Hi Adam,
thanks for the reply.
Well, I don't think it has something to do with the amount of loaded objects but more with the time the loading takes.
I've already turned down my log level to trace but wasn't able to find the reason of the exception.
Do you know if I need to tune some kind of timeout (transaction, ...)?
Thanks for your help
Stephan
I've included the beginning of the stacktrace:
14:00:10,206 ERROR [STDERR] 379896 [Thread-3] INFO org.hibernate.jdbc.ConnectionManager - forcing batcher resource cleanup on transaction completion; forgot to close ScrollableResults/Iterator?
14:00:10,299 INFO [STDOUT] Hibernate: select ...
14:00:10,300 INFO [STDOUT] Hibernate: select ...
14:00:10,302 INFO [STDOUT] Hibernate: select ...
14:00:10,310 INFO [STDOUT] Hibernate: select ...
14:00:10,315 INFO [STDOUT] Hibernate: select ...
14:00:10,989 INFO [STDOUT] Hibernate: select ...
14:00:10,990 INFO [STDOUT] Hibernate: select ...
14:00:11,008 INFO [STDOUT] Hibernate: select ...
14:00:11,008 ERROR [STDERR] 380698 [Thread-3] WARN org.hibernate.jdbc.AbstractBatcher - exception clearing maxRows/queryTimeout
14:00:11,012 ERROR [STDERR] java.sql.SQLException: The statement is closed.
14:00:11,012 ERROR [STDERR] at org.jboss.resource.adapter.jdbc.WrappedStatement.checkState(WrappedStatement.java:888)
14:00:11,012 ERROR [STDERR] at org.jboss.resource.adapter.jdbc.WrappedStatement.getMaxRows(WrappedStatement.java:375)
14:00:11,012 INFO [STDOUT] Hibernate: select ...
14:00:11,012 ERROR [STDERR] at org.hibernate.jdbc.AbstractBatcher.closeQueryStatement(AbstractBatcher.java:298)
14:00:11,019 ERROR [STDERR] at org.hibernate.jdbc.AbstractBatcher.closeStatements(AbstractBatcher.java:369)
14:00:11,019 ERROR [STDERR] at org.hibernate.jdbc.ConnectionManager.afterTransaction(ConnectionManager.java:320)
14:00:11,019 ERROR [STDERR] at org.hibernate.jdbc.JDBCContext.afterTransactionCompletion(JDBCContext.java:248)
14:00:11,019 ERROR [STDERR] at org.hibernate.transaction.CacheSynchronization.afterCompletion(CacheSynchronization.java:117)
14:00:11,019 ERROR [STDERR] at com.arjuna.ats.internal.jta.resources.arjunacore.SynchronizationImple.afterCompletion(SynchronizationImple.java:136)
14:00:11,019 ERROR [STDERR] at com.arjuna.ats.arjuna.coordinator.TwoPhaseCoordinator.afterCompletion(TwoPhaseCoordinator.java:340)
14:00:11,019 ERROR [STDERR] at com.arjuna.ats.arjuna.coordinator.TwoPhaseCoordinator.cancel(TwoPhaseCoordinator.java:107)
14:00:11,020 ERROR [STDERR] at com.arjuna.ats.arjuna.AtomicAction.cancel(AtomicAction.java:230)
14:00:11,020 ERROR [STDERR] at com.arjuna.ats.arjuna.coordinator.TransactionReaper.check(TransactionReaper.java:202)
14:00:11,020 ERROR [STDERR] at com.arjuna.ats.internal.arjuna.coordinator.ReaperThread.run(ReaperThread.java:107)
14:00:11,020 INFO [STDOUT] Hibernate: select ...
14:00:11,028 INFO [STDOUT] Hibernate: select ...
14:00:11,029 INFO [STDOUT] Hibernate: select ...
14:00:11,031 INFO [STDOUT] Hibernate: select ...
14:00:11,032 INFO [STDOUT] Hibernate: select ...
14:00:11,055 ERROR [STDERR] 380745 [http-0.0.0.0-8080-5] INFO org.hibernate.type.LongType - could not read column value from result set: col_1_0_; The result set is closed.
14:00:11,113 ERROR [STDERR] 380803 [http-0.0.0.0-8080-5] WARN org.hibernate.util.JDBCExceptionReporter - SQL Error: 0, SQLState: null
14:00:11,113 ERROR [STDERR] 380803 [http-0.0.0.0-8080-5] ERROR org.hibernate.util.JDBCExceptionReporter - The result set is closed.
14:00:11,134 ERROR [application] org.hibernate.exception.GenericJDBCException: could not execute query
javax.faces.el.EvaluationException: org.hibernate.exception.GenericJDBCException: could not execute query
at javax.faces.component.MethodBindingMethodExpressionAdapter.invoke(MethodBindingMethodExpressionAdapter.java:102)
at com.sun.faces.application.ActionListenerImpl.processAction(ActionListenerImpl.java:102)
at javax.faces.component.UICommand.broadcast(UICommand.java:387)
at org.ajax4jsf.component.AjaxActionComponent.broadcast(AjaxActionComponent.java:55)
at org.ajax4jsf.component.AjaxViewRoot.processEvents(AjaxViewRoot.java:324)
at org.ajax4jsf.component.AjaxViewRoot.broadcastEvents(AjaxViewRoot.java:299)
at org.ajax4jsf.component.AjaxViewRoot.processPhase(AjaxViewRoot.java:256)
at org.ajax4jsf.component.AjaxViewRoot.processApplication(AjaxViewRoot.java:469)
at com.sun.faces.lifecycle.InvokeApplicationPhase.execute(InvokeApplicationPhase.java:82)
at com.sun.faces.lifecycle.Phase.doPhase(Phase.java:100)
at com.sun.faces.lifecycle.LifecycleImpl.execute(LifecycleImpl.java:118)
at javax.faces.webapp.FacesServlet.service(FacesServlet.java:265)
at org.apache.catalina.core.ApplicationFilterChain.internalDoFilter(ApplicationFilterChain.java:290)
at org.apache.catalina.core.ApplicationFilterChain.doFilter(ApplicationFilterChain.java:206)
at org.ajax4jsf.webapp.BaseFilter.doFilter(BaseFilter.java:530)
at org.apache.catalina.core.ApplicationFilterChain.internalDoFilter(ApplicationFilterChain.java:235)
at org.apache.catalina.core.ApplicationFilterChain.doFilter(ApplicationFilterChain.java:206)
at org.jboss.seam.servlet.SeamFilter$FilterChainImpl.doFilter(SeamFilter.java:83)
at org.jboss.seam.web.IdentityFilter.doFilter(IdentityFilter.java:40)
at org.jboss.seam.servlet.SeamFilter$FilterChainImpl.doFilter(SeamFilter.java:69)
at org.jboss.seam.web.MultipartFilter.doFilter(MultipartFilter.java:90)
at org.jboss.seam.servlet.SeamFilter$FilterChainImpl.doFilter(SeamFilter.java:69)
at org.jboss.seam.web.ExceptionFilter.doFilter(ExceptionFilter.java:64)
at org.jboss.seam.servlet.SeamFilter$FilterChainImpl.doFilter(SeamFilter.java:69)
at org.jboss.seam.web.RedirectFilter.doFilter(RedirectFilter.java:45)
at org.jboss.seam.servlet.SeamFilter$FilterChainImpl.doFilter(SeamFilter.java:69)
at org.jboss.seam.servlet.SeamFilter$FilterChainImpl.doFilter(SeamFilter.java:73)
at org.ajax4jsf.webapp.BaseXMLFilter.doXmlFilter(BaseXMLFilter.java:178)
at org.ajax4jsf.webapp.BaseFilter.handleRequest(BaseFilter.java:290)
at org.ajax4jsf.webapp.BaseFilter.processUploadsAndHandleRequest(BaseFilter.java:388)
at org.ajax4jsf.webapp.BaseFilter.doFilter(BaseFilter.java:515)
at org.jboss.seam.web.Ajax4jsfFilter.doFilter(Ajax4jsfFilter.java:56)
at org.jboss.seam.servlet.SeamFilter$FilterChainImpl.doFilter(SeamFilter.java:69)
at org.jboss.seam.web.LoggingFilter.doFilter(LoggingFilter.java:60)
at org.jboss.seam.servlet.SeamFilter$FilterChainImpl.doFilter(SeamFilter.java:69)
at org.jboss.seam.web.HotDeployFilter.doFilter(HotDeployFilter.java:53)
at org.jboss.seam.servlet.SeamFilter$FilterChainImpl.doFilter(SeamFilter.java:69)
at org.jboss.seam.servlet.SeamFilter.doFilter(SeamFilter.java:158)
at org.apache.catalina.core.ApplicationFilterChain.internalDoFilter(ApplicationFilterChain.java:235)
at org.apache.catalina.core.ApplicationFilterChain.doFilter(ApplicationFilterChain.java:206)
at org.jboss.web.tomcat.filters.ReplyHeaderFilter.doFilter(ReplyHeaderFilter.java:96)
at org.apache.catalina.core.ApplicationFilterChain.internalDoFilter(ApplicationFilterChain.java:235)
at org.apache.catalina.core.ApplicationFilterChain.doFilter(ApplicationFilterChain.java:206)
at org.apache.catalina.core.StandardWrapperValve.invoke(StandardWrapperValve.java:230)
at org.apache.catalina.core.StandardContextValve.invoke(StandardContextValve.java:175)
at org.jboss.web.tomcat.security.SecurityAssociationValve.invoke(SecurityAssociationValve.java:182)
at org.apache.catalina.authenticator.AuthenticatorBase.invoke(AuthenticatorBase.java:432)
at org.jboss.web.tomcat.security.JaccContextValve.invoke(JaccContextValve.java:84)
at org.apache.catalina.core.StandardHostValve.invoke(StandardHostValve.java:127)
at org.apache.catalina.valves.ErrorReportValve.invoke(ErrorReportValve.java:102)
at org.jboss.web.tomcat.service.jca.CachedConnectionValve.invoke(CachedConnectionValve.java:157)
at org.apache.catalina.core.StandardEngineValve.invoke(StandardEngineValve.java:109)
at org.apache.catalina.connector.CoyoteAdapter.service(CoyoteAdapter.java:262)
at org.apache.coyote.http11.Http11Processor.process(Http11Processor.java:844)
at org.apache.coyote.http11.Http11Protocol$Http11ConnectionHandler.process(Http11Protocol.java:583)
at org.apache.tomcat.util.net.JIoEndpoint$Worker.run(JIoEndpoint.java:446)
at java.lang.Thread.run(Thread.java:619)
Caused by: org.hibernate.exception.GenericJDBCException: could not execute query
at org.hibernate.exception.SQLStateConverter.handledNonSpecificException(SQLStateConverter.java:126)
at org.hibernate.exception.SQLStateConverter.convert(SQLStateConverter.java:114)
at org.hibernate.exception.JDBCExceptionHelper.convert(JDBCExceptionHelper.java:66)
at org.hibernate.loader.Loader.doList(Loader.java:2235)
at org.hibernate.loader.Loader.listIgnoreQueryCache(Loader.java:2129)
at org.hibernate.loader.Loader.list(Loader.java:2124)
at org.hibernate.loader.hql.QueryLoader.list(QueryLoader.java:401)
at org.hibernate.hql.ast.QueryTranslatorImpl.list(QueryTranslatorImpl.java:363)
at org.hibernate.engine.query.HQLQueryPlan.performList(HQLQueryPlan.java:196)
at org.hibernate.impl.SessionImpl.list(SessionImpl.java:1149)
at org.hibernate.impl.QueryImpl.list(QueryImpl.java:102)
at org.hibernate.envers.entities.mapper.relation.lazy.initializor.AbstractCollectionInitializor.initialize(AbstractCollectionInitializor.java:62)
at org.hibernate.envers.entities.mapper.relation.lazy.proxy.CollectionProxy.checkInit(CollectionProxy.java:47)
at org.hibernate.envers.entities.mapper.relation.lazy.proxy.CollectionProxy.iterator(CollectionProxy.java:67)
at at.tugraz.genome.memosys.reaction.entity.Reaction.getAllGenes(Reaction.java:587)
at at.tugraz.genome.memosys.session.model.comparison.task.simple.SimpleModelComparison.compareGenes(SimpleModelComparison.java:289)
at at.tugraz.genome.memosys.session.model.comparison.task.simple.SimpleModelComparison.compareModels(SimpleModelComparison.java:141)
at at.tugraz.genome.memosys.session.model.comparison.CompareModels.compare(CompareModels.java:97)
at sun.reflect.NativeMethodAccessorImpl.invoke0(Native Method)
at sun.reflect.NativeMethodAccessorImpl.invoke(NativeMethodAccessorImpl.java:39)
at sun.reflect.DelegatingMethodAccessorImpl.invoke(DelegatingMethodAccessorImpl.java:25)
at java.lang.reflect.Method.invoke(Method.java:597)
at org.jboss.aop.joinpoint.MethodInvocation.invokeNext(MethodInvocation.java:112)
at org.jboss.ejb3.interceptor.InvocationContextImpl.proceed(InvocationContextImpl.java:166)
at org.jboss.seam.intercept.EJBInvocationContext.proceed(EJBInvocationContext.java:44)
at org.jboss.seam.intercept.SeamInvocationContext.proceed(SeamInvocationContext.java:56)
at org.jboss.seam.transaction.RollbackInterceptor.aroundInvoke(RollbackInterceptor.java:28)
at org.jboss.seam.intercept.SeamInvocationContext.proceed(SeamInvocationContext.java:68)
at org.jboss.seam.core.BijectionInterceptor.aroundInvoke(BijectionInterceptor.java:77)
at org.jboss.seam.intercept.SeamInvocationContext.proceed(SeamInvocationContext.java:68)
at org.jboss.seam.core.MethodContextInterceptor.aroundInvoke(MethodContextInterceptor.java:44)
at org.jboss.seam.intercept.SeamInvocationContext.proceed(SeamInvocationContext.java:68)
at org.jboss.seam.persistence.EntityManagerProxyInterceptor.aroundInvoke(EntityManagerProxyInterceptor.java:29)
at org.jboss.seam.intercept.SeamInvocationContext.proceed(SeamInvocationContext.java:68)
at org.jboss.seam.persistence.HibernateSessionProxyInterceptor.aroundInvoke(HibernateSessionProxyInterceptor.java:30)
at org.jboss.seam.intercept.SeamInvocationContext.proceed(SeamInvocationContext.java:68)
at org.jboss.seam.intercept.RootInterceptor.invoke(RootInterceptor.java:107)
at org.jboss.seam.intercept.SessionBeanInterceptor.aroundInvoke(SessionBeanInterceptor.java:50)
at sun.reflect.GeneratedMethodAccessor248.invoke(Unknown Source)
at sun.reflect.DelegatingMethodAccessorImpl.invoke(DelegatingMethodAccessorImpl.java:25)
at java.lang.reflect.Method.invoke(Method.java:597)
at org.jboss.ejb3.interceptor.InvocationContextImpl.proceed(InvocationContextImpl.java:118)
at org.jboss.ejb3.interceptor.EJB3InterceptorsInterceptor.invoke(EJB3InterceptorsInterceptor.java:63)
at org.jboss.aop.joinpoint.MethodInvocation.invokeNext(MethodInvocation.java:101)
at org.jboss.ejb3.entity.ExtendedPersistenceContextPropagationInterceptor.invoke(ExtendedPersistenceContextPropagationInterceptor.java:57)
at org.jboss.aop.joinpoint.MethodInvocation.invokeNext(MethodInvocation.java:101)
at org.jboss.ejb3.entity.TransactionScopedEntityManagerInterceptor.invoke(TransactionScopedEntityManagerInterceptor.java:54)
at org.jboss.aop.joinpoint.MethodInvocation.invokeNext(MethodInvocation.java:101)
at org.jboss.ejb3.AllowedOperationsInterceptor.invoke(AllowedOperationsInterceptor.java:47)
at org.jboss.aop.joinpoint.MethodInvocation.invokeNext(MethodInvocation.java:101)
at org.jboss.aspects.tx.TxPolicy.invokeInNoTx(TxPolicy.java:66)
at org.jboss.aspects.tx.TxInterceptor$NotSupported.invoke(TxInterceptor.java:102)
at org.jboss.aop.joinpoint.MethodInvocation.invokeNext(MethodInvocation.java:101)
at org.jboss.aspects.tx.TxPropagationInterceptor.invoke(TxPropagationInterceptor.java:95)
at org.jboss.aop.joinpoint.MethodInvocation.invokeNext(MethodInvocation.java:101)
at org.jboss.ejb3.stateful.StatefulInstanceInterceptor.invoke(StatefulInstanceInterceptor.java:83)
at org.jboss.aop.joinpoint.MethodInvocation.invokeNext(MethodInvocation.java:101)
at org.jboss.aspects.security.AuthenticationInterceptor.invoke(AuthenticationInterceptor.java:77)
at org.jboss.ejb3.security.Ejb3AuthenticationInterceptor.invoke(Ejb3AuthenticationInterceptor.java:110)
at org.jboss.aop.joinpoint.MethodInvocation.invokeNext(MethodInvocation.java:101)
at org.jboss.ejb3.ENCPropagationInterceptor.invoke(ENCPropagationInterceptor.java:46)
at org.jboss.aop.joinpoint.MethodInvocation.invokeNext(MethodInvocation.java:101)
at org.jboss.ejb3.asynchronous.AsynchronousInterceptor.invoke(AsynchronousInterceptor.java:106)
at org.jboss.aop.joinpoint.MethodInvocation.invokeNext(MethodInvocation.java:101)
at org.jboss.ejb3.stateful.StatefulContainer.localInvoke(StatefulContainer.java:206)
at org.jboss.ejb3.stateful.StatefulLocalProxy.invoke(StatefulLocalProxy.java:119)
at $Proxy127.compare(Unknown Source)
at sun.reflect.NativeMethodAccessorImpl.invoke0(Native Method)
at sun.reflect.NativeMethodAccessorImpl.invoke(NativeMethodAccessorImpl.java:39)
at sun.reflect.DelegatingMethodAccessorImpl.invoke(DelegatingMethodAccessorImpl.java:25)
at java.lang.reflect.Method.invoke(Method.java:597)
at org.jboss.seam.util.Reflections.invoke(Reflections.java:22)
at org.jboss.seam.intercept.RootInvocationContext.proceed(RootInvocationContext.java:32)
at org.jboss.seam.intercept.ClientSideInterceptor$1.proceed(ClientSideInterceptor.java:76)
at org.jboss.seam.intercept.SeamInvocationContext.proceed(SeamInvocationContext.java:56)
at org.jboss.seam.ejb.RemoveInterceptor.aroundInvoke(RemoveInterceptor.java:43)
at org.jboss.seam.intercept.SeamInvocationContext.proceed(SeamInvocationContext.java:68)
at org.jboss.seam.core.SynchronizationInterceptor.aroundInvoke(SynchronizationInterceptor.java:32)
at org.jboss.seam.intercept.SeamInvocationContext.proceed(SeamInvocationContext.java:68)
at org.jboss.seam.intercept.RootInterceptor.invoke(RootInterceptor.java:107)
at org.jboss.seam.intercept.ClientSideInterceptor.invoke(ClientSideInterceptor.java:54)
at org.javassist.tmp.java.lang.Object_$$_javassist_seam_6.compare(Object_$$_javassist_seam_6.java)
at sun.reflect.NativeMethodAccessorImpl.invoke0(Native Method)
at sun.reflect.NativeMethodAccessorImpl.invoke(NativeMethodAccessorImpl.java:39)
at sun.reflect.DelegatingMethodAccessorImpl.invoke(DelegatingMethodAccessorImpl.java:25)
at java.lang.reflect.Method.invoke(Method.java:597)
at org.jboss.el.util.ReflectionUtil.invokeMethod(ReflectionUtil.java:335)
at org.jboss.el.util.ReflectionUtil.invokeMethod(ReflectionUtil.java:348)
at org.jboss.el.parser.AstPropertySuffix.invoke(AstPropertySuffix.java:58)
at org.jboss.el.parser.AstValue.invoke(AstValue.java:96)
at org.jboss.el.MethodExpressionImpl.invoke(MethodExpressionImpl.java:276)
at com.sun.facelets.el.TagMethodExpression.invoke(TagMethodExpression.java:68)
at javax.faces.component.MethodBindingMethodExpressionAdapter.invoke(MethodBindingMethodExpressionAdapter.java:88)
... 56 more
Caused by: java.sql.SQLException: The result set is closed.
at org.jboss.resource.adapter.jdbc.WrappedResultSet.checkState(WrappedResultSet.java:1959)
at org.jboss.resource.adapter.jdbc.WrappedResultSet.getLong(WrappedResultSet.java:721)
at org.hibernate.type.LongType.get(LongType.java:51)
at org.hibernate.type.NullableType.nullSafeGet(NullableType.java:184)
at org.hibernate.type.NullableType.nullSafeGet(NullableType.java:173)
at org.hibernate.type.AbstractType.hydrate(AbstractType.java:105)
at org.hibernate.type.ComponentType.hydrate(ComponentType.java:583)
at org.hibernate.type.ComponentType.nullSafeGet(ComponentType.java:298)
at org.hibernate.type.ManyToOneType.hydrate(ManyToOneType.java:126)
at org.hibernate.type.EntityType.nullSafeGet(EntityType.java:227)
at org.hibernate.loader.hql.QueryLoader.getResultColumnOrRow(QueryLoader.java:361)
at org.hibernate.loader.Loader.getRowFromResultSet(Loader.java:629)
at org.hibernate.loader.Loader.doQuery(Loader.java:724)
at org.hibernate.loader.Loader.doQueryAndInitializeNonLazyCollections(Loader.java:259)
at org.hibernate.loader.Loader.doList(Loader.java:2232)
... 145 more