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Best way to manually uninstall Protege (ver 5.0.5-beta-17)?

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Best way to manually uninstall Protege (ver 5.0.5-beta-17)?

sizedam
There is no uninistall folder in my installation as mentioned in some other posts, so I'd like guidance on all the system references I'd have to remove in addition to deleting app folder in my pic. I need to do a clean reinstall.

ProtegeAppFolder.png
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Re: Best way to manually uninstall Protege (ver 5.0.5-beta-17)?

Tania Tudorache

Deleting the folder should do it.


You can also try to clear the preferences:

http://protegewiki.stanford.edu/wiki/ClearingP4Preferences


Tania


From: protege-user <[hidden email]> on behalf of sizedam <[hidden email]>
Sent: Wednesday, March 15, 2017 5:57:17 AM
To: [hidden email]
Subject: [protege-user] Best way to manually uninstall Protege (ver 5.0.5-beta-17)?
 
There is no uninistall folder in my installation as mentioned in some other
posts, so I'd like guidance on all the system references I'd have to remove
in addition to deleting app folder in my pic. I need to do a clean
reinstall.

ProtegeAppFolder.png
<http://protege-project.136.n4.nabble.com/file/n4667841/ProtegeAppFolder.png



--
View this message in context: http://protege-project.136.n4.nabble.com/Best-way-to-manually-uninstall-Protege-ver-5-0-5-beta-17-tp4667841.html
Sent from the Protege User mailing list archive at Nabble.com.
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protege-user mailing list
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Re: Best way to manually uninstall Protege (ver 5.0.5-beta-17)?

zlatareva

Hi,

I have being trying to get my computer run Protégé unsuccessfully and following Csongor advice I sent Protégé logs hoping that this will help locate my problem, but I did not hear back. I found the message below somewhat useful, so I tried as suggested -- I  cleared Protégé preferences, again deleted old Protégé versions and installed the new Protégé 5.2. I am getting the same problem as before, but may be this time I can be more specific with my request. This is the error message that may be the key for my problem


Mar 18, 2017 10:22:28 AM java.util.prefs.WindowsPreferences <init>
WARNING: Could not open/create prefs root node Software\JavaSoft\Prefs at root 0x80000002. Windows RegCreateKeyEx(...) returned error code 5.
Creating and setting up empty (default) editor kit
OWL API Version: 4.2.8.20170104-2310
Loading default configuration parameters for class org.semanticweb.elk.reasoner.config.ReasonerConfiguration
Cannot generate ontology catalog for ontology at http://www.semanticweb.org/ioana/ontologies/2017/2/untitled-ontology-4
-------------------------- Generated Diagnosis Model ---------------------------

Some more here and the after giving me the same error as before about missing C++ libraries it stops and Protégé will not open.

Would you be able to help me fix this problem?

Thank you so much.
Regards, Neli.

 


Neli P. Zlatareva, PhD
Professor of Computer Science
Department of Computer Science
Central Connecticut State University
New Britain, CT 06050
Phone: (860) 832-2723
Fax: (860) 832-2712
Web site: cs.ccsu.edu/~neli/

From: protege-user <[hidden email]> on behalf of Tania Tudorache <[hidden email]>
Sent: Friday, March 17, 2017 7:13:46 PM
To: User support for WebProtege and Protege Desktop
Subject: Re: [protege-user] Best way to manually uninstall Protege (ver 5.0.5-beta-17)?
 

Deleting the folder should do it.


You can also try to clear the preferences:

http://protegewiki.stanford.edu/wiki/ClearingP4Preferences


Tania


From: protege-user <[hidden email]> on behalf of sizedam <[hidden email]>
Sent: Wednesday, March 15, 2017 5:57:17 AM
To: [hidden email]
Subject: [protege-user] Best way to manually uninstall Protege (ver 5.0.5-beta-17)?
 
There is no uninistall folder in my installation as mentioned in some other
posts, so I'd like guidance on all the system references I'd have to remove
in addition to deleting app folder in my pic. I need to do a clean
reinstall.

ProtegeAppFolder.png
<http://protege-project.136.n4.nabble.com/file/n4667841/ProtegeAppFolder.png



--
View this message in context: http://protege-project.136.n4.nabble.com/Best-way-to-manually-uninstall-Protege-ver-5-0-5-beta-17-tp4667841.html
Sent from the Protege User mailing list archive at Nabble.com.
_______________________________________________
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https://mailman.stanford.edu/mailman/listinfo/protege-user

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Re: Best way to manually uninstall Protege (ver 5.0.5-beta-17)?

Tania Tudorache

Neli,


The preferences error is likely not the one that causes Protege not to start, but it is rather the other errors that you mention, but did not include in your post.


Seeing the entire log will help diagnose the problem. Can you please resend the entire logs?


Thanks,

Tania


From: protege-user <[hidden email]> on behalf of Zlatareva, Neli (Computer Science) <[hidden email]>
Sent: Saturday, March 18, 2017 7:44:01 AM
To: User support for WebProtege and Protege Desktop
Subject: Re: [protege-user] Best way to manually uninstall Protege (ver 5.0.5-beta-17)?
 

Hi,

I have being trying to get my computer run Protégé unsuccessfully and following Csongor advice I sent Protégé logs hoping that this will help locate my problem, but I did not hear back. I found the message below somewhat useful, so I tried as suggested -- I  cleared Protégé preferences, again deleted old Protégé versions and installed the new Protégé 5.2. I am getting the same problem as before, but may be this time I can be more specific with my request. This is the error message that may be the key for my problem


Mar 18, 2017 10:22:28 AM java.util.prefs.WindowsPreferences <init>
WARNING: Could not open/create prefs root node Software\JavaSoft\Prefs at root 0x80000002. Windows RegCreateKeyEx(...) returned error code 5.
Creating and setting up empty (default) editor kit
OWL API Version: 4.2.8.20170104-2310
Loading default configuration parameters for class org.semanticweb.elk.reasoner.config.ReasonerConfiguration
Cannot generate ontology catalog for ontology at http://www.semanticweb.org/ioana/ontologies/2017/2/untitled-ontology-4
-------------------------- Generated Diagnosis Model ---------------------------

Some more here and the after giving me the same error as before about missing C++ libraries it stops and Protégé will not open.

Would you be able to help me fix this problem?

Thank you so much.
Regards, Neli.

 


Neli P. Zlatareva, PhD
Professor of Computer Science
Department of Computer Science
Central Connecticut State University
New Britain, CT 06050
Phone: (860) 832-2723
Fax: (860) 832-2712
Web site: cs.ccsu.edu/~neli/

From: protege-user <[hidden email]> on behalf of Tania Tudorache <[hidden email]>
Sent: Friday, March 17, 2017 7:13:46 PM
To: User support for WebProtege and Protege Desktop
Subject: Re: [protege-user] Best way to manually uninstall Protege (ver 5.0.5-beta-17)?
 

Deleting the folder should do it.


You can also try to clear the preferences:

http://protegewiki.stanford.edu/wiki/ClearingP4Preferences


Tania


From: protege-user <[hidden email]> on behalf of sizedam <[hidden email]>
Sent: Wednesday, March 15, 2017 5:57:17 AM
To: [hidden email]
Subject: [protege-user] Best way to manually uninstall Protege (ver 5.0.5-beta-17)?
 
There is no uninistall folder in my installation as mentioned in some other
posts, so I'd like guidance on all the system references I'd have to remove
in addition to deleting app folder in my pic. I need to do a clean
reinstall.

ProtegeAppFolder.png
<http://protege-project.136.n4.nabble.com/file/n4667841/ProtegeAppFolder.png



--
View this message in context: http://protege-project.136.n4.nabble.com/Best-way-to-manually-uninstall-Protege-ver-5-0-5-beta-17-tp4667841.html
Sent from the Protege User mailing list archive at Nabble.com.
_______________________________________________
protege-user mailing list
[hidden email]
https://mailman.stanford.edu/mailman/listinfo/protege-user

_______________________________________________
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https://mailman.stanford.edu/mailman/listinfo/protege-user
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Re: Best way to manually uninstall Protege (ver 5.0.5-beta-17)?

zlatareva

Hi Tania, thank you so much for responding.

Here is my previous correspondence regarding my Protégé problem.

The entire log in given below.

Please let me know if you have any guess what might be the problem and if there is any way to fix it.

THANK YOU!

Regards, Neli.

 

 

From: Zlatareva, Neli (Computer Science)
Sent: Monday, February 27, 2017 6:12 PM
To: User support for WebProtege and Protege Desktop <[hidden email]>
Subject: Re: [protege-user] Problem running Protege 5.1 after updating Fact++

 

Hi Csongor,

thank you so much for your reply -- I just found it buried in my mailbox.
To answer your questions. I run Windows 10 Home – no virtual machine or OS emulator.
As I said in my original call-for-help message, I have been working with Protégé 5.1.0 for some time with NO problems at all. The problem happened when I undated to Fact++ 1.6.5 (originally Protégé came with Fact++ 1.6.4). I use Pellet, but I wanted to check out the new Fact++, so I click update and after closing Protégé for the update to take place, I was never able to open it again. Just to note that I deleted old versions (including Protégé 5.0.0 -- Protege 5.0.0 gives me the same problem) downloaded new ones, same with jre, I tried the platform independent version, etc. – always the same “non-sense” result. So, here is the latest (today's) attempt to download and start Protégé (old downloads deleted).
You are asking about files with “fact” in their names – only one in the bin directory, called maven-artifact, which is a jar file 54 KB.

When I run .bat file this is what happens: (please note that I inserted in this log error messages as I am getting them)

 

C:\Program Files (x86)\Protege-5.1.0>setlocal

C:\Program Files (x86)\Protege-5.1.0>cd /d C:\Program Files (x86)\Protege-5.1.0\

C:\Program Files (x86)\Protege-5.1.0>jre\bin\java -Xmx500M -Xms200M -Xss16M -XX:CompileCommand=exclude,javax/swing/text/GlyphView,getBreakSpot -DentityExpansionLimit=100000000 -Dlogback.configurationFile=conf/logback-win.xml -Dfile.encoding=utf-8 -Dorg.protege.plugin.dir=plugins -classpath bundles/guava.jar;bundles/logback-classic.jar;bundles/logback-core.jar;bundles/slf4j-api.jar;bin/org.apache.felix.main.jar;bin/protege-launcher.jar org.protege.osgi.framework.Launcher
CompilerOracle: exclude javax/swing/text/GlyphView.getBreakSpot
********************************************************************************
**                                  Protege                                   **
********************************************************************************

----------------- Initialising and Starting the OSGi Framework -----------------
FrameworkFactory Class: org.apache.felix.framework.FrameworkFactory

The OSGi framework has been initialised
------------------------------- Starting Bundles -------------------------------
Starting bundle org.protege.common
Starting bundle org.eclipse.equinox.common
Starting bundle org.eclipse.equinox.supplement
Starting bundle org.eclipse.equinox.registry
Starting bundle org.protege.editor.core.application
Starting bundle org.apache.commons.io
Starting bundle com.google.guava
Not starting bundle com.google.inject.assistedinject explicitly because it is a fragment bundle.
Not starting bundle com.google.inject.multibindings explicitly because it is a fragment bundle.
Starting bundle com.google.inject
Starting bundle org.jsr-305
Starting bundle jul.to.slf4j
Starting bundle log4j.over.slf4j
Starting bundle ch.qos.logback.classic
Starting bundle ch.qos.logback.core
Starting bundle org.apache.servicemix.bundles.aopalliance
Starting bundle org.apache.servicemix.bundles.javax-inject
Starting bundle org.eclipse.equinox.common
Starting bundle org.eclipse.equinox.registry
Starting bundle org.eclipse.equinox.supplement
Starting bundle org.semanticweb.owl.owlapi
Starting bundle org.protege.common
Starting bundle org.protege.editor.core.application
Starting bundle org.protege.editor.owl
Starting bundle slf4j.api
Starting bundle cellfie
Starting bundle code-generation
Starting bundle existentialquery
Starting bundle uk.ac.manchester.cs.owl.explanation
Starting bundle org.protege.ontograf
Starting bundle org.coode.dlquery
Starting bundle org.semanticweb.hermit
Starting bundle org.coode.browser
Starting bundle org.coode.owlviz
Starting bundle org.protege.owl.rdf
Starting bundle org.protege.editor.owl.rdf
Starting bundle swrltab-plugin
Starting bundle com.clarkparsia.protege.plugin.pellet
Starting bundle org.exquisite.protege
Starting bundle org.semanticweb.elk
Starting bundle uk.ac.manchester.cs.owl.factplusplus
The OSGi framework has been started
------------------------------------ Protege -----------------------------------

Protege Desktop
Version 5.1.0, Build


----------------------------------- Platform -----------------------------------
Java: JVM 1.8.0_40-b26  Memory: 466M
Language: en, Country: US
Framework: Apache Software Foundation (1.7)
OS: windows8 (6.3)
Processor: x86-64


------------------------------------ Plugins -----------------------------------
Plugin: Cellfie Protege 5.0+ Plugin (2.1.0)
Plugin: OWL Code Generation Plug-in (2.0.0)
Plugin: Existential Query (2.0.0)
Plugin: Explanation Workbench (3.0.0)
Plugin: OntoGraf (2.0.3)
Plugin: DL Query (4.0.1)
Plugin: HermiT (1.3.8.413)
Plugin: Browser View (OWLDoc) (3.0.3)
Plugin: OWLViz (5.0.3)
Plugin: OWLAPI RDF Library (2.0.2)
Plugin: Protege SPARQL Plugin (2.0.1)
Plugin: SWRLTab Protege 5.0+ Plugin (1.0.3)
Plugin: Pellet Reasoner Plug-in (2.2.0)
Plugin: Ontology Debugger (0.1.2.BETA)
Plugin: ELK Reasoner Protege Plug-in (0.4.3)
Plugin: Factplusplus Plug-in (1.6.5)

Feb 27, 2017 5:35:50 PM java.util.prefs.WindowsPreferences <init>
WARNING: Could not open/create prefs root node Software\JavaSoft\Prefs at root 0x80000002. Windows RegCreateKeyEx(...) returned error code 5.
Creating and setting up empty (default) editor kit
OWL API Version: 4.2.6.20160910-2108
Loading default configuration parameters for class org.semanticweb.elk.reasoner.config.ReasonerConfiguration
Cannot generate ontology catalog for ontology at http://www.semanticweb.org/ioana/ontologies/2017/1/untitled-ontology-13
-------------------------- Generated Diagnosis Model ---------------------------
Ontology: OntologyID(OntologyIRI(<http://www.semanticweb.org/ioana/ontologies/2017/1/untitled-ontology-13>) VersionIRI(<null>))
Generated in 46 ms
0 Possibly Faulty Formulas
0 Correct Formulas
0 Entailed Examples
0 Not-Entailed Examples
--------------------------------------------------------------------------------

 

THE FOLLOWING ERROR WINDOW POPS UP AT THIS POINT:

MISSING LIBRARIES OR PLATFORM NOT SUPPPORTED
FACT++ REQUIRES PLATFORM SPECIFIC LIBRARIES
WHICH CANNOT BE FOUND

WHEN I CLICK OK THIS WINDOW CLOSES AND THE PROTEGE LOG CONTINUES AS FOLLOWS:

 


java:102)
          java.lang.Thread.run(Thread.java:745)
    (Listeners should be removed in the plugin dispose method!)
*** WARNING BADLY BEHAVING LISTENER: org.protege.editor.owl.ui.action.AbstractOntologySelectionStrategyAction$$Lambda$59/1677217031 ***
    Possible culprit (trace from when listener was added):
          org.protege.editor.owl.ui.action.AbstractOntologySelectionStrategyAction.initialise(AbstractOntologySelectionStrategyAction.java:47)
          org.protege.editor.owl.ui.action.ImportsClosureOntologyStrategyAction.initialise(ImportsClosureOntologyStrategyAction.java:27)
          org.protege.editor.core.ui.menu.MenuActionPluginJPFImpl.newInstance(MenuActionPluginJPFImpl.java:169)
          org.protege.editor.core.ui.menu.MenuActionPluginJPFImpl.newInstance(MenuActionPluginJPFImpl.java:31)
          org.protege.editor.core.ui.menu.MenuBuilder.buildInnerMenu(MenuBuilder.java:159)
          org.protege.editor.core.ui.menu.MenuBuilder.addMenu(MenuBuilder.java:114)
          org.protege.editor.core.ui.menu.MenuBuilder.buildCompositeMenu(MenuBuilder.java:135)
          org.protege.editor.core.ui.menu.MenuBuilder.addMenu(MenuBuilder.java:106)
          org.protege.editor.core.ui.menu.MenuBuilder.buildMenu(MenuBuilder.java:64)
          org.protege.editor.core.ui.workspace.WorkspaceFrame.createMenuBar(WorkspaceFrame.java:165)
          org.protege.editor.core.ui.workspace.WorkspaceFrame.createUI(WorkspaceFrame.java:137)
          org.protege.editor.core.ui.workspace.WorkspaceFrame.<init>(WorkspaceFrame.java:55)
          org.protege.editor.core.ui.workspace.WorkspaceManager.addWorkspace(WorkspaceManager.java:47)
          org.protege.editor.core.editorkit.EditorKitManager.addEditorKit(EditorKitManager.java:44)
          org.protege.editor.core.ProtegeManager.createAndSetupNewEditorKit(ProtegeManager.java:139)
          org.protege.editor.core.ProtegeManager.createAndSetupNewEditorKit(ProtegeManager.java:129)
          org.protege.editor.core.ProtegeApplication.createAndSetupDefaultEditorKit(ProtegeApplication.java:488)
          org.protege.editor.core.ProtegeApplication.startApplication(ProtegeApplication.java:432)
          org.protege.editor.core.ProtegeApplication.reallyStart(ProtegeApplication.java:109)
          org.protege.editor.core.ProtegeApplication.lambda$start$11(ProtegeApplication.java:90)
          org.protege.editor.core.ProtegeApplication$$Lambda$24/1976931298.frameworkEvent(Unknown Source)
          org.apache.felix.framework.util.EventDispatcher.invokeFrameworkListenerCallback(EventDispatcher.java:836)
          org.apache.felix.framework.util.EventDispatcher.fireEventImmediately(EventDispatcher.java:786)
          org.apache.felix.framework.util.EventDispatcher.run(EventDispatcher.java:1099)
          org.apache.felix.framework.util.EventDispatcher.access$000(EventDispatcher.java:55)
          org.apache.felix.framework.util.EventDispatcher$1.run(EventDispatcher.java:102)
          java.lang.Thread.run(Thread.java:745)
    (Listeners should be removed in the plugin dispose method!)
*** WARNING BADLY BEHAVING LISTENER: org.protege.editor.owl.ui.renderer.menu.AbstractByRendererMenu$$Lambda$57/436590799 ***
    Possible culprit (trace from when listener was added):
          org.protege.editor.owl.ui.renderer.menu.AbstractByRendererMenu.initialise(AbstractByRendererMenu.java:34)
          org.protege.editor.core.ui.menu.MenuActionPluginJPFImpl.newInstance(MenuActionPluginJPFImpl.java:169)
          org.protege.editor.core.ui.menu.MenuActionPluginJPFImpl.newInstance(MenuActionPluginJPFImpl.java:31)
          org.protege.editor.core.ui.menu.MenuBuilder.buildInnerMenu(MenuBuilder.java:159)
          org.protege.editor.core.ui.menu.MenuBuilder.addMenu(MenuBuilder.java:114)
          org.protege.editor.core.ui.menu.MenuBuilder.buildCompositeMenu(MenuBuilder.java:135)
          org.protege.editor.core.ui.menu.MenuBuilder.addMenu(MenuBuilder.java:106)
          org.protege.editor.core.ui.menu.MenuBuilder.buildMenu(MenuBuilder.java:64)
          org.protege.editor.core.ui.workspace.WorkspaceFrame.createMenuBar(WorkspaceFrame.java:165)
          org.protege.editor.core.ui.workspace.WorkspaceFrame.createUI(WorkspaceFrame.java:137)
          org.protege.editor.core.ui.workspace.WorkspaceFrame.<init>(WorkspaceFrame.java:55)
          org.protege.editor.core.ui.workspace.WorkspaceManager.addWorkspace(WorkspaceManager.java:47)
          org.protege.editor.core.editorkit.EditorKitManager.addEditorKit(EditorKitManager.java:44)
          org.protege.editor.core.ProtegeManager.createAndSetupNewEditorKit(ProtegeManager.java:139)
          org.protege.editor.core.ProtegeManager.createAndSetupNewEditorKit(ProtegeManager.java:129)
          org.protege.editor.core.ProtegeApplication.createAndSetupDefaultEditorKit(ProtegeApplication.java:488)
          org.protege.editor.core.ProtegeApplication.startApplication(ProtegeApplication.java:432)
          org.protege.editor.core.ProtegeApplication.reallyStart(ProtegeApplication.java:109)
          org.protege.editor.core.ProtegeApplication.lambda$start$11(ProtegeApplication.java:90)
          org.protege.editor.core.ProtegeApplication$$Lambda$24/1976931298.frameworkEvent(Unknown Source)
          org.apache.felix.framework.util.EventDispatcher.invokeFrameworkListenerCallback(EventDispatcher.java:836)
          org.apache.felix.framework.util.EventDispatcher.fireEventImmediately(EventDispatcher.java:786)
          org.apache.felix.framework.util.EventDispatcher.run(EventDispatcher.java:1099)
          org.apache.felix.framework.util.EventDispatcher.access$000(EventDispatcher.java:55)
          org.apache.felix.framework.util.EventDispatcher$1.run(EventDispatcher.java:102)
          java.lang.Thread.run(Thread.java:745)
    (Listeners should be removed in the plugin dispose method!)
*** WARNING BADLY BEHAVING LISTENER: org.protege.editor.owl.ui.renderer.menu.RenderByProperty$$Lambda$58/1386820222 ***
    Possible culprit (trace from when listener was added):
          org.protege.editor.owl.ui.renderer.menu.RenderByProperty.initialise(RenderByProperty.java:82)
          org.protege.editor.core.ui.menu.MenuActionPluginJPFImpl.newInstance(MenuActionPluginJPFImpl.java:169)
          org.protege.editor.core.ui.menu.MenuActionPluginJPFImpl.newInstance(MenuActionPluginJPFImpl.java:31)
          org.protege.editor.core.ui.menu.MenuBuilder.buildDynamicMenu(MenuBuilder.java:146)
          org.protege.editor.core.ui.menu.MenuBuilder.addMenu(MenuBuilder.java:110)
          org.protege.editor.core.ui.menu.MenuBuilder.buildCompositeMenu(MenuBuilder.java:135)
          org.protege.editor.core.ui.menu.MenuBuilder.addMenu(MenuBuilder.java:106)
          org.protege.editor.core.ui.menu.MenuBuilder.buildMenu(MenuBuilder.java:64)
          org.protege.editor.core.ui.workspace.WorkspaceFrame.createMenuBar(WorkspaceFrame.java:165)
          org.protege.editor.core.ui.workspace.WorkspaceFrame.createUI(WorkspaceFrame.java:137)
          org.protege.editor.core.ui.workspace.WorkspaceFrame.<init>(WorkspaceFrame.java:55)
          org.protege.editor.core.ui.workspace.WorkspaceManager.addWorkspace(WorkspaceManager.java:47)
          org.protege.editor.core.editorkit.EditorKitManager.addEditorKit(EditorKitManager.java:44)
          org.protege.editor.core.ProtegeManager.createAndSetupNewEditorKit(ProtegeManager.java:139)
          org.protege.editor.core.ProtegeManager.createAndSetupNewEditorKit(ProtegeManager.java:129)
          org.protege.editor.core.ProtegeApplication.createAndSetupDefaultEditorKit(ProtegeApplication.java:488)
          org.protege.editor.core.ProtegeApplication.startApplication(ProtegeApplication.java:432)
          org.protege.editor.core.ProtegeApplication.reallyStart(ProtegeApplication.java:109)
          org.protege.editor.core.ProtegeApplication.lambda$start$11(ProtegeApplication.java:90)
          org.protege.editor.core.ProtegeApplication$$Lambda$24/1976931298.frameworkEvent(Unknown Source)
          org.apache.felix.framework.util.EventDispatcher.invokeFrameworkListenerCallback(EventDispatcher.java:836)
          org.apache.felix.framework.util.EventDispatcher.fireEventImmediately(EventDispatcher.java:786)
          org.apache.felix.framework.util.EventDispatcher.run(EventDispatcher.java:1099)
          org.apache.felix.framework.util.EventDispatcher.access$000(EventDispatcher.java:55)
          org.apache.felix.framework.util.EventDispatcher$1.run(EventDispatcher.java:102)
          java.lang.Thread.run(Thread.java:745)
    (Listeners should be removed in the plugin dispose method!)
*** WARNING BADLY BEHAVING LISTENER: org.protege.editor.owl.ui.action.AbstractOntologySelectionStrategyAction$$Lambda$59/1677217031 ***
    Possible culprit (trace from when listener was added):
          org.protege.editor.owl.ui.action.AbstractOntologySelectionStrategyAction.initialise(AbstractOntologySelectionStrategyAction.java:47)
          org.protege.editor.core.ui.menu.MenuActionPluginJPFImpl.newInstance(MenuActionPluginJPFImpl.java:169)
          org.protege.editor.core.ui.menu.MenuActionPluginJPFImpl.newInstance(MenuActionPluginJPFImpl.java:31)
          org.protege.editor.core.ui.menu.MenuBuilder.buildInnerMenu(MenuBuilder.java:159)
          org.protege.editor.core.ui.menu.MenuBuilder.addMenu(MenuBuilder.java:114)
          org.protege.editor.core.ui.menu.MenuBuilder.buildCompositeMenu(MenuBuilder.java:135)
          org.protege.editor.core.ui.menu.MenuBuilder.addMenu(MenuBuilder.java:106)
          org.protege.editor.core.ui.menu.MenuBuilder.buildMenu(MenuBuilder.java:64)
          org.protege.editor.core.ui.workspace.WorkspaceFrame.createMenuBar(WorkspaceFrame.java:165)
          org.protege.editor.core.ui.workspace.WorkspaceFrame.createUI(WorkspaceFrame.java:137)
          org.protege.editor.core.ui.workspace.WorkspaceFrame.<init>(WorkspaceFrame.java:55)
          org.protege.editor.core.ui.workspace.WorkspaceManager.addWorkspace(WorkspaceManager.java:47)
          org.protege.editor.core.editorkit.EditorKitManager.addEditorKit(EditorKitManager.java:44)
          org.protege.editor.core.ProtegeManager.createAndSetupNewEditorKit(ProtegeManager.java:139)
          org.protege.editor.core.ProtegeManager.createAndSetupNewEditorKit(ProtegeManager.java:129)
          org.protege.editor.core.ProtegeApplication.createAndSetupDefaultEditorKit(ProtegeApplication.java:488)
          org.protege.editor.core.ProtegeApplication.startApplication(ProtegeApplication.java:432)
          org.protege.editor.core.ProtegeApplication.reallyStart(ProtegeApplication.java:109)
          org.protege.editor.core.ProtegeApplication.lambda$start$11(ProtegeApplication.java:90)
          org.protege.editor.core.ProtegeApplication$$Lambda$24/1976931298.frameworkEvent(Unknown Source)
          org.apache.felix.framework.util.EventDispatcher.invokeFrameworkListenerCallback(EventDispatcher.java:836)
          org.apache.felix.framework.util.EventDispatcher.fireEventImmediately(EventDispatcher.java:786)
          org.apache.felix.framework.util.EventDispatcher.run(EventDispatcher.java:1099)
          org.apache.felix.framework.util.EventDispatcher.access$000(EventDispatcher.java:55)
          org.apache.felix.framework.util.EventDispatcher$1.run(EventDispatcher.java:102)
          java.lang.Thread.run(Thread.java:745)
    (Listeners should be removed in the plugin dispose method!)

An error was thrown: java.lang.UnsatisfiedLinkError: C:\Users\Evgueni\AppData\Local\Temp\ProtegeCache-e2b80694-f0ed-44e2-905b-9d993353402c\bundle36\version0.0\bundle.jar-lib\0\lib\native\64bit\FaCTPlusPlusJNI.dll: Can't find dependent libraries
org.semanticweb.owlapi.model.OWLRuntimeException: java.lang.UnsatisfiedLinkError: C:\Users\Evgueni\AppData\Local\Temp\ProtegeCache-e2b80694-f0ed-44e2-905b-9d993353402c\bundle36\version0.0\bundle.jar-lib\0\lib\native\64bit\FaCTPlusPlusJNI.dll: Can't find dependent libraries
        at uk.ac.manchester.cs.factplusplus.protege.FaCTPlusPlusFactory.getReasonerFactory(FaCTPlusPlusFactory.java:84) ~[na:na]
        at org.protege.editor.owl.model.inference.ReasonerInfoComparator.compare(ReasonerInfoComparator.java:9) ~[na:na]
        at org.protege.editor.owl.model.inference.ReasonerInfoComparator.compare(ReasonerInfoComparator.java:5) ~[na:na]
        at java.util.TimSort.countRunAndMakeAscending(TimSort.java:351) ~[na:1.8.0_40]
        at java.util.TimSort.sort(TimSort.java:216) ~[na:1.8.0_40]
        at java.util.Arrays.sort(Arrays.java:1512) ~[na:1.8.0_40]
        at java.util.ArrayList.sort(ArrayList.java:1454) ~[na:1.8.0_40]
        at java.util.Collections.sort(Collections.java:175) ~[na:1.8.0_40]
        at org.protege.editor.owl.model.OWLWorkspace.rebuildReasonerMenu(OWLWorkspace.java:565) ~[na:na]
        at org.protege.editor.owl.model.OWLWorkspace.initialiseExtraMenuItems(OWLWorkspace.java:431) ~[na:na]
        at org.protege.editor.core.ui.workspace.WorkspaceFrame.createUI(WorkspaceFrame.java:141) ~[protege-editor-core.jar:na]
        at org.protege.editor.core.ui.workspace.WorkspaceFrame.<init>(WorkspaceFrame.java:55) ~[protege-editor-core.jar:na]
        at org.protege.editor.core.ui.workspace.WorkspaceManager.addWorkspace(WorkspaceManager.java:47) ~[protege-editor-core.jar:na]
        at org.protege.editor.core.editorkit.EditorKitManager.addEditorKit(EditorKitManager.java:44) ~[protege-editor-core.jar:na]
        at org.protege.editor.core.ProtegeManager.createAndSetupNewEditorKit(ProtegeManager.java:139) ~[protege-editor-core.jar:na]
        at org.protege.editor.core.ProtegeManager.createAndSetupNewEditorKit(ProtegeManager.java:129) ~[protege-editor-core.jar:na]
        at org.protege.editor.core.ProtegeApplication.createAndSetupDefaultEditorKit(ProtegeApplication.java:488) [protege-editor-core.jar:na]
        at org.protege.editor.core.ProtegeApplication.startApplication(ProtegeApplication.java:432) [protege-editor-core.jar:na]
        at org.protege.editor.core.ProtegeApplication.reallyStart(ProtegeApplication.java:109) [protege-editor-core.jar:na]
        at org.protege.editor.core.ProtegeApplication.lambda$start$11(ProtegeApplication.java:90) [protege-editor-core.jar:na]
        at org.protege.editor.core.ProtegeApplication$$Lambda$24/1976931298.frameworkEvent(Unknown Source) [protege-editor-core.jar:na]
        at org.apache.felix.framework.util.EventDispatcher.invokeFrameworkListenerCallback(EventDispatcher.java:836) [org.apache.felix.main.jar:na]
        at org.apache.felix.framework.util.EventDispatcher.fireEventImmediately(EventDispatcher.java:786) [org.apache.felix.main.jar:na]
        at org.apache.felix.framework.util.EventDispatcher.run(EventDispatcher.java:1099) [org.apache.felix.main.jar:na]
        at org.apache.felix.framework.util.EventDispatcher.access$000(EventDispatcher.java:55) [org.apache.felix.main.jar:na]
        at org.apache.felix.framework.util.EventDispatcher$1.run(EventDispatcher.java:102) [org.apache.felix.main.jar:na]
        at java.lang.Thread.run(Thread.java:745) [na:1.8.0_40]
Caused by: java.lang.UnsatisfiedLinkError: C:\Users\Evgueni\AppData\Local\Temp\ProtegeCache-e2b80694-f0ed-44e2-905b-9d993353402c\bundle36\version0.0\bundle.jar-lib\0\lib\native\64bit\FaCTPlusPlusJNI.dll: Can't find dependent libraries
        at java.lang.ClassLoader$NativeLibrary.load(Native Method) ~[na:1.8.0_40]
        at java.lang.ClassLoader.loadLibrary0(ClassLoader.java:1937) ~[na:1.8.0_40]
        at java.lang.ClassLoader.loadLibrary(ClassLoader.java:1835) ~[na:1.8.0_40]
        at java.lang.Runtime.loadLibrary0(Runtime.java:870) ~[na:1.8.0_40]
        at java.lang.System.loadLibrary(System.java:1122) ~[na:1.8.0_40]
        at uk.ac.manchester.cs.factplusplus.FaCTPlusPlus.<clinit>(FaCTPlusPlus.java:19) ~[na:na]
        at uk.ac.manchester.cs.factplusplus.protege.FaCTPlusPlusFactory.getReasonerFactory(FaCTPlusPlusFactory.java:75) ~[na:na]
        ... 26 common frames omitted


AT THIS POINT ANOTHER ERROR WINDOW POPS UP which is HUGE, so when I click OK
THIS IS THE LAST I SEE -- then Prorege dies -- the editor never opens.


------------------------------- Auto-update Check ------------------------------
Auto-update last performed: Mon Feb 27 17:08:38 EST 2017
Auto-update has been performed today.  Not performing it again.

 

THANK YOU so much for your help. It is trully appreciated.
Best regards, Neli

 

 

Neli P. Zlatareva, PhD
Professor of Computer Science
Department of Computer Science
Central Connecticut State University
New Britain, CT 06050
Phone: (860) 832-2723
Fax: (860) 832-2712
Web site: cs.ccsu.edu/~neli/


From: protege-user <[hidden email]> on behalf of Csongor Nyulas <[hidden email]>
Sent: Wednesday, February 22, 2017 2:59:44 AM
To: User support for WebProtege and Protege Desktop
Subject: Re: [protege-user] Problem running Protege 5.1 after updating Fact++

 

Dear Neli,

I am running Protege 5.1.1 with Fact++ 1.6.5 for a long time now, and I never experienced the things that you describe. So, in order to debug what's going on, we need to understand what is different on your machine compared to ours.

Here are a few questions that hopefully can help us elucidate the mystery:

What OS are you using?
What is the ".dat" file? Maybe you wanted to say ".bat" file (in which case you are probably using Windows)?
Are you by any chance using an virtual machine or some OS emulator?
In the [PROTEGE_INSTALL_DIR]/plugins folder how many files do you have that have the word "fact" in their names? If you have only a jar file, what is the exact name of that file, and how big is it?
If you search all the subfolders of [PROTEGE_INSTALL_DIR], how many ja files do you find that contain the name "fact" in it?
Can you send us the Protege logs?

Csongor

On 02/18/2017 08:00 AM, Zlatareva, Neli (Computer Science) wrote:


Hi,

I would greatly appreciate help with the following issue:

I have been working with Protégé 5.1 for some time and everything was great.

At the moment I decided to update to Fact++ 1.6.5 everything went wrong.

I could not open Protégé after restart (suggested to update Fact++). The error

I am getting is that MS C++ libraries are missing and after that the editor will not

open (I am running .dat file). I tried EVERYTHING -- deleting old versions, downloading

new ones, including JRE because I read somewhere about possible java corruption).

I am teaching Sem Web Tech class and very shortly my students will need Protégé

for their project. I am very worried that something like this can happen to them and

I have no clue how to help.

Any suggestions will be greatly appreciated.

THANK YOU SO MUCH! 

 

Neli P. Zlatareva, PhD
Professor of Computer Science
Department of Computer Science
Central Connecticut State University
New Britain, CT 06050
Phone: (860) 832-2723
Fax: (860) 832-2712
Web site: cs.ccsu.edu/~neli


 




_______________________________________________
protege-user mailing list
[hidden email]
https://mailman.stanford.edu/mailman/listinfo/protege-user

 

 

 

Neli P. Zlatareva, Ph.D

Professor of Computer Science

Central Connecticut State University,

1615 New Britain, CT 06050.

www.cs.ccsu.edu/~neli

 

From: protege-user [mailto:[hidden email]] On Behalf Of Tania Tudorache
Sent: Monday, March 20, 2017 2:29 PM
To: User support for WebProtege and Protege Desktop <[hidden email]>
Subject: Re: [protege-user] Best way to manually uninstall Protege (ver 5.0.5-beta-17)?

 

Neli,

 

The preferences error is likely not the one that causes Protege not to start, but it is rather the other errors that you mention, but did not include in your post.

 

Seeing the entire log will help diagnose the problem. Can you please resend the entire logs?

 

Thanks,

Tania


From: protege-user <[hidden email]> on behalf of Zlatareva, Neli (Computer Science) <[hidden email]>
Sent: Saturday, March 18, 2017 7:44:01 AM
To: User support for WebProtege and Protege Desktop
Subject: Re: [protege-user] Best way to manually uninstall Protege (ver 5.0.5-beta-17)?

 

Hi,

I have being trying to get my computer run Protégé unsuccessfully and following Csongor advice I sent Protégé logs hoping that this will help locate my problem, but I did not hear back. I found the message below somewhat useful, so I tried as suggested -- I  cleared Protégé preferences, again deleted old Protégé versions and installed the new Protégé 5.2. I am getting the same problem as before, but may be this time I can be more specific with my request. This is the error message that may be the key for my problem

 

Mar 18, 2017 10:22:28 AM java.util.prefs.WindowsPreferences <init>
WARNING: Could not open/create prefs root node Software\JavaSoft\Prefs at root 0x80000002. Windows RegCreateKeyEx(...) returned error code 5.
Creating and setting up empty (default) editor kit
OWL API Version: 4.2.8.20170104-2310
Loading default configuration parameters for class org.semanticweb.elk.reasoner.config.ReasonerConfiguration
Cannot generate ontology catalog for ontology at http://www.semanticweb.org/ioana/ontologies/2017/2/untitled-ontology-4
-------------------------- Generated Diagnosis Model ---------------------------

 

Some more here and the after giving me the same error as before about missing C++ libraries it stops and Protégé will not open.

 

Would you be able to help me fix this problem?

 

Thank you so much.

Regards, Neli.

 

 

Neli P. Zlatareva, PhD
Professor of Computer Science
Department of Computer Science
Central Connecticut State University
New Britain, CT 06050
Phone: (860) 832-2723
Fax: (860) 832-2712
Web site: cs.ccsu.edu/~neli/


From: protege-user <[hidden email]> on behalf of Tania Tudorache <[hidden email]>
Sent: Friday, March 17, 2017 7:13:46 PM
To: User support for WebProtege and Protege Desktop
Subject: Re: [protege-user] Best way to manually uninstall Protege (ver 5.0.5-beta-17)?

 

Deleting the folder should do it.

 

You can also try to clear the preferences:

http://protegewiki.stanford.edu/wiki/ClearingP4Preferences

 

Tania


From: protege-user <[hidden email]> on behalf of sizedam <[hidden email]>
Sent: Wednesday, March 15, 2017 5:57:17 AM
To: [hidden email]
Subject: [protege-user] Best way to manually uninstall Protege (ver 5.0.5-beta-17)?

 

There is no uninistall folder in my installation as mentioned in some other
posts, so I'd like guidance on all the system references I'd have to remove
in addition to deleting app folder in my pic. I need to do a clean
reinstall.

ProtegeAppFolder.png
<http://protege-project.136.n4.nabble.com/file/n4667841/ProtegeAppFolder.png



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View this message in context: http://protege-project.136.n4.nabble.com/Best-way-to-manually-uninstall-Protege-ver-5-0-5-beta-17-tp4667841.html
Sent from the Protege User mailing list archive at Nabble.com.
_______________________________________________
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Re: Best way to manually uninstall Protege (ver 5.0.5-beta-17)?

Tania Tudorache

Hi Neli,


It seems that there are missing libraries for Fact++, which causes Protege to crash.


I suggest to try to remove Fact++ as a plugin. You can use Hermit instead.


Please try these 2 steps:


(1) In your Protege installation folder, go to the plugins folder, and remove the uk.ac.manchester.cs.owl.factplusplus-x.y.z.jar (x.y.z is the version)


(2) Go to:

C:\Users\Evgueni\AppData\Local\Temp\


and delete all the files and/or folders that start with "ProtegeCache".


Hopefully, this will work. If after doing these 2 steps, Protege is still not starting, please send the new full logs. 


Tania



From: protege-user <[hidden email]> on behalf of Zlatareva, Neli (Computer Science) <[hidden email]>
Sent: Monday, March 20, 2017 12:02:21 PM
To: User support for WebProtege and Protege Desktop
Subject: Re: [protege-user] Best way to manually uninstall Protege (ver 5.0.5-beta-17)?
 

Hi Tania, thank you so much for responding.

Here is my previous correspondence regarding my Protégé problem.

The entire log in given below.

Please let me know if you have any guess what might be the problem and if there is any way to fix it.

THANK YOU!

Regards, Neli.

 

 

From: Zlatareva, Neli (Computer Science)
Sent: Monday, February 27, 2017 6:12 PM
To: User support for WebProtege and Protege Desktop <[hidden email]>
Subject: Re: [protege-user] Problem running Protege 5.1 after updating Fact++

 

Hi Csongor,

thank you so much for your reply -- I just found it buried in my mailbox.
To answer your questions. I run Windows 10 Home – no virtual machine or OS emulator.
As I said in my original call-for-help message, I have been working with Protégé 5.1.0 for some time with NO problems at all. The problem happened when I undated to Fact++ 1.6.5 (originally Protégé came with Fact++ 1.6.4). I use Pellet, but I wanted to check out the new Fact++, so I click update and after closing Protégé for the update to take place, I was never able to open it again. Just to note that I deleted old versions (including Protégé 5.0.0 -- Protege 5.0.0 gives me the same problem) downloaded new ones, same with jre, I tried the platform independent version, etc. – always the same “non-sense” result. So, here is the latest (today's) attempt to download and start Protégé (old downloads deleted).
You are asking about files with “fact” in their names – only one in the bin directory, called maven-artifact, which is a jar file 54 KB.

When I run .bat file this is what happens: (please note that I inserted in this log error messages as I am getting them)

 

C:\Program Files (x86)\Protege-5.1.0>setlocal

C:\Program Files (x86)\Protege-5.1.0>cd /d C:\Program Files (x86)\Protege-5.1.0\

C:\Program Files (x86)\Protege-5.1.0>jre\bin\java -Xmx500M -Xms200M -Xss16M -XX:CompileCommand=exclude,javax/swing/text/GlyphView,getBreakSpot -DentityExpansionLimit=100000000 -Dlogback.configurationFile=conf/logback-win.xml -Dfile.encoding=utf-8 -Dorg.protege.plugin.dir=plugins -classpath bundles/guava.jar;bundles/logback-classic.jar;bundles/logback-core.jar;bundles/slf4j-api.jar;bin/org.apache.felix.main.jar;bin/protege-launcher.jar org.protege.osgi.framework.Launcher
CompilerOracle: exclude javax/swing/text/GlyphView.getBreakSpot
********************************************************************************
**                                  Protege                                   **
********************************************************************************

----------------- Initialising and Starting the OSGi Framework -----------------
FrameworkFactory Class: org.apache.felix.framework.FrameworkFactory

The OSGi framework has been initialised
------------------------------- Starting Bundles -------------------------------
Starting bundle org.protege.common
Starting bundle org.eclipse.equinox.common
Starting bundle org.eclipse.equinox.supplement
Starting bundle org.eclipse.equinox.registry
Starting bundle org.protege.editor.core.application
Starting bundle org.apache.commons.io
Starting bundle com.google.guava
Not starting bundle com.google.inject.assistedinject explicitly because it is a fragment bundle.
Not starting bundle com.google.inject.multibindings explicitly because it is a fragment bundle.
Starting bundle com.google.inject
Starting bundle org.jsr-305
Starting bundle jul.to.slf4j
Starting bundle log4j.over.slf4j
Starting bundle ch.qos.logback.classic
Starting bundle ch.qos.logback.core
Starting bundle org.apache.servicemix.bundles.aopalliance
Starting bundle org.apache.servicemix.bundles.javax-inject
Starting bundle org.eclipse.equinox.common
Starting bundle org.eclipse.equinox.registry
Starting bundle org.eclipse.equinox.supplement
Starting bundle org.semanticweb.owl.owlapi
Starting bundle org.protege.common
Starting bundle org.protege.editor.core.application
Starting bundle org.protege.editor.owl
Starting bundle slf4j.api
Starting bundle cellfie
Starting bundle code-generation
Starting bundle existentialquery
Starting bundle uk.ac.manchester.cs.owl.explanation
Starting bundle org.protege.ontograf
Starting bundle org.coode.dlquery
Starting bundle org.semanticweb.hermit
Starting bundle org.coode.browser
Starting bundle org.coode.owlviz
Starting bundle org.protege.owl.rdf
Starting bundle org.protege.editor.owl.rdf
Starting bundle swrltab-plugin
Starting bundle com.clarkparsia.protege.plugin.pellet
Starting bundle org.exquisite.protege
Starting bundle org.semanticweb.elk
Starting bundle uk.ac.manchester.cs.owl.factplusplus
The OSGi framework has been started
------------------------------------ Protege -----------------------------------

Protege Desktop
Version 5.1.0, Build


----------------------------------- Platform -----------------------------------
Java: JVM 1.8.0_40-b26  Memory: 466M
Language: en, Country: US
Framework: Apache Software Foundation (1.7)
OS: windows8 (6.3)
Processor: x86-64


------------------------------------ Plugins -----------------------------------
Plugin: Cellfie Protege 5.0+ Plugin (2.1.0)
Plugin: OWL Code Generation Plug-in (2.0.0)
Plugin: Existential Query (2.0.0)
Plugin: Explanation Workbench (3.0.0)
Plugin: OntoGraf (2.0.3)
Plugin: DL Query (4.0.1)
Plugin: HermiT (1.3.8.413)
Plugin: Browser View (OWLDoc) (3.0.3)
Plugin: OWLViz (5.0.3)
Plugin: OWLAPI RDF Library (2.0.2)
Plugin: Protege SPARQL Plugin (2.0.1)
Plugin: SWRLTab Protege 5.0+ Plugin (1.0.3)
Plugin: Pellet Reasoner Plug-in (2.2.0)
Plugin: Ontology Debugger (0.1.2.BETA)
Plugin: ELK Reasoner Protege Plug-in (0.4.3)
Plugin: Factplusplus Plug-in (1.6.5)

Feb 27, 2017 5:35:50 PM java.util.prefs.WindowsPreferences <init>
WARNING: Could not open/create prefs root node Software\JavaSoft\Prefs at root 0x80000002. Windows RegCreateKeyEx(...) returned error code 5.
Creating and setting up empty (default) editor kit
OWL API Version: 4.2.6.20160910-2108
Loading default configuration parameters for class org.semanticweb.elk.reasoner.config.ReasonerConfiguration
Cannot generate ontology catalog for ontology at http://www.semanticweb.org/ioana/ontologies/2017/1/untitled-ontology-13
-------------------------- Generated Diagnosis Model ---------------------------
Ontology: OntologyID(OntologyIRI(<http://www.semanticweb.org/ioana/ontologies/2017/1/untitled-ontology-13>) VersionIRI(<null>))
Generated in 46 ms
0 Possibly Faulty Formulas
0 Correct Formulas
0 Entailed Examples
0 Not-Entailed Examples
--------------------------------------------------------------------------------

 

THE FOLLOWING ERROR WINDOW POPS UP AT THIS POINT:

MISSING LIBRARIES OR PLATFORM NOT SUPPPORTED
FACT++ REQUIRES PLATFORM SPECIFIC LIBRARIES
WHICH CANNOT BE FOUND

WHEN I CLICK OK THIS WINDOW CLOSES AND THE PROTEGE LOG CONTINUES AS FOLLOWS:

 


java:102)
          java.lang.Thread.run(Thread.java:745)
    (Listeners should be removed in the plugin dispose method!)
*** WARNING BADLY BEHAVING LISTENER: org.protege.editor.owl.ui.action.AbstractOntologySelectionStrategyAction$$Lambda$59/1677217031 ***
    Possible culprit (trace from when listener was added):
          org.protege.editor.owl.ui.action.AbstractOntologySelectionStrategyAction.initialise(AbstractOntologySelectionStrategyAction.java:47)
          org.protege.editor.owl.ui.action.ImportsClosureOntologyStrategyAction.initialise(ImportsClosureOntologyStrategyAction.java:27)
          org.protege.editor.core.ui.menu.MenuActionPluginJPFImpl.newInstance(MenuActionPluginJPFImpl.java:169)
          org.protege.editor.core.ui.menu.MenuActionPluginJPFImpl.newInstance(MenuActionPluginJPFImpl.java:31)
          org.protege.editor.core.ui.menu.MenuBuilder.buildInnerMenu(MenuBuilder.java:159)
          org.protege.editor.core.ui.menu.MenuBuilder.addMenu(MenuBuilder.java:114)
          org.protege.editor.core.ui.menu.MenuBuilder.buildCompositeMenu(MenuBuilder.java:135)
          org.protege.editor.core.ui.menu.MenuBuilder.addMenu(MenuBuilder.java:106)
          org.protege.editor.core.ui.menu.MenuBuilder.buildMenu(MenuBuilder.java:64)
          org.protege.editor.core.ui.workspace.WorkspaceFrame.createMenuBar(WorkspaceFrame.java:165)
          org.protege.editor.core.ui.workspace.WorkspaceFrame.createUI(WorkspaceFrame.java:137)
          org.protege.editor.core.ui.workspace.WorkspaceFrame.<init>(WorkspaceFrame.java:55)
          org.protege.editor.core.ui.workspace.WorkspaceManager.addWorkspace(WorkspaceManager.java:47)
          org.protege.editor.core.editorkit.EditorKitManager.addEditorKit(EditorKitManager.java:44)
          org.protege.editor.core.ProtegeManager.createAndSetupNewEditorKit(ProtegeManager.java:139)
          org.protege.editor.core.ProtegeManager.createAndSetupNewEditorKit(ProtegeManager.java:129)
          org.protege.editor.core.ProtegeApplication.createAndSetupDefaultEditorKit(ProtegeApplication.java:488)
          org.protege.editor.core.ProtegeApplication.startApplication(ProtegeApplication.java:432)
          org.protege.editor.core.ProtegeApplication.reallyStart(ProtegeApplication.java:109)
          org.protege.editor.core.ProtegeApplication.lambda$start$11(ProtegeApplication.java:90)
          org.protege.editor.core.ProtegeApplication$$Lambda$24/1976931298.frameworkEvent(Unknown Source)
          org.apache.felix.framework.util.EventDispatcher.invokeFrameworkListenerCallback(EventDispatcher.java:836)
          org.apache.felix.framework.util.EventDispatcher.fireEventImmediately(EventDispatcher.java:786)
          org.apache.felix.framework.util.EventDispatcher.run(EventDispatcher.java:1099)
          org.apache.felix.framework.util.EventDispatcher.access$000(EventDispatcher.java:55)
          org.apache.felix.framework.util.EventDispatcher$1.run(EventDispatcher.java:102)
          java.lang.Thread.run(Thread.java:745)
    (Listeners should be removed in the plugin dispose method!)
*** WARNING BADLY BEHAVING LISTENER: org.protege.editor.owl.ui.renderer.menu.AbstractByRendererMenu$$Lambda$57/436590799 ***
    Possible culprit (trace from when listener was added):
          org.protege.editor.owl.ui.renderer.menu.AbstractByRendererMenu.initialise(AbstractByRendererMenu.java:34)
          org.protege.editor.core.ui.menu.MenuActionPluginJPFImpl.newInstance(MenuActionPluginJPFImpl.java:169)
          org.protege.editor.core.ui.menu.MenuActionPluginJPFImpl.newInstance(MenuActionPluginJPFImpl.java:31)
          org.protege.editor.core.ui.menu.MenuBuilder.buildInnerMenu(MenuBuilder.java:159)
          org.protege.editor.core.ui.menu.MenuBuilder.addMenu(MenuBuilder.java:114)
          org.protege.editor.core.ui.menu.MenuBuilder.buildCompositeMenu(MenuBuilder.java:135)
          org.protege.editor.core.ui.menu.MenuBuilder.addMenu(MenuBuilder.java:106)
          org.protege.editor.core.ui.menu.MenuBuilder.buildMenu(MenuBuilder.java:64)
          org.protege.editor.core.ui.workspace.WorkspaceFrame.createMenuBar(WorkspaceFrame.java:165)
          org.protege.editor.core.ui.workspace.WorkspaceFrame.createUI(WorkspaceFrame.java:137)
          org.protege.editor.core.ui.workspace.WorkspaceFrame.<init>(WorkspaceFrame.java:55)
          org.protege.editor.core.ui.workspace.WorkspaceManager.addWorkspace(WorkspaceManager.java:47)
          org.protege.editor.core.editorkit.EditorKitManager.addEditorKit(EditorKitManager.java:44)
          org.protege.editor.core.ProtegeManager.createAndSetupNewEditorKit(ProtegeManager.java:139)
          org.protege.editor.core.ProtegeManager.createAndSetupNewEditorKit(ProtegeManager.java:129)
          org.protege.editor.core.ProtegeApplication.createAndSetupDefaultEditorKit(ProtegeApplication.java:488)
          org.protege.editor.core.ProtegeApplication.startApplication(ProtegeApplication.java:432)
          org.protege.editor.core.ProtegeApplication.reallyStart(ProtegeApplication.java:109)
          org.protege.editor.core.ProtegeApplication.lambda$start$11(ProtegeApplication.java:90)
          org.protege.editor.core.ProtegeApplication$$Lambda$24/1976931298.frameworkEvent(Unknown Source)
          org.apache.felix.framework.util.EventDispatcher.invokeFrameworkListenerCallback(EventDispatcher.java:836)
          org.apache.felix.framework.util.EventDispatcher.fireEventImmediately(EventDispatcher.java:786)
          org.apache.felix.framework.util.EventDispatcher.run(EventDispatcher.java:1099)
          org.apache.felix.framework.util.EventDispatcher.access$000(EventDispatcher.java:55)
          org.apache.felix.framework.util.EventDispatcher$1.run(EventDispatcher.java:102)
          java.lang.Thread.run(Thread.java:745)
    (Listeners should be removed in the plugin dispose method!)
*** WARNING BADLY BEHAVING LISTENER: org.protege.editor.owl.ui.renderer.menu.RenderByProperty$$Lambda$58/1386820222 ***
    Possible culprit (trace from when listener was added):
          org.protege.editor.owl.ui.renderer.menu.RenderByProperty.initialise(RenderByProperty.java:82)
          org.protege.editor.core.ui.menu.MenuActionPluginJPFImpl.newInstance(MenuActionPluginJPFImpl.java:169)
          org.protege.editor.core.ui.menu.MenuActionPluginJPFImpl.newInstance(MenuActionPluginJPFImpl.java:31)
          org.protege.editor.core.ui.menu.MenuBuilder.buildDynamicMenu(MenuBuilder.java:146)
          org.protege.editor.core.ui.menu.MenuBuilder.addMenu(MenuBuilder.java:110)
          org.protege.editor.core.ui.menu.MenuBuilder.buildCompositeMenu(MenuBuilder.java:135)
          org.protege.editor.core.ui.menu.MenuBuilder.addMenu(MenuBuilder.java:106)
          org.protege.editor.core.ui.menu.MenuBuilder.buildMenu(MenuBuilder.java:64)
          org.protege.editor.core.ui.workspace.WorkspaceFrame.createMenuBar(WorkspaceFrame.java:165)
          org.protege.editor.core.ui.workspace.WorkspaceFrame.createUI(WorkspaceFrame.java:137)
          org.protege.editor.core.ui.workspace.WorkspaceFrame.<init>(WorkspaceFrame.java:55)
          org.protege.editor.core.ui.workspace.WorkspaceManager.addWorkspace(WorkspaceManager.java:47)
          org.protege.editor.core.editorkit.EditorKitManager.addEditorKit(EditorKitManager.java:44)
          org.protege.editor.core.ProtegeManager.createAndSetupNewEditorKit(ProtegeManager.java:139)
          org.protege.editor.core.ProtegeManager.createAndSetupNewEditorKit(ProtegeManager.java:129)
          org.protege.editor.core.ProtegeApplication.createAndSetupDefaultEditorKit(ProtegeApplication.java:488)
          org.protege.editor.core.ProtegeApplication.startApplication(ProtegeApplication.java:432)
          org.protege.editor.core.ProtegeApplication.reallyStart(ProtegeApplication.java:109)
          org.protege.editor.core.ProtegeApplication.lambda$start$11(ProtegeApplication.java:90)
          org.protege.editor.core.ProtegeApplication$$Lambda$24/1976931298.frameworkEvent(Unknown Source)
          org.apache.felix.framework.util.EventDispatcher.invokeFrameworkListenerCallback(EventDispatcher.java:836)
          org.apache.felix.framework.util.EventDispatcher.fireEventImmediately(EventDispatcher.java:786)
          org.apache.felix.framework.util.EventDispatcher.run(EventDispatcher.java:1099)
          org.apache.felix.framework.util.EventDispatcher.access$000(EventDispatcher.java:55)
          org.apache.felix.framework.util.EventDispatcher$1.run(EventDispatcher.java:102)
          java.lang.Thread.run(Thread.java:745)
    (Listeners should be removed in the plugin dispose method!)
*** WARNING BADLY BEHAVING LISTENER: org.protege.editor.owl.ui.action.AbstractOntologySelectionStrategyAction$$Lambda$59/1677217031 ***
    Possible culprit (trace from when listener was added):
          org.protege.editor.owl.ui.action.AbstractOntologySelectionStrategyAction.initialise(AbstractOntologySelectionStrategyAction.java:47)
          org.protege.editor.core.ui.menu.MenuActionPluginJPFImpl.newInstance(MenuActionPluginJPFImpl.java:169)
          org.protege.editor.core.ui.menu.MenuActionPluginJPFImpl.newInstance(MenuActionPluginJPFImpl.java:31)
          org.protege.editor.core.ui.menu.MenuBuilder.buildInnerMenu(MenuBuilder.java:159)
          org.protege.editor.core.ui.menu.MenuBuilder.addMenu(MenuBuilder.java:114)
          org.protege.editor.core.ui.menu.MenuBuilder.buildCompositeMenu(MenuBuilder.java:135)
          org.protege.editor.core.ui.menu.MenuBuilder.addMenu(MenuBuilder.java:106)
          org.protege.editor.core.ui.menu.MenuBuilder.buildMenu(MenuBuilder.java:64)
          org.protege.editor.core.ui.workspace.WorkspaceFrame.createMenuBar(WorkspaceFrame.java:165)
          org.protege.editor.core.ui.workspace.WorkspaceFrame.createUI(WorkspaceFrame.java:137)
          org.protege.editor.core.ui.workspace.WorkspaceFrame.<init>(WorkspaceFrame.java:55)
          org.protege.editor.core.ui.workspace.WorkspaceManager.addWorkspace(WorkspaceManager.java:47)
          org.protege.editor.core.editorkit.EditorKitManager.addEditorKit(EditorKitManager.java:44)
          org.protege.editor.core.ProtegeManager.createAndSetupNewEditorKit(ProtegeManager.java:139)
          org.protege.editor.core.ProtegeManager.createAndSetupNewEditorKit(ProtegeManager.java:129)
          org.protege.editor.core.ProtegeApplication.createAndSetupDefaultEditorKit(ProtegeApplication.java:488)
          org.protege.editor.core.ProtegeApplication.startApplication(ProtegeApplication.java:432)
          org.protege.editor.core.ProtegeApplication.reallyStart(ProtegeApplication.java:109)
          org.protege.editor.core.ProtegeApplication.lambda$start$11(ProtegeApplication.java:90)
          org.protege.editor.core.ProtegeApplication$$Lambda$24/1976931298.frameworkEvent(Unknown Source)
          org.apache.felix.framework.util.EventDispatcher.invokeFrameworkListenerCallback(EventDispatcher.java:836)
          org.apache.felix.framework.util.EventDispatcher.fireEventImmediately(EventDispatcher.java:786)
          org.apache.felix.framework.util.EventDispatcher.run(EventDispatcher.java:1099)
          org.apache.felix.framework.util.EventDispatcher.access$000(EventDispatcher.java:55)
          org.apache.felix.framework.util.EventDispatcher$1.run(EventDispatcher.java:102)
          java.lang.Thread.run(Thread.java:745)
    (Listeners should be removed in the plugin dispose method!)

An error was thrown: java.lang.UnsatisfiedLinkError: C:\Users\Evgueni\AppData\Local\Temp\ProtegeCache-e2b80694-f0ed-44e2-905b-9d993353402c\bundle36\version0.0\bundle.jar-lib\0\lib\native\64bit\FaCTPlusPlusJNI.dll: Can't find dependent libraries
org.semanticweb.owlapi.model.OWLRuntimeException: java.lang.UnsatisfiedLinkError: C:\Users\Evgueni\AppData\Local\Temp\ProtegeCache-e2b80694-f0ed-44e2-905b-9d993353402c\bundle36\version0.0\bundle.jar-lib\0\lib\native\64bit\FaCTPlusPlusJNI.dll: Can't find dependent libraries
        at uk.ac.manchester.cs.factplusplus.protege.FaCTPlusPlusFactory.getReasonerFactory(FaCTPlusPlusFactory.java:84) ~[na:na]
        at org.protege.editor.owl.model.inference.ReasonerInfoComparator.compare(ReasonerInfoComparator.java:9) ~[na:na]
        at org.protege.editor.owl.model.inference.ReasonerInfoComparator.compare(ReasonerInfoComparator.java:5) ~[na:na]
        at java.util.TimSort.countRunAndMakeAscending(TimSort.java:351) ~[na:1.8.0_40]
        at java.util.TimSort.sort(TimSort.java:216) ~[na:1.8.0_40]
        at java.util.Arrays.sort(Arrays.java:1512) ~[na:1.8.0_40]
        at java.util.ArrayList.sort(ArrayList.java:1454) ~[na:1.8.0_40]
        at java.util.Collections.sort(Collections.java:175) ~[na:1.8.0_40]
        at org.protege.editor.owl.model.OWLWorkspace.rebuildReasonerMenu(OWLWorkspace.java:565) ~[na:na]
        at org.protege.editor.owl.model.OWLWorkspace.initialiseExtraMenuItems(OWLWorkspace.java:431) ~[na:na]
        at org.protege.editor.core.ui.workspace.WorkspaceFrame.createUI(WorkspaceFrame.java:141) ~[protege-editor-core.jar:na]
        at org.protege.editor.core.ui.workspace.WorkspaceFrame.<init>(WorkspaceFrame.java:55) ~[protege-editor-core.jar:na]
        at org.protege.editor.core.ui.workspace.WorkspaceManager.addWorkspace(WorkspaceManager.java:47) ~[protege-editor-core.jar:na]
        at org.protege.editor.core.editorkit.EditorKitManager.addEditorKit(EditorKitManager.java:44) ~[protege-editor-core.jar:na]
        at org.protege.editor.core.ProtegeManager.createAndSetupNewEditorKit(ProtegeManager.java:139) ~[protege-editor-core.jar:na]
        at org.protege.editor.core.ProtegeManager.createAndSetupNewEditorKit(ProtegeManager.java:129) ~[protege-editor-core.jar:na]
        at org.protege.editor.core.ProtegeApplication.createAndSetupDefaultEditorKit(ProtegeApplication.java:488) [protege-editor-core.jar:na]
        at org.protege.editor.core.ProtegeApplication.startApplication(ProtegeApplication.java:432) [protege-editor-core.jar:na]
        at org.protege.editor.core.ProtegeApplication.reallyStart(ProtegeApplication.java:109) [protege-editor-core.jar:na]
        at org.protege.editor.core.ProtegeApplication.lambda$start$11(ProtegeApplication.java:90) [protege-editor-core.jar:na]
        at org.protege.editor.core.ProtegeApplication$$Lambda$24/1976931298.frameworkEvent(Unknown Source) [protege-editor-core.jar:na]
        at org.apache.felix.framework.util.EventDispatcher.invokeFrameworkListenerCallback(EventDispatcher.java:836) [org.apache.felix.main.jar:na]
        at org.apache.felix.framework.util.EventDispatcher.fireEventImmediately(EventDispatcher.java:786) [org.apache.felix.main.jar:na]
        at org.apache.felix.framework.util.EventDispatcher.run(EventDispatcher.java:1099) [org.apache.felix.main.jar:na]
        at org.apache.felix.framework.util.EventDispatcher.access$000(EventDispatcher.java:55) [org.apache.felix.main.jar:na]
        at org.apache.felix.framework.util.EventDispatcher$1.run(EventDispatcher.java:102) [org.apache.felix.main.jar:na]
        at java.lang.Thread.run(Thread.java:745) [na:1.8.0_40]
Caused by: java.lang.UnsatisfiedLinkError: C:\Users\Evgueni\AppData\Local\Temp\ProtegeCache-e2b80694-f0ed-44e2-905b-9d993353402c\bundle36\version0.0\bundle.jar-lib\0\lib\native\64bit\FaCTPlusPlusJNI.dll: Can't find dependent libraries
        at java.lang.ClassLoader$NativeLibrary.load(Native Method) ~[na:1.8.0_40]
        at java.lang.ClassLoader.loadLibrary0(ClassLoader.java:1937) ~[na:1.8.0_40]
        at java.lang.ClassLoader.loadLibrary(ClassLoader.java:1835) ~[na:1.8.0_40]
        at java.lang.Runtime.loadLibrary0(Runtime.java:870) ~[na:1.8.0_40]
        at java.lang.System.loadLibrary(System.java:1122) ~[na:1.8.0_40]
        at uk.ac.manchester.cs.factplusplus.FaCTPlusPlus.<clinit>(FaCTPlusPlus.java:19) ~[na:na]
        at uk.ac.manchester.cs.factplusplus.protege.FaCTPlusPlusFactory.getReasonerFactory(FaCTPlusPlusFactory.java:75) ~[na:na]
        ... 26 common frames omitted


AT THIS POINT ANOTHER ERROR WINDOW POPS UP which is HUGE, so when I click OK
THIS IS THE LAST I SEE -- then Prorege dies -- the editor never opens.


------------------------------- Auto-update Check ------------------------------
Auto-update last performed: Mon Feb 27 17:08:38 EST 2017
Auto-update has been performed today.  Not performing it again.

 

THANK YOU so much for your help. It is trully appreciated.
Best regards, Neli

 

 

Neli P. Zlatareva, PhD
Professor of Computer Science
Department of Computer Science
Central Connecticut State University
New Britain, CT 06050
Phone: (860) 832-2723
Fax: (860) 832-2712
Web site: cs.ccsu.edu/~neli/


From: protege-user <[hidden email]> on behalf of Csongor Nyulas <[hidden email]>
Sent: Wednesday, February 22, 2017 2:59:44 AM
To: User support for WebProtege and Protege Desktop
Subject: Re: [protege-user] Problem running Protege 5.1 after updating Fact++

 

Dear Neli,

I am running Protege 5.1.1 with Fact++ 1.6.5 for a long time now, and I never experienced the things that you describe. So, in order to debug what's going on, we need to understand what is different on your machine compared to ours.

Here are a few questions that hopefully can help us elucidate the mystery:

What OS are you using?
What is the ".dat" file? Maybe you wanted to say ".bat" file (in which case you are probably using Windows)?
Are you by any chance using an virtual machine or some OS emulator?
In the [PROTEGE_INSTALL_DIR]/plugins folder how many files do you have that have the word "fact" in their names? If you have only a jar file, what is the exact name of that file, and how big is it?
If you search all the subfolders of [PROTEGE_INSTALL_DIR], how many ja files do you find that contain the name "fact" in it?
Can you send us the Protege logs?

Csongor

On 02/18/2017 08:00 AM, Zlatareva, Neli (Computer Science) wrote:


Hi,

I would greatly appreciate help with the following issue:

I have been working with Protégé 5.1 for some time and everything was great.

At the moment I decided to update to Fact++ 1.6.5 everything went wrong.

I could not open Protégé after restart (suggested to update Fact++). The error

I am getting is that MS C++ libraries are missing and after that the editor will not

open (I am running .dat file). I tried EVERYTHING -- deleting old versions, downloading

new ones, including JRE because I read somewhere about possible java corruption).

I am teaching Sem Web Tech class and very shortly my students will need Protégé

for their project. I am very worried that something like this can happen to them and

I have no clue how to help.

Any suggestions will be greatly appreciated.

THANK YOU SO MUCH! 

 

Neli P. Zlatareva, PhD
Professor of Computer Science
Department of Computer Science
Central Connecticut State University
New Britain, CT 06050
Phone: (860) 832-2723
Fax: (860) 832-2712
Web site: cs.ccsu.edu/~neli


 




_______________________________________________
protege-user mailing list
[hidden email]
https://mailman.stanford.edu/mailman/listinfo/protege-user

 

 

 

Neli P. Zlatareva, Ph.D

Professor of Computer Science

Central Connecticut State University,

1615 New Britain, CT 06050.

www.cs.ccsu.edu/~neli

 

From: protege-user [mailto:[hidden email]] On Behalf Of Tania Tudorache
Sent: Monday, March 20, 2017 2:29 PM
To: User support for WebProtege and Protege Desktop <[hidden email]>
Subject: Re: [protege-user] Best way to manually uninstall Protege (ver 5.0.5-beta-17)?

 

Neli,

 

The preferences error is likely not the one that causes Protege not to start, but it is rather the other errors that you mention, but did not include in your post.

 

Seeing the entire log will help diagnose the problem. Can you please resend the entire logs?

 

Thanks,

Tania


From: protege-user <[hidden email]> on behalf of Zlatareva, Neli (Computer Science) <[hidden email]>
Sent: Saturday, March 18, 2017 7:44:01 AM
To: User support for WebProtege and Protege Desktop
Subject: Re: [protege-user] Best way to manually uninstall Protege (ver 5.0.5-beta-17)?

 

Hi,

I have being trying to get my computer run Protégé unsuccessfully and following Csongor advice I sent Protégé logs hoping that this will help locate my problem, but I did not hear back. I found the message below somewhat useful, so I tried as suggested -- I  cleared Protégé preferences, again deleted old Protégé versions and installed the new Protégé 5.2. I am getting the same problem as before, but may be this time I can be more specific with my request. This is the error message that may be the key for my problem

 

Mar 18, 2017 10:22:28 AM java.util.prefs.WindowsPreferences <init>
WARNING: Could not open/create prefs root node Software\JavaSoft\Prefs at root 0x80000002. Windows RegCreateKeyEx(...) returned error code 5.
Creating and setting up empty (default) editor kit
OWL API Version: 4.2.8.20170104-2310
Loading default configuration parameters for class org.semanticweb.elk.reasoner.config.ReasonerConfiguration
Cannot generate ontology catalog for ontology at http://www.semanticweb.org/ioana/ontologies/2017/2/untitled-ontology-4
-------------------------- Generated Diagnosis Model ---------------------------

 

Some more here and the after giving me the same error as before about missing C++ libraries it stops and Protégé will not open.

 

Would you be able to help me fix this problem?

 

Thank you so much.

Regards, Neli.

 

 

Neli P. Zlatareva, PhD
Professor of Computer Science
Department of Computer Science
Central Connecticut State University
New Britain, CT 06050
Phone: (860) 832-2723
Fax: (860) 832-2712
Web site: cs.ccsu.edu/~neli/


From: protege-user <[hidden email]> on behalf of Tania Tudorache <[hidden email]>
Sent: Friday, March 17, 2017 7:13:46 PM
To: User support for WebProtege and Protege Desktop
Subject: Re: [protege-user] Best way to manually uninstall Protege (ver 5.0.5-beta-17)?

 

Deleting the folder should do it.

 

You can also try to clear the preferences:

http://protegewiki.stanford.edu/wiki/ClearingP4Preferences

 

Tania


From: protege-user <[hidden email]> on behalf of sizedam <[hidden email]>
Sent: Wednesday, March 15, 2017 5:57:17 AM
To: [hidden email]
Subject: [protege-user] Best way to manually uninstall Protege (ver 5.0.5-beta-17)?

 

There is no uninistall folder in my installation as mentioned in some other
posts, so I'd like guidance on all the system references I'd have to remove
in addition to deleting app folder in my pic. I need to do a clean
reinstall.

ProtegeAppFolder.png
<http://protege-project.136.n4.nabble.com/file/n4667841/ProtegeAppFolder.png



--
View this message in context: http://protege-project.136.n4.nabble.com/Best-way-to-manually-uninstall-Protege-ver-5-0-5-beta-17-tp4667841.html
Sent from the Protege User mailing list archive at Nabble.com.
_______________________________________________
protege-user mailing list
[hidden email]
https://mailman.stanford.edu/mailman/listinfo/protege-user


_______________________________________________
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[hidden email]
https://mailman.stanford.edu/mailman/listinfo/protege-user
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Re: Best way to manually uninstall Protege (ver 5.0.5-beta-17)?

zlatareva
In reply to this post by Tania Tudorache

Hi Tania,

I am not sure if you got my e-mail from 3/20 which is why I am resending it. This time I am sending  the error log in an attachement.

Any help will be greatly appreciated.

Thank you.

Regards, Neli.

 

Neli P. Zlatareva, Ph.D

Professor of Computer Science

Central Connecticut State University,

1615 New Britain, CT 06050.

www.cs.ccsu.edu/~neli

 

From: protege-user [mailto:[hidden email]] On Behalf Of Tania Tudorache
Sent: Monday, March 20, 2017 2:29 PM
To: User support for WebProtege and Protege Desktop <[hidden email]>
Subject: Re: [protege-user] Best way to manually uninstall Protege (ver 5.0.5-beta-17)?

 

Neli,

 

The preferences error is likely not the one that causes Protege not to start, but it is rather the other errors that you mention, but did not include in your post.

 

Seeing the entire log will help diagnose the problem. Can you please resend the entire logs?

 

Thanks,

Tania


From: protege-user <[hidden email]> on behalf of Zlatareva, Neli (Computer Science) <[hidden email]>
Sent: Saturday, March 18, 2017 7:44:01 AM
To: User support for WebProtege and Protege Desktop
Subject: Re: [protege-user] Best way to manually uninstall Protege (ver 5.0.5-beta-17)?

 

Hi,

I have being trying to get my computer run Protégé unsuccessfully and following Csongor advice I sent Protégé logs hoping that this will help locate my problem, but I did not hear back. I found the message below somewhat useful, so I tried as suggested -- I  cleared Protégé preferences, again deleted old Protégé versions and installed the new Protégé 5.2. I am getting the same problem as before, but may be this time I can be more specific with my request. This is the error message that may be the key for my problem

 

Mar 18, 2017 10:22:28 AM java.util.prefs.WindowsPreferences <init>
WARNING: Could not open/create prefs root node Software\JavaSoft\Prefs at root 0x80000002. Windows RegCreateKeyEx(...) returned error code 5.
Creating and setting up empty (default) editor kit
OWL API Version: 4.2.8.20170104-2310
Loading default configuration parameters for class org.semanticweb.elk.reasoner.config.ReasonerConfiguration
Cannot generate ontology catalog for ontology at http://www.semanticweb.org/ioana/ontologies/2017/2/untitled-ontology-4
-------------------------- Generated Diagnosis Model ---------------------------

 

Some more here and the after giving me the same error as before about missing C++ libraries it stops and Protégé will not open.

 

Would you be able to help me fix this problem?

 

Thank you so much.

Regards, Neli.

 

 

Neli P. Zlatareva, PhD
Professor of Computer Science
Department of Computer Science
Central Connecticut State University
New Britain, CT 06050
Phone: (860) 832-2723
Fax: (860) 832-2712
Web site: cs.ccsu.edu/~neli/


From: protege-user <[hidden email]> on behalf of Tania Tudorache <[hidden email]>
Sent: Friday, March 17, 2017 7:13:46 PM
To: User support for WebProtege and Protege Desktop
Subject: Re: [protege-user] Best way to manually uninstall Protege (ver 5.0.5-beta-17)?

 

Deleting the folder should do it.

 

You can also try to clear the preferences:

http://protegewiki.stanford.edu/wiki/ClearingP4Preferences

 

Tania


From: protege-user <[hidden email]> on behalf of sizedam <[hidden email]>
Sent: Wednesday, March 15, 2017 5:57:17 AM
To: [hidden email]
Subject: [protege-user] Best way to manually uninstall Protege (ver 5.0.5-beta-17)?

 

There is no uninistall folder in my installation as mentioned in some other
posts, so I'd like guidance on all the system references I'd have to remove
in addition to deleting app folder in my pic. I need to do a clean
reinstall.

ProtegeAppFolder.png
<http://protege-project.136.n4.nabble.com/file/n4667841/ProtegeAppFolder.png



--
View this message in context: http://protege-project.136.n4.nabble.com/Best-way-to-manually-uninstall-Protege-ver-5-0-5-beta-17-tp4667841.html
Sent from the Protege User mailing list archive at Nabble.com.
_______________________________________________
protege-user mailing list
[hidden email]
https://mailman.stanford.edu/mailman/listinfo/protege-user


_______________________________________________
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[hidden email]
https://mailman.stanford.edu/mailman/listinfo/protege-user

ProtegeFileErrors.docx (30K) Download Attachment
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Re: Best way to manually uninstall Protege (ver 5.0.5-beta-17)?

Tania Tudorache

Hi Neli,


I already replied on March 21.


Please see here the reply and steps:

http://protege-project.136.n4.nabble.com/Best-way-to-manually-uninstall-Protege-ver-5-0-5-beta-17-tp4667841p4667900.html


Tania


From: protege-user <[hidden email]> on behalf of Zlatareva, Neli (Computer Science) <[hidden email]>
Sent: Thursday, March 23, 2017 9:47:39 AM
To: User support for WebProtege and Protege Desktop
Subject: Re: [protege-user] Best way to manually uninstall Protege (ver 5.0.5-beta-17)?
 

Hi Tania,

I am not sure if you got my e-mail from 3/20 which is why I am resending it. This time I am sending  the error log in an attachement.

Any help will be greatly appreciated.

Thank you.

Regards, Neli.

 

Neli P. Zlatareva, Ph.D

Professor of Computer Science

Central Connecticut State University,

1615 New Britain, CT 06050.

www.cs.ccsu.edu/~neli

 

From: protege-user [mailto:[hidden email]] On Behalf Of Tania Tudorache
Sent: Monday, March 20, 2017 2:29 PM
To: User support for WebProtege and Protege Desktop <[hidden email]>
Subject: Re: [protege-user] Best way to manually uninstall Protege (ver 5.0.5-beta-17)?

 

Neli,

 

The preferences error is likely not the one that causes Protege not to start, but it is rather the other errors that you mention, but did not include in your post.

 

Seeing the entire log will help diagnose the problem. Can you please resend the entire logs?

 

Thanks,

Tania


From: protege-user <[hidden email]> on behalf of Zlatareva, Neli (Computer Science) <[hidden email]>
Sent: Saturday, March 18, 2017 7:44:01 AM
To: User support for WebProtege and Protege Desktop
Subject: Re: [protege-user] Best way to manually uninstall Protege (ver 5.0.5-beta-17)?

 

Hi,

I have being trying to get my computer run Protégé unsuccessfully and following Csongor advice I sent Protégé logs hoping that this will help locate my problem, but I did not hear back. I found the message below somewhat useful, so I tried as suggested -- I  cleared Protégé preferences, again deleted old Protégé versions and installed the new Protégé 5.2. I am getting the same problem as before, but may be this time I can be more specific with my request. This is the error message that may be the key for my problem

 

Mar 18, 2017 10:22:28 AM java.util.prefs.WindowsPreferences <init>
WARNING: Could not open/create prefs root node Software\JavaSoft\Prefs at root 0x80000002. Windows RegCreateKeyEx(...) returned error code 5.
Creating and setting up empty (default) editor kit
OWL API Version: 4.2.8.20170104-2310
Loading default configuration parameters for class org.semanticweb.elk.reasoner.config.ReasonerConfiguration
Cannot generate ontology catalog for ontology at http://www.semanticweb.org/ioana/ontologies/2017/2/untitled-ontology-4
-------------------------- Generated Diagnosis Model ---------------------------

 

Some more here and the after giving me the same error as before about missing C++ libraries it stops and Protégé will not open.

 

Would you be able to help me fix this problem?

 

Thank you so much.

Regards, Neli.

 

 

Neli P. Zlatareva, PhD
Professor of Computer Science
Department of Computer Science
Central Connecticut State University
New Britain, CT 06050
Phone: (860) 832-2723
Fax: (860) 832-2712
Web site: cs.ccsu.edu/~neli/


From: protege-user <[hidden email]> on behalf of Tania Tudorache <[hidden email]>
Sent: Friday, March 17, 2017 7:13:46 PM
To: User support for WebProtege and Protege Desktop
Subject: Re: [protege-user] Best way to manually uninstall Protege (ver 5.0.5-beta-17)?

 

Deleting the folder should do it.

 

You can also try to clear the preferences:

http://protegewiki.stanford.edu/wiki/ClearingP4Preferences

 

Tania


From: protege-user <[hidden email]> on behalf of sizedam <[hidden email]>
Sent: Wednesday, March 15, 2017 5:57:17 AM
To: [hidden email]
Subject: [protege-user] Best way to manually uninstall Protege (ver 5.0.5-beta-17)?

 

There is no uninistall folder in my installation as mentioned in some other
posts, so I'd like guidance on all the system references I'd have to remove
in addition to deleting app folder in my pic. I need to do a clean
reinstall.

ProtegeAppFolder.png
<http://protege-project.136.n4.nabble.com/file/n4667841/ProtegeAppFolder.png



--
View this message in context: http://protege-project.136.n4.nabble.com/Best-way-to-manually-uninstall-Protege-ver-5-0-5-beta-17-tp4667841.html
Sent from the Protege User mailing list archive at Nabble.com.
_______________________________________________
protege-user mailing list
[hidden email]
https://mailman.stanford.edu/mailman/listinfo/protege-user


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Re: Best way to manually uninstall Protege (ver 5.0.5-beta-17)?

zlatareva

Hi Tania,

Thank you so much for your reply -- I was able to find Fact++  in a different folder (may be an old cache), and deleted it from there. Protege WORKS now -- thank you SO MUCH!!!

Regards, Neli.


Neli P. Zlatareva, PhD
Professor of Computer Science
Department of Computer Science
Central Connecticut State University
New Britain, CT 06050
Phone: (860) 832-2723
Fax: (860) 832-2712
Web site: cs.ccsu.edu/~neli/



From: protege-user <[hidden email]> on behalf of Tania Tudorache <[hidden email]>
Sent: Thursday, March 23, 2017 1:01 PM
To: User support for WebProtege and Protege Desktop
Subject: Re: [protege-user] Best way to manually uninstall Protege (ver 5.0.5-beta-17)?
 

Hi Neli,


I already replied on March 21.


Please see here the reply and steps:

http://protege-project.136.n4.nabble.com/Best-way-to-manually-uninstall-Protege-ver-5-0-5-beta-17-tp4667841p4667900.html


Tania


From: protege-user <[hidden email]> on behalf of Zlatareva, Neli (Computer Science) <[hidden email]>
Sent: Thursday, March 23, 2017 9:47:39 AM
To: User support for WebProtege and Protege Desktop
Subject: Re: [protege-user] Best way to manually uninstall Protege (ver 5.0.5-beta-17)?
 

Hi Tania,

I am not sure if you got my e-mail from 3/20 which is why I am resending it. This time I am sending  the error log in an attachement.

Any help will be greatly appreciated.

Thank you.

Regards, Neli.

 

Neli P. Zlatareva, Ph.D

Professor of Computer Science

Central Connecticut State University,

1615 New Britain, CT 06050.

www.cs.ccsu.edu/~neli

 

From: protege-user [mailto:[hidden email]] On Behalf Of Tania Tudorache
Sent: Monday, March 20, 2017 2:29 PM
To: User support for WebProtege and Protege Desktop <[hidden email]>
Subject: Re: [protege-user] Best way to manually uninstall Protege (ver 5.0.5-beta-17)?

 

Neli,

 

The preferences error is likely not the one that causes Protege not to start, but it is rather the other errors that you mention, but did not include in your post.

 

Seeing the entire log will help diagnose the problem. Can you please resend the entire logs?

 

Thanks,

Tania


From: protege-user <[hidden email]> on behalf of Zlatareva, Neli (Computer Science) <[hidden email]>
Sent: Saturday, March 18, 2017 7:44:01 AM
To: User support for WebProtege and Protege Desktop
Subject: Re: [protege-user] Best way to manually uninstall Protege (ver 5.0.5-beta-17)?

 

Hi,

I have being trying to get my computer run Protégé unsuccessfully and following Csongor advice I sent Protégé logs hoping that this will help locate my problem, but I did not hear back. I found the message below somewhat useful, so I tried as suggested -- I  cleared Protégé preferences, again deleted old Protégé versions and installed the new Protégé 5.2. I am getting the same problem as before, but may be this time I can be more specific with my request. This is the error message that may be the key for my problem

 

Mar 18, 2017 10:22:28 AM java.util.prefs.WindowsPreferences <init>
WARNING: Could not open/create prefs root node Software\JavaSoft\Prefs at root 0x80000002. Windows RegCreateKeyEx(...) returned error code 5.
Creating and setting up empty (default) editor kit
OWL API Version: 4.2.8.20170104-2310
Loading default configuration parameters for class org.semanticweb.elk.reasoner.config.ReasonerConfiguration
Cannot generate ontology catalog for ontology at http://www.semanticweb.org/ioana/ontologies/2017/2/untitled-ontology-4
-------------------------- Generated Diagnosis Model ---------------------------

 

Some more here and the after giving me the same error as before about missing C++ libraries it stops and Protégé will not open.

 

Would you be able to help me fix this problem?

 

Thank you so much.

Regards, Neli.

 

 

Neli P. Zlatareva, PhD
Professor of Computer Science
Department of Computer Science
Central Connecticut State University
New Britain, CT 06050
Phone: (860) 832-2723
Fax: (860) 832-2712
Web site: cs.ccsu.edu/~neli/


From: protege-user <[hidden email]> on behalf of Tania Tudorache <[hidden email]>
Sent: Friday, March 17, 2017 7:13:46 PM
To: User support for WebProtege and Protege Desktop
Subject: Re: [protege-user] Best way to manually uninstall Protege (ver 5.0.5-beta-17)?

 

Deleting the folder should do it.

 

You can also try to clear the preferences:

http://protegewiki.stanford.edu/wiki/ClearingP4Preferences

 

Tania


From: protege-user <[hidden email]> on behalf of sizedam <[hidden email]>
Sent: Wednesday, March 15, 2017 5:57:17 AM
To: [hidden email]
Subject: [protege-user] Best way to manually uninstall Protege (ver 5.0.5-beta-17)?

 

There is no uninistall folder in my installation as mentioned in some other
posts, so I'd like guidance on all the system references I'd have to remove
in addition to deleting app folder in my pic. I need to do a clean
reinstall.

ProtegeAppFolder.png
<http://protege-project.136.n4.nabble.com/file/n4667841/ProtegeAppFolder.png



--
View this message in context: http://protege-project.136.n4.nabble.com/Best-way-to-manually-uninstall-Protege-ver-5-0-5-beta-17-tp4667841.html
Sent from the Protege User mailing list archive at Nabble.com.
_______________________________________________
protege-user mailing list
[hidden email]
https://mailman.stanford.edu/mailman/listinfo/protege-user


_______________________________________________
protege-user mailing list
[hidden email]
https://mailman.stanford.edu/mailman/listinfo/protege-user
Reply | Threaded
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Re: Best way to manually uninstall Protege (ver 5.0.5-beta-17)?

Tania Tudorache

Great to hear!


Tania


From: protege-user <[hidden email]> on behalf of Zlatareva, Neli (Computer Science) <[hidden email]>
Sent: Thursday, March 23, 2017 12:57:48 PM
To: User support for WebProtege and Protege Desktop
Subject: Re: [protege-user] Best way to manually uninstall Protege (ver 5.0.5-beta-17)?
 

Hi Tania,

Thank you so much for your reply -- I was able to find Fact++  in a different folder (may be an old cache), and deleted it from there. Protege WORKS now -- thank you SO MUCH!!!

Regards, Neli.


Neli P. Zlatareva, PhD
Professor of Computer Science
Department of Computer Science
Central Connecticut State University
New Britain, CT 06050
Phone: (860) 832-2723
Fax: (860) 832-2712
Web site: cs.ccsu.edu/~neli/



From: protege-user <[hidden email]> on behalf of Tania Tudorache <[hidden email]>
Sent: Thursday, March 23, 2017 1:01 PM
To: User support for WebProtege and Protege Desktop
Subject: Re: [protege-user] Best way to manually uninstall Protege (ver 5.0.5-beta-17)?
 

Hi Neli,


I already replied on March 21.


Please see here the reply and steps:

http://protege-project.136.n4.nabble.com/Best-way-to-manually-uninstall-Protege-ver-5-0-5-beta-17-tp4667841p4667900.html


Tania


From: protege-user <[hidden email]> on behalf of Zlatareva, Neli (Computer Science) <[hidden email]>
Sent: Thursday, March 23, 2017 9:47:39 AM
To: User support for WebProtege and Protege Desktop
Subject: Re: [protege-user] Best way to manually uninstall Protege (ver 5.0.5-beta-17)?
 

Hi Tania,

I am not sure if you got my e-mail from 3/20 which is why I am resending it. This time I am sending  the error log in an attachement.

Any help will be greatly appreciated.

Thank you.

Regards, Neli.

 

Neli P. Zlatareva, Ph.D

Professor of Computer Science

Central Connecticut State University,

1615 New Britain, CT 06050.

www.cs.ccsu.edu/~neli

 

From: protege-user [mailto:[hidden email]] On Behalf Of Tania Tudorache
Sent: Monday, March 20, 2017 2:29 PM
To: User support for WebProtege and Protege Desktop <[hidden email]>
Subject: Re: [protege-user] Best way to manually uninstall Protege (ver 5.0.5-beta-17)?

 

Neli,

 

The preferences error is likely not the one that causes Protege not to start, but it is rather the other errors that you mention, but did not include in your post.

 

Seeing the entire log will help diagnose the problem. Can you please resend the entire logs?

 

Thanks,

Tania


From: protege-user <[hidden email]> on behalf of Zlatareva, Neli (Computer Science) <[hidden email]>
Sent: Saturday, March 18, 2017 7:44:01 AM
To: User support for WebProtege and Protege Desktop
Subject: Re: [protege-user] Best way to manually uninstall Protege (ver 5.0.5-beta-17)?

 

Hi,

I have being trying to get my computer run Protégé unsuccessfully and following Csongor advice I sent Protégé logs hoping that this will help locate my problem, but I did not hear back. I found the message below somewhat useful, so I tried as suggested -- I  cleared Protégé preferences, again deleted old Protégé versions and installed the new Protégé 5.2. I am getting the same problem as before, but may be this time I can be more specific with my request. This is the error message that may be the key for my problem

 

Mar 18, 2017 10:22:28 AM java.util.prefs.WindowsPreferences <init>
WARNING: Could not open/create prefs root node Software\JavaSoft\Prefs at root 0x80000002. Windows RegCreateKeyEx(...) returned error code 5.
Creating and setting up empty (default) editor kit
OWL API Version: 4.2.8.20170104-2310
Loading default configuration parameters for class org.semanticweb.elk.reasoner.config.ReasonerConfiguration
Cannot generate ontology catalog for ontology at http://www.semanticweb.org/ioana/ontologies/2017/2/untitled-ontology-4
-------------------------- Generated Diagnosis Model ---------------------------

 

Some more here and the after giving me the same error as before about missing C++ libraries it stops and Protégé will not open.

 

Would you be able to help me fix this problem?

 

Thank you so much.

Regards, Neli.

 

 

Neli P. Zlatareva, PhD
Professor of Computer Science
Department of Computer Science
Central Connecticut State University
New Britain, CT 06050
Phone: (860) 832-2723
Fax: (860) 832-2712
Web site: cs.ccsu.edu/~neli/


From: protege-user <[hidden email]> on behalf of Tania Tudorache <[hidden email]>
Sent: Friday, March 17, 2017 7:13:46 PM
To: User support for WebProtege and Protege Desktop
Subject: Re: [protege-user] Best way to manually uninstall Protege (ver 5.0.5-beta-17)?

 

Deleting the folder should do it.

 

You can also try to clear the preferences:

http://protegewiki.stanford.edu/wiki/ClearingP4Preferences

 

Tania


From: protege-user <[hidden email]> on behalf of sizedam <[hidden email]>
Sent: Wednesday, March 15, 2017 5:57:17 AM
To: [hidden email]
Subject: [protege-user] Best way to manually uninstall Protege (ver 5.0.5-beta-17)?

 

There is no uninistall folder in my installation as mentioned in some other
posts, so I'd like guidance on all the system references I'd have to remove
in addition to deleting app folder in my pic. I need to do a clean
reinstall.

ProtegeAppFolder.png
<http://protege-project.136.n4.nabble.com/file/n4667841/ProtegeAppFolder.png



--
View this message in context: http://protege-project.136.n4.nabble.com/Best-way-to-manually-uninstall-Protege-ver-5-0-5-beta-17-tp4667841.html
Sent from the Protege User mailing list archive at Nabble.com.
_______________________________________________
protege-user mailing list
[hidden email]
https://mailman.stanford.edu/mailman/listinfo/protege-user


_______________________________________________
protege-user mailing list
[hidden email]
https://mailman.stanford.edu/mailman/listinfo/protege-user
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