How to use SQWRL in JSP

Hello everyone.
I`m a newbie, not in JSP, but in ontologies. I made my OWL ontology. Now I want to create a jsp web interface on tomcat 6.0.20 in order able to apply SQWRL queries to my owl ontology. A simple java application works fine. When I use the same code I get an error. Let me be more specific.
The command line where the error occurs is like:
OWLModel owlModel = ProtegeOWL.createJenaOWLModelFromURI(uri);
where uri is simple the owl file.
the error is something like:
org.apache.catalina.core.StandardWrapperValve invoke
SEVERE: Servlet.service() for servlet jsp threw exception
java.lang.NoClassDefFoundError
     at edu.stanford.smi.protege.plugin.ProjectFixupsPluginManager.getAvailableProjectFixupPluginClasses(Unknown Source)
     at edu.stanford.smi.protege.plugin.ProjectFixupsPluginManager.getAvailableProjectFixupPlugins(Unknown Source)
     at edu.stanford.smi.protege.plugin.ProjectFixupsPluginManager.fixProject(Unknown Source)
     at edu.stanford.smi.protege.model.Project.loadProjectKB(Unknown Source)
     at edu.stanford.smi.protege.model.Project.<init>(Unknown Source)
     at edu.stanford.smi.protege.model.Project.<init>(Unknown Source)
     at edu.stanford.smi.protege.model.Project.createBuildProject(Unknown Source)
     at edu.stanford.smi.protegex.owl.jena.creator.OwlProjectFromUriCreator.create(Unknown Source)
     at edu.stanford.smi.protegex.owl.ProtegeOWL.createJenaOWLModelFromURI(Unknown Source)
     at swl.Swl.submitSWLQuery(Swl.java:51)
     at org.apache.jsp.Report_jsp._jspService(Report_jsp.java:113)
     at org.apache.jasper.runtime.HttpJspBase.service(HttpJspBase.java:70)
     at javax.servlet.http.HttpServlet.service(HttpServlet.java:717)
     at org.apache.jasper.servlet.JspServletWrapper.service(JspServletWrapper.java:374)
     at org.apache.jasper.servlet.JspServlet.serviceJspFile(JspServlet.java:342)
     at org.apache.jasper.servlet.JspServlet.service(JspServlet.java:267)
     at javax.servlet.http.HttpServlet.service(HttpServlet.java:717)
     at org.apache.catalina.core.ApplicationFilterChain.internalDoFilter(ApplicationFilterChain.java:290)
     at org.apache.catalina.core.ApplicationFilterChain.doFilter(ApplicationFilterChain.java:206)
     at org.apache.catalina.core.StandardWrapperValve.invoke(StandardWrapperValve.java:233)
     at org.apache.catalina.core.StandardContextValve.invoke(StandardContextValve.java:191)
     at org.apache.catalina.core.StandardHostValve.invoke(StandardHostValve.java:128)
     at org.apache.catalina.valves.ErrorReportValve.invoke(ErrorReportValve.java:102)
     at org.apache.catalina.core.StandardEngineValve.invoke(StandardEngineValve.java:109)
     at org.apache.catalina.connector.CoyoteAdapter.service(CoyoteAdapter.java:293)
     at org.apache.coyote.http11.Http11Processor.process(Http11Processor.java:849)
     at org.apache.coyote.http11.Http11Protocol$Http11ConnectionHandler.process(Http11Protocol.java:583)
     at org.apache.tomcat.util.net.JIoEndpoint$Worker.run(JIoEndpoint.java:454)
     at java.lang.Thread.run(Thread.java:595)
So I wrote
<%@ page import="edu.stanford.smi.protege.plugin.ProjectFixupsPluginManager"%>
but the error remains. Any ideas?
Thanks in advance...

Well here is all I get from eclipse console
16 Οκτ 2009 12:46:57 πμ org.apache.tomcat.util.digester.SetPropertiesRule begin
WARNING: [SetPropertiesRule]{Server/Service/Engine/Host/Context} Setting property 'source' to 'org.eclipse.jst.jee.server:JSPOntoAPI' did not find a matching property.
16 Οκτ 2009 12:46:59 πμ org.apache.tomcat.util.digester.SetPropertiesRule begin
WARNING: [SetPropertiesRule]{Server/Service/Engine/Host/Context/Loader} Setting property 'useSystemClassLoaderAsParent' to 'false' did not find a matching property.
16 Οκτ 2009 12:46:59 πμ org.apache.catalina.core.AprLifecycleListener init
INFO: The APR based Apache Tomcat Native library which allows optimal performance in production environments was not found on the java.library.path: C:\Program Files\Java\jdk1.5.0_19\bin;.;C:\windows\system32;C:\windows;C:\Ruby\bin;C:\Perl\site\bin;C:\Perl\bin;C:\windows\system32;C:\windows;C:\windows\System32\Wbem;C:\Program Files\Common Files\Teleca Shared;C:\apache-maven-2.2.1\bin;C:\Program Files\TortoiseHg;C:\Program Files\QuickTime\QTSystem\;;c:\apache-ant-1.7.1\bin;C:\Program Files\MySQL\MySQL Server 4.1\bin;;c:\Program Files\MiKTex\miktex\bin;C:\Program Files\TC UP\PLUGINS\Library;
16 Οκτ 2009 12:46:59 πμ org.apache.coyote.http11.Http11Protocol init
INFO: Initializing Coyote HTTP/1.1 on http-8080
16 Οκτ 2009 12:46:59 πμ org.apache.catalina.startup.Catalina load
INFO: Initialization processed in 3326 ms
16 Οκτ 2009 12:46:59 πμ org.apache.catalina.core.StandardService start
INFO: Starting service Catalina
16 Οκτ 2009 12:46:59 πμ org.apache.catalina.core.StandardEngine start
INFO: Starting Servlet Engine: Apache Tomcat/6.0.20
16 Οκτ 2009 12:47:03 πμ org.apache.catalina.core.ApplicationContext log
INFO: ContextListener: contextInitialized()
16 Οκτ 2009 12:47:03 πμ org.apache.catalina.core.ApplicationContext log
INFO: SessionListener: contextInitialized()
16 Οκτ 2009 12:47:03 πμ org.apache.coyote.http11.Http11Protocol start
INFO: Starting Coyote HTTP/1.1 on http-8080
16 Οκτ 2009 12:47:03 πμ org.apache.jk.common.ChannelSocket init
INFO: JK: ajp13 listening on /0.0.0.0:8009
16 Οκτ 2009 12:47:03 πμ org.apache.jk.server.JkMain start
INFO: Jk running ID=0 time=0/31 config=null
16 Οκτ 2009 12:47:03 πμ org.apache.catalina.startup.Catalina start
INFO: Server startup in 4123 ms
Java heap space
16 Οκτ 2009 12:47:36 πμ org.apache.catalina.core.StandardWrapperValve invoke
SEVERE: Servlet.service() for servlet jsp threw exception
java.lang.NoClassDefFoundError
     at edu.stanford.smi.protege.plugin.ProjectFixupsPluginManager.getAvailableProjectFixupPluginClasses(Unknown Source)
     at edu.stanford.smi.protege.plugin.ProjectFixupsPluginManager.getAvailableProjectFixupPlugins(Unknown Source)
     at edu.stanford.smi.protege.plugin.ProjectFixupsPluginManager.fixProject(Unknown Source)
     at edu.stanford.smi.protege.model.Project.loadProjectKB(Unknown Source)
     at edu.stanford.smi.protege.model.Project.<init>(Unknown Source)
     at edu.stanford.smi.protege.model.Project.<init>(Unknown Source)
     at edu.stanford.smi.protege.model.Project.createBuildProject(Unknown Source)
     at edu.stanford.smi.protegex.owl.jena.creator.OwlProjectFromUriCreator.create(Unknown Source)
     at edu.stanford.smi.protegex.owl.ProtegeOWL.createJenaOWLModelFromURI(Unknown Source)
     at swl.Swl.submitSWLQuery(Swl.java:51)
     at org.apache.jsp.Report_jsp._jspService(Report_jsp.java:114)
     at org.apache.jasper.runtime.HttpJspBase.service(HttpJspBase.java:70)
     at javax.servlet.http.HttpServlet.service(HttpServlet.java:717)
     at org.apache.jasper.servlet.JspServletWrapper.service(JspServletWrapper.java:374)
     at org.apache.jasper.servlet.JspServlet.serviceJspFile(JspServlet.java:342)
     at org.apache.jasper.servlet.JspServlet.service(JspServlet.java:267)
     at javax.servlet.http.HttpServlet.service(HttpServlet.java:717)
     at org.apache.catalina.core.ApplicationFilterChain.internalDoFilter(ApplicationFilterChain.java:290)
     at org.apache.catalina.core.ApplicationFilterChain.doFilter(ApplicationFilterChain.java:206)
     at org.apache.catalina.core.StandardWrapperValve.invoke(StandardWrapperValve.java:233)
     at org.apache.catalina.core.StandardContextValve.invoke(StandardContextValve.java:191)
     at org.apache.catalina.core.StandardHostValve.invoke(StandardHostValve.java:128)
     at org.apache.catalina.valves.ErrorReportValve.invoke(ErrorReportValve.java:102)
     at org.apache.catalina.core.StandardEngineValve.invoke(StandardEngineValve.java:109)
     at org.apache.catalina.connector.CoyoteAdapter.service(CoyoteAdapter.java:293)
     at org.apache.coyote.http11.Http11Processor.process(Http11Processor.java:849)
     at org.apache.coyote.http11.Http11Protocol$Http11ConnectionHandler.process(Http11Protocol.java:583)
     at org.apache.tomcat.util.net.JIoEndpoint$Worker.run(JIoEndpoint.java:454)
     at java.lang.Thread.run(Thread.java:595)
I checked tomcat logs and there is`nt any suspicious message there.
May I ask something; How do you add jars to tomcat? I copied protege jars into tomcat lib folder but there was no improvement. I also made a User Library with all protege jars and I must included it in the project to run. I am afraid tomcat cannot use these jars. If I copy them in the WebContent/lib folder of the eclipse project?

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