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Re: [Bigdata-developers] Getting triples up to 3 hops from a given set of resources
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From: Bryan T. <br...@sy...> - 2014-08-18 12:13:36
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The RWStore.properties is used by the war under a variety of deployment models. The GraphStore,properties is used by a single ant target and could probably be replaced by the use of the RWStore.properties file. Are you configuring the kb instance with full read/write transaction support or incremental truth maintenance? Both of those use a temporary store and might account for the exception. Try using unisolated indices (do not specify the bigdata sail option ISOLATABLE_INDICES) and try turning off incremental truth maintenance. Let us know which one is responsible for the issue and then we can file a ticket for this. Bryan > On Aug 18, 2014, at 7:25 AM, Antoni Mylka <ant...@qu...> wrote: > > Hi, > > Yet another update. I still get the exceptions. It doesn't seem to depend on the JVM. > > The query works, but only if I load data, restart the server and then do the query. Then, after the first update, I start getting the exceptions. That's why it started working with curl after a restart of Tomcat with a different JVM. The moment I fired up my app, which started writing stuff to the store and doing queries - the exceptions reappeared. > > Is it a bug? Do I need to do anything between loading data and doing GAS queries? > > Best regards, > > -- > Antoni Myłka > Software Engineer > > Quantinum AG, Birkenweg 61, CH-3013 Bern - Fon +41 31 388 20 40 > http://www.quantinum.com - Bee for Business > > ----- Ursprüngliche Mail ----- > Von: "Antoni Myłka" <ant...@qu...> > An: big...@li... > Gesendet: Montag, 18. August 2014 11:34:46 > Betreff: Re: [Bigdata-developers] Getting triples up to 3 hops from a given set of resources > > Hi, > > The exception doesn't appear when I switch from JRE 8 to JRE 7. The query seems to work. > > Best Regards, > > -- > Antoni Myłka > Software Engineer > > Quantinum AG, Birkenweg 61, CH-3013 Bern - Fon +41 31 388 20 40 > http://www.quantinum.com - Bee for Business > > ----- Ursprüngliche Mail ----- > Von: "Antoni Myłka" <ant...@qu...> > An: big...@li... > Gesendet: Montag, 18. August 2014 10:37:17 > Betreff: Re: [Bigdata-developers] Getting triples up to 3 hops from a given set of resources > > Hi > > I'm trying to experiment with the BFS program. The example "BFS with extracted subgraph" seems most interesting to me. I do this: > > curl -X POST 'http://localhost:28080/bigdata/namespace/our.namespace/sparql' -o out.xml \ > --data-urlencode 'query=PREFIX gas: <http://www.bigdata.com/rdf/gas#> > SELECT ?depth ?out ?p ?o > WHERE { > SERVICE gas:service { > gas:program gas:gasClass "com.bigdata.rdf.graph.analytics.BFS" . > gas:program gas:in <my-starting-point> . > gas:program gas:out ?out . > gas:program gas:out1 ?depth . > gas:program gas:maxIterations 1 . > } > ?out ?p ?o . > }' > > > But the out.xml file contains an exception where the root cause is (Full stack trace below): > > Caused by: java.lang.ClassCastException: com.bigdata.journal.TemporaryStore cannot be cast to com.bigdata.journal.Journal > at com.bigdata.rdf.store.LocalTripleStore.<init>(LocalTripleStore.java:163) > ... 15 more > > It seems like some configuration issue. Is there anything I must or can't put in the configuration files before I can use GAS? I also don't quite understand why there are two configuration files: RWStore.properties and GraphStore.properties. What is the relation between them? Is a "graph store" something separate from a normal RDF store? > > -- > Antoni Myłka > Software Engineer > > Quantinum AG, Birkenweg 61, CH-3013 Bern - Fon +41 31 388 20 40 > http://www.quantinum.com - Bee for Business > > > PREFIX gas: <http://www.bigdata.com/rdf/gas#> > SELECT ?depth ?out ?p ?o > WHERE { > SERVICE gas:service { > gas:program gas:gasClass "com.bigdata.rdf.graph.analytics.BFS" . > gas:program gas:in <my-starting-point> . > gas:program gas:out ?out . > gas:program gas:out1 ?depth . > gas:program gas:out2 ?predecessor . > gas:program gas:maxIterations 1 . > } > ?out ?p ?o . > } > java.util.concurrent.ExecutionException: java.lang.Exception: org.openrdf.query.QueryEvaluationException: java.lang.RuntimeException: java.util.concurrent.ExecutionException: java.lang.RuntimeException: java.util.concurrent.ExecutionException: java.lang.Exception: task=ChunkTask{query=d4747392-722c-46ab-80e2-e9fb27dddd7c,bopId=1,partitionId=-1,sinkId=3,altSinkId=null}, cause=java.util.concurrent.ExecutionException: java.util.concurrent.ExecutionException: java.lang.RuntimeException: java.util.concurrent.ExecutionException: java.lang.RuntimeException: Could not instantiate relation: java.lang.reflect.InvocationTargetException > at java.util.concurrent.FutureTask.report(Unknown Source) > at java.util.concurrent.FutureTask.get(Unknown Source) > at com.bigdata.rdf.sail.webapp.QueryServlet.doQuery(QueryServlet.java:625) > at com.bigdata.rdf.sail.webapp.QueryServlet.doPost(QueryServlet.java:182) > at com.bigdata.rdf.sail.webapp.RESTServlet.doPost(RESTServlet.java:237) > at com.bigdata.rdf.sail.webapp.MultiTenancyServlet.doPost(MultiTenancyServlet.java:135) > at javax.servlet.http.HttpServlet.service(HttpServlet.java:646) > at javax.servlet.http.HttpServlet.service(HttpServlet.java:727) > at org.apache.catalina.core.ApplicationFilterChain.internalDoFilter(ApplicationFilterChain.java:303) > at org.apache.catalina.core.ApplicationFilterChain.doFilter(ApplicationFilterChain.java:208) > at org.apache.tomcat.websocket.server.WsFilter.doFilter(WsFilter.java:52) > at org.apache.catalina.core.ApplicationFilterChain.internalDoFilter(ApplicationFilterChain.java:241) > at org.apache.catalina.core.ApplicationFilterChain.doFilter(ApplicationFilterChain.java:208) > at org.apache.catalina.core.StandardWrapperValve.invoke(StandardWrapperValve.java:220) > at org.apache.catalina.core.StandardContextValve.invoke(StandardContextValve.java:122) > at org.apache.catalina.authenticator.AuthenticatorBase.invoke(AuthenticatorBase.java:501) > at org.apache.catalina.core.StandardHostValve.invoke(StandardHostValve.java:171) > at org.apache.catalina.valves.ErrorReportValve.invoke(ErrorReportValve.java:102) > at org.apache.catalina.valves.AccessLogValve.invoke(AccessLogValve.java:950) > at org.apache.catalina.core.StandardEngineValve.invoke(StandardEngineValve.java:116) > at org.apache.catalina.connector.CoyoteAdapter.service(CoyoteAdapter.java:408) > at org.apache.coyote.http11.AbstractHttp11Processor.process(AbstractHttp11Processor.java:1040) > at org.apache.coyote.AbstractProtocol$AbstractConnectionHandler.process(AbstractProtocol.java:607) > at org.apache.tomcat.util.net.JIoEndpoint$SocketProcessor.run(JIoEndpoint.java:314) > at java.util.concurrent.ThreadPoolExecutor.runWorker(Unknown Source) > at java.util.concurrent.ThreadPoolExecutor$Worker.run(Unknown Source) > at org.apache.tomcat.util.threads.TaskThread$WrappingRunnable.run(TaskThread.java:61) > at java.lang.Thread.run(Unknown Source) > Caused by: java.lang.Exception: org.openrdf.query.QueryEvaluationException: java.lang.RuntimeException: java.util.concurrent.ExecutionException: java.lang.RuntimeException: java.util.concurrent.ExecutionException: java.lang.Exception: task=ChunkTask{query=d4747392-722c-46ab-80e2-e9fb27dddd7c,bopId=1,partitionId=-1,sinkId=3,altSinkId=null}, cause=java.util.concurrent.ExecutionException: java.util.concurrent.ExecutionException: java.lang.RuntimeException: java.util.concurrent.ExecutionException: java.lang.RuntimeException: Could not instantiate relation: java.lang.reflect.InvocationTargetException > at com.bigdata.rdf.sail.webapp.BigdataRDFContext$AbstractQueryTask.call(BigdataRDFContext.java:1191) > at com.bigdata.rdf.sail.webapp.BigdataRDFContext$AbstractQueryTask.call(BigdataRDFContext.java:500) > at java.util.concurrent.FutureTask.run(Unknown Source) > at java.util.concurrent.ThreadPoolExecutor.runWorker(Unknown Source) > at java.util.concurrent.ThreadPoolExecutor$Worker.run(Unknown Source) > ... 1 more > Caused by: org.openrdf.query.QueryEvaluationException: java.lang.RuntimeException: java.util.concurrent.ExecutionException: java.lang.RuntimeException: java.util.concurrent.ExecutionException: java.lang.Exception: task=ChunkTask{query=d4747392-722c-46ab-80e2-e9fb27dddd7c,bopId=1,partitionId=-1,sinkId=3,altSinkId=null}, cause=java.util.concurrent.ExecutionException: java.util.concurrent.ExecutionException: java.lang.RuntimeException: java.util.concurrent.ExecutionException: java.lang.RuntimeException: Could not instantiate relation: java.lang.reflect.InvocationTargetException > at com.bigdata.rdf.sail.Bigdata2Sesame2BindingSetIterator.hasNext(Bigdata2Sesame2BindingSetIterator.java:188) > at org.openrdf.query.impl.TupleQueryResultImpl.hasNext(TupleQueryResultImpl.java:90) > at org.openrdf.query.QueryResultUtil.report(QueryResultUtil.java:52) > at org.openrdf.repository.sail.SailTupleQuery.evaluate(SailTupleQuery.java:63) > at com.bigdata.rdf.sail.webapp.BigdataRDFContext$TupleQueryTask.doQuery(BigdataRDFContext.java:1310) > at com.bigdata.rdf.sail.webapp.BigdataRDFContext$AbstractQueryTask.call(BigdataRDFContext.java:1164) > ... 5 more > Caused by: java.lang.RuntimeException: java.util.concurrent.ExecutionException: java.lang.RuntimeException: java.util.concurrent.ExecutionException: java.lang.Exception: task=ChunkTask{query=d4747392-722c-46ab-80e2-e9fb27dddd7c,bopId=1,partitionId=-1,sinkId=3,altSinkId=null}, cause=java.util.concurrent.ExecutionException: java.util.concurrent.ExecutionException: java.lang.RuntimeException: java.util.concurrent.ExecutionException: java.lang.RuntimeException: Could not instantiate relation: java.lang.reflect.InvocationTargetException > at com.bigdata.relation.accesspath.BlockingBuffer$BlockingIterator.checkFuture(BlockingBuffer.java:1523) > at com.bigdata.relation.accesspath.BlockingBuffer$BlockingIterator._hasNext(BlockingBuffer.java:1710) > at com.bigdata.relation.accesspath.BlockingBuffer$BlockingIterator.hasNext(BlockingBuffer.java:1563) > at com.bigdata.striterator.AbstractChunkedResolverator._hasNext(AbstractChunkedResolverator.java:365) > at com.bigdata.striterator.AbstractChunkedResolverator.hasNext(AbstractChunkedResolverator.java:341) > at com.bigdata.rdf.sail.Bigdata2Sesame2BindingSetIterator.hasNext(Bigdata2Sesame2BindingSetIterator.java:134) > ... 10 more > Caused by: java.util.concurrent.ExecutionException: java.lang.RuntimeException: java.util.concurrent.ExecutionException: java.lang.Exception: task=ChunkTask{query=d4747392-722c-46ab-80e2-e9fb27dddd7c,bopId=1,partitionId=-1,sinkId=3,altSinkId=null}, cause=java.util.concurrent.ExecutionException: java.util.concurrent.ExecutionException: java.lang.RuntimeException: java.util.concurrent.ExecutionException: java.lang.RuntimeException: Could not instantiate relation: java.lang.reflect.InvocationTargetException > at java.util.concurrent.FutureTask.report(Unknown Source) > at java.util.concurrent.FutureTask.get(Unknown Source) > at com.bigdata.relation.accesspath.BlockingBuffer$BlockingIterator.checkFuture(BlockingBuffer.java:1454) > ... 15 more > Caused by: java.lang.RuntimeException: java.util.concurrent.ExecutionException: java.lang.Exception: task=ChunkTask{query=d4747392-722c-46ab-80e2-e9fb27dddd7c,bopId=1,partitionId=-1,sinkId=3,altSinkId=null}, cause=java.util.concurrent.ExecutionException: java.util.concurrent.ExecutionException: java.lang.RuntimeException: java.util.concurrent.ExecutionException: java.lang.RuntimeException: Could not instantiate relation: java.lang.reflect.InvocationTargetException > at com.bigdata.rdf.sail.RunningQueryCloseableIterator.checkFuture(RunningQueryCloseableIterator.java:59) > at com.bigdata.rdf.sail.RunningQueryCloseableIterator.close(RunningQueryCloseableIterator.java:73) > at com.bigdata.rdf.sail.RunningQueryCloseableIterator.hasNext(RunningQueryCloseableIterator.java:82) > at com.bigdata.striterator.ChunkedWrappedIterator.hasNext(ChunkedWrappedIterator.java:197) > at com.bigdata.striterator.AbstractChunkedResolverator$ChunkConsumerTask.call(AbstractChunkedResolverator.java:222) > at com.bigdata.striterator.AbstractChunkedResolverator$ChunkConsumerTask.call(AbstractChunkedResolverator.java:197) > ... 4 more > Caused by: java.util.concurrent.ExecutionException: java.lang.Exception: task=ChunkTask{query=d4747392-722c-46ab-80e2-e9fb27dddd7c,bopId=1,partitionId=-1,sinkId=3,altSinkId=null}, cause=java.util.concurrent.ExecutionException: java.util.concurrent.ExecutionException: java.lang.RuntimeException: java.util.concurrent.ExecutionException: java.lang.RuntimeException: Could not instantiate relation: java.lang.reflect.InvocationTargetException > at com.bigdata.util.concurrent.Haltable.get(Haltable.java:273) > at com.bigdata.bop.engine.AbstractRunningQuery.get(AbstractRunningQuery.java:1477) > at com.bigdata.bop.engine.AbstractRunningQuery.get(AbstractRunningQuery.java:104) > at com.bigdata.rdf.sail.RunningQueryCloseableIterator.checkFuture(RunningQueryCloseableIterator.java:46) > ... 9 more > Caused by: java.lang.Exception: task=ChunkTask{query=d4747392-722c-46ab-80e2-e9fb27dddd7c,bopId=1,partitionId=-1,sinkId=3,altSinkId=null}, cause=java.util.concurrent.ExecutionException: java.util.concurrent.ExecutionException: java.lang.RuntimeException: java.util.concurrent.ExecutionException: java.lang.RuntimeException: Could not instantiate relation: java.lang.reflect.InvocationTargetException > at com.bigdata.bop.engine.ChunkedRunningQuery$ChunkTask.call(ChunkedRunningQuery.java:1335) > at com.bigdata.bop.engine.ChunkedRunningQuery$ChunkTaskWrapper.run(ChunkedRunningQuery.java:894) > at java.util.concurrent.Executors$RunnableAdapter.call(Unknown Source) > at java.util.concurrent.FutureTask.run(Unknown Source) > at com.bigdata.concurrent.FutureTaskMon.run(FutureTaskMon.java:63) > at com.bigdata.bop.engine.ChunkedRunningQuery$ChunkFutureTask.run(ChunkedRunningQuery.java:789) > ... 3 more > Caused by: java.util.concurrent.ExecutionException: java.util.concurrent.ExecutionException: java.lang.RuntimeException: java.util.concurrent.ExecutionException: java.lang.RuntimeException: Could not instantiate relation: java.lang.reflect.InvocationTargetException > at java.util.concurrent.FutureTask.report(Unknown Source) > at java.util.concurrent.FutureTask.get(Unknown Source) > at com.bigdata.bop.engine.ChunkedRunningQuery$ChunkTask.call(ChunkedRunningQuery.java:1315) > ... 8 more > Caused by: java.util.concurrent.ExecutionException: java.lang.RuntimeException: java.util.concurrent.ExecutionException: java.lang.RuntimeException: Could not instantiate relation: java.lang.reflect.InvocationTargetException > at java.util.concurrent.FutureTask.report(Unknown Source) > at java.util.concurrent.FutureTask.get(Unknown Source) > at com.bigdata.bop.controller.ServiceCallJoin$ChunkTask.doServiceCallWithConstant(ServiceCallJoin.java:341) > at com.bigdata.bop.controller.ServiceCallJoin$ChunkTask.call(ServiceCallJoin.java:293) > at com.bigdata.bop.controller.ServiceCallJoin$ChunkTask.call(ServiceCallJoin.java:205) > at java.util.concurrent.FutureTask.run(Unknown Source) > at com.bigdata.bop.engine.ChunkedRunningQuery$ChunkTask.call(ChunkedRunningQuery.java:1314) > ... 8 more > Caused by: java.lang.RuntimeException: java.util.concurrent.ExecutionException: java.lang.RuntimeException: Could not instantiate relation: java.lang.reflect.InvocationTargetException > at com.bigdata.bop.controller.ServiceCallJoin$ChunkTask$ServiceCallTask.doServiceCall(ServiceCallJoin.java:743) > at com.bigdata.bop.controller.ServiceCallJoin$ChunkTask$ServiceCallTask.call(ServiceCallJoin.java:606) > at com.bigdata.bop.controller.ServiceCallJoin$ChunkTask$ServiceCallTask.call(ServiceCallJoin.java:542) > at java.util.concurrent.FutureTask.run(Unknown Source) > ... 3 more > Caused by: java.util.concurrent.ExecutionException: java.lang.RuntimeException: Could not instantiate relation: java.lang.reflect.InvocationTargetException > at java.util.concurrent.FutureTask.report(Unknown Source) > at java.util.concurrent.FutureTask.get(Unknown Source) > at com.bigdata.rdf.graph.impl.GASEngine$ParallelFrontierStrategy.call(GASEngine.java:329) > at com.bigdata.rdf.graph.impl.GASEngine$ParallelFrontierStrategy.call(GASEngine.java:236) > at com.bigdata.rdf.graph.impl.GASContext.scatterEdges(GASContext.java:604) > at com.bigdata.rdf.graph.impl.GASContext.doRound(GASContext.java:391) > at com.bigdata.rdf.graph.impl.GASContext.call(GASContext.java:240) > at com.bigdata.rdf.graph.impl.bd.GASService$GASServiceCall.call(GASService.java:837) > at com.bigdata.rdf.graph.impl.bd.GASService$GASServiceCall.call(GASService.java:414) > at com.bigdata.bop.controller.ServiceCallJoin$ChunkTask$ServiceCallTask.doBigdataServiceCall(ServiceCallJoin.java:756) > at com.bigdata.bop.controller.ServiceCallJoin$ChunkTask$ServiceCallTask.doServiceCall(ServiceCallJoin.java:697) > ... 6 more > Caused by: java.lang.RuntimeException: Could not instantiate relation: java.lang.reflect.InvocationTargetException > at com.bigdata.relation.locator.DefaultResourceLocator.newInstance(DefaultResourceLocator.java:982) > at com.bigdata.relation.locator.DefaultResourceLocator.cacheMiss(DefaultResourceLocator.java:464) > at com.bigdata.relation.locator.DefaultResourceLocator.locate(DefaultResourceLocator.java:333) > at com.bigdata.rdf.graph.impl.bd.BigdataGASEngine$BigdataGraphAccessor.resolveKB(BigdataGASEngine.java:301) > at com.bigdata.rdf.graph.impl.bd.BigdataGASEngine$BigdataGraphAccessor.getKB(BigdataGASEngine.java:272) > at com.bigdata.rdf.graph.impl.bd.BigdataGASEngine$BigdataGraphAccessor.getEdges(BigdataGASEngine.java:687) > at com.bigdata.rdf.graph.impl.GASContext$ScatterTask.call(GASContext.java:744) > at com.bigdata.rdf.graph.impl.GASContext$ScatterTask.call(GASContext.java:700) > ... 4 more > Caused by: java.lang.reflect.InvocationTargetException > at sun.reflect.GeneratedConstructorAccessor27.newInstance(Unknown Source) > at sun.reflect.DelegatingConstructorAccessorImpl.newInstance(Unknown Source) > at java.lang.reflect.Constructor.newInstance(Unknown Source) > at com.bigdata.relation.locator.DefaultResourceLocator.newInstance(DefaultResourceLocator.java:963) > ... 11 more > Caused by: java.lang.ClassCastException: com.bigdata.journal.TemporaryStore cannot be cast to com.bigdata.journal.Journal > at com.bigdata.rdf.store.LocalTripleStore.<init>(LocalTripleStore.java:163) > ... 15 more > > > ------------------------------------------------------------------------------ > _______________________________________________ > Bigdata-developers mailing list > Big...@li... > https://lists.sourceforge.net/lists/listinfo/bigdata-developers > > ------------------------------------------------------------------------------ > _______________________________________________ > Bigdata-developers mailing list > Big...@li... > https://lists.sourceforge.net/lists/listinfo/bigdata-developers > > ------------------------------------------------------------------------------ > 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