Update pectoral_pelvic_fin_annotations.rq

[balhoff]

Addresses part of #2.

[hlapp]

This still yields an empty result set for me. But I'm also not sure what the comment is asking me to do.

[balhoff]

@hlapp I have put a much better explanation in the comment now.

[hlapp]

The expansion and subsequent execution work, but the latter results in an error, after what looks like exactly 3 minutes.

ava.util.concurrent.ExecutionException: java.util.concurrent.ExecutionException: org.openrdf.query.QueryInterruptedException: java.lang.RuntimeException: java.util.concurrent.ExecutionException: com.bigdata.bop.engine.QueryTimeoutException: Query deadline is expired.
	at java.util.concurrent.FutureTask.report(FutureTask.java:122)
	at java.util.concurrent.FutureTask.get(FutureTask.java:192)
	at com.bigdata.rdf.sail.webapp.BigdataServlet.submitApiTask(BigdataServlet.java:281)
	at com.bigdata.rdf.sail.webapp.QueryServlet.doSparqlQuery(QueryServlet.java:653)
	at com.bigdata.rdf.sail.webapp.QueryServlet.doPost(QueryServlet.java:273)
	at com.bigdata.rdf.sail.webapp.RESTServlet.doPost(RESTServlet.java:269)
	at javax.servlet.http.HttpServlet.service(HttpServlet.java:707)
	at javax.servlet.http.HttpServlet.service(HttpServlet.java:790)
	at org.eclipse.jetty.servlet.ServletHolder.handle(ServletHolder.java:769)
	at org.eclipse.jetty.servlet.ServletHandler$CachedChain.doFilter(ServletHandler.java:1667)
	at org.eclipse.jetty.servlets.CrossOriginFilter.handle(CrossOriginFilter.java:248)
	at org.eclipse.jetty.servlets.CrossOriginFilter.doFilter(CrossOriginFilter.java:211)
	at org.eclipse.jetty.servlet.ServletHandler$CachedChain.doFilter(ServletHandler.java:1650)
	at org.eclipse.jetty.servlet.ServletHandler.doHandle(ServletHandler.java:583)
	at org.eclipse.jetty.server.handler.ScopedHandler.handle(ScopedHandler.java:143)
	at org.eclipse.jetty.security.SecurityHandler.handle(SecurityHandler.java:577)
	at org.eclipse.jetty.server.session.SessionHandler.doHandle(SessionHandler.java:223)
	at org.eclipse.jetty.server.handler.ContextHandler.doHandle(ContextHandler.java:1125)
	at org.eclipse.jetty.servlet.ServletHandler.doScope(ServletHandler.java:515)
	at org.eclipse.jetty.server.session.SessionHandler.doScope(SessionHandler.java:185)
	at org.eclipse.jetty.server.handler.ContextHandler.doScope(ContextHandler.java:1059)
	at org.eclipse.jetty.server.handler.ScopedHandler.handle(ScopedHandler.java:141)
	at org.eclipse.jetty.server.handler.ContextHandlerCollection.handle(ContextHandlerCollection.java:215)
	at org.eclipse.jetty.server.handler.HandlerCollection.handle(HandlerCollection.java:110)
	at org.eclipse.jetty.server.handler.HandlerWrapper.handle(HandlerWrapper.java:97)
	at org.eclipse.jetty.server.Server.handle(Server.java:497)
	at org.eclipse.jetty.server.HttpChannel.handle(HttpChannel.java:311)
	at org.eclipse.jetty.server.HttpConnection.onFillable(HttpConnection.java:248)
	at org.eclipse.jetty.io.AbstractConnection$2.run(AbstractConnection.java:540)
	at org.eclipse.jetty.util.thread.QueuedThreadPool.runJob(QueuedThreadPool.java:610)
	at org.eclipse.jetty.util.thread.QueuedThreadPool$3.run(QueuedThreadPool.java:539)
	at java.lang.Thread.run(Thread.java:748)
Caused by: java.util.concurrent.ExecutionException: org.openrdf.query.QueryInterruptedException: java.lang.RuntimeException: java.util.concurrent.ExecutionException: com.bigdata.bop.engine.QueryTimeoutException: Query deadline is expired.
	at java.util.concurrent.FutureTask.report(FutureTask.java:122)
	at java.util.concurrent.FutureTask.get(FutureTask.java:192)
	at com.bigdata.rdf.sail.webapp.QueryServlet$SparqlQueryTask.call(QueryServlet.java:864)
	at com.bigdata.rdf.sail.webapp.QueryServlet$SparqlQueryTask.call(QueryServlet.java:670)
	at com.bigdata.rdf.task.ApiTaskForIndexManager.call(ApiTaskForIndexManager.java:68)
	at java.util.concurrent.FutureTask.run(FutureTask.java:266)
	at java.util.concurrent.ThreadPoolExecutor.runWorker(ThreadPoolExecutor.java:1149)
	at java.util.concurrent.ThreadPoolExecutor$Worker.run(ThreadPoolExecutor.java:624)
	... 1 more
Caused by: org.openrdf.query.QueryInterruptedException: java.lang.RuntimeException: java.util.concurrent.ExecutionException: com.bigdata.bop.engine.QueryTimeoutException: Query deadline is expired.
	at com.bigdata.rdf.sail.Bigdata2Sesame2BindingSetIterator.hasNext(Bigdata2Sesame2BindingSetIterator.java:184)
	at info.aduna.iteration.IterationWrapper.hasNext(IterationWrapper.java:68)
	at org.openrdf.query.QueryResults.report(QueryResults.java:155)
	at org.openrdf.repository.sail.SailTupleQuery.evaluate(SailTupleQuery.java:76)
	at com.bigdata.rdf.sail.webapp.BigdataRDFContext$TupleQueryTask.doQuery(BigdataRDFContext.java:1713)
	at com.bigdata.rdf.sail.webapp.BigdataRDFContext$AbstractQueryTask.innerCall(BigdataRDFContext.java:1569)
	at com.bigdata.rdf.sail.webapp.BigdataRDFContext$AbstractQueryTask.call(BigdataRDFContext.java:1534)
	at com.bigdata.rdf.sail.webapp.BigdataRDFContext$AbstractQueryTask.call(BigdataRDFContext.java:747)
	... 4 more
Caused by: java.lang.RuntimeException: java.util.concurrent.ExecutionException: com.bigdata.bop.engine.QueryTimeoutException: Query deadline is expired.
	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.rdf.sail.Bigdata2Sesame2BindingSetIterator.hasNext(Bigdata2Sesame2BindingSetIterator.java:134)
	... 11 more
Caused by: java.util.concurrent.ExecutionException: com.bigdata.bop.engine.QueryTimeoutException: Query deadline is expired.
	at com.bigdata.util.concurrent.Haltable.get(Haltable.java:273)
	at com.bigdata.bop.engine.AbstractRunningQuery.get(AbstractRunningQuery.java:1516)
	at com.bigdata.bop.engine.AbstractRunningQuery.get(AbstractRunningQuery.java:104)
	at com.bigdata.rdf.sail.RunningQueryCloseableIterator.checkFuture(RunningQueryCloseableIterator.java:46)
	... 15 more
Caused by: com.bigdata.bop.engine.QueryTimeoutException: Query deadline is expired.
	at com.bigdata.bop.engine.RunState.checkDeadline(RunState.java:832)
	at com.bigdata.bop.engine.RunState.startOp(RunState.java:753)
	at com.bigdata.bop.engine.AbstractRunningQuery.startOp(AbstractRunningQuery.java:789)
	at com.bigdata.bop.engine.QueryEngine.startOp(QueryEngine.java:1358)
	at com.bigdata.bop.engine.ChunkedRunningQuery$ChunkTaskWrapper.run(ChunkedRunningQuery.java:912)
	at java.util.concurrent.Executors$RunnableAdapter.call(Executors.java:511)
	at java.util.concurrent.FutureTask.run(FutureTask.java:266)
	at com.bigdata.concurrent.FutureTaskMon.run(FutureTaskMon.java:63)
	at com.bigdata.bop.engine.ChunkedRunningQuery$ChunkFutureTask.run(ChunkedRunningQuery.java:821)
	... 3 more

[hlapp]

@balhoff perhaps we can change the OWL expression to result in a smaller expansion?