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From John Green <john.travis.gr...@gmail.com>
Subject YTEX Semantic Sim RESTful
Date Mon, 13 Oct 2014 15:29:13 GMT
I've been putting off debugging this as it was a piece of this app Im
working on, but one that fit in down the road in development. Development
has progressed, and here I am. I have posted this one before, was hoping to
find fresh help.

When running ytex.sh in a distro installed at something like
./ctakes3.2.0/apache-ctakes-3.1.2-SNAPSHOT/bin$ under Ubuntu 14 and trying
to access the restful interface per the docs on a query like such as
http://localhost:8080/similarity?conceptGraph=umls&concept1=C0018787&concept2=C0024109&metrics=LCH,INTRINSIC_LCH
the query fails with a 500 (see below).

Of note, the http://localhost:8080/semanticSim.jsf works just fine.

Am I missing something simple?

Thanks for any and all help,
Best,
JG

500 error:
HTTP ERROR 500

Problem accessing /services/rest/similarity. Reason:

    Server Error

Caused by:

java.lang.RuntimeException: org.apache.cxf.interceptor.Fault
	at org.apache.cxf.interceptor.AbstractFaultChainInitiatorObserver.onMessage(AbstractFaultChainInitiatorObserver.java:116)
	at org.apache.cxf.phase.PhaseInterceptorChain.doIntercept(PhaseInterceptorChain.java:333)
	at org.apache.cxf.transport.ChainInitiationObserver.onMessage(ChainInitiationObserver.java:121)
	at org.apache.cxf.transport.http.AbstractHTTPDestination.invoke(AbstractHTTPDestination.java:239)
	at org.apache.cxf.transport.servlet.ServletController.invokeDestination(ServletController.java:248)
	at org.apache.cxf.transport.servlet.ServletController.invoke(ServletController.java:222)
	at org.apache.cxf.transport.servlet.ServletController.invoke(ServletController.java:153)
	at org.apache.cxf.transport.servlet.CXFNonSpringServlet.invoke(CXFNonSpringServlet.java:167)
	at org.apache.cxf.transport.servlet.AbstractHTTPServlet.handleRequest(AbstractHTTPServlet.java:286)
	at org.apache.cxf.transport.servlet.AbstractHTTPServlet.doGet(AbstractHTTPServlet.java:211)
	at javax.servlet.http.HttpServlet.service(HttpServlet.java:687)
	at org.apache.cxf.transport.servlet.AbstractHTTPServlet.service(AbstractHTTPServlet.java:262)
	at org.eclipse.jetty.servlet.ServletHolder.handle(ServletHolder.java:698)
	at org.eclipse.jetty.servlet.ServletHandler.doHandle(ServletHandler.java:526)
	at org.eclipse.jetty.server.handler.ScopedHandler.handle(ScopedHandler.java:138)
	at org.eclipse.jetty.security.SecurityHandler.handle(SecurityHandler.java:568)
	at org.eclipse.jetty.server.session.SessionHandler.doHandle(SessionHandler.java:221)
	at org.eclipse.jetty.server.handler.ContextHandler.doHandle(ContextHandler.java:1105)
	at org.eclipse.jetty.servlet.ServletHandler.doScope(ServletHandler.java:453)
	at org.eclipse.jetty.server.session.SessionHandler.doScope(SessionHandler.java:183)
	at org.eclipse.jetty.server.handler.ContextHandler.doScope(ContextHandler.java:1039)
	at org.eclipse.jetty.server.handler.ScopedHandler.handle(ScopedHandler.java:136)
	at org.eclipse.jetty.server.handler.ContextHandlerCollection.handle(ContextHandlerCollection.java:201)
	at org.eclipse.jetty.server.handler.HandlerCollection.handle(HandlerCollection.java:109)
	at org.eclipse.jetty.server.handler.HandlerWrapper.handle(HandlerWrapper.java:97)
	at org.eclipse.jetty.server.Server.handle(Server.java:445)
	at org.eclipse.jetty.server.HttpChannel.handle(HttpChannel.java:277)
	at org.eclipse.jetty.server.HttpConnection.onFillable(HttpConnection.java:216)
	at org.eclipse.jetty.io.AbstractConnection$1.run(AbstractConnection.java:505)
	at org.eclipse.jetty.util.thread.QueuedThreadPool.runJob(QueuedThreadPool.java:601)
	at org.eclipse.jetty.util.thread.QueuedThreadPool$3.run(QueuedThreadPool.java:532)
	at java.lang.Thread.run(Thread.java:745)
Caused by: org.apache.cxf.interceptor.Fault
	at org.apache.cxf.service.invoker.AbstractInvoker.createFault(AbstractInvoker.java:162)
	at org.apache.cxf.service.invoker.AbstractInvoker.invoke(AbstractInvoker.java:128)
	at org.apache.cxf.jaxrs.JAXRSInvoker.invoke(JAXRSInvoker.java:205)
	at org.apache.cxf.jaxrs.JAXRSInvoker.invoke(JAXRSInvoker.java:102)
	at org.apache.cxf.interceptor.ServiceInvokerInterceptor$1.run(ServiceInvokerInterceptor.java:58)
	at org.apache.cxf.interceptor.ServiceInvokerInterceptor.handleMessage(ServiceInvokerInterceptor.java:94)
	at org.apache.cxf.phase.PhaseInterceptorChain.doIntercept(PhaseInterceptorChain.java:272)
	... 30 more
Caused by: java.lang.NullPointerException
	at org.apache.ctakes.ytex.ws.ConceptSimilarityWebServiceImpl.getConceptSimilarityService(ConceptSimilarityWebServiceImpl.java:53)
	at org.apache.ctakes.ytex.ws.ConceptSimilarityWebServiceImpl.similarity(ConceptSimilarityWebServiceImpl.java:36)
	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:606)
	at org.apache.cxf.service.invoker.AbstractInvoker.performInvocation(AbstractInvoker.java:180)
	at org.apache.cxf.service.invoker.AbstractInvoker.invoke(AbstractInvoker.java:96)
	... 35 more

Caused by:

org.apache.cxf.interceptor.Fault
	at org.apache.cxf.service.invoker.AbstractInvoker.createFault(AbstractInvoker.java:162)
	at org.apache.cxf.service.invoker.AbstractInvoker.invoke(AbstractInvoker.java:128)
	at org.apache.cxf.jaxrs.JAXRSInvoker.invoke(JAXRSInvoker.java:205)
	at org.apache.cxf.jaxrs.JAXRSInvoker.invoke(JAXRSInvoker.java:102)
	at org.apache.cxf.interceptor.ServiceInvokerInterceptor$1.run(ServiceInvokerInterceptor.java:58)
	at org.apache.cxf.interceptor.ServiceInvokerInterceptor.handleMessage(ServiceInvokerInterceptor.java:94)
	at org.apache.cxf.phase.PhaseInterceptorChain.doIntercept(PhaseInterceptorChain.java:272)
	at org.apache.cxf.transport.ChainInitiationObserver.onMessage(ChainInitiationObserver.java:121)
	at org.apache.cxf.transport.http.AbstractHTTPDestination.invoke(AbstractHTTPDestination.java:239)
	at org.apache.cxf.transport.servlet.ServletController.invokeDestination(ServletController.java:248)
	at org.apache.cxf.transport.servlet.ServletController.invoke(ServletController.java:222)
	at org.apache.cxf.transport.servlet.ServletController.invoke(ServletController.java:153)
	at org.apache.cxf.transport.servlet.CXFNonSpringServlet.invoke(CXFNonSpringServlet.java:167)
	at org.apache.cxf.transport.servlet.AbstractHTTPServlet.handleRequest(AbstractHTTPServlet.java:286)
	at org.apache.cxf.transport.servlet.AbstractHTTPServlet.doGet(AbstractHTTPServlet.java:211)
	at javax.servlet.http.HttpServlet.service(HttpServlet.java:687)
	at org.apache.cxf.transport.servlet.AbstractHTTPServlet.service(AbstractHTTPServlet.java:262)
	at org.eclipse.jetty.servlet.ServletHolder.handle(ServletHolder.java:698)
	at org.eclipse.jetty.servlet.ServletHandler.doHandle(ServletHandler.java:526)
	at org.eclipse.jetty.server.handler.ScopedHandler.handle(ScopedHandler.java:138)
	at org.eclipse.jetty.security.SecurityHandler.handle(SecurityHandler.java:568)
	at org.eclipse.jetty.server.session.SessionHandler.doHandle(SessionHandler.java:221)
	at org.eclipse.jetty.server.handler.ContextHandler.doHandle(ContextHandler.java:1105)
	at org.eclipse.jetty.servlet.ServletHandler.doScope(ServletHandler.java:453)
	at org.eclipse.jetty.server.session.SessionHandler.doScope(SessionHandler.java:183)
	at org.eclipse.jetty.server.handler.ContextHandler.doScope(ContextHandler.java:1039)
	at org.eclipse.jetty.server.handler.ScopedHandler.handle(ScopedHandler.java:136)
	at org.eclipse.jetty.server.handler.ContextHandlerCollection.handle(ContextHandlerCollection.java:201)
	at org.eclipse.jetty.server.handler.HandlerCollection.handle(HandlerCollection.java:109)
	at org.eclipse.jetty.server.handler.HandlerWrapper.handle(HandlerWrapper.java:97)
	at org.eclipse.jetty.server.Server.handle(Server.java:445)
	at org.eclipse.jetty.server.HttpChannel.handle(HttpChannel.java:277)
	at org.eclipse.jetty.server.HttpConnection.onFillable(HttpConnection.java:216)
	at org.eclipse.jetty.io.AbstractConnection$1.run(AbstractConnection.java:505)
	at org.eclipse.jetty.util.thread.QueuedThreadPool.runJob(QueuedThreadPool.java:601)
	at org.eclipse.jetty.util.thread.QueuedThreadPool$3.run(QueuedThreadPool.java:532)
	at java.lang.Thread.run(Thread.java:745)
Caused by: java.lang.NullPointerException
	at org.apache.ctakes.ytex.ws.ConceptSimilarityWebServiceImpl.getConceptSimilarityService(ConceptSimilarityWebServiceImpl.java:53)
	at org.apache.ctakes.ytex.ws.ConceptSimilarityWebServiceImpl.similarity(ConceptSimilarityWebServiceImpl.java:36)
	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:606)
	at org.apache.cxf.service.invoker.AbstractInvoker.performInvocation(AbstractInvoker.java:180)
	at org.apache.cxf.service.invoker.AbstractInvoker.invoke(AbstractInvoker.java:96)
	... 35 more

Caused by:

java.lang.NullPointerException
	at org.apache.ctakes.ytex.ws.ConceptSimilarityWebServiceImpl.getConceptSimilarityService(ConceptSimilarityWebServiceImpl.java:53)
	at org.apache.ctakes.ytex.ws.ConceptSimilarityWebServiceImpl.similarity(ConceptSimilarityWebServiceImpl.java:36)
	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:606)
	at org.apache.cxf.service.invoker.AbstractInvoker.performInvocation(AbstractInvoker.java:180)
	at org.apache.cxf.service.invoker.AbstractInvoker.invoke(AbstractInvoker.java:96)
	at org.apache.cxf.jaxrs.JAXRSInvoker.invoke(JAXRSInvoker.java:205)
	at org.apache.cxf.jaxrs.JAXRSInvoker.invoke(JAXRSInvoker.java:102)
	at org.apache.cxf.interceptor.ServiceInvokerInterceptor$1.run(ServiceInvokerInterceptor.java:58)
	at org.apache.cxf.interceptor.ServiceInvokerInterceptor.handleMessage(ServiceInvokerInterceptor.java:94)
	at org.apache.cxf.phase.PhaseInterceptorChain.doIntercept(PhaseInterceptorChain.java:272)
	at org.apache.cxf.transport.ChainInitiationObserver.onMessage(ChainInitiationObserver.java:121)
	at org.apache.cxf.transport.http.AbstractHTTPDestination.invoke(AbstractHTTPDestination.java:239)
	at org.apache.cxf.transport.servlet.ServletController.invokeDestination(ServletController.java:248)
	at org.apache.cxf.transport.servlet.ServletController.invoke(ServletController.java:222)
	at org.apache.cxf.transport.servlet.ServletController.invoke(ServletController.java:153)
	at org.apache.cxf.transport.servlet.CXFNonSpringServlet.invoke(CXFNonSpringServlet.java:167)
	at org.apache.cxf.transport.servlet.AbstractHTTPServlet.handleRequest(AbstractHTTPServlet.java:286)
	at org.apache.cxf.transport.servlet.AbstractHTTPServlet.doGet(AbstractHTTPServlet.java:211)
	at javax.servlet.http.HttpServlet.service(HttpServlet.java:687)
	at org.apache.cxf.transport.servlet.AbstractHTTPServlet.service(AbstractHTTPServlet.java:262)
	at org.eclipse.jetty.servlet.ServletHolder.handle(ServletHolder.java:698)
	at org.eclipse.jetty.servlet.ServletHandler.doHandle(ServletHandler.java:526)
	at org.eclipse.jetty.server.handler.ScopedHandler.handle(ScopedHandler.java:138)
	at org.eclipse.jetty.security.SecurityHandler.handle(SecurityHandler.java:568)
	at org.eclipse.jetty.server.session.SessionHandler.doHandle(SessionHandler.java:221)
	at org.eclipse.jetty.server.handler.ContextHandler.doHandle(ContextHandler.java:1105)
	at org.eclipse.jetty.servlet.ServletHandler.doScope(ServletHandler.java:453)
	at org.eclipse.jetty.server.session.SessionHandler.doScope(SessionHandler.java:183)
	at org.eclipse.jetty.server.handler.ContextHandler.doScope(ContextHandler.java:1039)
	at org.eclipse.jetty.server.handler.ScopedHandler.handle(ScopedHandler.java:136)
	at org.eclipse.jetty.server.handler.ContextHandlerCollection.handle(ContextHandlerCollection.java:201)
	at org.eclipse.jetty.server.handler.HandlerCollection.handle(HandlerCollection.java:109)
	at org.eclipse.jetty.server.handler.HandlerWrapper.handle(HandlerWrapper.java:97)
	at org.eclipse.jetty.server.Server.handle(Server.java:445)
	at org.eclipse.jetty.server.HttpChannel.handle(HttpChannel.java:277)
	at org.eclipse.jetty.server.HttpConnection.onFillable(HttpConnection.java:216)
	at org.eclipse.jetty.io.AbstractConnection$1.run(AbstractConnection.java:505)
	at org.eclipse.jetty.util.thread.QueuedThreadPool.runJob(QueuedThreadPool.java:601)
	at org.eclipse.jetty.util.thread.QueuedThreadPool$3.run(QueuedThreadPool.java:532)
	at java.lang.Thread.run(Thread.java:745)

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