Error logged
java.lang.RuntimeException: java.lang.RuntimeException: org.semanticweb.owlapi.model.OWLOntologyRenameException: Could not rename ontology. An ontology with this ID already exists: <http://ecoinformatics.org/oboe/oboe.1.0/oboe.owl>
at org.protege.owlapi.model.ProtegeOWLOntologyManager.callWithWriteLockUnchecked(ProtegeOWLOntologyManager.java:193)
at org.protege.owlapi.model.ProtegeOWLOntologyManager.applyChange(ProtegeOWLOntologyManager.java:137)
at org.coode.owlapi.rdfxml.parser.OWLRDFConsumer.applyChange(OWLRDFConsumer.java:826)
at org.coode.owlapi.rdfxml.parser.TypeOntologyHandler.handleTriple(TypeOntologyHandler.java:29)
at org.coode.owlapi.rdfxml.parser.OWLRDFConsumer.handleStreaming(OWLRDFConsumer.java:1563)
at org.coode.owlapi.rdfxml.parser.OWLRDFConsumer.statementWithResourceValue(OWLRDFConsumer.java:1538)
at org.semanticweb.owlapi.rdf.syntax.RDFParser.statementWithResourceValue(RDFParser.java:556)
at org.semanticweb.owlapi.rdf.syntax.RDFParser$NodeElement.startElement(RDFParser.java:848)
at
org.semanticweb.owlapi.rdf.syntax.RDFParser$NodeElementList.startElement(RDFParser.java:777)
at org.semanticweb.owlapi.rdf.syntax.RDFParser.startElement(RDFParser.java:261)
at org.coode.owlapi.rdfxml.parser.RDFXMLParser$1.startElement(RDFXMLParser.java:52)
at com.sun.org.apache.xerces.internal.parsers.AbstractSAXParser.startElement(AbstractSAXParser.java:501)
at com.sun.org.apache.xerces.internal.impl.dtd.XMLDTDValidator.startElement(XMLDTDValidator.java:767)
at com.sun.org.apache.xerces.internal.impl.XMLNSDocumentScannerImpl.scanStartElement(XMLNSDocumentScannerImpl.java:400)
at com.sun.org.apache.xerces.internal.impl.XMLDocumentFragmentScannerImpl$FragmentContentDriver.next(XMLDocumentFragmentScannerImpl.java:2755)
at com.sun.org.apache.xerces.internal.impl.XMLDocumentScannerImpl.next(XMLDocumentScannerImpl.java:648)
at com.sun.org.apache.xerces.internal.impl.XMLNSDocumentScannerImpl.next(XMLNSDocumentScannerImpl.java:140)
at com.sun.org.apache.xerces.internal.impl.XMLDocumentFragmentScannerImpl.scanDocument(XMLDocumentFragmentScannerImpl.java:511)
at com.sun.org.apache.xerces.internal.parsers.XML11Configuration.parse(XML11Configuration.java:808)
at com.sun.org.apache.xerces.internal.parsers.XML11Configuration.parse(XML11Configuration.java:737)
at com.sun.org.apache.xerces.internal.parsers.XMLParser.parse(XMLParser.java:119)
at com.sun.org.apache.xerces.internal.parsers.AbstractSAXParser.parse(AbstractSAXParser.java:1205)
at com.sun.org.apache.xerces.internal.jaxp.SAXParserImpl$JAXPSAXParser.parse(SAXParserImpl.java:522)
at javax.xml.parsers.SAXParser.parse(SAXParser.java:395)
at org.semanticweb.owlapi.rdf.syntax.RDFParser.parse(RDFParser.java:153)
at org.coode.owlapi.rdfxml.parser.RDFXMLParser.parse(RDFXMLParser.java:80)
at uk.ac.manchester.cs.owl.owlapi.ParsableOWLOntologyFactory.loadOWLOntology(ParsableOWLOntologyFactory.java:165)
at uk.ac.manchester.cs.owl.owlapi.OWLOntologyManagerImpl.loadOntology(OWLOntologyManagerImpl.java:687)
at uk.ac.manchester.cs.owl.owlapi.OWLOntologyManagerImpl.loadOntologyFromOntologyDocument(OWLOntologyManagerImpl.java:644)
at edu.gonzaga.oboe.OBOETreeHierarchy.importDifferentOboe(OBOETreeHierarchy.java:217)
at edu.gonzaga.oboe.OBOETreeHierarchy.access$3(OBOETreeHierarchy.java:211)
at edu.gonzaga.oboe.OBOETreeHierarchy$2.actionPerformed(OBOETreeHierarchy.java:169)
at org.protege.editor.core.ui.view.ViewActionAdapter.actionPerformed(ViewActionAdapter.java:52)
at javax.swing.AbstractButton.fireActionPerformed(AbstractButton.java:1995)
at javax.swing.AbstractButton$Handler.actionPerformed(AbstractButton.java:2318)
at javax.swing.DefaultButtonModel.fireActionPerformed(DefaultButtonModel.java:387)
at javax.swing.DefaultButtonModel.setPressed(DefaultButtonModel.java:242)
at javax.swing.plaf.basic.BasicButtonListener.mouseReleased(BasicButtonListener.java:236)
at java.awt.AWTEventMulticaster.mouseReleased(AWTEventMulticaster.java:272)
at java.awt.Component.processMouseEvent(Component.java:6267)
at javax.swing.JComponent.processMouseEvent(JComponent.java:3267)
at java.awt.Component.processEvent(Component.java:6032)
at java.awt.Container.processEvent(Container.java:2041)
at java.awt.Component.dispatchEventImpl(Component.java:4630)
at java.awt.Container.dispatchEventImpl(Container.java:2099)
at java.awt.Component.dispatchEvent(Component.java:4460)
at java.awt.LightweightDispatcher.retargetMouseEvent(Container.java:4577)
at java.awt.LightweightDispatcher.processMouseEvent(Container.java:4238)
at java.awt.LightweightDispatcher.dispatchEvent(Container.java:4168)
at java.awt.Container.dispatchEventImpl(Container.java:2085)
at java.awt.Window.dispatchEventImpl(Window.java:2478)
at
java.awt.Component.dispatchEvent(Component.java:4460)
at java.awt.EventQueue.dispatchEvent(EventQueue.java:599)
at java.awt.EventDispatchThread.pumpOneEventForFilters(EventDispatchThread.java:269)
at java.awt.EventDispatchThread.pumpEventsForFilter(EventDispatchThread.java:184)
at java.awt.EventDispatchThread.pumpEventsForHierarchy(EventDispatchThread.java:174)
at java.awt.EventDispatchThread.pumpEvents(EventDispatchThread.java:169)
at java.awt.EventDispatchThread.pumpEvents(EventDispatchThread.java:161)
at java.awt.EventDispatchThread.run(EventDispatchThread.java:122)
Caused by: java.lang.RuntimeException: org.semanticweb.owlapi.model.OWLOntologyRenameException: Could not rename ontology. An ontology with this ID already exists: <http://ecoinformatics.org/oboe/oboe.1.0/oboe.owl>
at org.protege.owlapi.model.ProtegeOWLOntologyManager.callWithWriteLockUnchecked(ProtegeOWLOntologyManager.java:193)
at org.protege.owlapi.model.ProtegeOWLOntologyManager.applyChanges(ProtegeOWLOntologyManager.java:150)
at uk.ac.manchester.cs.owl.owlapi.OWLOntologyManagerImpl.applyChange(OWLOntologyManagerImpl.java:427)
at
org.protege.owlapi.model.ProtegeOWLOntologyManager.applyChangeSuper(ProtegeOWLOntologyManager.java:132)
at org.protege.owlapi.model.ProtegeOWLOntologyManager.access$200(ProtegeOWLOntologyManager.java:26)
at org.protege.owlapi.model.ProtegeOWLOntologyManager$3.call(ProtegeOWLOntologyManager.java:140)
at org.protege.owlapi.model.ProtegeOWLOntologyManager$3.call(ProtegeOWLOntologyManager.java:139)
at org.protege.owlapi.model.ProtegeOWLOntologyManager.callWithWriteLock(ProtegeOWLOntologyManager.java:180)
at
org.protege.owlapi.model.ProtegeOWLOntologyManager.callWithWriteLockUnchecked(ProtegeOWLOntologyManager.java:190)
... 58 more
Caused by: org.semanticweb.owlapi.model.OWLOntologyRenameException: Could not rename ontology. An ontology with this ID already exists: <http://ecoinformatics.org/oboe/oboe.1.0/oboe.owl>
at uk.ac.manchester.cs.owl.owlapi.OWLOntologyManagerImpl.checkForOntologyIDChange(OWLOntologyManagerImpl.java:476)
at uk.ac.manchester.cs.owl.owlapi.OWLOntologyManagerImpl.enactChangeApplication(OWLOntologyManagerImpl.java:371)
at uk.ac.manchester.cs.owl.owlapi.OWLOntologyManagerImpl.applyChanges(OWLOntologyManagerImpl.java:391)
at org.protege.owlapi.model.ProtegeOWLOntologyManager.applyChangesSuper(ProtegeOWLOntologyManager.java:146)
at org.protege.owlapi.model.ProtegeOWLOntologyManager.access$300(ProtegeOWLOntologyManager.java:26)
at org.protege.owlapi.model.ProtegeOWLOntologyManager$4.call(ProtegeOWLOntologyManager.java:153)
at org.protege.owlapi.model.ProtegeOWLOntologyManager$4.call(ProtegeOWLOntologyManager.java:152)
at org.protege.owlapi.model.ProtegeOWLOntologyManager.callWithWriteLock(ProtegeOWLOntologyManager.java:180)
at
org.protege.owlapi.model.ProtegeOWLOntologyManager.callWithWriteLockUnchecked(ProtegeOWLOntologyManager.java:190)
... 66 more
Uncaught Exception in thread AWT-EventQueue-0
java.lang.RuntimeException: java.lang.RuntimeException: org.semanticweb.owlapi.model.OWLOntologyRenameException: Could not rename ontology. An ontology with this ID already exists: <http://ecoinformatics.org/oboe/oboe.1.0/oboe.owl>
at org.protege.owlapi.model.ProtegeOWLOntologyManager.callWithWriteLockUnchecked(ProtegeOWLOntologyManager.java:193)
at org.protege.owlapi.model.ProtegeOWLOntologyManager.applyChange(ProtegeOWLOntologyManager.java:137)
at
org.coode.owlapi.rdfxml.parser.OWLRDFConsumer.applyChange(OWLRDFConsumer.java:826)
at org.coode.owlapi.rdfxml.parser.TypeOntologyHandler.handleTriple(TypeOntologyHandler.java:29)
at org.coode.owlapi.rdfxml.parser.OWLRDFConsumer.handleStreaming(OWLRDFConsumer.java:1563)
at org.coode.owlapi.rdfxml.parser.OWLRDFConsumer.statementWithResourceValue(OWLRDFConsumer.java:1538)
at org.semanticweb.owlapi.rdf.syntax.RDFParser.statementWithResourceValue(RDFParser.java:556)
at org.semanticweb.owlapi.rdf.syntax.RDFParser$NodeElement.startElement(RDFParser.java:848)
at org.semanticweb.owlapi.rdf.syntax.RDFParser$NodeElementList.startElement(RDFParser.java:777)
at org.semanticweb.owlapi.rdf.syntax.RDFParser.startElement(RDFParser.java:261)
at org.coode.owlapi.rdfxml.parser.RDFXMLParser$1.startElement(RDFXMLParser.java:52)
at com.sun.org.apache.xerces.internal.parsers.AbstractSAXParser.startElement(AbstractSAXParser.java:501)
at com.sun.org.apache.xerces.internal.impl.dtd.XMLDTDValidator.startElement(XMLDTDValidator.java:767)
at
com.sun.org.apache.xerces.internal.impl.XMLNSDocumentScannerImpl.scanStartElement(XMLNSDocumentScannerImpl.java:400)
at com.sun.org.apache.xerces.internal.impl.XMLDocumentFragmentScannerImpl$FragmentContentDriver.next(XMLDocumentFragmentScannerImpl.java:2755)
at com.sun.org.apache.xerces.internal.impl.XMLDocumentScannerImpl.next(XMLDocumentScannerImpl.java:648)
at com.sun.org.apache.xerces.internal.impl.XMLNSDocumentScannerImpl.next(XMLNSDocumentScannerImpl.java:140)
at com.sun.org.apache.xerces.internal.impl.XMLDocumentFragmentScannerImpl.scanDocument(XMLDocumentFragmentScannerImpl.java:511)
at
com.sun.org.apache.xerces.internal.parsers.XML11Configuration.parse(XML11Configuration.java:808)
at com.sun.org.apache.xerces.internal.parsers.XML11Configuration.parse(XML11Configuration.java:737)
at com.sun.org.apache.xerces.internal.parsers.XMLParser.parse(XMLParser.java:119)
at com.sun.org.apache.xerces.internal.parsers.AbstractSAXParser.parse(AbstractSAXParser.java:1205)
at com.sun.org.apache.xerces.internal.jaxp.SAXParserImpl$JAXPSAXParser.parse(SAXParserImpl.java:522)
at javax.xml.parsers.SAXParser.parse(SAXParser.java:395)
at
org.semanticweb.owlapi.rdf.syntax.RDFParser.parse(RDFParser.java:153)
at org.coode.owlapi.rdfxml.parser.RDFXMLParser.parse(RDFXMLParser.java:80)
at uk.ac.manchester.cs.owl.owlapi.ParsableOWLOntologyFactory.loadOWLOntology(ParsableOWLOntologyFactory.java:165)
at uk.ac.manchester.cs.owl.owlapi.OWLOntologyManagerImpl.loadOntology(OWLOntologyManagerImpl.java:687)
at uk.ac.manchester.cs.owl.owlapi.OWLOntologyManagerImpl.loadOntologyFromOntologyDocument(OWLOntologyManagerImpl.java:644)
at edu.gonzaga.oboe.OBOETreeHierarchy.importDifferentOboe(OBOETreeHierarchy.java:217)
at edu.gonzaga.oboe.OBOETreeHierarchy.access$3(OBOETreeHierarchy.java:211)
at edu.gonzaga.oboe.OBOETreeHierarchy$2.actionPerformed(OBOETreeHierarchy.java:169)
at org.protege.editor.core.ui.view.ViewActionAdapter.actionPerformed(ViewActionAdapter.java:52)
at javax.swing.AbstractButton.fireActionPerformed(AbstractButton.java:1995)
at javax.swing.AbstractButton$Handler.actionPerformed(AbstractButton.java:2318)
at javax.swing.DefaultButtonModel.fireActionPerformed(DefaultButtonModel.java:387)
at
javax.swing.DefaultButtonModel.setPressed(DefaultButtonModel.java:242)
at javax.swing.plaf.basic.BasicButtonListener.mouseReleased(BasicButtonListener.java:236)
at java.awt.AWTEventMulticaster.mouseReleased(AWTEventMulticaster.java:272)
at java.awt.Component.processMouseEvent(Component.java:6267)
at javax.swing.JComponent.processMouseEvent(JComponent.java:3267)
at java.awt.Component.processEvent(Component.java:6032)
at java.awt.Container.processEvent(Container.java:2041)
at java.awt.Component.dispatchEventImpl(Component.java:4630)
at java.awt.Container.dispatchEventImpl(Container.java:2099)
at java.awt.Component.dispatchEvent(Component.java:4460)
at java.awt.LightweightDispatcher.retargetMouseEvent(Container.java:4577)
at java.awt.LightweightDispatcher.processMouseEvent(Container.java:4238)
at java.awt.LightweightDispatcher.dispatchEvent(Container.java:4168)
at java.awt.Container.dispatchEventImpl(Container.java:2085)
at
java.awt.Window.dispatchEventImpl(Window.java:2478)
at java.awt.Component.dispatchEvent(Component.java:4460)
at java.awt.EventQueue.dispatchEvent(EventQueue.java:599)
at java.awt.EventDispatchThread.pumpOneEventForFilters(EventDispatchThread.java:269)
at java.awt.EventDispatchThread.pumpEventsForFilter(EventDispatchThread.java:184)
at java.awt.EventDispatchThread.pumpEventsForHierarchy(EventDispatchThread.java:174)
at java.awt.EventDispatchThread.pumpEvents(EventDispatchThread.java:169)
at java.awt.EventDispatchThread.pumpEvents(EventDispatchThread.java:161)
at java.awt.EventDispatchThread.run(EventDispatchThread.java:122)
Caused by: java.lang.RuntimeException: org.semanticweb.owlapi.model.OWLOntologyRenameException: Could not rename ontology. An ontology with this ID already exists: <http://ecoinformatics.org/oboe/oboe.1.0/oboe.owl>
at org.protege.owlapi.model.ProtegeOWLOntologyManager.callWithWriteLockUnchecked(ProtegeOWLOntologyManager.java:193)
at org.protege.owlapi.model.ProtegeOWLOntologyManager.applyChanges(ProtegeOWLOntologyManager.java:150)
at
uk.ac.manchester.cs.owl.owlapi.OWLOntologyManagerImpl.applyChange(OWLOntologyManagerImpl.java:427)
at org.protege.owlapi.model.ProtegeOWLOntologyManager.applyChangeSuper(ProtegeOWLOntologyManager.java:132)
at org.protege.owlapi.model.ProtegeOWLOntologyManager.access$200(ProtegeOWLOntologyManager.java:26)
at org.protege.owlapi.model.ProtegeOWLOntologyManager$3.call(ProtegeOWLOntologyManager.java:140)
at org.protege.owlapi.model.ProtegeOWLOntologyManager$3.call(ProtegeOWLOntologyManager.java:139)
at
org.protege.owlapi.model.ProtegeOWLOntologyManager.callWithWriteLock(ProtegeOWLOntologyManager.java:180)
at org.protege.owlapi.model.ProtegeOWLOntologyManager.callWithWriteLockUnchecked(ProtegeOWLOntologyManager.java:190)
... 58 more
Caused by: org.semanticweb.owlapi.model.OWLOntologyRenameException: Could not rename ontology. An ontology with this ID already exists: <http://ecoinformatics.org/oboe/oboe.1.0/oboe.owl>
at uk.ac.manchester.cs.owl.owlapi.OWLOntologyManagerImpl.checkForOntologyIDChange(OWLOntologyManagerImpl.java:476)
at uk.ac.manchester.cs.owl.owlapi.OWLOntologyManagerImpl.enactChangeApplication(OWLOntologyManagerImpl.java:371)
at uk.ac.manchester.cs.owl.owlapi.OWLOntologyManagerImpl.applyChanges(OWLOntologyManagerImpl.java:391)
at org.protege.owlapi.model.ProtegeOWLOntologyManager.applyChangesSuper(ProtegeOWLOntologyManager.java:146)
at org.protege.owlapi.model.ProtegeOWLOntologyManager.access$300(ProtegeOWLOntologyManager.java:26)
at org.protege.owlapi.model.ProtegeOWLOntologyManager$4.call(ProtegeOWLOntologyManager.java:153)
at org.protege.owlapi.model.ProtegeOWLOntologyManager$4.call(ProtegeOWLOntologyManager.java:152)
at
org.protege.owlapi.model.ProtegeOWLOntologyManager.callWithWriteLock(ProtegeOWLOntologyManager.java:180)
at org.protege.owlapi.model.ProtegeOWLOntologyManager.callWithWriteLockUnchecked(ProtegeOWLOntologyManager.java:190)
... 66 more
--- On
Thu, 7/21/11, Wesley Saunders <[hidden email]> wrote:
From: Wesley Saunders <[hidden email]>
Subject: [p4-feedback] Custom import ontology button problem
To: "protege" <[hidden email]>
Date: Thursday, July 21, 2011, 1:22 PM
Hello all,
Ive been really struggling with an import ontology button im working on...
For the plug in im building it is basically a custom interface allowing users to describe a specific ontology. Since every ontology is built on the same one i import that by default, however the default ontology can change (The url of it)
So i am adding a quick fix button that allows the user to import what ever ontology they want. to by plug in. And everything works fine
unless
The users imports an ontology
deletes it
and then re imports it
I get an error that says naming conflict etc. However protege seems to handle what ever conflict when you use their built in features.
My question is what do i need to do to handle the conflict, or where are the protege files that handle it. ive been loking but cant find
anything...
Anyway great to be working on protege again! hopefully someone can help me out!
W |
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