui.widget.OWLUI.fixBrowserSlotPattern(U
> nknown Source)
> at edu.stanford.smi.protegex.owl.model.impl.AbstractOWLModel.getBrowserT
> ext(Unknown Source)
> at edu.stanford.smi.protege.model.DefaultInstance.getBrowserText(Unknown
> Source)
> at edu.stanford.smi.protege.ui.FrameRenderer.loadInstance(Unknown Source
> )
> at edu.stanford.smi.protege.ui.FrameRenderer.load(Unknown Source)
> at edu.stanford.smi.protegex.owl.ui.ResourceRenderer.load(Unknown Source
> )
> at edu.stanford.smi.protege.util.DefaultRenderer.setup(Unknown Source)
> at edu.stanford.smi.protege.util.DefaultRenderer.getListCellRendererComp
> onent(Unknown Source)
> at javax.swing.plaf.basic.BasicListUI.paintCell(Unknown Source)
> at javax.swing.plaf.basic.BasicListUI.paint(Unknown Source)
> at javax.swing.plaf.ComponentUI.update(Unknown Source)
> at javax.swing.JComponent.paintComponent(Unknown Source)
> at javax.swing.JComponent.paint(Unknown Source)
> at javax.swing.JComponent.paintWithOffscreenBuffer(Unknown Source)
> at javax.swing.JComponent.paintDoubleBuffered(Unknown Source)
> at javax.swing.JComponent._paintImmediately(Unknown Source)
> at javax.swing.JComponent.paintImmediately(Unknown Source)
> at javax.swing.RepaintManager.paintDirtyRegions(Unknown Source)
> at javax.swing.SystemEventQueueUtilities$ComponentWorkRequest.run(Unknow
> n Source)
> at java.awt.event.InvocationEvent.dispatch(Unknown Source)
> at java.awt.EventQueue.dispatchEvent(Unknown Source)
> at java.awt.EventDispatchThread.pumpOneEventForHierarchy(Unknown Source)
>
> at java.awt.EventDispatchThread.pumpEventsForHierarchy(Unknown Source)
> at java.awt.EventDispatchThread.pumpEvents(Unknown Source)
> at java.awt.EventDispatchThread.pumpEvents(Unknown Source)
> at java.awt.EventDispatchThread.run(Unknown Source)
> ------------------------------------------------------------------------
>
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