Re: Fuseki errors with concurrent requests

Tue, 06 Feb 2018 03:09:18 -0800 


Hi,
seems that building an isolated test setup for reproducing the issue is difficult. Would it be possible/helpful if we arrange an access to our server and the test script which does generate the error? 

Mikael


On 30.1.2018 15:04, Andy Seaborne wrote:

These seem to be different errors.

"In the middle of an alloc-write" is possibly a concurrency issue.
"Failed to read" is possibly a previous corrupted database
This is a text dataset? That should be using an MRSW lock to get some level isolation. 

What's the Fuseki config in this case?

    Andy

On 24/01/18 23:40, Chris Tomlinson wrote:
On the latest 3.7.0-Snapshot (master branch) I also saw repeated occurrences of this the other day while running some queries from the fuseki browser app and with a database load going on with our own app using: 

     DatasetAccessorFactory.createHTTP(baseUrl+"/data”);


with for the first model to transfer:

     DatasetAccessor putModel(graphName, m);

and for following models:
     static void addToTransferBulk(final String graphName, final Model m) { 
         if (currentDataset == null)
             currentDataset = DatasetFactory.createGeneral();
         currentDataset.addNamedModel(graphName, m);
         triplesInDataset += m.size();
         if (triplesInDataset > initialLoadBulkSize) {
             try {
                 loadDatasetMutex(currentDataset);
                 currentDataset = null;
                 triplesInDataset = 0;
             } catch (TimeoutException e) {
                 e.printStackTrace();
                 return;
             }
         }
     }
as I say the exceptions appeared while I was running some queries from from the fuseki browser app: 


[2018-01-22 16:25:02] Fuseki     INFO [475] 200 OK (17.050 s)
[2018-01-22 16:25:03] Fuseki     INFO  [477] POST http://localhost:13180/fuseki/bdrcrw 
[2018-01-22 16:25:03] BindingTDB ERROR get1(?lit)
org.apache.jena.tdb.base.file.FileException: In the middle of an alloc-write     at org.apache.jena.tdb.base.objectfile.ObjectFileStorage.read(ObjectFileStorage.java:311)     at org.apache.jena.tdb.base.objectfile.ObjectFileWrapper.read(ObjectFileWrapper.java:57) 
    at org.apache.jena.tdb.lib.NodeLib.fetchDecode(NodeLib.java:78)
    at org.apache.jena.tdb.store.nodetable.NodeTableNative.readNodeFromTable(NodeTableNative.java:186)     at org.apache.jena.tdb.store.nodetable.NodeTableNative._retrieveNodeByNodeId(NodeTableNative.java:111)     at org.apache.jena.tdb.store.nodetable.NodeTableNative.getNodeForNodeId(NodeTableNative.java:70)     at org.apache.jena.tdb.store.nodetable.NodeTableCache._retrieveNodeByNodeId(NodeTableCache.java:128)     at org.apache.jena.tdb.store.nodetable.NodeTableCache.getNodeForNodeId(NodeTableCache.java:82)     at org.apache.jena.tdb.store.nodetable.NodeTableWrapper.getNodeForNodeId(NodeTableWrapper.java:50)     at org.apache.jena.tdb.store.nodetable.NodeTableInline.getNodeForNodeId(NodeTableInline.java:67) 
    at org.apache.jena.tdb.solver.BindingTDB.get1(BindingTDB.java:122)
    at org.apache.jena.sparql.engine.binding.BindingBase.get(BindingBase.java:121) 
    at org.apache.jena.sparql.expr.ExprVar.eval(ExprVar.java:60)
    at org.apache.jena.sparql.expr.ExprVar.eval(ExprVar.java:53)
    at org.apache.jena.sparql.expr.ExprNode.eval(ExprNode.java:93)
    at org.apache.jena.sparql.expr.ExprFunction2.eval(ExprFunction2.java:76)     at org.apache.jena.sparql.expr.E_LogicalOr.evalSpecial(E_LogicalOr.java:58)     at org.apache.jena.sparql.expr.ExprFunction2.eval(ExprFunction2.java:72)     at org.apache.jena.sparql.expr.ExprNode.isSatisfied(ExprNode.java:41)     at org.apache.jena.sparql.engine.iterator.QueryIterFilterExpr.accept(QueryIterFilterExpr.java:49)     at org.apache.jena.sparql.engine.iterator.QueryIterProcessBinding.hasNextBinding(QueryIterProcessBinding.java:69)     at org.apache.jena.sparql.engine.iterator.QueryIteratorBase.hasNext(QueryIteratorBase.java:114)     at org.apache.jena.sparql.engine.iterator.QueryIterProcessBinding.hasNextBinding(QueryIterProcessBinding.java:66)     at org.apache.jena.sparql.engine.iterator.QueryIteratorBase.hasNext(QueryIteratorBase.java:114)     at org.apache.jena.sparql.engine.iterator.QueryIterProcessBinding.hasNextBinding(QueryIterProcessBinding.java:66)     at org.apache.jena.sparql.engine.iterator.QueryIteratorBase.hasNext(QueryIteratorBase.java:114)     at org.apache.jena.sparql.engine.iterator.QueryIterConcat.hasNextBinding(QueryIterConcat.java:82)     at org.apache.jena.sparql.engine.iterator.QueryIteratorBase.hasNext(QueryIteratorBase.java:114)     at org.apache.jena.sparql.engine.iterator.QueryIterRepeatApply.hasNextBinding(QueryIterRepeatApply.java:74)     at org.apache.jena.sparql.engine.iterator.QueryIteratorBase.hasNext(QueryIteratorBase.java:114)     at org.apache.jena.sparql.engine.iterator.QueryIterConvert.hasNextBinding(QueryIterConvert.java:58)     at org.apache.jena.sparql.engine.iterator.QueryIteratorBase.hasNext(QueryIteratorBase.java:114)     at org.apache.jena.sparql.engine.iterator.QueryIterDistinct.getInputNextUnseen(QueryIterDistinct.java:104)     at org.apache.jena.sparql.engine.iterator.QueryIterDistinct.hasNextBinding(QueryIterDistinct.java:70)     at org.apache.jena.sparql.engine.iterator.QueryIteratorBase.hasNext(QueryIteratorBase.java:114)     at org.apache.jena.sparql.engine.iterator.QueryIteratorWrapper.hasNextBinding(QueryIteratorWrapper.java:39)     at org.apache.jena.sparql.engine.iterator.QueryIteratorBase.hasNext(QueryIteratorBase.java:114)     at org.apache.jena.sparql.engine.iterator.QueryIteratorWrapper.hasNextBinding(QueryIteratorWrapper.java:39)     at org.apache.jena.sparql.engine.iterator.QueryIteratorBase.hasNext(QueryIteratorBase.java:114)     at org.apache.jena.sparql.engine.iterator.QueryIteratorWrapper.hasNextBinding(QueryIteratorWrapper.java:39)     at org.apache.jena.sparql.engine.iterator.QueryIteratorBase.hasNext(QueryIteratorBase.java:114)     at org.apache.jena.sparql.engine.ResultSetStream.hasNext(ResultSetStream.java:74)     at org.apache.jena.sparql.engine.ResultSetCheckCondition.hasNext(ResultSetCheckCondition.java:55)     at org.apache.jena.sparql.resultset.ResultSetApply.apply(ResultSetApply.java:38)     at org.apache.jena.riot.resultset.rw.ResultSetWriterJSON.write(ResultSetWriterJSON.java:82)     at org.apache.jena.riot.resultset.rw.ResultsWriter.write(ResultsWriter.java:125)     at org.apache.jena.riot.resultset.rw.ResultsWriter.write(ResultsWriter.java:95)     at org.apache.jena.fuseki.servlets.ResponseResultSet.lambda$1(ResponseResultSet.java:210)     at org.apache.jena.fuseki.servlets.ResponseResultSet.output(ResponseResultSet.java:226)     at org.apache.jena.fuseki.servlets.ResponseResultSet.generalOutput(ResponseResultSet.java:216)     at org.apache.jena.fuseki.servlets.ResponseResultSet.doResponseResultSet$(ResponseResultSet.java:177)     at org.apache.jena.fuseki.servlets.ResponseResultSet.doResponseResultSet(ResponseResultSet.java:86)     at org.apache.jena.fuseki.servlets.SPARQL_Query.sendResults(SPARQL_Query.java:389)     at org.apache.jena.fuseki.servlets.SPARQL_Query.execute(SPARQL_Query.java:268)     at org.apache.jena.fuseki.servlets.SPARQL_Query.executeWithParameter(SPARQL_Query.java:224)     at org.apache.jena.fuseki.servlets.SPARQL_Query.perform(SPARQL_Query.java:199)     at org.apache.jena.fuseki.servlets.ActionService.executeLifecycle(ActionService.java:192)     at org.apache.jena.fuseki.servlets.ActionService.execCommonWorker(ActionService.java:106)     at org.apache.jena.fuseki.servlets.ActionBase.doCommon(ActionBase.java:73)     at org.apache.jena.fuseki.servlets.FusekiFilter.doFilter(FusekiFilter.java:73)     at org.apache.catalina.core.ApplicationFilterChain.internalDoFilter(ApplicationFilterChain.java:240)     at org.apache.catalina.core.ApplicationFilterChain.doFilter(ApplicationFilterChain.java:207)     at org.apache.shiro.web.servlet.ProxiedFilterChain.doFilter(ProxiedFilterChain.java:61)     at org.apache.shiro.web.servlet.AdviceFilter.executeChain(AdviceFilter.java:108)     at org.apache.shiro.web.servlet.AdviceFilter.doFilterInternal(AdviceFilter.java:137)     at org.apache.shiro.web.servlet.OncePerRequestFilter.doFilter(OncePerRequestFilter.java:125)     at org.apache.shiro.web.servlet.ProxiedFilterChain.doFilter(ProxiedFilterChain.java:66)     at org.apache.shiro.web.servlet.AbstractShiroFilter.executeChain(AbstractShiroFilter.java:449)     at org.apache.shiro.web.servlet.AbstractShiroFilter$1.call(AbstractShiroFilter.java:365)     at org.apache.shiro.subject.support.SubjectCallable.doCall(SubjectCallable.java:90)     at org.apache.shiro.subject.support.SubjectCallable.call(SubjectCallable.java:83)     at org.apache.shiro.subject.support.DelegatingSubject.execute(DelegatingSubject.java:383)     at org.apache.shiro.web.servlet.AbstractShiroFilter.doFilterInternal(AbstractShiroFilter.java:362)     at org.apache.shiro.web.servlet.OncePerRequestFilter.doFilter(OncePerRequestFilter.java:125)     at org.apache.catalina.core.ApplicationFilterChain.internalDoFilter(ApplicationFilterChain.java:240)     at org.apache.catalina.core.ApplicationFilterChain.doFilter(ApplicationFilterChain.java:207)     at org.apache.jena.fuseki.servlets.CrossOriginFilter.handle(CrossOriginFilter.java:285)     at org.apache.jena.fuseki.servlets.CrossOriginFilter.doFilter(CrossOriginFilter.java:248)     at org.apache.catalina.core.ApplicationFilterChain.internalDoFilter(ApplicationFilterChain.java:240)     at org.apache.catalina.core.ApplicationFilterChain.doFilter(ApplicationFilterChain.java:207)     at org.apache.catalina.core.StandardWrapperValve.invoke(StandardWrapperValve.java:212)     at org.apache.catalina.core.StandardContextValve.invoke(StandardContextValve.java:94)     at org.apache.catalina.authenticator.AuthenticatorBase.invoke(AuthenticatorBase.java:504)     at org.apache.catalina.core.StandardHostValve.invoke(StandardHostValve.java:141)     at org.apache.catalina.valves.ErrorReportValve.invoke(ErrorReportValve.java:79)     at org.apache.catalina.valves.AbstractAccessLogValve.invoke(AbstractAccessLogValve.java:620)     at org.apache.catalina.core.StandardEngineValve.invoke(StandardEngineValve.java:88)     at org.apache.catalina.connector.CoyoteAdapter.service(CoyoteAdapter.java:502)     at org.apache.coyote.http11.AbstractHttp11Processor.process(AbstractHttp11Processor.java:1104)     at org.apache.coyote.AbstractProtocol$AbstractConnectionHandler.process(AbstractProtocol.java:684)     at org.apache.tomcat.util.net.NioEndpoint$SocketProcessor.doRun(NioEndpoint.java:1519)     at org.apache.tomcat.util.net.NioEndpoint$SocketProcessor.run(NioEndpoint.java:1475)     at java.util.concurrent.ThreadPoolExecutor.runWorker(ThreadPoolExecutor.java:1149)     at java.util.concurrent.ThreadPoolExecutor$Worker.run(ThreadPoolExecutor.java:624)     at org.apache.tomcat.util.threads.TaskThread$WrappingRunnable.run(TaskThread.java:61) 
    at java.lang.Thread.run(Thread.java:748)
[2018-01-22 16:25:03] BindingTDB ERROR get1(?lit)
org.apache.jena.tdb.base.file.FileException: In the middle of an alloc-write     at org.apache.jena.tdb.base.objectfile.ObjectFileStorage.read(ObjectFileStorage.java:311)     at org.apache.jena.tdb.base.objectfile.ObjectFileWrapper.read(ObjectFileWrapper.java:57) 
    at org.apache.jena.tdb.lib.NodeLib.fetchDecode(NodeLib.java:78)
    at org.apache.jena.tdb.store.nodetable.NodeTableNative.readNodeFromTable(NodeTableNative.java:186)     at org.apache.jena.tdb.store.nodetable.NodeTableNative._retrieveNodeByNodeId(NodeTableNative.java:111)     at org.apache.jena.tdb.store.nodetable.NodeTableNative.getNodeForNodeId(NodeTableNative.java:70)     at org.apache.jena.tdb.store.nodetable.NodeTableCache._retrieveNodeByNodeId(NodeTableCache.java:128)     at org.apache.jena.tdb.store.nodetable.NodeTableCache.getNodeForNodeId(NodeTableCache.java:82)     at org.apache.jena.tdb.store.nodetable.NodeTableWrapper.getNodeForNodeId(NodeTableWrapper.java:50)     at org.apache.jena.tdb.store.nodetable.NodeTableInline.getNodeForNodeId(NodeTableInline.java:67) 
    at org.apache.jena.tdb.solver.BindingTDB.get1(BindingTDB.java:122)
    at org.apache.jena.sparql.engine.binding.BindingBase.get(BindingBase.java:121) 
    at org.apache.jena.sparql.expr.ExprVar.eval(ExprVar.java:60)
    at org.apache.jena.sparql.expr.ExprVar.eval(ExprVar.java:53)
    at org.apache.jena.sparql.expr.ExprNode.eval(ExprNode.java:93)
    at org.apache.jena.sparql.expr.ExprFunction2.eval(ExprFunction2.java:76)     at org.apache.jena.sparql.expr.E_LogicalOr.evalSpecial(E_LogicalOr.java:58)     at org.apache.jena.sparql.expr.ExprFunction2.eval(ExprFunction2.java:72)     at org.apache.jena.sparql.expr.ExprNode.isSatisfied(ExprNode.java:41)     at org.apache.jena.sparql.engine.iterator.QueryIterFilterExpr.accept(QueryIterFilterExpr.java:49)     at org.apache.jena.sparql.engine.iterator.QueryIterProcessBinding.hasNextBinding(QueryIterProcessBinding.java:69)     at org.apache.jena.sparql.engine.iterator.QueryIteratorBase.hasNext(QueryIteratorBase.java:114)     at org.apache.jena.sparql.engine.iterator.QueryIterProcessBinding.hasNextBinding(QueryIterProcessBinding.java:66)     at org.apache.jena.sparql.engine.iterator.QueryIteratorBase.hasNext(QueryIteratorBase.java:114)     at org.apache.jena.sparql.engine.iterator.QueryIterProcessBinding.hasNextBinding(QueryIterProcessBinding.java:66)     at org.apache.jena.sparql.engine.iterator.QueryIteratorBase.hasNext(QueryIteratorBase.java:114)     at org.apache.jena.sparql.engine.iterator.QueryIterConcat.hasNextBinding(QueryIterConcat.java:82)     at org.apache.jena.sparql.engine.iterator.QueryIteratorBase.hasNext(QueryIteratorBase.java:114)     at org.apache.jena.sparql.engine.iterator.QueryIterRepeatApply.hasNextBinding(QueryIterRepeatApply.java:74)     at org.apache.jena.sparql.engine.iterator.QueryIteratorBase.hasNext(QueryIteratorBase.java:114)     at org.apache.jena.sparql.engine.iterator.QueryIterConvert.hasNextBinding(QueryIterConvert.java:58)     at org.apache.jena.sparql.engine.iterator.QueryIteratorBase.hasNext(QueryIteratorBase.java:114)     at org.apache.jena.sparql.engine.iterator.QueryIterDistinct.getInputNextUnseen(QueryIterDistinct.java:104)     at org.apache.jena.sparql.engine.iterator.QueryIterDistinct.hasNextBinding(QueryIterDistinct.java:70)     at org.apache.jena.sparql.engine.iterator.QueryIteratorBase.hasNext(QueryIteratorBase.java:114)     at org.apache.jena.sparql.engine.iterator.QueryIteratorWrapper.hasNextBinding(QueryIteratorWrapper.java:39)     at org.apache.jena.sparql.engine.iterator.QueryIteratorBase.hasNext(QueryIteratorBase.java:114)     at org.apache.jena.sparql.engine.iterator.QueryIteratorWrapper.hasNextBinding(QueryIteratorWrapper.java:39)     at org.apache.jena.sparql.engine.iterator.QueryIteratorBase.hasNext(QueryIteratorBase.java:114)     at org.apache.jena.sparql.engine.iterator.QueryIteratorWrapper.hasNextBinding(QueryIteratorWrapper.java:39)     at org.apache.jena.sparql.engine.iterator.QueryIteratorBase.hasNext(QueryIteratorBase.java:114)     at org.apache.jena.sparql.engine.ResultSetStream.hasNext(ResultSetStream.java:74)     at org.apache.jena.sparql.engine.ResultSetCheckCondition.hasNext(ResultSetCheckCondition.java:55)     at org.apache.jena.sparql.resultset.ResultSetApply.apply(ResultSetApply.java:38)     at org.apache.jena.riot.resultset.rw.ResultSetWriterJSON.write(ResultSetWriterJSON.java:82)     at org.apache.jena.riot.resultset.rw.ResultsWriter.write(ResultsWriter.java:125)     at org.apache.jena.riot.resultset.rw.ResultsWriter.write(ResultsWriter.java:95)     at org.apache.jena.fuseki.servlets.ResponseResultSet.lambda$1(ResponseResultSet.java:210)     at org.apache.jena.fuseki.servlets.ResponseResultSet.output(ResponseResultSet.java:226)     at org.apache.jena.fuseki.servlets.ResponseResultSet.generalOutput(ResponseResultSet.java:216)     at org.apache.jena.fuseki.servlets.ResponseResultSet.doResponseResultSet$(ResponseResultSet.java:177)     at org.apache.jena.fuseki.servlets.ResponseResultSet.doResponseResultSet(ResponseResultSet.java:86)     at org.apache.jena.fuseki.servlets.SPARQL_Query.sendResults(SPARQL_Query.java:389)     at org.apache.jena.fuseki.servlets.SPARQL_Query.execute(SPARQL_Query.java:268)     at org.apache.jena.fuseki.servlets.SPARQL_Query.executeWithParameter(SPARQL_Query.java:224)     at org.apache.jena.fuseki.servlets.SPARQL_Query.perform(SPARQL_Query.java:199)     at org.apache.jena.fuseki.servlets.ActionService.executeLifecycle(ActionService.java:192)     at org.apache.jena.fuseki.servlets.ActionService.execCommonWorker(ActionService.java:106)     at org.apache.jena.fuseki.servlets.ActionBase.doCommon(ActionBase.java:73)     at org.apache.jena.fuseki.servlets.FusekiFilter.doFilter(FusekiFilter.java:73)     at org.apache.catalina.core.ApplicationFilterChain.internalDoFilter(ApplicationFilterChain.java:240)     at org.apache.catalina.core.ApplicationFilterChain.doFilter(ApplicationFilterChain.java:207)     at org.apache.shiro.web.servlet.ProxiedFilterChain.doFilter(ProxiedFilterChain.java:61)     at org.apache.shiro.web.servlet.AdviceFilter.executeChain(AdviceFilter.java:108)     at org.apache.shiro.web.servlet.AdviceFilter.doFilterInternal(AdviceFilter.java:137)     at org.apache.shiro.web.servlet.OncePerRequestFilter.doFilter(OncePerRequestFilter.java:125)     at org.apache.shiro.web.servlet.ProxiedFilterChain.doFilter(ProxiedFilterChain.java:66)     at org.apache.shiro.web.servlet.AbstractShiroFilter.executeChain(AbstractShiroFilter.java:449)     at org.apache.shiro.web.servlet.AbstractShiroFilter$1.call(AbstractShiroFilter.java:365)     at org.apache.shiro.subject.support.SubjectCallable.doCall(SubjectCallable.java:90)     at org.apache.shiro.subject.support.SubjectCallable.call(SubjectCallable.java:83)     at org.apache.shiro.subject.support.DelegatingSubject.execute(DelegatingSubject.java:383)     at org.apache.shiro.web.servlet.AbstractShiroFilter.doFilterInternal(AbstractShiroFilter.java:362)     at org.apache.shiro.web.servlet.OncePerRequestFilter.doFilter(OncePerRequestFilter.java:125)     at org.apache.catalina.core.ApplicationFilterChain.internalDoFilter(ApplicationFilterChain.java:240)     at org.apache.catalina.core.ApplicationFilterChain.doFilter(ApplicationFilterChain.java:207)     at org.apache.jena.fuseki.servlets.CrossOriginFilter.handle(CrossOriginFilter.java:285)     at org.apache.jena.fuseki.servlets.CrossOriginFilter.doFilter(CrossOriginFilter.java:248)     at org.apache.catalina.core.ApplicationFilterChain.internalDoFilter(ApplicationFilterChain.java:240)     at org.apache.catalina.core.ApplicationFilterChain.doFilter(ApplicationFilterChain.java:207)     at org.apache.catalina.core.StandardWrapperValve.invoke(StandardWrapperValve.java:212)     at org.apache.catalina.core.StandardContextValve.invoke(StandardContextValve.java:94)     at org.apache.catalina.authenticator.AuthenticatorBase.invoke(AuthenticatorBase.java:504)     at org.apache.catalina.core.StandardHostValve.invoke(StandardHostValve.java:141)     at org.apache.catalina.valves.ErrorReportValve.invoke(ErrorReportValve.java:79)     at org.apache.catalina.valves.AbstractAccessLogValve.invoke(AbstractAccessLogValve.java:620)     at org.apache.catalina.core.StandardEngineValve.invoke(StandardEngineValve.java:88)     at org.apache.catalina.connector.CoyoteAdapter.service(CoyoteAdapter.java:502)     at org.apache.coyote.http11.AbstractHttp11Processor.process(AbstractHttp11Processor.java:1104)     at org.apache.coyote.AbstractProtocol$AbstractConnectionHandler.process(AbstractProtocol.java:684)     at org.apache.tomcat.util.net.NioEndpoint$SocketProcessor.doRun(NioEndpoint.java:1519)     at org.apache.tomcat.util.net.NioEndpoint$SocketProcessor.run(NioEndpoint.java:1475)     at java.util.concurrent.ThreadPoolExecutor.runWorker(ThreadPoolExecutor.java:1149)     at java.util.concurrent.ThreadPoolExecutor$Worker.run(ThreadPoolExecutor.java:624)     at org.apache.tomcat.util.threads.TaskThread$WrappingRunnable.run(TaskThread.java:61) 
    at java.lang.Thread.run(Thread.java:748)
[2018-01-22 16:25:03] BindingTDB ERROR get1(?lit)
org.apache.jena.tdb.base.file.FileException: In the middle of an alloc-write     at org.apache.jena.tdb.base.objectfile.ObjectFileStorage.read(ObjectFileStorage.java:311)     at org.apache.jena.tdb.base.objectfile.ObjectFileWrapper.read(ObjectFileWrapper.java:57) 
    at org.apache.jena.tdb.lib.NodeLib.fetchDecode(NodeLib.java:78)
    at org.apache.jena.tdb.store.nodetable.NodeTableNative.readNodeFromTable(NodeTableNative.java:186)     at org.apache.jena.tdb.store.nodetable.NodeTableNative._retrieveNodeByNodeId(NodeTableNative.java:111)     at org.apache.jena.tdb.store.nodetable.NodeTableNative.getNodeForNodeId(NodeTableNative.java:70)     at org.apache.jena.tdb.store.nodetable.NodeTableCache._retrieveNodeByNodeId(NodeTableCache.java:128)     at org.apache.jena.tdb.store.nodetable.NodeTableCache.getNodeForNodeId(NodeTableCache.java:82)     at org.apache.jena.tdb.store.nodetable.NodeTableWrapper.getNodeForNodeId(NodeTableWrapper.java:50)     at org.apache.jena.tdb.store.nodetable.NodeTableInline.getNodeForNodeId(NodeTableInline.java:67) 
    at org.apache.jena.tdb.solver.BindingTDB.get1(BindingTDB.java:122)
    at org.apache.jena.sparql.engine.binding.BindingBase.get(BindingBase.java:121) 
    at org.apache.jena.sparql.expr.ExprVar.eval(ExprVar.java:60)
    at org.apache.jena.sparql.expr.ExprVar.eval(ExprVar.java:53)
    at org.apache.jena.sparql.expr.ExprNode.eval(ExprNode.java:93)
    at org.apache.jena.sparql.expr.ExprFunction2.eval(ExprFunction2.java:76)     at org.apache.jena.sparql.expr.E_LogicalOr.evalSpecial(E_LogicalOr.java:58)     at org.apache.jena.sparql.expr.ExprFunction2.eval(ExprFunction2.java:72)     at org.apache.jena.sparql.expr.ExprNode.isSatisfied(ExprNode.java:41)     at org.apache.jena.sparql.engine.iterator.QueryIterFilterExpr.accept(QueryIterFilterExpr.java:49)     at org.apache.jena.sparql.engine.iterator.QueryIterProcessBinding.hasNextBinding(QueryIterProcessBinding.java:69)     at org.apache.jena.sparql.engine.iterator.QueryIteratorBase.hasNext(QueryIteratorBase.java:114)     at org.apache.jena.sparql.engine.iterator.QueryIterProcessBinding.hasNextBinding(QueryIterProcessBinding.java:66)     at org.apache.jena.sparql.engine.iterator.QueryIteratorBase.hasNext(QueryIteratorBase.java:114)     at org.apache.jena.sparql.engine.iterator.QueryIterProcessBinding.hasNextBinding(QueryIterProcessBinding.java:66)     at org.apache.jena.sparql.engine.iterator.QueryIteratorBase.hasNext(QueryIteratorBase.java:114)     at org.apache.jena.sparql.engine.iterator.QueryIterConcat.hasNextBinding(QueryIterConcat.java:82)     at org.apache.jena.sparql.engine.iterator.QueryIteratorBase.hasNext(QueryIteratorBase.java:114)     at org.apache.jena.sparql.engine.iterator.QueryIterRepeatApply.hasNextBinding(QueryIterRepeatApply.java:74)     at org.apache.jena.sparql.engine.iterator.QueryIteratorBase.hasNext(QueryIteratorBase.java:114)     at org.apache.jena.sparql.engine.iterator.QueryIterConvert.hasNextBinding(QueryIterConvert.java:58)     at org.apache.jena.sparql.engine.iterator.QueryIteratorBase.hasNext(QueryIteratorBase.java:114)     at org.apache.jena.sparql.engine.iterator.QueryIterDistinct.getInputNextUnseen(QueryIterDistinct.java:104)     at org.apache.jena.sparql.engine.iterator.QueryIterDistinct.hasNextBinding(QueryIterDistinct.java:70)     at org.apache.jena.sparql.engine.iterator.QueryIteratorBase.hasNext(QueryIteratorBase.java:114)     at org.apache.jena.sparql.engine.iterator.QueryIteratorWrapper.hasNextBinding(QueryIteratorWrapper.java:39)     at org.apache.jena.sparql.engine.iterator.QueryIteratorBase.hasNext(QueryIteratorBase.java:114)     at org.apache.jena.sparql.engine.iterator.QueryIteratorWrapper.hasNextBinding(QueryIteratorWrapper.java:39)     at org.apache.jena.sparql.engine.iterator.QueryIteratorBase.hasNext(QueryIteratorBase.java:114)     at org.apache.jena.sparql.engine.iterator.QueryIteratorWrapper.hasNextBinding(QueryIteratorWrapper.java:39)     at org.apache.jena.sparql.engine.iterator.QueryIteratorBase.hasNext(QueryIteratorBase.java:114)     at org.apache.jena.sparql.engine.ResultSetStream.hasNext(ResultSetStream.java:74)     at org.apache.jena.sparql.engine.ResultSetCheckCondition.hasNext(ResultSetCheckCondition.java:55)     at org.apache.jena.sparql.resultset.ResultSetApply.apply(ResultSetApply.java:38)     at org.apache.jena.riot.resultset.rw.ResultSetWriterJSON.write(ResultSetWriterJSON.java:82)     at org.apache.jena.riot.resultset.rw.ResultsWriter.write(ResultsWriter.java:125)     at org.apache.jena.riot.resultset.rw.ResultsWriter.write(ResultsWriter.java:95)     at org.apache.jena.fuseki.servlets.ResponseResultSet.lambda$1(ResponseResultSet.java:210)     at org.apache.jena.fuseki.servlets.ResponseResultSet.output(ResponseResultSet.java:226)     at org.apache.jena.fuseki.servlets.ResponseResultSet.generalOutput(ResponseResultSet.java:216)     at org.apache.jena.fuseki.servlets.ResponseResultSet.doResponseResultSet$(ResponseResultSet.java:177)     at org.apache.jena.fuseki.servlets.ResponseResultSet.doResponseResultSet(ResponseResultSet.java:86)     at org.apache.jena.fuseki.servlets.SPARQL_Query.sendResults(SPARQL_Query.java:389)     at org.apache.jena.fuseki.servlets.SPARQL_Query.execute(SPARQL_Query.java:268)     at org.apache.jena.fuseki.servlets.SPARQL_Query.executeWithParameter(SPARQL_Query.java:224)     at org.apache.jena.fuseki.servlets.SPARQL_Query.perform(SPARQL_Query.java:199)     at org.apache.jena.fuseki.servlets.ActionService.executeLifecycle(ActionService.java:192)     at org.apache.jena.fuseki.servlets.ActionService.execCommonWorker(ActionService.java:106)     at org.apache.jena.fuseki.servlets.ActionBase.doCommon(ActionBase.java:73)     at org.apache.jena.fuseki.servlets.FusekiFilter.doFilter(FusekiFilter.java:73)     at org.apache.catalina.core.ApplicationFilterChain.internalDoFilter(ApplicationFilterChain.java:240)     at org.apache.catalina.core.ApplicationFilterChain.doFilter(ApplicationFilterChain.java:207)     at org.apache.shiro.web.servlet.ProxiedFilterChain.doFilter(ProxiedFilterChain.java:61)     at org.apache.shiro.web.servlet.AdviceFilter.executeChain(AdviceFilter.java:108)     at org.apache.shiro.web.servlet.AdviceFilter.doFilterInternal(AdviceFilter.java:137)     at org.apache.shiro.web.servlet.OncePerRequestFilter.doFilter(OncePerRequestFilter.java:125)     at org.apache.shiro.web.servlet.ProxiedFilterChain.doFilter(ProxiedFilterChain.java:66)     at org.apache.shiro.web.servlet.AbstractShiroFilter.executeChain(AbstractShiroFilter.java:449)     at org.apache.shiro.web.servlet.AbstractShiroFilter$1.call(AbstractShiroFilter.java:365)     at org.apache.shiro.subject.support.SubjectCallable.doCall(SubjectCallable.java:90)     at org.apache.shiro.subject.support.SubjectCallable.call(SubjectCallable.java:83)     at org.apache.shiro.subject.support.DelegatingSubject.execute(DelegatingSubject.java:383)     at org.apache.shiro.web.servlet.AbstractShiroFilter.doFilterInternal(AbstractShiroFilter.java:362)     at org.apache.shiro.web.servlet.OncePerRequestFilter.doFilter(OncePerRequestFilter.java:125)     at org.apache.catalina.core.ApplicationFilterChain.internalDoFilter(ApplicationFilterChain.java:240)     at org.apache.catalina.core.ApplicationFilterChain.doFilter(ApplicationFilterChain.java:207)     at org.apache.jena.fuseki.servlets.CrossOriginFilter.handle(CrossOriginFilter.java:285)     at org.apache.jena.fuseki.servlets.CrossOriginFilter.doFilter(CrossOriginFilter.java:248)     at org.apache.catalina.core.ApplicationFilterChain.internalDoFilter(ApplicationFilterChain.java:240)     at org.apache.catalina.core.ApplicationFilterChain.doFilter(ApplicationFilterChain.java:207)     at org.apache.catalina.core.StandardWrapperValve.invoke(StandardWrapperValve.java:212)     at org.apache.catalina.core.StandardContextValve.invoke(StandardContextValve.java:94)     at org.apache.catalina.authenticator.AuthenticatorBase.invoke(AuthenticatorBase.java:504)     at org.apache.catalina.core.StandardHostValve.invoke(StandardHostValve.java:141)     at org.apache.catalina.valves.ErrorReportValve.invoke(ErrorReportValve.java:79)     at org.apache.catalina.valves.AbstractAccessLogValve.invoke(AbstractAccessLogValve.java:620)     at org.apache.catalina.core.StandardEngineValve.invoke(StandardEngineValve.java:88)     at org.apache.catalina.connector.CoyoteAdapter.service(CoyoteAdapter.java:502)     at org.apache.coyote.http11.AbstractHttp11Processor.process(AbstractHttp11Processor.java:1104)     at org.apache.coyote.AbstractProtocol$AbstractConnectionHandler.process(AbstractProtocol.java:684)     at org.apache.tomcat.util.net.NioEndpoint$SocketProcessor.doRun(NioEndpoint.java:1519)     at org.apache.tomcat.util.net.NioEndpoint$SocketProcessor.run(NioEndpoint.java:1475)     at java.util.concurrent.ThreadPoolExecutor.runWorker(ThreadPoolExecutor.java:1149)     at java.util.concurrent.ThreadPoolExecutor$Worker.run(ThreadPoolExecutor.java:624)     at org.apache.tomcat.util.threads.TaskThread$WrappingRunnable.run(TaskThread.java:61) 
    at java.lang.Thread.run(Thread.java:748)
On Jan 24, 2018, at 10:31 AM, Mikael Pesonen <mikael.peso...@lingsoft.fi> wrote:
And running the test set with 1 concurrent loop, it was repeated 10000 times without errors. So error occurs only with more than one concurrent operations. 

On 24.1.2018 17:40, ajs6f wrote:
Please show your code, including Fuseki config. It's hard to diagnose what is going wrong when we don't know what is supposed to happen. 

ajs6f
On Jan 24, 2018, at 10:26 AM, Mikael Pesonen <mikael.peso...@lingsoft.fi> wrote: 


Hi,
I have a test script running 10 concurrent CRUD operations in a loop. After few operations I get HTTP error 500 and these are in fuseki server output. Am I doing something wrong here? 

[2018-01-24 17:16:53] BindingTDB ERROR get1(?o)
org.apache.jena.tdb.base.file.FileException: ObjectFileStorage.read[nodes](491421708)[filesize=495059272][file.size()=495059272]: Failed to read the length : got 0 bytes      at org.apache.jena.tdb.base.objectfile.ObjectFileStorage.read(ObjectFileStorage.java:341)      at org.apache.jena.tdb.base.objectfile.ObjectFileWrapper.read(ObjectFileWrapper.java:57) 
     at org.apache.jena.tdb.lib.NodeLib.fetchDecode(NodeLib.java:78)
     at org.apache.jena.tdb.store.nodetable.NodeTableNative.readNodeFromTable(NodeTableNative.java:186)      at org.apache.jena.tdb.store.nodetable.NodeTableNative._retrieveNodeByNodeId(NodeTableNative.java:111)      at org.apache.jena.tdb.store.nodetable.NodeTableNative.getNodeForNodeId(NodeTableNative.java:70)      at org.apache.jena.tdb.store.nodetable.NodeTableCache._retrieveNodeByNodeId(NodeTableCache.java:128)      at org.apache.jena.tdb.store.nodetable.NodeTableCache.getNodeForNodeId(NodeTableCache.java:82)      at org.apache.jena.tdb.store.nodetable.NodeTableWrapper.getNodeForNodeId(NodeTableWrapper.java:50)      at org.apache.jena.tdb.store.nodetable.NodeTableInline.getNodeForNodeId(NodeTableInline.java:67)      at org.apache.jena.tdb.solver.BindingTDB.get1(BindingTDB.java:122)      at org.apache.jena.sparql.engine.binding.BindingBase.get(BindingBase.java:121)      at org.apache.jena.sparql.engine.binding.BindingFactory.materialize(BindingFactory.java:60)      at org.apache.jena.tdb.solver.QueryEngineTDB$QueryIteratorMaterializeBinding.moveToNextBinding(QueryEngineTDB.java:131)      at org.apache.jena.sparql.engine.iterator.QueryIteratorBase.nextBinding(QueryIteratorBase.java:156)      at org.apache.jena.sparql.engine.iterator.QueryIteratorWrapper.moveToNextBinding(QueryIteratorWrapper.java:42)      at org.apache.jena.sparql.engine.iterator.QueryIteratorBase.nextBinding(QueryIteratorBase.java:156)      at org.apache.jena.sparql.engine.iterator.QueryIteratorBase.next(QueryIteratorBase.java:131)      at org.apache.jena.sparql.engine.iterator.QueryIteratorBase.next(QueryIteratorBase.java:40) 
     at org.apache.jena.atlas.iterator.Iter$2.next(Iter.java:270)
     at org.apache.jena.ext.com.google.common.collect.MultitransformedIterator.hasNext(MultitransformedIterator.java:52)      at org.apache.jena.ext.com.google.common.collect.MultitransformedIterator.hasNext(MultitransformedIterator.java:50) 
     at java.util.Iterator.forEachRemaining(Iterator.java:115)
     at org.apache.jena.sparql.engine.QueryExecutionBase.execConstructDataset(QueryExecutionBase.java:243)      at org.apache.jena.sparql.engine.QueryExecutionBase.execConstructDataset(QueryExecutionBase.java:236)      at org.apache.jena.fuseki.servlets.SPARQL_Query.executeQuery(SPARQL_Query.java:331)      at org.apache.jena.fuseki.servlets.SPARQL_Query.execute(SPARQL_Query.java:270)      at org.apache.jena.fuseki.servlets.SPARQL_Query.executeBody(SPARQL_Query.java:239)      at org.apache.jena.fuseki.servlets.SPARQL_Query.perform(SPARQL_Query.java:219)      at org.apache.jena.fuseki.servlets.ActionSPARQL.executeLifecycle(ActionSPARQL.java:132)      at org.apache.jena.fuseki.servlets.SPARQL_UberServlet.executeRequest(SPARQL_UberServlet.java:356)      at org.apache.jena.fuseki.servlets.SPARQL_UberServlet.executeAction(SPARQL_UberServlet.java:220)      at org.apache.jena.fuseki.servlets.ActionSPARQL.execCommonWorker(ActionSPARQL.java:83)      at org.apache.jena.fuseki.servlets.ActionBase.doCommon(ActionBase.java:82)      at org.apache.jena.fuseki.servlets.FusekiFilter.doFilter(FusekiFilter.java:73)      at org.eclipse.jetty.servlet.ServletHandler$CachedChain.doFilter(ServletHandler.java:1637)      at org.apache.shiro.web.servlet.ProxiedFilterChain.doFilter(ProxiedFilterChain.java:61)      at org.apache.shiro.web.servlet.AdviceFilter.executeChain(AdviceFilter.java:108)      at org.apache.shiro.web.servlet.AdviceFilter.doFilterInternal(AdviceFilter.java:137)      at org.apache.shiro.web.servlet.OncePerRequestFilter.doFilter(OncePerRequestFilter.java:125)      at org.apache.shiro.web.servlet.ProxiedFilterChain.doFilter(ProxiedFilterChain.java:66)      at org.apache.shiro.web.servlet.AbstractShiroFilter.executeChain(AbstractShiroFilter.java:449)      at org.apache.shiro.web.servlet.AbstractShiroFilter$1.call(AbstractShiroFilter.java:365)      at org.apache.shiro.subject.support.SubjectCallable.doCall(SubjectCallable.java:90)      at org.apache.shiro.subject.support.SubjectCallable.call(SubjectCallable.java:83)      at org.apache.shiro.subject.support.DelegatingSubject.execute(DelegatingSubject.java:383)      at org.apache.shiro.web.servlet.AbstractShiroFilter.doFilterInternal(AbstractShiroFilter.java:362)      at org.apache.shiro.web.servlet.OncePerRequestFilter.doFilter(OncePerRequestFilter.java:125)      at org.eclipse.jetty.servlet.ServletHandler$CachedChain.doFilter(ServletHandler.java:1637)      at org.apache.jena.fuseki.servlets.CrossOriginFilter.handle(CrossOriginFilter.java:285)      at org.apache.jena.fuseki.servlets.CrossOriginFilter.doFilter(CrossOriginFilter.java:248)      at org.eclipse.jetty.servlet.ServletHandler$CachedChain.doFilter(ServletHandler.java:1629)      at org.eclipse.jetty.servlet.ServletHandler.doHandle(ServletHandler.java:533)      at org.eclipse.jetty.server.handler.ScopedHandler.handle(ScopedHandler.java:143)      at org.eclipse.jetty.security.SecurityHandler.handle(SecurityHandler.java:548)      at org.eclipse.jetty.server.handler.HandlerWrapper.handle(HandlerWrapper.java:132)      at org.eclipse.jetty.server.handler.ScopedHandler.nextHandle(ScopedHandler.java:190)      at org.eclipse.jetty.server.session.SessionHandler.doHandle(SessionHandler.java:1595)      at org.eclipse.jetty.server.handler.ScopedHandler.nextHandle(ScopedHandler.java:188)      at org.eclipse.jetty.server.handler.ContextHandler.doHandle(ContextHandler.java:1253)      at org.eclipse.jetty.server.handler.ScopedHandler.nextScope(ScopedHandler.java:168)      at org.eclipse.jetty.servlet.ServletHandler.doScope(ServletHandler.java:473)      at org.eclipse.jetty.server.session.SessionHandler.doScope(SessionHandler.java:1564)      at org.eclipse.jetty.server.handler.ScopedHandler.nextScope(ScopedHandler.java:166)      at org.eclipse.jetty.server.handler.ContextHandler.doScope(ContextHandler.java:1155)      at org.eclipse.jetty.server.handler.ScopedHandler.handle(ScopedHandler.java:141)      at org.eclipse.jetty.server.handler.gzip.GzipHandler.handle(GzipHandler.java:455)      at org.eclipse.jetty.server.handler.HandlerWrapper.handle(HandlerWrapper.java:132) 
     at org.eclipse.jetty.server.Server.handle(Server.java:561)
     at org.eclipse.jetty.server.HttpChannel.handle(HttpChannel.java:334)      at org.eclipse.jetty.server.HttpConnection.onFillable(HttpConnection.java:251)      at org.eclipse.jetty.io.AbstractConnection$ReadCallback.succeeded(AbstractConnection.java:279)      at org.eclipse.jetty.io.FillInterest.fillable(FillInterest.java:104)      at org.eclipse.jetty.io.ChannelEndPoint$2.run(ChannelEndPoint.java:124)      at org.eclipse.jetty.util.thread.strategy.EatWhatYouKill.doProduce(EatWhatYouKill.java:247)      at org.eclipse.jetty.util.thread.strategy.EatWhatYouKill.produce(EatWhatYouKill.java:140)      at org.eclipse.jetty.util.thread.strategy.EatWhatYouKill.run(EatWhatYouKill.java:131)      at org.eclipse.jetty.util.thread.ReservedThreadExecutor$ReservedThread.run(ReservedThreadExecutor.java:243)      at org.eclipse.jetty.util.thread.QueuedThreadPool.runJob(QueuedThreadPool.java:679)      at org.eclipse.jetty.util.thread.QueuedThreadPool$2.run(QueuedThreadPool.java:597) 
     at java.lang.Thread.run(Thread.java:745)
[2018-01-24 17:16:53] Fuseki     INFO  [644] 204 No Content (2 ms)
[2018-01-24 17:16:53] BindingHashMap WARN  Binding.add: null value - ignored 







[2018-01-24 17:16:57] BindingTDB ERROR get1(?p)
org.apache.jena.tdb.base.file.FileException: In the middle of an alloc-write      at org.apache.jena.tdb.base.objectfile.ObjectFileStorage.read(ObjectFileStorage.java:311)      at org.apache.jena.tdb.base.objectfile.ObjectFileWrapper.read(ObjectFileWrapper.java:57) 
     at org.apache.jena.tdb.lib.NodeLib.fetchDecode(NodeLib.java:78)
     at org.apache.jena.tdb.store.nodetable.NodeTableNative.readNodeFromTable(NodeTableNative.java:186)      at org.apache.jena.tdb.store.nodetable.NodeTableNative._retrieveNodeByNodeId(NodeTableNative.java:111)      at org.apache.jena.tdb.store.nodetable.NodeTableNative.getNodeForNodeId(NodeTableNative.java:70)      at org.apache.jena.tdb.store.nodetable.NodeTableCache._retrieveNodeByNodeId(NodeTableCache.java:128)      at org.apache.jena.tdb.store.nodetable.NodeTableCache.getNodeForNodeId(NodeTableCache.java:82)      at org.apache.jena.tdb.store.nodetable.NodeTableWrapper.getNodeForNodeId(NodeTableWrapper.java:50)      at org.apache.jena.tdb.store.nodetable.NodeTableInline.getNodeForNodeId(NodeTableInline.java:67)      at org.apache.jena.tdb.solver.BindingTDB.get1(BindingTDB.java:122)      at org.apache.jena.sparql.engine.binding.BindingBase.get(BindingBase.java:121)      at org.apache.jena.sparql.engine.binding.BindingFactory.materialize(BindingFactory.java:60)      at org.apache.jena.tdb.solver.QueryEngineTDB$QueryIteratorMaterializeBinding.moveToNextBinding(QueryEngineTDB.java:131)      at org.apache.jena.sparql.engine.iterator.QueryIteratorBase.nextBinding(QueryIteratorBase.java:156)      at org.apache.jena.sparql.engine.iterator.QueryIteratorWrapper.moveToNextBinding(QueryIteratorWrapper.java:42)      at org.apache.jena.sparql.engine.iterator.QueryIteratorBase.nextBinding(QueryIteratorBase.java:156)      at org.apache.jena.sparql.engine.iterator.QueryIteratorBase.next(QueryIteratorBase.java:131)      at org.apache.jena.sparql.engine.iterator.QueryIteratorBase.next(QueryIteratorBase.java:40) 
     at org.apache.jena.atlas.iterator.Iter$2.next(Iter.java:270)
     at org.apache.jena.ext.com.google.common.collect.MultitransformedIterator.hasNext(MultitransformedIterator.java:52)      at org.apache.jena.ext.com.google.common.collect.MultitransformedIterator.hasNext(MultitransformedIterator.java:50) 
     at java.util.Iterator.forEachRemaining(Iterator.java:115)
     at org.apache.jena.sparql.engine.QueryExecutionBase.execConstructDataset(QueryExecutionBase.java:243)      at org.apache.jena.sparql.engine.QueryExecutionBase.execConstructDataset(QueryExecutionBase.java:236)      at org.apache.jena.fuseki.servlets.SPARQL_Query.executeQuery(SPARQL_Query.java:331)      at org.apache.jena.fuseki.servlets.SPARQL_Query.execute(SPARQL_Query.java:270)      at org.apache.jena.fuseki.servlets.SPARQL_Query.executeBody(SPARQL_Query.java:239)      at org.apache.jena.fuseki.servlets.SPARQL_Query.perform(SPARQL_Query.java:219)      at org.apache.jena.fuseki.servlets.ActionSPARQL.executeLifecycle(ActionSPARQL.java:132)      at org.apache.jena.fuseki.servlets.SPARQL_UberServlet.executeRequest(SPARQL_UberServlet.java:356)      at org.apache.jena.fuseki.servlets.SPARQL_UberServlet.executeAction(SPARQL_UberServlet.java:220)      at org.apache.jena.fuseki.servlets.ActionSPARQL.execCommonWorker(ActionSPARQL.java:83)      at org.apache.jena.fuseki.servlets.ActionBase.doCommon(ActionBase.java:82)      at org.apache.jena.fuseki.servlets.FusekiFilter.doFilter(FusekiFilter.java:73)      at org.eclipse.jetty.servlet.ServletHandler$CachedChain.doFilter(ServletHandler.java:1637)      at org.apache.shiro.web.servlet.ProxiedFilterChain.doFilter(ProxiedFilterChain.java:61)      at org.apache.shiro.web.servlet.AdviceFilter.executeChain(AdviceFilter.java:108)      at org.apache.shiro.web.servlet.AdviceFilter.doFilterInternal(AdviceFilter.java:137)      at org.apache.shiro.web.servlet.OncePerRequestFilter.doFilter(OncePerRequestFilter.java:125)      at org.apache.shiro.web.servlet.ProxiedFilterChain.doFilter(ProxiedFilterChain.java:66)      at org.apache.shiro.web.servlet.AbstractShiroFilter.executeChain(AbstractShiroFilter.java:449)      at org.apache.shiro.web.servlet.AbstractShiroFilter$1.call(AbstractShiroFilter.java:365)      at org.apache.shiro.subject.support.SubjectCallable.doCall(SubjectCallable.java:90)      at org.apache.shiro.subject.support.SubjectCallable.call(SubjectCallable.java:83)      at org.apache.shiro.subject.support.DelegatingSubject.execute(DelegatingSubject.java:383)      at org.apache.shiro.web.servlet.AbstractShiroFilter.doFilterInternal(AbstractShiroFilter.java:362)      at org.apache.shiro.web.servlet.OncePerRequestFilter.doFilter(OncePerRequestFilter.java:125)      at org.eclipse.jetty.servlet.ServletHandler$CachedChain.doFilter(ServletHandler.java:1637)      at org.apache.jena.fuseki.servlets.CrossOriginFilter.handle(CrossOriginFilter.java:285)      at org.apache.jena.fuseki.servlets.CrossOriginFilter.doFilter(CrossOriginFilter.java:248)      at org.eclipse.jetty.servlet.ServletHandler$CachedChain.doFilter(ServletHandler.java:1629)      at org.eclipse.jetty.servlet.ServletHandler.doHandle(ServletHandler.java:533)      at org.eclipse.jetty.server.handler.ScopedHandler.handle(ScopedHandler.java:143)      at org.eclipse.jetty.security.SecurityHandler.handle(SecurityHandler.java:548)      at org.eclipse.jetty.server.handler.HandlerWrapper.handle(HandlerWrapper.java:132)      at org.eclipse.jetty.server.handler.ScopedHandler.nextHandle(ScopedHandler.java:190)      at org.eclipse.jetty.server.session.SessionHandler.doHandle(SessionHandler.java:1595)      at org.eclipse.jetty.server.handler.ScopedHandler.nextHandle(ScopedHandler.java:188)      at org.eclipse.jetty.server.handler.ContextHandler.doHandle(ContextHandler.java:1253)      at org.eclipse.jetty.server.handler.ScopedHandler.nextScope(ScopedHandler.java:168)      at org.eclipse.jetty.servlet.ServletHandler.doScope(ServletHandler.java:473)      at org.eclipse.jetty.server.session.SessionHandler.doScope(SessionHandler.java:1564)      at org.eclipse.jetty.server.handler.ScopedHandler.nextScope(ScopedHandler.java:166)      at org.eclipse.jetty.server.handler.ContextHandler.doScope(ContextHandler.java:1155)      at org.eclipse.jetty.server.handler.ScopedHandler.handle(ScopedHandler.java:141)      at org.eclipse.jetty.server.handler.gzip.GzipHandler.handle(GzipHandler.java:455)      at org.eclipse.jetty.server.handler.HandlerWrapper.handle(HandlerWrapper.java:132) 
     at org.eclipse.jetty.server.Server.handle(Server.java:561)
     at org.eclipse.jetty.server.HttpChannel.handle(HttpChannel.java:334)      at org.eclipse.jetty.server.HttpConnection.onFillable(HttpConnection.java:251)      at org.eclipse.jetty.io.AbstractConnection$ReadCallback.succeeded(AbstractConnection.java:279)      at org.eclipse.jetty.io.FillInterest.fillable(FillInterest.java:104)      at org.eclipse.jetty.io.ChannelEndPoint$2.run(ChannelEndPoint.java:124)      at org.eclipse.jetty.util.thread.strategy.EatWhatYouKill.doProduce(EatWhatYouKill.java:247)      at org.eclipse.jetty.util.thread.strategy.EatWhatYouKill.produce(EatWhatYouKill.java:140)      at org.eclipse.jetty.util.thread.strategy.EatWhatYouKill.run(EatWhatYouKill.java:131)      at org.eclipse.jetty.util.thread.ReservedThreadExecutor$ReservedThread.run(ReservedThreadExecutor.java:243)      at org.eclipse.jetty.util.thread.QueuedThreadPool.runJob(QueuedThreadPool.java:679)      at org.eclipse.jetty.util.thread.QueuedThreadPool$2.run(QueuedThreadPool.java:597) 
     at java.lang.Thread.run(Thread.java:745)
[2018-01-24 17:16:57] Fuseki     INFO  [1027] 204 No Content (13 ms)
[2018-01-24 17:16:57] BindingHashMap WARN  Binding.add: null value - ignored 






[2018-01-24 17:17:02] BindingTDB ERROR get1(?s)
org.apache.jena.tdb.base.file.FileException: In the middle of an alloc-write      at org.apache.jena.tdb.base.objectfile.ObjectFileStorage.read(ObjectFileStorage.java:311)      at org.apache.jena.tdb.base.objectfile.ObjectFileWrapper.read(ObjectFileWrapper.java:57) 
     at org.apache.jena.tdb.lib.NodeLib.fetchDecode(NodeLib.java:78)
     at org.apache.jena.tdb.store.nodetable.NodeTableNative.readNodeFromTable(NodeTableNative.java:186)      at org.apache.jena.tdb.store.nodetable.NodeTableNative._retrieveNodeByNodeId(NodeTableNative.java:111)      at org.apache.jena.tdb.store.nodetable.NodeTableNative.getNodeForNodeId(NodeTableNative.java:70)      at org.apache.jena.tdb.store.nodetable.NodeTableCache._retrieveNodeByNodeId(NodeTableCache.java:128)      at org.apache.jena.tdb.store.nodetable.NodeTableCache.getNodeForNodeId(NodeTableCache.java:82)      at org.apache.jena.tdb.store.nodetable.NodeTableWrapper.getNodeForNodeId(NodeTableWrapper.java:50)      at org.apache.jena.tdb.store.nodetable.NodeTableInline.getNodeForNodeId(NodeTableInline.java:67)      at org.apache.jena.tdb.solver.BindingTDB.get1(BindingTDB.java:122)      at org.apache.jena.sparql.engine.binding.BindingBase.get(BindingBase.java:121)      at org.apache.jena.sparql.engine.binding.BindingProjectBase.get1(BindingProjectBase.java:52)      at org.apache.jena.sparql.engine.binding.BindingBase.get(BindingBase.java:121)      at org.apache.jena.sparql.engine.binding.BindingProjectBase.get1(BindingProjectBase.java:52)      at org.apache.jena.sparql.engine.binding.BindingBase.get(BindingBase.java:121)      at org.apache.jena.sparql.engine.binding.BindingBase.hashCode(BindingBase.java:201)      at org.apache.jena.sparql.engine.binding.BindingBase.hashCode(BindingBase.java:183) 
     at java.util.HashMap.hash(HashMap.java:338)
     at java.util.HashMap.containsKey(HashMap.java:595)
     at java.util.HashSet.contains(HashSet.java:203)
     at org.apache.jena.sparql.engine.iterator.QueryIterDistinct.getInputNextUnseen(QueryIterDistinct.java:106)      at org.apache.jena.sparql.engine.iterator.QueryIterDistinct.hasNextBinding(QueryIterDistinct.java:70)      at org.apache.jena.sparql.engine.iterator.QueryIteratorBase.hasNext(QueryIteratorBase.java:114)      at org.apache.jena.sparql.engine.iterator.QueryIteratorWrapper.hasNextBinding(QueryIteratorWrapper.java:39)      at org.apache.jena.sparql.engine.iterator.QueryIteratorBase.hasNext(QueryIteratorBase.java:114)      at org.apache.jena.sparql.engine.iterator.QueryIteratorWrapper.hasNextBinding(QueryIteratorWrapper.java:39)      at org.apache.jena.sparql.engine.iterator.QueryIteratorBase.hasNext(QueryIteratorBase.java:114)      at org.apache.jena.sparql.engine.iterator.QueryIteratorWrapper.hasNextBinding(QueryIteratorWrapper.java:39)      at org.apache.jena.sparql.engine.iterator.QueryIteratorBase.hasNext(QueryIteratorBase.java:114)      at org.apache.jena.sparql.engine.ResultSetStream.hasNext(ResultSetStream.java:74)      at org.apache.jena.sparql.engine.ResultSetCheckCondition.hasNext(ResultSetCheckCondition.java:55)      at org.apache.jena.fuseki.servlets.SPARQL_Query.executeQuery(SPARQL_Query.java:320)      at org.apache.jena.fuseki.servlets.SPARQL_Query.execute(SPARQL_Query.java:270)      at org.apache.jena.fuseki.servlets.SPARQL_Query.executeBody(SPARQL_Query.java:239)      at org.apache.jena.fuseki.servlets.SPARQL_Query.perform(SPARQL_Query.java:219)      at org.apache.jena.fuseki.servlets.ActionSPARQL.executeLifecycle(ActionSPARQL.java:132)      at org.apache.jena.fuseki.servlets.SPARQL_UberServlet.executeRequest(SPARQL_UberServlet.java:356)      at org.apache.jena.fuseki.servlets.SPARQL_UberServlet.executeAction(SPARQL_UberServlet.java:220)      at org.apache.jena.fuseki.servlets.ActionSPARQL.execCommonWorker(ActionSPARQL.java:83)      at org.apache.jena.fuseki.servlets.ActionBase.doCommon(ActionBase.java:82)      at org.apache.jena.fuseki.servlets.FusekiFilter.doFilter(FusekiFilter.java:73)      at org.eclipse.jetty.servlet.ServletHandler$CachedChain.doFilter(ServletHandler.java:1637)      at org.apache.shiro.web.servlet.ProxiedFilterChain.doFilter(ProxiedFilterChain.java:61)      at org.apache.shiro.web.servlet.AdviceFilter.executeChain(AdviceFilter.java:108)      at org.apache.shiro.web.servlet.AdviceFilter.doFilterInternal(AdviceFilter.java:137)      at org.apache.shiro.web.servlet.OncePerRequestFilter.doFilter(OncePerRequestFilter.java:125)      at org.apache.shiro.web.servlet.ProxiedFilterChain.doFilter(ProxiedFilterChain.java:66)      at org.apache.shiro.web.servlet.AbstractShiroFilter.executeChain(AbstractShiroFilter.java:449)      at org.apache.shiro.web.servlet.AbstractShiroFilter$1.call(AbstractShiroFilter.java:365)      at org.apache.shiro.subject.support.SubjectCallable.doCall(SubjectCallable.java:90)      at org.apache.shiro.subject.support.SubjectCallable.call(SubjectCallable.java:83)      at org.apache.shiro.subject.support.DelegatingSubject.execute(DelegatingSubject.java:383)      at org.apache.shiro.web.servlet.AbstractShiroFilter.doFilterInternal(AbstractShiroFilter.java:362)      at org.apache.shiro.web.servlet.OncePerRequestFilter.doFilter(OncePerRequestFilter.java:125)      at org.eclipse.jetty.servlet.ServletHandler$CachedChain.doFilter(ServletHandler.java:1637)      at org.apache.jena.fuseki.servlets.CrossOriginFilter.handle(CrossOriginFilter.java:285)      at org.apache.jena.fuseki.servlets.CrossOriginFilter.doFilter(CrossOriginFilter.java:248)      at org.eclipse.jetty.servlet.ServletHandler$CachedChain.doFilter(ServletHandler.java:1629)      at org.eclipse.jetty.servlet.ServletHandler.doHandle(ServletHandler.java:533)      at org.eclipse.jetty.server.handler.ScopedHandler.handle(ScopedHandler.java:143)      at org.eclipse.jetty.security.SecurityHandler.handle(SecurityHandler.java:548)      at org.eclipse.jetty.server.handler.HandlerWrapper.handle(HandlerWrapper.java:132)      at org.eclipse.jetty.server.handler.ScopedHandler.nextHandle(ScopedHandler.java:190)      at org.eclipse.jetty.server.session.SessionHandler.doHandle(SessionHandler.java:1595)      at org.eclipse.jetty.server.handler.ScopedHandler.nextHandle(ScopedHandler.java:188)      at org.eclipse.jetty.server.handler.ContextHandler.doHandle(ContextHandler.java:1253)      at org.eclipse.jetty.server.handler.ScopedHandler.nextScope(ScopedHandler.java:168)      at org.eclipse.jetty.servlet.ServletHandler.doScope(ServletHandler.java:473)      at org.eclipse.jetty.server.session.SessionHandler.doScope(SessionHandler.java:1564)      at org.eclipse.jetty.server.handler.ScopedHandler.nextScope(ScopedHandler.java:166)      at org.eclipse.jetty.server.handler.ContextHandler.doScope(ContextHandler.java:1155)      at org.eclipse.jetty.server.handler.ScopedHandler.handle(ScopedHandler.java:141)      at org.eclipse.jetty.server.handler.gzip.GzipHandler.handle(GzipHandler.java:455)      at org.eclipse.jetty.server.handler.HandlerWrapper.handle(HandlerWrapper.java:132) 
     at org.eclipse.jetty.server.Server.handle(Server.java:561)
     at org.eclipse.jetty.server.HttpChannel.handle(HttpChannel.java:334)      at org.eclipse.jetty.server.HttpConnection.onFillable(HttpConnection.java:251)      at org.eclipse.jetty.io.AbstractConnection$ReadCallback.succeeded(AbstractConnection.java:279)      at org.eclipse.jetty.io.FillInterest.fillable(FillInterest.java:104)      at org.eclipse.jetty.io.ChannelEndPoint$2.run(ChannelEndPoint.java:124)      at org.eclipse.jetty.util.thread.strategy.EatWhatYouKill.doProduce(EatWhatYouKill.java:247)      at org.eclipse.jetty.util.thread.strategy.EatWhatYouKill.produce(EatWhatYouKill.java:140)      at org.eclipse.jetty.util.thread.strategy.EatWhatYouKill.run(EatWhatYouKill.java:131)      at org.eclipse.jetty.util.thread.ReservedThreadExecutor$ReservedThread.run(ReservedThreadExecutor.java:243)      at org.eclipse.jetty.util.thread.QueuedThreadPool.runJob(QueuedThreadPool.java:679)      at org.eclipse.jetty.util.thread.QueuedThreadPool$2.run(QueuedThreadPool.java:597) 
     at java.lang.Thread.run(Thread.java:745)
[2018-01-24 17:17:02] Fuseki     WARN  [1758] RC = 500 : null
java.lang.NullPointerException
     at org.apache.jena.sparql.engine.binding.BindingBase.hashCode(BindingBase.java:203)      at org.apache.jena.sparql.engine.binding.BindingBase.hashCode(BindingBase.java:183) 
     at java.util.HashMap.hash(HashMap.java:338)
     at java.util.HashMap.containsKey(HashMap.java:595)
     at java.util.HashSet.contains(HashSet.java:203)
     at org.apache.jena.sparql.engine.iterator.QueryIterDistinct.getInputNextUnseen(QueryIterDistinct.java:106)      at org.apache.jena.sparql.engine.iterator.QueryIterDistinct.hasNextBinding(QueryIterDistinct.java:70)      at org.apache.jena.sparql.engine.iterator.QueryIteratorBase.hasNext(QueryIteratorBase.java:114)      at org.apache.jena.sparql.engine.iterator.QueryIteratorWrapper.hasNextBinding(QueryIteratorWrapper.java:39)      at org.apache.jena.sparql.engine.iterator.QueryIteratorBase.hasNext(QueryIteratorBase.java:114)      at org.apache.jena.sparql.engine.iterator.QueryIteratorWrapper.hasNextBinding(QueryIteratorWrapper.java:39)      at org.apache.jena.sparql.engine.iterator.QueryIteratorBase.hasNext(QueryIteratorBase.java:114)      at org.apache.jena.sparql.engine.iterator.QueryIteratorWrapper.hasNextBinding(QueryIteratorWrapper.java:39)      at org.apache.jena.sparql.engine.iterator.QueryIteratorBase.hasNext(QueryIteratorBase.java:114)      at org.apache.jena.sparql.engine.ResultSetStream.hasNext(ResultSetStream.java:74)      at org.apache.jena.sparql.engine.ResultSetCheckCondition.hasNext(ResultSetCheckCondition.java:55)      at org.apache.jena.fuseki.servlets.SPARQL_Query.executeQuery(SPARQL_Query.java:320)      at org.apache.jena.fuseki.servlets.SPARQL_Query.execute(SPARQL_Query.java:270)      at org.apache.jena.fuseki.servlets.SPARQL_Query.executeBody(SPARQL_Query.java:239)      at org.apache.jena.fuseki.servlets.SPARQL_Query.perform(SPARQL_Query.java:219)      at org.apache.jena.fuseki.servlets.ActionSPARQL.executeLifecycle(ActionSPARQL.java:132)      at org.apache.jena.fuseki.servlets.SPARQL_UberServlet.executeRequest(SPARQL_UberServlet.java:356)      at org.apache.jena.fuseki.servlets.SPARQL_UberServlet.executeAction(SPARQL_UberServlet.java:220)      at org.apache.jena.fuseki.servlets.ActionSPARQL.execCommonWorker(ActionSPARQL.java:83)      at org.apache.jena.fuseki.servlets.ActionBase.doCommon(ActionBase.java:82)      at org.apache.jena.fuseki.servlets.FusekiFilter.doFilter(FusekiFilter.java:73)      at org.eclipse.jetty.servlet.ServletHandler$CachedChain.doFilter(ServletHandler.java:1637)      at org.apache.shiro.web.servlet.ProxiedFilterChain.doFilter(ProxiedFilterChain.java:61)      at org.apache.shiro.web.servlet.AdviceFilter.executeChain(AdviceFilter.java:108)      at org.apache.shiro.web.servlet.AdviceFilter.doFilterInternal(AdviceFilter.java:137)      at org.apache.shiro.web.servlet.OncePerRequestFilter.doFilter(OncePerRequestFilter.java:125)      at org.apache.shiro.web.servlet.ProxiedFilterChain.doFilter(ProxiedFilterChain.java:66)      at org.apache.shiro.web.servlet.AbstractShiroFilter.executeChain(AbstractShiroFilter.java:449)      at org.apache.shiro.web.servlet.AbstractShiroFilter$1.call(AbstractShiroFilter.java:365)      at org.apache.shiro.subject.support.SubjectCallable.doCall(SubjectCallable.java:90)      at org.apache.shiro.subject.support.SubjectCallable.call(SubjectCallable.java:83)      at org.apache.shiro.subject.support.DelegatingSubject.execute(DelegatingSubject.java:383)      at org.apache.shiro.web.servlet.AbstractShiroFilter.doFilterInternal(AbstractShiroFilter.java:362)      at org.apache.shiro.web.servlet.OncePerRequestFilter.doFilter(OncePerRequestFilter.java:125)      at org.eclipse.jetty.servlet.ServletHandler$CachedChain.doFilter(ServletHandler.java:1637)      at org.apache.jena.fuseki.servlets.CrossOriginFilter.handle(CrossOriginFilter.java:285)      at org.apache.jena.fuseki.servlets.CrossOriginFilter.doFilter(CrossOriginFilter.java:248)      at org.eclipse.jetty.servlet.ServletHandler$CachedChain.doFilter(ServletHandler.java:1629)      at org.eclipse.jetty.servlet.ServletHandler.doHandle(ServletHandler.java:533)      at org.eclipse.jetty.server.handler.ScopedHandler.handle(ScopedHandler.java:143)      at org.eclipse.jetty.security.SecurityHandler.handle(SecurityHandler.java:548)      at org.eclipse.jetty.server.handler.HandlerWrapper.handle(HandlerWrapper.java:132)      at org.eclipse.jetty.server.handler.ScopedHandler.nextHandle(ScopedHandler.java:190)      at org.eclipse.jetty.server.session.SessionHandler.doHandle(SessionHandler.java:1595)      at org.eclipse.jetty.server.handler.ScopedHandler.nextHandle(ScopedHandler.java:188)      at org.eclipse.jetty.server.handler.ContextHandler.doHandle(ContextHandler.java:1253)      at org.eclipse.jetty.server.handler.ScopedHandler.nextScope(ScopedHandler.java:168)      at org.eclipse.jetty.servlet.ServletHandler.doScope(ServletHandler.java:473)      at org.eclipse.jetty.server.session.SessionHandler.doScope(SessionHandler.java:1564)      at org.eclipse.jetty.server.handler.ScopedHandler.nextScope(ScopedHandler.java:166)      at org.eclipse.jetty.server.handler.ContextHandler.doScope(ContextHandler.java:1155)      at org.eclipse.jetty.server.handler.ScopedHandler.handle(ScopedHandler.java:141)      at org.eclipse.jetty.server.handler.gzip.GzipHandler.handle(GzipHandler.java:455)      at org.eclipse.jetty.server.handler.HandlerWrapper.handle(HandlerWrapper.java:132) 
     at org.eclipse.jetty.server.Server.handle(Server.java:561)
     at org.eclipse.jetty.server.HttpChannel.handle(HttpChannel.java:334)      at org.eclipse.jetty.server.HttpConnection.onFillable(HttpConnection.java:251)      at org.eclipse.jetty.io.AbstractConnection$ReadCallback.succeeded(AbstractConnection.java:279)      at org.eclipse.jetty.io.FillInterest.fillable(FillInterest.java:104)      at org.eclipse.jetty.io.ChannelEndPoint$2.run(ChannelEndPoint.java:124)      at org.eclipse.jetty.util.thread.strategy.EatWhatYouKill.doProduce(EatWhatYouKill.java:247)      at org.eclipse.jetty.util.thread.strategy.EatWhatYouKill.produce(EatWhatYouKill.java:140)      at org.eclipse.jetty.util.thread.strategy.EatWhatYouKill.run(EatWhatYouKill.java:131)      at org.eclipse.jetty.util.thread.ReservedThreadExecutor$ReservedThread.run(ReservedThreadExecutor.java:243)      at org.eclipse.jetty.util.thread.QueuedThreadPool.runJob(QueuedThreadPool.java:679)      at org.eclipse.jetty.util.thread.QueuedThreadPool$2.run(QueuedThreadPool.java:597) 
     at java.lang.Thread.run(Thread.java:745)
[2018-01-24 17:17:02] Fuseki     INFO  [1759] 204 No Content (11 ms)
[2018-01-24 17:17:02] Fuseki     INFO  [1758] 500 Server Error (11 ms) 

--
Lingsoft - 30 years of Leading Language Management

www.lingsoft.fi
Speech Applications - Language Management - Translation - Reader's and Writer's Tools - Text Tools - E-books and M-books 

Mikael Pesonen
System Engineer

e-mail: mikael.peso...@lingsoft.fi
Tel. +358 2 279 3300

Time zone: GMT+2

Helsinki Office
Eteläranta 10
FI-00130 Helsinki
FINLAND

Turku Office
Kauppiaskatu 5 A
FI-20100 Turku
FINLAND



--
Lingsoft - 30 years of Leading Language Management

www.lingsoft.fi
Speech Applications - Language Management - Translation - Reader's and Writer's Tools - Text Tools - E-books and M-books 

Mikael Pesonen
System Engineer

e-mail: mikael.peso...@lingsoft.fi
Tel. +358 2 279 3300

Time zone: GMT+2

Helsinki Office
Eteläranta 10
FI-00130 Helsinki
FINLAND

Turku Office
Kauppiaskatu 5 A
FI-20100 Turku
FINLAND






--
Lingsoft - 30 years of Leading Language Management

www.lingsoft.fi

Speech Applications - Language Management - Translation - Reader's and Writer's 
Tools - Text Tools - E-books and M-books

Mikael Pesonen
System Engineer

e-mail: mikael.peso...@lingsoft.fi
Tel. +358 2 279 3300

Time zone: GMT+2

Helsinki Office
Eteläranta 10
FI-00130 Helsinki
FINLAND

Turku Office
Kauppiaskatu 5 A
FI-20100 Turku
FINLAND

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