The example runs without the exception if I don't use an inference graph.
I tried to check if the update actually worked, but in doing this I found that
this example only produces the exception if the triple being inserted is
already in the graph. I can also make updates after the select query that
causes the exception has run, without raising any further exceptions - it only
seems to be happening the first time. Although I'm not sure how well this
example captures things.
________________________________________
From: Andy Seaborne <[email protected]>
Sent: 28 August 2013 17:54
To: [email protected]
Subject: Re: Fuseki concurrency problems: text search + inference
On 28/08/13 15:17, Stuart Taylor wrote:
> Hi Andy,
Hi stuart,
Thanks for the example. Do you happen to know if things work without
the inference graph in between
I don't see a syntax error in an update - do updates ever work?
Andy
>
> I've managed to reproduce the exception in JENA-523, just by having an
> error in the update query syntax.
>
> I've also managed to get the concurrent modification exception triggered
> by a more minimal example and without causing the exception in JENA-523,
> so I'm not sure whether it's a separate issue or not.
>
> The test queries sent to Fuseki using curl. The first and third query
> return 200, the second throws the exception. I've also attached the log
> output from Fuseki.
>
> curl -v -H "Content-type: application/x-www-form-urlencoded" -X POST
> --data-urlencode 'update=prefix hc:
> <http://www.hebrideanconnections.com/hebridean.owl#>
> insert data { hc:633 hc:associatedWith hc:633 }' \
> http://localhost:3030/dataset/update
>
> curl -v --data-urlencode 'query=prefix hc:
> <http://www.hebrideanconnections.com/hebridean.owl#>
> select * where { hc:633 ?p ?o }' \
> http://localhost:3030/dataset/query
>
> curl -v --data-urlencode 'query=prefix hc:
> <http://www.hebrideanconnections.com/hebridean.owl#>
> select * where { hc:633 ?p ?o }' \
> http://localhost:3030/dataset/query
>
> Thanks,
> Stuart.
>
> On 28/08/13 10:05, Andy Seaborne wrote:
>> Recorded as JENA-523
>>
>> https://issues.apache.org/jira/browse/JENA-523
>>
>> On 28/08/13 09:43, Andy Seaborne wrote:
>>> On 27/08/13 22:47, Taylor, Stuart Rae wrote:
>>>> Hi Andy,
>>>>
>>>> I didn't have the '--verbose' flag set when I created the logs for the
>>>> previous message so I didn't get the update query that caused the
>>>> exception. However I've tried again with verbose logging, and managed
>>>> to get the exception thrown for the select query. The queries *should*
>>>> be valid SPARQL (they're run several times in our system), but I will
>>>> get some better logs asap.
>>>>
>>>> In this case, I have an update which returns HTTP 200:
>>>>
>>>> INSERT {
>>>> ?subject hc:associatedWith hc:633 ;
>>>> } WHERE {
>>>> ?subject ?p ?o
>>>> FILTER ( ?subject = hc:90623 ) }
>>>>
>>>> Then the next select query triggers the
>>>> ConcurrentModificationException in my last message.
>>>>
>>>> Sorry for the vagueness. I will try to isolate the conditions tomorrow.
>>>
>>> If I understand what's going on (and I don't :-) ...
>>>
>>> It's the first exception that matters - the later ones are consequences
>>> of the
>>>
>>> 17:43:33 WARN DatasetGraphText :: Exception in abort: Can't abort a
>>> write lock-transaction
>>>
>>> It is true you can't aborted a lock-managed transaction ... but the code
>>> seems to include the setup (parsing the update) in the
>>>
>>> So ...
>>>
>>> 1/ Need to find why the abort happened - the stacktrace suggested a
>>> parse error but I'm not 100% sure.
>>>
>>> 2/ The code ought to clean up better anyway (the later exceptions).
>>>
>>> Andy
>>>
>>>
>>>>
>>>> Thanks,
>>>> Stuart.
>>>> ________________________________________
>>>> From: Andy Seaborne <[email protected]>
>>>> Sent: 27 August 2013 21:36
>>>> To: [email protected]
>>>> Subject: Re: Fuseki concurrency problems: text search + inference
>>>>
>>>> Stuart - quick question - and from code review, not use test running
>>>> ...
>>>>
>>>> What was the update? Could it be that there was a syntax error in it?
>>>>
>>>> Andy
>>>>
>>>> On 27/08/13 18:16, Stuart Taylor wrote:
>>>>> Hi all,
>>>>>
>>>>> I'm having some more problems with Fuseki and full text search. I have
>>>>> an InfModel backed by a TDB dataset, which I've added a Lucene text
>>>>> index to. I'm having problems with updates and select queries
>>>>> resulting
>>>>> in exceptions being thrown by Fuseki.
>>>>>
>>>>> I am running Fuseki 0.2.8-SNAPSHOT 20130826-0756 which should include
>>>>> the fixes for JENA-522 (where I was having problems earlier).
>>>>>
>>>>> Unfortunately I haven't managed to come up with a complete running
>>>>> example which reproduces the problem, but while I do that the stack
>>>>> traces from Fuseki's log might be able to shed some light on what is
>>>>> happening. I have also added the assembler file for my Fuseki set
>>>>> up at
>>>>> the end of this message.
>>>>>
>>>>> After some SPARQL Update queries I occasionally get:
>>>>>
>>>>> 17:43:33 WARN DatasetGraphText :: Exception in abort: Can't
>>>>> abort a
>>>>> write lock-transaction
>>>>> com.hp.hpl.jena.sparql.JenaTransactionException: Can't abort a write
>>>>> lock-transaction
>>>>> at
>>>>> com.hp.hpl.jena.sparql.core.DatasetGraphWithLock._abort(DatasetGraphWithLock.java:100)
>>>>>
>>>>>
>>>>>
>>>>>
>>>>> at
>>>>> com.hp.hpl.jena.sparql.core.DatasetGraphTrackActive.abort(DatasetGraphTrackActive.java:56)
>>>>>
>>>>>
>>>>>
>>>>>
>>>>> at
>>>>> org.apache.jena.query.text.DatasetGraphText.abort(DatasetGraphText.java:139)
>>>>>
>>>>>
>>>>>
>>>>>
>>>>> at
>>>>> org.apache.jena.fuseki.servlets.HttpAction.abort(HttpAction.java:142)
>>>>> at
>>>>> org.apache.jena.fuseki.servlets.SPARQL_Update.execute(SPARQL_Update.java:248)
>>>>>
>>>>>
>>>>>
>>>>>
>>>>> at
>>>>> org.apache.jena.fuseki.servlets.SPARQL_Update.executeForm(SPARQL_Update.java:212)
>>>>>
>>>>>
>>>>>
>>>>>
>>>>> at
>>>>> org.apache.jena.fuseki.servlets.SPARQL_Update.perform(SPARQL_Update.java:110)
>>>>>
>>>>>
>>>>>
>>>>>
>>>>> at
>>>>> org.apache.jena.fuseki.servlets.SPARQL_ServletBase.executeLifecycle(SPARQL_ServletBase.java:184)
>>>>>
>>>>>
>>>>>
>>>>>
>>>>> at
>>>>> org.apache.jena.fuseki.servlets.SPARQL_ServletBase.executeAction(SPARQL_ServletBase.java:165)
>>>>>
>>>>>
>>>>>
>>>>>
>>>>> at
>>>>> org.apache.jena.fuseki.servlets.SPARQL_ServletBase.execCommonWorker(SPARQL_ServletBase.java:153)
>>>>>
>>>>>
>>>>>
>>>>>
>>>>> at
>>>>> org.apache.jena.fuseki.servlets.SPARQL_ServletBase.doCommon(SPARQL_ServletBase.java:73)
>>>>>
>>>>>
>>>>>
>>>>>
>>>>> at
>>>>> org.apache.jena.fuseki.servlets.SPARQL_Update.doPost(SPARQL_Update.java:80)
>>>>>
>>>>>
>>>>>
>>>>> at javax.servlet.http.HttpServlet.service(HttpServlet.java:755)
>>>>> at javax.servlet.http.HttpServlet.service(HttpServlet.java:848)
>>>>> at
>>>>> org.eclipse.jetty.servlet.ServletHolder.handle(ServletHolder.java:684)
>>>>> at
>>>>> org.eclipse.jetty.servlet.ServletHandler.doHandle(ServletHandler.java:457)
>>>>>
>>>>>
>>>>>
>>>>> at
>>>>> org.eclipse.jetty.server.session.SessionHandler.doHandle(SessionHandler.java:229)
>>>>>
>>>>>
>>>>>
>>>>>
>>>>> at
>>>>> org.eclipse.jetty.server.handler.ContextHandler.doHandle(ContextHandler.java:1075)
>>>>>
>>>>>
>>>>>
>>>>>
>>>>> at
>>>>> org.eclipse.jetty.servlet.ServletHandler.doScope(ServletHandler.java:384)
>>>>>
>>>>>
>>>>>
>>>>> at
>>>>> org.eclipse.jetty.server.session.SessionHandler.doScope(SessionHandler.java:193)
>>>>>
>>>>>
>>>>>
>>>>>
>>>>> at
>>>>> org.eclipse.jetty.server.handler.ContextHandler.doScope(ContextHandler.java:1009)
>>>>>
>>>>>
>>>>>
>>>>>
>>>>> at
>>>>> org.eclipse.jetty.server.handler.ScopedHandler.handle(ScopedHandler.java:135)
>>>>>
>>>>>
>>>>>
>>>>>
>>>>> at
>>>>> org.eclipse.jetty.server.handler.HandlerWrapper.handle(HandlerWrapper.java:116)
>>>>>
>>>>>
>>>>>
>>>>>
>>>>> at org.eclipse.jetty.server.Server.handle(Server.java:370)
>>>>> at
>>>>> org.eclipse.jetty.server.AbstractHttpConnection.handleRequest(AbstractHttpConnection.java:489)
>>>>>
>>>>>
>>>>>
>>>>>
>>>>> at
>>>>> org.eclipse.jetty.server.BlockingHttpConnection.handleRequest(BlockingHttpConnection.java:53)
>>>>>
>>>>>
>>>>>
>>>>>
>>>>> at
>>>>> org.eclipse.jetty.server.AbstractHttpConnection.content(AbstractHttpConnection.java:960)
>>>>>
>>>>>
>>>>>
>>>>>
>>>>> at
>>>>> org.eclipse.jetty.server.AbstractHttpConnection$RequestHandler.content(AbstractHttpConnection.java:1021)
>>>>>
>>>>>
>>>>>
>>>>>
>>>>> at
>>>>> org.eclipse.jetty.http.HttpParser.parseNext(HttpParser.java:865)
>>>>> at
>>>>> org.eclipse.jetty.http.HttpParser.parseAvailable(HttpParser.java:240)
>>>>> at
>>>>> org.eclipse.jetty.server.BlockingHttpConnection.handle(BlockingHttpConnection.java:72)
>>>>>
>>>>>
>>>>>
>>>>>
>>>>> at
>>>>> org.eclipse.jetty.server.nio.BlockingChannelConnector$BlockingChannelEndPoint.run(BlockingChannelConnector.java:298)
>>>>>
>>>>>
>>>>>
>>>>>
>>>>> at
>>>>> org.eclipse.jetty.util.thread.QueuedThreadPool.runJob(QueuedThreadPool.java:608)
>>>>>
>>>>>
>>>>>
>>>>>
>>>>> at
>>>>> org.eclipse.jetty.util.thread.QueuedThreadPool$3.run(QueuedThreadPool.java:543)
>>>>>
>>>>>
>>>>>
>>>>>
>>>>> at java.lang.Thread.run(Thread.java:722)
>>>>> 17:43:33 WARN HttpAction :: Transaction still active in
>>>>> endWriter - no commit or abort seen (forced abort)
>>>>> 17:43:33 WARN DatasetGraphText :: Exception in abort: this
>>>>> IndexWriter is closed
>>>>> org.apache.lucene.store.AlreadyClosedException: this IndexWriter is
>>>>> closed
>>>>> at
>>>>> org.apache.lucene.index.IndexWriter.ensureOpen(IndexWriter.java:614)
>>>>> at
>>>>> org.apache.lucene.index.IndexWriter.ensureOpen(IndexWriter.java:628)
>>>>> at
>>>>> org.apache.lucene.index.IndexWriter.rollback(IndexWriter.java:1974)
>>>>> at
>>>>> org.apache.jena.query.text.TextIndexLucene.abortIndexing(TextIndexLucene.java:107)
>>>>>
>>>>>
>>>>>
>>>>>
>>>>> at
>>>>> org.apache.jena.query.text.DatasetGraphText.abort(DatasetGraphText.java:137)
>>>>>
>>>>>
>>>>>
>>>>>
>>>>> at
>>>>> org.apache.jena.fuseki.servlets.HttpAction.endWrite(HttpAction.java:153)
>>>>>
>>>>>
>>>>> at
>>>>> org.apache.jena.fuseki.servlets.SPARQL_Update.execute(SPARQL_Update.java:257)
>>>>>
>>>>>
>>>>>
>>>>>
>>>>> at
>>>>> org.apache.jena.fuseki.servlets.SPARQL_Update.executeForm(SPARQL_Update.java:212)
>>>>>
>>>>>
>>>>>
>>>>>
>>>>> at
>>>>> org.apache.jena.fuseki.servlets.SPARQL_Update.perform(SPARQL_Update.java:110)
>>>>>
>>>>>
>>>>>
>>>>>
>>>>> at
>>>>> org.apache.jena.fuseki.servlets.SPARQL_ServletBase.executeLifecycle(SPARQL_ServletBase.java:184)
>>>>>
>>>>>
>>>>>
>>>>>
>>>>> at
>>>>> org.apache.jena.fuseki.servlets.SPARQL_ServletBase.executeAction(SPARQL_ServletBase.java:165)
>>>>>
>>>>>
>>>>>
>>>>>
>>>>> at
>>>>> org.apache.jena.fuseki.servlets.SPARQL_ServletBase.execCommonWorker(SPARQL_ServletBase.java:153)
>>>>>
>>>>>
>>>>>
>>>>>
>>>>> at
>>>>> org.apache.jena.fuseki.servlets.SPARQL_ServletBase.doCommon(SPARQL_ServletBase.java:73)
>>>>>
>>>>>
>>>>>
>>>>>
>>>>> at
>>>>> org.apache.jena.fuseki.servlets.SPARQL_Update.doPost(SPARQL_Update.java:80)
>>>>>
>>>>>
>>>>>
>>>>> at javax.servlet.http.HttpServlet.service(HttpServlet.java:755)
>>>>> at javax.servlet.http.HttpServlet.service(HttpServlet.java:848)
>>>>> at
>>>>> org.eclipse.jetty.servlet.ServletHolder.handle(ServletHolder.java:684)
>>>>> at
>>>>> org.eclipse.jetty.servlet.ServletHandler.doHandle(ServletHandler.java:457)
>>>>>
>>>>>
>>>>>
>>>>> at
>>>>> org.eclipse.jetty.server.session.SessionHandler.doHandle(SessionHandler.java:229)
>>>>>
>>>>>
>>>>>
>>>>>
>>>>> at
>>>>> org.eclipse.jetty.server.handler.ContextHandler.doHandle(ContextHandler.java:1075)
>>>>>
>>>>>
>>>>>
>>>>>
>>>>> at
>>>>> org.eclipse.jetty.servlet.ServletHandler.doScope(ServletHandler.java:384)
>>>>>
>>>>>
>>>>>
>>>>> at
>>>>> org.eclipse.jetty.server.session.SessionHandler.doScope(SessionHandler.java:193)
>>>>>
>>>>>
>>>>>
>>>>>
>>>>> at
>>>>> org.eclipse.jetty.server.handler.ContextHandler.doScope(ContextHandler.java:1009)
>>>>>
>>>>>
>>>>>
>>>>>
>>>>> at
>>>>> org.eclipse.jetty.server.handler.ScopedHandler.handle(ScopedHandler.java:135)
>>>>>
>>>>>
>>>>>
>>>>>
>>>>> at
>>>>> org.eclipse.jetty.server.handler.HandlerWrapper.handle(HandlerWrapper.java:116)
>>>>>
>>>>>
>>>>>
>>>>>
>>>>> at org.eclipse.jetty.server.Server.handle(Server.java:370)
>>>>> at
>>>>> org.eclipse.jetty.server.AbstractHttpConnection.handleRequest(AbstractHttpConnection.java:489)
>>>>>
>>>>>
>>>>>
>>>>>
>>>>> at
>>>>> org.eclipse.jetty.server.BlockingHttpConnection.handleRequest(BlockingHttpConnection.java:53)
>>>>>
>>>>>
>>>>>
>>>>>
>>>>> at
>>>>> org.eclipse.jetty.server.AbstractHttpConnection.content(AbstractHttpConnection.java:960)
>>>>>
>>>>>
>>>>>
>>>>>
>>>>> at
>>>>> org.eclipse.jetty.server.AbstractHttpConnection$RequestHandler.content(AbstractHttpConnection.java:1021)
>>>>>
>>>>>
>>>>>
>>>>>
>>>>> at
>>>>> org.eclipse.jetty.http.HttpParser.parseNext(HttpParser.java:865)
>>>>> at
>>>>> org.eclipse.jetty.http.HttpParser.parseAvailable(HttpParser.java:240)
>>>>> at
>>>>> org.eclipse.jetty.server.BlockingHttpConnection.handle(BlockingHttpConnection.java:72)
>>>>>
>>>>>
>>>>>
>>>>>
>>>>> at
>>>>> org.eclipse.jetty.server.nio.BlockingChannelConnector$BlockingChannelEndPoint.run(BlockingChannelConnector.java:298)
>>>>>
>>>>>
>>>>>
>>>>>
>>>>> at
>>>>> org.eclipse.jetty.util.thread.QueuedThreadPool.runJob(QueuedThreadPool.java:608)
>>>>>
>>>>>
>>>>>
>>>>>
>>>>> at
>>>>> org.eclipse.jetty.util.thread.QueuedThreadPool$3.run(QueuedThreadPool.java:543)
>>>>>
>>>>>
>>>>>
>>>>>
>>>>> at java.lang.Thread.run(Thread.java:722)
>>>>>
>>>>> Then running SELECT queries shortly after results in:
>>>>>
>>>>> 17:46:23 WARN Fuseki :: [13] RC = 500 : Iterator:
>>>>> started
>>>>> at 24, now 30
>>>>> java.util.ConcurrentModificationException: Iterator: started at 24,
>>>>> now 30
>>>>> at
>>>>> com.hp.hpl.jena.tdb.sys.DatasetControlMRSW.policyError(DatasetControlMRSW.java:157)
>>>>>
>>>>>
>>>>>
>>>>>
>>>>> at
>>>>> com.hp.hpl.jena.tdb.sys.DatasetControlMRSW.access$000(DatasetControlMRSW.java:32)
>>>>>
>>>>>
>>>>>
>>>>>
>>>>> at
>>>>> com.hp.hpl.jena.tdb.sys.DatasetControlMRSW$IteratorCheckNotConcurrent.checkCourrentModification(DatasetControlMRSW.java:110)
>>>>>
>>>>>
>>>>>
>>>>>
>>>>> at
>>>>> com.hp.hpl.jena.tdb.sys.DatasetControlMRSW$IteratorCheckNotConcurrent.hasNext(DatasetControlMRSW.java:118)
>>>>>
>>>>>
>>>>>
>>>>>
>>>>> at org.apache.jena.atlas.iterator.Iter$4.hasNext(Iter.java:312)
>>>>> at org.apache.jena.atlas.iterator.Iter$4.hasNext(Iter.java:312)
>>>>> at org.apache.jena.atlas.iterator.Iter$4.hasNext(Iter.java:312)
>>>>> at org.apache.jena.atlas.iterator.Iter.hasNext(Iter.java:910)
>>>>> at
>>>>> com.hp.hpl.jena.util.iterator.WrappedIterator.hasNext(WrappedIterator.java:90)
>>>>>
>>>>>
>>>>>
>>>>>
>>>>> at
>>>>> com.hp.hpl.jena.util.iterator.NiceIterator$1.hasNext(NiceIterator.java:103)
>>>>>
>>>>>
>>>>>
>>>>> at
>>>>> com.hp.hpl.jena.util.iterator.NiceIterator$1.hasNext(NiceIterator.java:103)
>>>>>
>>>>>
>>>>>
>>>>> at
>>>>> com.hp.hpl.jena.reasoner.rulesys.impl.TopLevelTripleMatchFrame.nextMatch(TopLevelTripleMatchFrame.java:55)
>>>>>
>>>>>
>>>>>
>>>>>
>>>>> at
>>>>> com.hp.hpl.jena.reasoner.rulesys.impl.LPInterpreter.run(LPInterpreter.java:330)
>>>>>
>>>>>
>>>>>
>>>>>
>>>>> at
>>>>> com.hp.hpl.jena.reasoner.rulesys.impl.LPInterpreter.next(LPInterpreter.java:192)
>>>>>
>>>>>
>>>>>
>>>>>
>>>>> at
>>>>> com.hp.hpl.jena.reasoner.rulesys.impl.Generator.pump(Generator.java:250)
>>>>>
>>>>>
>>>>> at
>>>>> com.hp.hpl.jena.reasoner.rulesys.impl.Generator.pump(Generator.java:237)
>>>>>
>>>>>
>>>>> at
>>>>> com.hp.hpl.jena.reasoner.rulesys.impl.LPBRuleEngine.pump(LPBRuleEngine.java:308)
>>>>>
>>>>>
>>>>>
>>>>>
>>>>> at
>>>>> com.hp.hpl.jena.reasoner.rulesys.impl.LPTopGoalIterator.moveForward(LPTopGoalIterator.java:109)
>>>>>
>>>>>
>>>>>
>>>>>
>>>>> at
>>>>> com.hp.hpl.jena.reasoner.rulesys.impl.LPTopGoalIterator.hasNext(LPTopGoalIterator.java:222)
>>>>>
>>>>>
>>>>>
>>>>>
>>>>> at
>>>>> com.hp.hpl.jena.util.iterator.WrappedIterator.hasNext(WrappedIterator.java:90)
>>>>>
>>>>>
>>>>>
>>>>>
>>>>> at
>>>>> com.hp.hpl.jena.util.iterator.WrappedIterator.hasNext(WrappedIterator.java:90)
>>>>>
>>>>>
>>>>>
>>>>>
>>>>> at
>>>>> com.hp.hpl.jena.util.iterator.FilterIterator.hasNext(FilterIterator.java:54)
>>>>>
>>>>>
>>>>>
>>>>>
>>>>> at
>>>>> com.hp.hpl.jena.util.iterator.WrappedIterator.hasNext(WrappedIterator.java:90)
>>>>>
>>>>>
>>>>>
>>>>>
>>>>> at
>>>>> com.hp.hpl.jena.util.iterator.FilterIterator.hasNext(FilterIterator.java:54)
>>>>>
>>>>>
>>>>>
>>>>>
>>>>> at
>>>>> com.hp.hpl.jena.sparql.engine.iterator.QueryIterTriplePattern$TripleMapper.hasNextBinding(QueryIterTriplePattern.java:151)
>>>>>
>>>>>
>>>>>
>>>>>
>>>>> at
>>>>> com.hp.hpl.jena.sparql.engine.iterator.QueryIteratorBase.hasNext(QueryIteratorBase.java:112)
>>>>>
>>>>>
>>>>>
>>>>>
>>>>> at
>>>>> com.hp.hpl.jena.sparql.engine.iterator.QueryIterRepeatApply.hasNextBinding(QueryIterRepeatApply.java:81)
>>>>>
>>>>>
>>>>>
>>>>>
>>>>> at
>>>>> com.hp.hpl.jena.sparql.engine.iterator.QueryIteratorBase.hasNext(QueryIteratorBase.java:112)
>>>>>
>>>>>
>>>>>
>>>>>
>>>>> at
>>>>> com.hp.hpl.jena.sparql.engine.iterator.QueryIterBlockTriples.hasNextBinding(QueryIterBlockTriples.java:64)
>>>>>
>>>>>
>>>>>
>>>>>
>>>>> at
>>>>> com.hp.hpl.jena.sparql.engine.iterator.QueryIteratorBase.hasNext(QueryIteratorBase.java:112)
>>>>>
>>>>>
>>>>>
>>>>>
>>>>> at
>>>>> com.hp.hpl.jena.sparql.engine.iterator.QueryIteratorWrapper.hasNextBinding(QueryIteratorWrapper.java:40)
>>>>>
>>>>>
>>>>>
>>>>>
>>>>> at
>>>>> com.hp.hpl.jena.sparql.engine.iterator.QueryIteratorBase.hasNext(QueryIteratorBase.java:112)
>>>>>
>>>>>
>>>>>
>>>>>
>>>>> at
>>>>> com.hp.hpl.jena.sparql.engine.iterator.QueryIteratorWrapper.hasNextBinding(QueryIteratorWrapper.java:40)
>>>>>
>>>>>
>>>>>
>>>>>
>>>>> at
>>>>> com.hp.hpl.jena.sparql.engine.iterator.QueryIteratorBase.hasNext(QueryIteratorBase.java:112)
>>>>>
>>>>>
>>>>>
>>>>>
>>>>> at
>>>>> com.hp.hpl.jena.sparql.engine.iterator.QueryIteratorWrapper.hasNextBinding(QueryIteratorWrapper.java:40)
>>>>>
>>>>>
>>>>>
>>>>>
>>>>> at
>>>>> com.hp.hpl.jena.sparql.engine.iterator.QueryIteratorBase.hasNext(QueryIteratorBase.java:112)
>>>>>
>>>>>
>>>>>
>>>>>
>>>>> at
>>>>> com.hp.hpl.jena.sparql.engine.ResultSetStream.hasNext(ResultSetStream.java:75)
>>>>>
>>>>>
>>>>>
>>>>>
>>>>> at
>>>>> com.hp.hpl.jena.sparql.resultset.ResultSetMem.<init>(ResultSetMem.java:97)
>>>>>
>>>>>
>>>>>
>>>>> at
>>>>> com.hp.hpl.jena.query.ResultSetFactory.makeRewindable(ResultSetFactory.java:420)
>>>>>
>>>>>
>>>>>
>>>>>
>>>>> at
>>>>> com.hp.hpl.jena.sparql.resultset.TextOutput.write(TextOutput.java:149)
>>>>> at
>>>>> com.hp.hpl.jena.sparql.resultset.TextOutput.write(TextOutput.java:132)
>>>>> at
>>>>> com.hp.hpl.jena.sparql.resultset.TextOutput.write(TextOutput.java:120)
>>>>> at
>>>>> com.hp.hpl.jena.sparql.resultset.TextOutput.format(TextOutput.java:67)
>>>>> at
>>>>> com.hp.hpl.jena.query.ResultSetFormatter.out(ResultSetFormatter.java:135)
>>>>>
>>>>>
>>>>>
>>>>> at
>>>>> org.apache.jena.fuseki.servlets.ResponseResultSet$3.output(ResponseResultSet.java:238)
>>>>>
>>>>>
>>>>>
>>>>>
>>>>> at
>>>>> org.apache.jena.fuseki.servlets.ResponseResultSet.output(ResponseResultSet.java:283)
>>>>>
>>>>>
>>>>>
>>>>>
>>>>> at
>>>>> org.apache.jena.fuseki.servlets.ResponseResultSet.textOutput(ResponseResultSet.java:244)
>>>>>
>>>>>
>>>>>
>>>>>
>>>>> at
>>>>> org.apache.jena.fuseki.servlets.ResponseResultSet.doResponseResultSet$(ResponseResultSet.java:145)
>>>>>
>>>>>
>>>>>
>>>>>
>>>>> at
>>>>> org.apache.jena.fuseki.servlets.ResponseResultSet.doResponseResultSet(ResponseResultSet.java:88)
>>>>>
>>>>>
>>>>>
>>>>>
>>>>> at
>>>>> org.apache.jena.fuseki.servlets.SPARQL_Query.sendResults(SPARQL_Query.java:348)
>>>>>
>>>>>
>>>>>
>>>>>
>>>>> at
>>>>> org.apache.jena.fuseki.servlets.SPARQL_Query.execute(SPARQL_Query.java:244)
>>>>>
>>>>>
>>>>>
>>>>> at
>>>>> org.apache.jena.fuseki.servlets.SPARQL_Query.executeWithParameter(SPARQL_Query.java:195)
>>>>>
>>>>>
>>>>>
>>>>>
>>>>> at
>>>>> org.apache.jena.fuseki.servlets.SPARQL_Query.perform(SPARQL_Query.java:80)
>>>>>
>>>>>
>>>>>
>>>>> at
>>>>> org.apache.jena.fuseki.servlets.SPARQL_ServletBase.executeLifecycle(SPARQL_ServletBase.java:184)
>>>>>
>>>>>
>>>>>
>>>>>
>>>>> at
>>>>> org.apache.jena.fuseki.servlets.SPARQL_ServletBase.executeAction(SPARQL_ServletBase.java:165)
>>>>>
>>>>>
>>>>>
>>>>>
>>>>> at
>>>>> org.apache.jena.fuseki.servlets.SPARQL_ServletBase.execCommonWorker(SPARQL_ServletBase.java:153)
>>>>>
>>>>>
>>>>>
>>>>>
>>>>> at
>>>>> org.apache.jena.fuseki.servlets.SPARQL_ServletBase.doCommon(SPARQL_ServletBase.java:73)
>>>>>
>>>>>
>>>>>
>>>>>
>>>>> at
>>>>> org.apache.jena.fuseki.servlets.SPARQL_Query.doGet(SPARQL_Query.java:61)
>>>>>
>>>>>
>>>>> at javax.servlet.http.HttpServlet.service(HttpServlet.java:735)
>>>>> at javax.servlet.http.HttpServlet.service(HttpServlet.java:848)
>>>>> at
>>>>> org.eclipse.jetty.servlet.ServletHolder.handle(ServletHolder.java:684)
>>>>> at
>>>>> org.eclipse.jetty.servlet.ServletHandler$CachedChain.doFilter(ServletHandler.java:1448)
>>>>>
>>>>>
>>>>>
>>>>>
>>>>> at
>>>>> org.eclipse.jetty.servlets.UserAgentFilter.doFilter(UserAgentFilter.java:82)
>>>>>
>>>>>
>>>>>
>>>>>
>>>>> at
>>>>> org.eclipse.jetty.servlets.GzipFilter.doFilter(GzipFilter.java:294)
>>>>> at
>>>>> org.eclipse.jetty.servlet.ServletHandler$CachedChain.doFilter(ServletHandler.java:1419)
>>>>>
>>>>>
>>>>>
>>>>>
>>>>> at
>>>>> org.eclipse.jetty.servlet.ServletHandler.doHandle(ServletHandler.java:455)
>>>>>
>>>>>
>>>>>
>>>>> at
>>>>> org.eclipse.jetty.server.session.SessionHandler.doHandle(SessionHandler.java:229)
>>>>>
>>>>>
>>>>>
>>>>>
>>>>> at
>>>>> org.eclipse.jetty.server.handler.ContextHandler.doHandle(ContextHandler.java:1075)
>>>>>
>>>>>
>>>>>
>>>>>
>>>>> at
>>>>> org.eclipse.jetty.servlet.ServletHandler.doScope(ServletHandler.java:384)
>>>>>
>>>>>
>>>>>
>>>>> at
>>>>> org.eclipse.jetty.server.session.SessionHandler.doScope(SessionHandler.java:193)
>>>>>
>>>>>
>>>>>
>>>>>
>>>>> at
>>>>> org.eclipse.jetty.server.handler.ContextHandler.doScope(ContextHandler.java:1009)
>>>>>
>>>>>
>>>>>
>>>>>
>>>>> at
>>>>> org.eclipse.jetty.server.handler.ScopedHandler.handle(ScopedHandler.java:135)
>>>>>
>>>>>
>>>>>
>>>>>
>>>>> at
>>>>> org.eclipse.jetty.server.handler.HandlerWrapper.handle(HandlerWrapper.java:116)
>>>>>
>>>>>
>>>>>
>>>>>
>>>>> at org.eclipse.jetty.server.Server.handle(Server.java:370)
>>>>> at
>>>>> org.eclipse.jetty.server.AbstractHttpConnection.handleRequest(AbstractHttpConnection.java:489)
>>>>>
>>>>>
>>>>>
>>>>>
>>>>> at
>>>>> org.eclipse.jetty.server.BlockingHttpConnection.handleRequest(BlockingHttpConnection.java:53)
>>>>>
>>>>>
>>>>>
>>>>>
>>>>> at
>>>>> org.eclipse.jetty.server.AbstractHttpConnection.headerComplete(AbstractHttpConnection.java:949)
>>>>>
>>>>>
>>>>>
>>>>>
>>>>> at
>>>>> org.eclipse.jetty.server.AbstractHttpConnection$RequestHandler.headerComplete(AbstractHttpConnection.java:1011)
>>>>>
>>>>>
>>>>>
>>>>>
>>>>> at
>>>>> org.eclipse.jetty.http.HttpParser.parseNext(HttpParser.java:644)
>>>>> at
>>>>> org.eclipse.jetty.http.HttpParser.parseAvailable(HttpParser.java:235)
>>>>> at
>>>>> org.eclipse.jetty.server.BlockingHttpConnection.handle(BlockingHttpConnection.java:72)
>>>>>
>>>>>
>>>>>
>>>>>
>>>>> at
>>>>> org.eclipse.jetty.server.nio.BlockingChannelConnector$BlockingChannelEndPoint.run(BlockingChannelConnector.java:298)
>>>>>
>>>>>
>>>>>
>>>>>
>>>>> at
>>>>> org.eclipse.jetty.util.thread.QueuedThreadPool.runJob(QueuedThreadPool.java:608)
>>>>>
>>>>>
>>>>>
>>>>>
>>>>> at
>>>>> org.eclipse.jetty.util.thread.QueuedThreadPool$3.run(QueuedThreadPool.java:543)
>>>>>
>>>>>
>>>>>
>>>>>
>>>>> at java.lang.Thread.run(Thread.java:722)
>>>>> 17:46:23 INFO Fuseki :: [13] 500 Iterator: started
>>>>> at 24,
>>>>> now 30 (25 ms)
>>>>>
>>>>>
>>>>> Here is the assembler file:
>>>>>
>>>>> @prefix : <#> .
>>>>> @prefix fuseki:
>>>>> <http://jena.apache.org/fuseki#><http://jena.apache.org/fuseki#> .
>>>>> @prefix rdf:
>>>>> <http://www.w3.org/1999/02/22-rdf-syntax-ns#><http://www.w3.org/1999/02/22-rdf-syntax-ns#>
>>>>>
>>>>>
>>>>>
>>>>> .
>>>>> @prefix rdfs:
>>>>> <http://www.w3.org/2000/01/rdf-schema#><http://www.w3.org/2000/01/rdf-schema#>
>>>>>
>>>>>
>>>>>
>>>>> .
>>>>> @prefix tdb:
>>>>> <http://jena.hpl.hp.com/2008/tdb#><http://jena.hpl.hp.com/2008/tdb#> .
>>>>> @prefix ja:
>>>>> <http://jena.hpl.hp.com/2005/11/Assembler#><http://jena.hpl.hp.com/2005/11/Assembler#>
>>>>>
>>>>>
>>>>>
>>>>> .
>>>>> @prefix text:
>>>>> <http://jena.apache.org/text#><http://jena.apache.org/text#> .
>>>>> @prefix dc:
>>>>> <http://purl.org/dc/terms/><http://purl.org/dc/terms/> .
>>>>>
>>>>> [] rdf:type fuseki:Server ;
>>>>> # Timeout - server-wide default: milliseconds.
>>>>> # Format 1: "1000" -- 1 second timeout
>>>>> # Format 2: "10000,60000" -- 10s timeout to first result, then 60s
>>>>> timeout to for rest of query.
>>>>> # See java doc for ARQ.queryTimeout
>>>>> ja:context [ ja:cxtName "arq:queryTimeout" ; ja:cxtValue
>>>>> "12000,50000" ] ;
>>>>>
>>>>> fuseki:services (
>>>>> <#service1>
>>>>> ) .
>>>>>
>>>>> # Custom code.
>>>>> [] ja:loadClass "com.hp.hpl.jena.tdb.TDB" .
>>>>>
>>>>> # TDB
>>>>> tdb:DatasetTDB rdfs:subClassOf ja:RDFDataset .
>>>>> tdb:GraphTDB rdfs:subClassOf ja:Model .
>>>>>
>>>>> ## Initialize text query
>>>>> [] ja:loadClass "org.apache.jena.query.text.TextQuery" .
>>>>> # A TextDataset is a regular dataset with a text index.
>>>>> text:TextDataset rdfs:subClassOf ja:RDFDataset .
>>>>> # Lucene index
>>>>> text:TextIndexLucene rdfs:subClassOf text:TextIndex .
>>>>>
>>>>> ## ---------------------------------------------------------------
>>>>> ## Service with only SPARQL query on an inference model.
>>>>> ## Inference model bbase data in TDB.
>>>>>
>>>>> <#service1> rdf:type fuseki:Service ;
>>>>> rdfs:label "TDB/text service" ;
>>>>> fuseki:name "dataset" ; # http://host/dataset
>>>>> fuseki:serviceQuery "query" ;
>>>>> fuseki:serviceUpdate "update" ;
>>>>> fuseki:serviceUpload "upload" ;
>>>>> fuseki:serviceReadWriteGraphStore "data" ;
>>>>> fuseki:serviceReadGraphStore "get" ;
>>>>> fuseki:dataset <#dataset_fulltext> ;
>>>>> .
>>>>>
>>>>> <#dataset_inf> rdf:type ja:RDFDataset ;
>>>>> ja:defaultGraph <#model_inf> .
>>>>>
>>>>> <#model_inf> rdf:type ja:Model ;
>>>>> ja:baseModel <#tdbGraph> ;
>>>>> ja:reasoner [ ja:reasonerURL
>>>>> <http://jena.hpl.hp.com/2003/OWLMicroFBRuleReasoner><http://jena.hpl.hp.com/2003/OWLMicroFBRuleReasoner>
>>>>>
>>>>>
>>>>>
>>>>> ] .
>>>>>
>>>>> <#tdbDataset> rdf:type tdb:DatasetTDB ;
>>>>> tdb:location "Data" .
>>>>> <#tdbGraph> rdf:type tdb:GraphTDB ;
>>>>> tdb:dataset <#tdbDataset> .
>>>>>
>>>>> # Dataset with full text index.
>>>>> <#dataset_fulltext> rdf:type text:TextDataset ;
>>>>> text:dataset <#dataset_inf> ;
>>>>> ##text:dataset <#tdbDataset> ;
>>>>> text:index <#indexLucene> .
>>>>>
>>>>> # Text index description
>>>>> <#indexLucene> a text:TextIndexLucene ;
>>>>> text:directory <file:Lucene><file:Lucene> ;
>>>>> ##text:directory "mem" ;
>>>>> text:entityMap <#entMap> ;
>>>>> .
>>>>>
>>>>> # Mapping in the index
>>>>> # URI stored in field "uri"
>>>>> # rdfs:label is mapped to field "text"
>>>>> <#entMap> a text:EntityMap ;
>>>>> text:entityField "uri" ;
>>>>> text:defaultField "text" ;
>>>>> text:map (
>>>>> [ text:field "text" ; text:predicate dc:title ]
>>>>> [ text:field "text" ; text:predicate dc:description ]
>>>>> ) .
>>>>>
>>>>>
>>>>> Any advice appreciated!
>>>>>
>>>>> Thanks,
>>>>> Stuart.
>>>>>
>>>>>
>>>>>
>>>>> The University of Aberdeen is a charity registered in Scotland, No
>>>>> SC013683.
>>>>>
>>>>
>>>>
>>>>
>>>>
>>>>
>>>> The University of Aberdeen is a charity registered in Scotland, No
>>>> SC013683.
>>>>
>>>
>>
>>
>>
>
>
>
> The University of Aberdeen is a charity registered in Scotland, No
> SC013683.
The University of Aberdeen is a charity registered in Scotland, No SC013683.
