Hi Reto, Sorry for the newbie question, but what is the best way to go about integrating an updated external component like Clerezza into Stanbol? I'm very new to Maven and OSGi and struggling with getting my head around such a large project. I'm also unfortunately working in a Windows environment, but I'm trying to find a way to switch.
I'm currently downloading the Clerezza source and will try compiling it on my machine, but how do I make Stanbol use it? Thanks for any help. -steve -----Original Message----- From: m...@farewellutopia.com [mailto:m...@farewellutopia.com] On Behalf Of Reto Bachmann-Gmür Sent: Tuesday, June 04, 2013 2:53 AM To: dev@stanbol.apache.org Cc: clerezza-...@incubator.apache.org Subject: Re: Stanbol SPARQL and RelFinder Glad you found the video useful. Let me know if things work when using the snapshot clerezza bundles. Reto On Mon, Jun 3, 2013 at 6:25 PM, Isley, Steven <sis...@prgs.edu> wrote: > Thanks Reto! > > I will check that this fixed the problem in a day or two, then send > out a few more details on how to integrate RelFinder for anybody else > that is interested. > > Also, thanks for the video you put together for using Stanbol with > Netbeans. I'm trying to use Eclipse, and the video has gotten me most > of the way there! > > -steve > > [1] http://vimeo.com/61415903 > > -----Original Message----- > From: m...@farewellutopia.com [mailto:m...@farewellutopia.com] On Behalf > Of Reto Bachmann-Gmür > Sent: Monday, June 03, 2013 8:49 AM > To: dev@stanbol.apache.org > Cc: clerezza-...@incubator.apache.org > Subject: Re: Stanbol SPARQL and RelFinder > > I resolved CLEREZZA-787. I hope this resolves the problem. > > Cheers, > Reto > > > On Mon, Jun 3, 2013 at 5:39 PM, Reto Bachmann-Gmür <r...@wymiwyg.com> > wrote: > > > Hi rupert, Isley, > > > > Yes the excpetion ios thrown in the implementation of > > ExtendedIterator > > com.hp.hpl.jena.graph.impl.GraphBase#graphBaseFind(TripleMatch m) > > when the subject in m is a literal. I think it would be safe to return an > > empty iterator if this case. > > > > Cheers, > > Reto > > > > > > On Mon, Jun 3, 2013 at 9:45 AM, Rupert Westenthaler < > > rupert.westentha...@gmail.com> wrote: > > > >> Hi Isley, Clerezza community > >> > >> this seams to be related to an issue in the Clerezza SPARQL > >> implementation. I think the problem is that the "Jena <-> Clerezza" > >> Adapter enforces that subjects of triples need to be NonLiterals, > >> but the last statement of your Sparql Query. An assumption that > >> MUST NOT be true for SPARQL query results where resources in any > >> position (subject, predicate, object) can have any type (Literal, > >> URI or bNode). > >> > >> This query > >> > >> > SELECT * WHERE { > >> > <Target Person 1 URI> ?pf1 ?middle . > >> > <Target Person 2 URI> ?ps1 ?os1 . > >> > ?os1 ?ps2 ?middle . > >> > } LIMIT 10 > >> > >> does exactly that, as it uses values ( 'os1') of '<Target Person 2 > >> URI> ?ps1 ?os1' as first argument (subject) for an second join > >> URI> '?os1 > >> ?ps2 ?middle'. > >> > >> Would be nice if someone with more knowledge about the Clerezza > >> SPARQL implementation could look into that. > >> > >> best > >> Rupert > >> > >> > >> > >> On Fri, May 31, 2013 at 7:17 PM, Isley, Steven <sis...@prgs.edu> wrote: > >> > Hello everyone, > >> > > >> > I've been trying to integrate Apache Stanbol and Relfinder[1] (my > >> > two > >> favorite demos to show people who have never heard of the semantic > >> web). I ran into some problems with Relfinder that I think I fixed. > >> It was using a different parameter name to specify the graph to use > >> in > the SPARQL query. > >> After recompiling Relfinder to work with Stanbol, I've run into > >> some other errors which may be Stanbol related. > >> > > >> > Relfinder tries to find paths through a dataset that link two nodes. > >> I've uploaded an rdf data set to a clerezza managed site. The data > >> consists of documents, their authors, and then some other > >> information (such as an author's department, or a document's > >> publish date). I've got about 500k triples. > >> > > >> > My version of Relfinder will find some links between nodes. Like > >> > if the > >> two input nodes are people, it will find documents they both > >> authored, or departments they both belong to. However, the more > >> impressive searches result in an "Error 500 cannot convert {one of > >> my URIs} to NonLiteral" (see end of email for full error message). > >> Using firebug to monitor the network requests shows that this error > >> occurs for all the searches that are supposed to return the more > >> complicated results (Target Person 1 authored document X, also > >> authored by person B, that authored document Y, that was also > >> authored by Target Person > >> 2) > >> > > >> > I spent some time playing with Stanbol's SPARQL endpoint, and the > >> simplest example that reproduces the error is: > >> > > >> > SELECT * WHERE { > >> > <Target Person 1 URI> ?pf1 ?middle . > >> > <Target Person 2 URI> ?ps1 ?os1 . > >> > ?os1 ?ps2 ?middle . > >> > } LIMIT 10 > >> > > >> > However, the following query works fine: > >> > SELECT * WHERE { > >> > <Target Person 1 URI> ?pf1 ?middle . > >> > <Target Person 2 URI> ?ps1 ?os1 . > >> > } LIMIT 10 > >> > > >> > Note that these are simplified searches, the actual Relfinder > >> > queries > >> are more complicated, and attempt to filter out literal values. See > >> the very, very end of this email for the original query. Relfinder > >> works fine on other SPARQL endpoints, like dbpedia's. > >> > > >> > Thanks for any insights you can offer on this problem. The help > >> > is much > >> appreciated. > >> > > >> > > >> > -- > >> > Steven Isley > >> > Ph.D. Candidate > >> > Pardee RAND Graduate School > >> > RAND Corporation > >> > ph: (310)393-0411 x6643 > >> > > >> > -Steve Isley > >> > > >> > [1] http://www.visualdataweb.org/relfinder.php > >> > > >> > > >> > p.s. - if anyone else is trying to use RelFinder, I also ran into > >> issues with CPU usage. Sometimes Stanbol would overrun the cpu > >> limit on my server and would be silently killed. Took me a while to > >> figure that one out! I managed to get around this using "unlimit > >> cpu" - but the IT folks at my workplace will probably come down on > >> me for that > >> :) > >> > > >> > Error Output: > >> > <html> > >> > <head> > >> > <meta http-equiv="Content-Type" content="text/html; > >> charset=ISO-8859-1"/> > >> > <title>Error 500 cannot convert "{the rdfs:label for Person 1}" > >> > to > >> NonLiteral</title> > >> > </head> > >> > <body><h2>HTTP ERROR 500</h2> > >> > <p>Problem accessing /sparql. Reason: > >> > <pre> cannot convert "{the rdfs:label for Person 1}" to > >> NonLiteral</pre></p><h3>Caused by:</h3><pre>java.lang.RuntimeException: > >> cannot convert "{the rdfs:label for Person 1}"to NonLiteral > >> > at > >> org.apache.clerezza.rdf.jena.commons.Jena2TriaUtil.convertNonLitera > >> l( > >> Jena2TriaUtil.java:127) > >> > at > >> org.apache.clerezza.rdf.jena.facade.JenaGraph.filter(JenaGraph.java > >> :1 > >> 23) > >> > at > >> org.apache.clerezza.rdf.jena.facade.JenaGraph.graphBaseFind(JenaGra > >> ph > >> .java:151) > >> > at > com.hp.hpl.jena.graph.impl.GraphBase.find(GraphBase.java:240) > >> > at > >> com.hp.hpl.jena.graph.impl.GraphBase.graphBaseFind(GraphBase.java:2 > >> 60 > >> ) > >> > at > com.hp.hpl.jena.graph.impl.GraphBase.find(GraphBase.java:257) > >> > at > >> com.hp.hpl.jena.sparql.engine.iterator.QueryIterTriplePattern$Tripl > >> eM > >> apper.<init>(QueryIterTriplePattern.java:67) > >> > at > >> com.hp.hpl.jena.sparql.engine.iterator.QueryIterTriplePattern.nextS > >> ta > >> ge(QueryIterTriplePattern.java:41) > >> > at > >> com.hp.hpl.jena.sparql.engine.iterator.QueryIterRepeatApply.makeNex > >> tS > >> tage(QueryIterRepeatApply.java:91) > >> > at > >> com.hp.hpl.jena.sparql.engine.iterator.QueryIterRepeatApply.hasNext > >> Bi > >> nding(QueryIterRepeatApply.java:52) > >> > at > >> com.hp.hpl.jena.sparql.engine.iterator.QueryIteratorBase.hasNext(Qu > >> er > >> yIteratorBase.java:66) > >> > at > >> com.hp.hpl.jena.sparql.engine.iterator.QueryIterBlockTriples.hasNex > >> tB > >> inding(QueryIterBlockTriples.java:53) > >> > at > >> com.hp.hpl.jena.sparql.engine.iterator.QueryIteratorBase.hasNext(Qu > >> er > >> yIteratorBase.java:66) > >> > at > >> com.hp.hpl.jena.sparql.engine.iterator.QueryIterSlice.hasNextBindin > >> g( > >> QueryIterSlice.java:64) > >> > at > >> com.hp.hpl.jena.sparql.engine.iterator.QueryIteratorBase.hasNext(Qu > >> er > >> yIteratorBase.java:66) > >> > at > >> com.hp.hpl.jena.sparql.engine.iterator.QueryIteratorWrapper.hasNext > >> Bi > >> nding(QueryIteratorWrapper.java:28) > >> > at > >> com.hp.hpl.jena.sparql.engine.iterator.QueryIteratorBase.hasNext(Qu > >> er > >> yIteratorBase.java:66) > >> > at > >> com.hp.hpl.jena.sparql.engine.iterator.QueryIteratorWrapper.hasNext > >> Bi > >> nding(QueryIteratorWrapper.java:28) > >> > at > >> com.hp.hpl.jena.sparql.engine.iterator.QueryIteratorBase.hasNext(Qu > >> er > >> yIteratorBase.java:66) > >> > at > >> com.hp.hpl.jena.sparql.engine.ResultSetStream.hasNext(ResultSetStre > >> am > >> .java:57) > >> > at > >> org.apache.clerezza.rdf.jena.sparql.ResultSetWrapper.<init>(R > >> es > >> ultSetWrapper.java:39) > >> > at > >> org.apache.clerezza.rdf.jena.sparql.JenaSparqlEngine.execute(JenaSp > >> ar > >> qlEngine.java:68) > >> > at > >> org.apache.clerezza.rdf.core.access.TcManager.executeSparqlQuery(Tc > >> Ma > >> nager.java:272) > >> > at > >> org.apache.stanbol.commons.web.sparql.resource.SparqlEndpointResour > >> ce > >> .sparql(SparqlEndpointResource.java:162) > >> > at > >> org.apache.stanbol.commons.web.sparql.resource.SparqlEndpointResour > >> ce > >> .postSparql(SparqlEndpointResource.java:182) > >> > at sun.reflect.GeneratedMethodAccessor39.invoke(Unknown > Source) > >> > at > >> sun.reflect.DelegatingMethodAccessorImpl.invoke(DelegatingMethodAcc > >> es > >> sorImpl.java:43) > >> > at java.lang.reflect.Method.invoke(Method.java:616) > >> > at > >> com.sun.jersey.spi.container.JavaMethodInvokerFactory$1.invoke(Java > >> Me > >> thodInvokerFactory.java:60) > >> > at > >> com.sun.jersey.server.impl.model.method.dispatch.AbstractResourceMe > >> th > >> odDispatchProvider$ResponseOutInvoker._dispatch(AbstractResourceMet > >> ho > >> dDispatchProvider.java:205) > >> > at > >> com.sun.jersey.server.impl.model.method.dispatch.ResourceJavaMethod > >> Di > >> spatcher.dispatch(ResourceJavaMethodDispatcher.java:75) > >> > at > >> com.sun.jersey.server.impl.uri.rules.HttpMethodRule.accept(HttpMeth > >> od > >> Rule.java:302) > >> > at > >> com.sun.jersey.server.impl.uri.rules.ResourceClassRule.accept(Resou > >> rc > >> eClassRule.java:108) > >> > at > >> com.sun.jersey.server.impl.uri.rules.RightHandPathRule.accept(Right > >> Ha > >> ndPathRule.java:147) > >> > at > >> com.sun.jersey.server.impl.uri.rules.RootResourceClassesRule.accept > >> (R > >> ootResourceClassesRule.java:84) > >> > at > >> com.sun.jersey.server.impl.application.WebApplicationImpl._handleRe > >> qu > >> est(WebApplicationImpl.java:1480) > >> > at > >> com.sun.jersey.server.impl.application.WebApplicationImpl._handleRe > >> qu > >> est(WebApplicationImpl.java:1411) > >> > at > >> com.sun.jersey.server.impl.application.WebApplicationImpl.handleReq > >> ue > >> st(WebApplicationImpl.java:1360) > >> > at > >> com.sun.jersey.server.impl.application.WebApplicationImpl.handleReq > >> ue > >> st(WebApplicationImpl.java:1350) > >> > at > >> com.sun.jersey.spi.container.servlet.WebComponent.service(WebCompon > >> en > >> t.java:416) > >> > at > >> com.sun.jersey.spi.container.servlet.ServletContainer.service(Servl > >> et > >> Container.java:538) > >> > at > >> com.sun.jersey.spi.container.servlet.ServletContainer.service(Servl > >> et > >> Container.java:716) > >> > at > javax.servlet.http.HttpServlet.service(HttpServlet.java:820) > >> > at > >> org.apache.felix.http.base.internal.handler.ServletHandler.doHandle > >> (S > >> ervletHandler.java:96) > >> > at > >> org.apache.felix.http.base.internal.handler.ServletHandler.handle(S > >> er > >> vletHandler.java:79) > >> > at > >> org.apache.felix.http.base.internal.dispatch.ServletPipeline.handle > >> (S > >> ervletPipeline.java:42) > >> > at > >> org.apache.felix.http.base.internal.dispatch.InvocationFilterChain. > >> do > >> Filter(InvocationFilterChain.java:49) > >> > at > >> org.apache.felix.http.base.internal.dispatch.HttpFilterChain.doFilt > >> er > >> (HttpFilterChain.java:33) > >> > at > >> org.apache.felix.http.base.internal.handler.FilterHandler.handle(Fi > >> lt > >> erHandler.java:78) > >> > at > >> org.apache.felix.http.base.internal.dispatch.InvocationFilterChain. > >> do > >> Filter(InvocationFilterChain.java:47) > >> > at > >> org.apache.felix.http.base.internal.dispatch.HttpFilterChain.doFilt > >> er > >> (HttpFilterChain.java:33) > >> > at > >> org.apache.stanbol.commons.httpqueryheaders.impl.QueryHeadersFilter > >> .d > >> oFilter(QueryHeadersFilter.java:75) > >> > at > >> org.apache.felix.http.base.internal.handler.FilterHandler.doHandle( > >> Fi > >> lterHandler.java:88) > >> > at > >> org.apache.felix.http.base.internal.handler.FilterHandler.handle(Fi > >> lt > >> erHandler.java:76) > >> > at > >> org.apache.felix.http.base.internal.dispatch.InvocationFilterChain. > >> do > >> Filter(InvocationFilterChain.java:47) > >> > at > >> org.apache.felix.http.base.internal.dispatch.HttpFilterChain.doFilt > >> er > >> (HttpFilterChain.java:33) > >> > at > >> org.apache.stanbol.commons.web.resources.ResourceServingFilter.doFi > >> lt > >> erHttp(ResourceServingFilter.java:148) > >> > at > >> org.apache.stanbol.commons.web.resources.ResourceServingFilter.doFi > >> lt > >> er(ResourceServingFilter.java:91) > >> > at > >> org.apache.felix.http.base.internal.handler.FilterHandler.doHandle( > >> Fi > >> lterHandler.java:88) > >> > at > >> org.apache.felix.http.base.internal.handler.FilterHandler.handle(Fi > >> lt > >> erHandler.java:76) > >> > at > >> org.apache.felix.http.base.internal.dispatch.InvocationFilterChain. > >> do > >> Filter(InvocationFilterChain.java:47) > >> > at > >> org.apache.felix.http.base.internal.dispatch.HttpFilterChain.doFilt > >> er > >> (HttpFilterChain.java:33) > >> > at > >> org.apache.stanbol.commons.security.auth.AuthenticatingFilter$1.run > >> (A > >> uthenticatingFilter.java:163) > >> > at java.security.AccessController.doPrivileged(Native Method) > >> > at > javax.security.auth.Subject.doAsPrivileged(Subject.java:537) > >> > at > >> org.apache.stanbol.commons.security.auth.AuthenticatingFilter.doFil > >> te > >> r(AuthenticatingFilter.java:159) > >> > at > >> org.apache.felix.http.base.internal.handler.FilterHandler.doHandle( > >> Fi > >> lterHandler.java:88) > >> > at > >> org.apache.felix.http.base.internal.handler.FilterHandler.handle(Fi > >> lt > >> erHandler.java:76) > >> > at > >> org.apache.felix.http.base.internal.dispatch.InvocationFilterChain. > >> do > >> Filter(InvocationFilterChain.java:47) > >> > at > >> org.apache.felix.http.base.internal.dispatch.HttpFilterChain.doFilt > >> er > >> (HttpFilterChain.java:33) > >> > at > >> org.apache.felix.http.base.internal.dispatch.FilterPipeline.dispatc > >> h( > >> FilterPipeline.java:48) > >> > at > >> org.apache.felix.http.base.internal.dispatch.Dispatcher.dispatch(Di > >> sp > >> atcher.java:39) > >> > at > >> org.apache.felix.http.base.internal.DispatcherServlet.service(Dispa > >> tc > >> herServlet.java:67) > >> > at > javax.servlet.http.HttpServlet.service(HttpServlet.java:820) > >> > at > >> org.mortbay.jetty.servlet.ServletHolder.handle(ServletHolder.java:5 > >> 11 > >> ) > >> > at > >> org.mortbay.jetty.servlet.ServletHandler.handle(ServletHandler.java > >> :3 > >> 90) > >> > at > >> org.mortbay.jetty.servlet.SessionHandler.handle(SessionHandler.java > >> :1 > >> 82) > >> > at > >> org.mortbay.jetty.handler.ContextHandler.handle(ContextHandler.java > >> :7 > >> 65) > >> > at > >> org.mortbay.jetty.handler.HandlerWrapper.handle(HandlerWrapper.java > >> :1 > >> 52) > >> > at org.mortbay.jetty.Server.handle(Server.java:326) > >> > at > >> org.mortbay.jetty.HttpConnection.handleRequest(HttpConnection.java: > >> 54 > >> 2) > >> > at > >> org.mortbay.jetty.HttpConnection$RequestHandler.content(HttpConnect > >> io > >> n.java:943) > >> > at org.mortbay.jetty.HttpParser.parseNext(HttpParser.java:756) > >> > at > >> org.mortbay.jetty.HttpParser.parseAvailable(HttpParser.java:218) > >> > at > >> org.mortbay.jetty.HttpConnection.handle(HttpConnection.java:404) > >> > at > >> org.mortbay.io.nio.SelectChannelEndPoint.run(SelectChannelEndPoint. > >> ja > >> va:410) > >> > at > >> org.mortbay.thread.QueuedThreadPool$PoolThread.run(QueuedThreadPool > >> .j > >> ava:582) > >> > </pre> > >> > <hr /><i><small>Powered by Jetty://</small></i><br/> <br/> <br/> > >> > <br/> <br/> <br/> <br/> <br/> <br/> <br/> <br/> <br/> <br/> <br/> > >> > <br/> <br/> <br/> <br/> <br/> <br/> > >> > > >> > </body> > >> > </html> > >> > > >> > > >> > RelFinder Query: > >> > > >> > SELECT * WHERE { > >> > <http://dopma-ropma.rand.org/people/{Target Person 1}> ?pf1 ?middle . > >> > <http://dopma-ropma.rand.org/people/{Target Person 2}> ?ps1 ?os1 . > >> > ?os1 ?ps2 ?middle . > >> > FILTER ( > >> > (?pf1 != <http://www.w3.org/1999/02/22-rdf-syntax-ns#type> ) > >> > && > >> > (?pf1 != <http://www.w3.org/2004/02/skos/core#subject> ) && (?pf1 > >> > != <http://www.w3.org/2002/07/owl#sameAs> ) && (?pf1 != > >> > <http://purl.org/dc/terms/subject> ) && (?pf1 != > >> > <http://purl.org/dc/terms/dateCopyrighted> ) && (?pf1 != > >> > <http://purl.org/dc/terms/title> ) && (?pf1 != > >> > <http://dopma-ropma.rand.org/people/employeeID2> ) && (?pf1 != > >> > <http://xmlns.com/foaf/0.1/mbox> ) && (?ps1 != > >> > <http://www.w3.org/1999/02/22-rdf-syntax-ns#type> ) && (?ps1 != > >> > <http://www.w3.org/2004/02/skos/core#subject> ) && (?ps1 != > >> > <http://www.w3.org/2002/07/owl#sameAs> ) && (?ps1 != > >> > <http://purl.org/dc/terms/subject> ) && (?ps1 != > >> > <http://purl.org/dc/terms/dateCopyrighted> ) && (?ps1 != > >> > <http://purl.org/dc/terms/title> ) && (?ps1 != > >> > <http://dopma-ropma.rand.org/people/employeeID2> ) && (?ps1 != > >> > <http://xmlns.com/foaf/0.1/mbox> ) && (?ps2 != > >> > <http://www.w3.org/1999/02/22-rdf-syntax-ns#type> ) && (?ps2 != > >> > <http://www.w3.org/2004/02/skos/core#subject> ) && (?ps2 != > >> > <http://www.w3.org/2002/07/owl#sameAs> ) && (?ps2 != > >> > <http://purl.org/dc/terms/subject> ) && (?ps2 != > >> > <http://purl.org/dc/terms/dateCopyrighted> ) && (?ps2 != > >> > <http://purl.org/dc/terms/title> ) && (?ps2 != > >> > <http://dopma-ropma.rand.org/people/employeeID2> ) && (?ps2 != > >> > <http://xmlns.com/foaf/0.1/mbox> ) && (!isLiteral(?middle)) && > >> > (?middle != <http://dopma-ropma.rand.org/people/{Target Person > >> > 1}> > >> > ) && (?middle != <http://dopma-ropma.rand.org/people/{Target > >> > Person 2}> ) && (?middle != ?os1 ) && (!isLiteral(?os1)) && (?os1 > >> > != <http://dopma-ropma.rand.org/people/{Target Person 1}> ) && > >> > (?os1 != <http://dopma-ropma.rand.org/people/{Target Person 2}> ) > >> > && > >> > (?os1 != ?middle ) ). > >> > } LIMIT 10 > >> > > >> > > >> ___________________________________________________________________ > >> __ > >> _____ > >> > > >> > This email message is for the sole use of the intended > >> > recipient(s) and may contain confidential information. Any > >> > unauthorized review, use, disclosure or distribution is > >> > prohibited. If you are not the intended recipient, please contact > >> > the sender by reply email and destroy all > >> copies > >> > of the original message. > >> > > >> > >> > >> > >> -- > >> | Rupert Westenthaler rupert.westentha...@gmail.com > >> | Bodenlehenstraße 11 ++43-699-11108907 > >> | A-5500 Bischofshofen > >> > > > > > > ______________________________________________________________________ > ____ > > This email message is for the sole use of the intended recipient(s) > and may contain confidential information. Any unauthorized review, > use, disclosure or distribution is prohibited. If you are not the > intended recipient, please contact the sender by reply email and > destroy all copies of the original message. > > __________________________________________________________________________ This email message is for the sole use of the intended recipient(s) and may contain confidential information. Any unauthorized review, use, disclosure or distribution is prohibited. If you are not the intended recipient, please contact the sender by reply email and destroy all copies of the original message.
