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[bioontology-support] Bioportal AMI virtual appliance: Error parsing ontology

Schildwachter, Xavier x.schildwachter at sagebase.org
Tue Dec 18 16:23:46 PST 2012


Hello,

I downloaded http://bioportal.bioontology.org/ontologies/3022 and uploaded
it

in my Bioportal instance. In Admin portal, selected 'Parse Ontologies',
input id,

choose default parser nd clicked Run.

Came back a while later to find the message below.

 

Thanks - Xavier

 

The following error has occurred:

org.ncbo.stanford.admin.view.bean.response.HttpResponseSuccessBean cannot be
cast to org.ncbo.stanford.admin.view.bean.response.HttpResponseErrorBean

 

Please copy the information below and mail it to the BioPortal development
team:

 

java.lang.ClassCastException:
org.ncbo.stanford.admin.view.bean.response.HttpResponseSuccessBean cannot be
cast to org.ncbo.stanford.admin.view.bean.response.HttpResponseErrorBean

at
org.ncbo.stanford.admin.view.rest.RESTManager.populateErrorBean(RESTManager.
java:493) 

at
org.ncbo.stanford.admin.view.rest.RESTManager.processPost(RESTManager.java:3
98)

at
org.ncbo.stanford.admin.view.rest.RESTManager.parseOntologies(RESTManager.ja
va:198)

at
org.ncbo.stanford.admin.view.bean.ontology.ParseOntologiesManagerBean.parseO
ntologies(ParseOntologiesManagerBean.java:17)

at sun.reflect.NativeMethodAccessorImpl.invoke0(Native Method)

at
sun.reflect.NativeMethodAccessorImpl.invoke(NativeMethodAccessorImpl.java:57
)

at
sun.reflect.DelegatingMethodAccessorImpl.invoke(DelegatingMethodAccessorImpl
.java:43)

at java.lang.reflect.Method.invoke(Method.java:616)

at org.apache.el.parser.AstValue.invoke(AstValue.java:191)

at org.apache.el.MethodExpressionImpl.invoke(MethodExpressionImpl.java:276)

at
com.sun.facelets.el.TagMethodExpression.invoke(TagMethodExpression.java:68)

at
javax.faces.component._MethodExpressionToMethodBinding.invoke(_MethodExpress
ionToMethodBinding.java:88)

at
org.apache.myfaces.application.ActionListenerImpl.processAction(ActionListen
erImpl.java:100)

at javax.faces.component.UICommand.broadcast(UICommand.java:120)

at javax.faces.component.UIViewRoot._broadcastAll(UIViewRoot.java:889)

at javax.faces.component.UIViewRoot.broadcastEvents(UIViewRoot.java:238)

at javax.faces.component.UIViewRoot._process(UIViewRoot.java:1201)

at javax.faces.component.UIViewRoot.processApplication(UIViewRoot.java:627

at
org.apache.myfaces.lifecycle.InvokeApplicationExecutor.execute(InvokeApplica
tionExecutor.java:34)

at
org.apache.myfaces.lifecycle.LifecycleImpl.executePhase(LifecycleImpl.java:1
71)

at
org.apache.myfaces.lifecycle.LifecycleImpl.execute(LifecycleImpl.java:118)

at javax.faces.webapp.FacesServlet.service(FacesServlet.java:189)

at
org.apache.catalina.core.ApplicationFilterChain.internalDoFilter(Application
FilterChain.java:290)

at
org.apache.catalina.core.ApplicationFilterChain.doFilter(ApplicationFilterCh
ain.java:206)

at
org.ncbo.stanford.admin.view.filter.AuthenticationCheckFilter.doFilter(Authe
nticationCheckFilter.java:75)

at
org.apache.catalina.core.ApplicationFilterChain.internalDoFilter(Application
FilterChain.java:235)

at
org.apache.catalina.core.ApplicationFilterChain.doFilter(ApplicationFilterCh
ain.java:206)

at
org.apache.myfaces.webapp.filter.ExtensionsFilter.doFilter(ExtensionsFilter.
java:341)

at
org.apache.catalina.core.ApplicationFilterChain.internalDoFilter(Application
FilterChain.java:235)

at
org.apache.catalina.core.ApplicationFilterChain.doFilter(ApplicationFilterCh
ain.java:206)

at
org.apache.catalina.core.StandardWrapperValve.invoke(StandardWrapperValve.ja
va:233)

at
org.apache.catalina.core.StandardContextValve.invoke(StandardContextValve.ja
va:191)

at
org.apache.catalina.core.StandardHostValve.invoke(StandardHostValve.java:127
)

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.Http11AprProcessor.process(Http11AprProcessor.java:
877)

at
org.apache.coyote.http11.Http11AprProtocol$Http11ConnectionHandler.process(H
ttp11AprProtocol.java:594)

at org.apache.tomcat.util.net.AprEndpoint$Worker.run(AprEndpoint.java:1675)
at java.lang.Thread.run(Thread.java:679)

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