application cannot start on ubuntu but starts on windows without any trouble-Collection of common programming errors

My application loads quite a lot data during start up. After restart glassfish started issuing the following warning in the log file after about 15 minutes of application initialization process

WARNING|glassfish3.1.2|com.sun.grizzly.config.GrizzlyServiceListener|_ThreadID=27;_ThreadName=Thread-2;|GRIZZLY0023: Interrupting idle Thread: admin-thread-pool-4848(3).|#]

after all entire process fails with the errors:

    [#|2012-10-30T16:26:08.404-0400|WARNING|glassfish3.1.2|com.sun.grizzly.config.GrizzlyServiceListener|_ThreadID=27;_ThreadName=Thread-2;|GRIZZLY0023: Interrupting idle Thread: admin-thread-pool-4848(3).|#]

[#|2012-10-30T16:26:08.624-0400|INFO|glassfish3.1.2|javax.enterprise.resource.webcontainer.jsf.config|_ThreadID=61;_ThreadName=Thread-2;|Initializing Mojarra 2.1.12 ( 20120814-1522) for context ''|#]

[#|2012-10-30T16:26:09.126-0400|SEVERE|glassfish3.1.2|javax.faces|_ThreadID=61;_ThreadName=Thread-2;|Application was not properly initialized at startup, could not find Factory: javax.faces.application.ApplicationFactory. Attempting to find backup.|#]

[#|2012-10-30T16:26:09.136-0400|SEVERE|glassfish3.1.2|javax.enterprise.resource.webcontainer.jsf.config|_ThreadID=61;_ThreadName=Thread-2;|Critical error during deployment: 
com.sun.faces.config.ConfigurationException: Factory 'javax.faces.application.ApplicationFactory' was not configured properly.
    at com.sun.faces.config.processor.FactoryConfigProcessor.verifyFactoriesExist(FactoryConfigProcessor.java:305)
    at com.sun.faces.config.processor.FactoryConfigProcessor.process(FactoryConfigProcessor.java:219)
    at com.sun.faces.config.ConfigManager.initialize(ConfigManager.java:362)
    at com.sun.faces.config.ConfigureListener.contextInitialized(ConfigureListener.java:223)
    at org.apache.catalina.core.StandardContext.contextListenerStart(StandardContext.java:4750)
    at com.sun.enterprise.web.WebModule.contextListenerStart(WebModule.java:550)
    at org.apache.catalina.core.StandardContext.start(StandardContext.java:5366)
    at com.sun.enterprise.web.WebModule.start(WebModule.java:498)
    at org.apache.catalina.core.ContainerBase.addChildInternal(ContainerBase.java:917)
    at org.apache.catalina.core.ContainerBase.addChild(ContainerBase.java:901)
    at org.apache.catalina.core.StandardHost.addChild(StandardHost.java:733)
    at com.sun.enterprise.web.WebContainer.loadWebModule(WebContainer.java:2018)
    at com.sun.enterprise.web.WebContainer.loadWebModule(WebContainer.java:1669)
    at com.sun.enterprise.web.WebApplication.start(WebApplication.java:109)
    at org.glassfish.internal.data.EngineRef.start(EngineRef.java:130)
    at org.glassfish.internal.data.ModuleInfo.start(ModuleInfo.java:269)
    at org.glassfish.internal.data.ApplicationInfo.start(ApplicationInfo.java:301)
    at com.sun.enterprise.v3.server.ApplicationLifecycle.deploy(ApplicationLifecycle.java:461)
    at com.sun.enterprise.v3.server.ApplicationLifecycle.deploy(ApplicationLifecycle.java:240)
    at org.glassfish.deployment.admin.DeployCommand.execute(DeployCommand.java:389)
    at com.sun.enterprise.v3.admin.CommandRunnerImpl$1.execute(CommandRunnerImpl.java:348)
    at com.sun.enterprise.v3.admin.CommandRunnerImpl.doCommand(CommandRunnerImpl.java:363)
    at com.sun.enterprise.v3.admin.CommandRunnerImpl.doCommand(CommandRunnerImpl.java:1085)
    at com.sun.enterprise.v3.admin.CommandRunnerImpl.access$1200(CommandRunnerImpl.java:95)
    at com.sun.enterprise.v3.admin.CommandRunnerImpl$ExecutionContext.execute(CommandRunnerImpl.java:1291)
    at com.sun.enterprise.v3.admin.CommandRunnerImpl$ExecutionContext.execute(CommandRunnerImpl.java:1259)
    at com.sun.enterprise.v3.admin.AdminAdapter.doCommand(AdminAdapter.java:461)
    at com.sun.enterprise.v3.admin.AdminAdapter.service(AdminAdapter.java:212)
    at com.sun.grizzly.tcp.http11.GrizzlyAdapter.service(GrizzlyAdapter.java:179)
    at com.sun.enterprise.v3.server.HK2Dispatcher.dispath(HK2Dispatcher.java:117)
    at com.sun.enterprise.v3.services.impl.ContainerMapper$Hk2DispatcherCallable.call(ContainerMapper.java:354)
    at com.sun.enterprise.v3.services.impl.ContainerMapper.service(ContainerMapper.java:195)
    at com.sun.grizzly.http.ProcessorTask.invokeAdapter(ProcessorTask.java:849)
    at com.sun.grizzly.http.ProcessorTask.doProcess(ProcessorTask.java:746)
    at com.sun.grizzly.http.ProcessorTask.process(ProcessorTask.java:1045)
    at com.sun.grizzly.http.DefaultProtocolFilter.execute(DefaultProtocolFilter.java:228)
    at com.sun.grizzly.DefaultProtocolChain.executeProtocolFilter(DefaultProtocolChain.java:137)
    at com.sun.grizzly.DefaultProtocolChain.execute(DefaultProtocolChain.java:104)
    at com.sun.grizzly.DefaultProtocolChain.execute(DefaultProtocolChain.java:90)
    at com.sun.grizzly.http.HttpProtocolChain.execute(HttpProtocolChain.java:79)
    at com.sun.grizzly.ProtocolChainContextTask.doCall(ProtocolChainContextTask.java:54)
    at com.sun.grizzly.SelectionKeyContextTask.call(SelectionKeyContextTask.java:59)
    at com.sun.grizzly.ContextTask.run(ContextTask.java:71)
    at com.sun.grizzly.util.AbstractThreadPool$Worker.doWork(AbstractThreadPool.java:532)
    at com.sun.grizzly.util.AbstractThreadPool$Worker.run(AbstractThreadPool.java:513)
    at java.lang.Thread.run(Thread.java:722)
Caused by: java.lang.IllegalStateException: Could not find backup for factory javax.faces.application.ApplicationFactory. 
    at javax.faces.FactoryFinder$FactoryManager.getFactory(FactoryFinder.java:1011)
    at javax.faces.FactoryFinder.getFactory(FactoryFinder.java:343)
    at com.sun.faces.config.processor.FactoryConfigProcessor.verifyFactoriesExist(FactoryConfigProcessor.java:303)
    ... 45 more
|#]

[#|2012-10-30T16:26:09.137-0400|SEVERE|glassfish3.1.2|org.apache.catalina.core.StandardContext|_ThreadID=61;_ThreadName=Thread-2;|PWC1306: Startup of context  failed due to previous errors|#]

[#|2012-10-30T16:26:09.139-0400|SEVERE|glassfish3.1.2|org.apache.catalina.core.StandardContext|_ThreadID=61;_ThreadName=Thread-2;|PWC1305: Exception during cleanup after start failed
org.apache.catalina.LifecycleException: PWC2769: Manager has not yet been started
    at org.apache.catalina.session.StandardManager.stop(StandardManager.java:873)
    at org.apache.catalina.core.StandardContext.stop(StandardContext.java:5571)
    at com.sun.enterprise.web.WebModule.stop(WebModule.java:527)
    at org.apache.catalina.core.StandardContext.start(StandardContext.java:5384)
    at com.sun.enterprise.web.WebModule.start(WebModule.java:498)
    at org.apache.catalina.core.ContainerBase.addChildInternal(ContainerBase.java:917)
    at org.apache.catalina.core.ContainerBase.addChild(ContainerBase.java:901)
    at org.apache.catalina.core.StandardHost.addChild(StandardHost.java:733)
    at com.sun.enterprise.web.WebContainer.loadWebModule(WebContainer.java:2018)
    at com.sun.enterprise.web.WebContainer.loadWebModule(WebContainer.java:1669)
    at com.sun.enterprise.web.WebApplication.start(WebApplication.java:109)
    at org.glassfish.internal.data.EngineRef.start(EngineRef.java:130)
    at org.glassfish.internal.data.ModuleInfo.start(ModuleInfo.java:269)
    at org.glassfish.internal.data.ApplicationInfo.start(ApplicationInfo.java:301)
    at com.sun.enterprise.v3.server.ApplicationLifecycle.deploy(ApplicationLifecycle.java:461)
    at com.sun.enterprise.v3.server.ApplicationLifecycle.deploy(ApplicationLifecycle.java:240)
    at org.glassfish.deployment.admin.DeployCommand.execute(DeployCommand.java:389)
    at com.sun.enterprise.v3.admin.CommandRunnerImpl$1.execute(CommandRunnerImpl.java:348)
    at com.sun.enterprise.v3.admin.CommandRunnerImpl.doCommand(CommandRunnerImpl.java:363)
    at com.sun.enterprise.v3.admin.CommandRunnerImpl.doCommand(CommandRunnerImpl.java:1085)
    at com.sun.enterprise.v3.admin.CommandRunnerImpl.access$1200(CommandRunnerImpl.java:95)
    at com.sun.enterprise.v3.admin.CommandRunnerImpl$ExecutionContext.execute(CommandRunnerImpl.java:1291)
    at com.sun.enterprise.v3.admin.CommandRunnerImpl$ExecutionContext.execute(CommandRunnerImpl.java:1259)
    at com.sun.enterprise.v3.admin.AdminAdapter.doCommand(AdminAdapter.java:461)
    at com.sun.enterprise.v3.admin.AdminAdapter.service(AdminAdapter.java:212)
    at com.sun.grizzly.tcp.http11.GrizzlyAdapter.service(GrizzlyAdapter.java:179)
    at com.sun.enterprise.v3.server.HK2Dispatcher.dispath(HK2Dispatcher.java:117)
    at com.sun.enterprise.v3.services.impl.ContainerMapper$Hk2DispatcherCallable.call(ContainerMapper.java:354)
    at com.sun.enterprise.v3.services.impl.ContainerMapper.service(ContainerMapper.java:195)
    at com.sun.grizzly.http.ProcessorTask.invokeAdapter(ProcessorTask.java:849)
    at com.sun.grizzly.http.ProcessorTask.doProcess(ProcessorTask.java:746)
    at com.sun.grizzly.http.ProcessorTask.process(ProcessorTask.java:1045)
    at com.sun.grizzly.http.DefaultProtocolFilter.execute(DefaultProtocolFilter.java:228)
    at com.sun.grizzly.DefaultProtocolChain.executeProtocolFilter(DefaultProtocolChain.java:137)
    at com.sun.grizzly.DefaultProtocolChain.execute(DefaultProtocolChain.java:104)
    at com.sun.grizzly.DefaultProtocolChain.execute(DefaultProtocolChain.java:90)
    at com.sun.grizzly.http.HttpProtocolChain.execute(HttpProtocolChain.java:79)
    at com.sun.grizzly.ProtocolChainContextTask.doCall(ProtocolChainContextTask.java:54)
    at com.sun.grizzly.SelectionKeyContextTask.call(SelectionKeyContextTask.java:59)
    at com.sun.grizzly.ContextTask.run(ContextTask.java:71)
    at com.sun.grizzly.util.AbstractThreadPool$Worker.doWork(AbstractThreadPool.java:532)
    at com.sun.grizzly.util.AbstractThreadPool$Worker.run(AbstractThreadPool.java:513)
    at java.lang.Thread.run(Thread.java:722)
|#]

.................................................................

[#|2012-10-30T16:26:10.070-0400|INFO|glassfish3.1.2|org.eclipse.persistence.session.file:/home/ayksolutions/glassfish3/glassfish/domains/domain1/applications/ejb-timer-service-app/WEB-INF/classes/___EJB__Timer__App|_ThreadID=61;_ThreadName=Thread-2;|Communication failure detected when attempting to perform read query outside of a transaction. Attempting to retry query. Error was: Exception [EclipseLink-4002] (Eclipse Persistence Services - 2.3.2.v20111125-r10461): org.eclipse.persistence.exceptions.DatabaseException
Internal Exception: java.sql.SQLNonTransientConnectionException: Connection closed by unknown interrupt.
Error Code: 40000
Call: SELECT COUNT("TIMERID") FROM "EJB__TIMER__TBL" WHERE ("APPLICATIONID" = ?)
    bind => [1 parameter bound]
Query: ReportQuery(name="countTimersByApplication" referenceClass=TimerState sql="SELECT COUNT("TIMERID") FROM "EJB__TIMER__TBL" WHERE ("APPLICATIONID" = ?)").|#]

[#|2012-10-30T16:26:10.071-0400|INFO|glassfish3.1.2|org.eclipse.persistence.session.file:/home/ayksolutions/glassfish3/glassfish/domains/domain1/applications/ejb-timer-service-app/WEB-INF/classes/___EJB__Timer__App|_ThreadID=61;_ThreadName=Thread-2;|Communication failure detected when attempting to perform read query outside of a transaction. Attempting to retry query. Error was: Exception [EclipseLink-4002] (Eclipse Persistence Services - 2.3.2.v20111125-r10461): org.eclipse.persistence.exceptions.DatabaseException
Internal Exception: java.sql.SQLNonTransientConnectionException: No current connection.
Error Code: 40000
Call: SELECT COUNT("TIMERID") FROM "EJB__TIMER__TBL" WHERE ("APPLICATIONID" = ?)
    bind => [1 parameter bound]
Query: ReportQuery(name="countTimersByApplication" referenceClass=TimerState sql="SELECT COUNT("TIMERID") FROM "EJB__TIMER__TBL" WHERE ("APPLICATIONID" = ?)").|#]

[#|2012-10-30T16:26:10.079-0400|WARNING|glassfish3.1.2|org.eclipse.persistence.session.file:/home/ayksolutions/glassfish3/glassfish/domains/domain1/applications/ejb-timer-service-app/WEB-INF/classes/___EJB__Timer__App|_ThreadID=61;_ThreadName=Thread-2;|Local Exception Stack: 
Exception [EclipseLink-4002] (Eclipse Persistence Services - 2.3.2.v20111125-r10461): org.eclipse.persistence.exceptions.DatabaseException
Internal Exception: java.sql.SQLNonTransientConnectionException: No current connection.
Error Code: 40000
Call: SELECT COUNT("TIMERID") FROM "EJB__TIMER__TBL" WHERE ("APPLICATIONID" = ?)
    bind => [1 parameter bound]
Query: ReportQuery(name="countTimersByApplication" referenceClass=TimerState sql="SELECT COUNT("TIMERID") FROM "EJB__TIMER__TBL" WHERE ("APPLICATIONID" = ?)")
    at org.eclipse.persistence.exceptions.DatabaseException.sqlException(DatabaseException.java:333)
    at org.eclipse.persistence.internal.databaseaccess.DatabaseAccessor.processExceptionForCommError(DatabaseAccessor.java:1494)
    at org.eclipse.persistence.internal.databaseaccess.DatabaseAccessor.basicExecuteCall(DatabaseAccessor.java:636)
    at org.eclipse.persistence.internal.databaseaccess.DatabaseAccessor.executeCall(DatabaseAccessor.java:535)
    at org.eclipse.persistence.internal.sessions.AbstractSession.basicExecuteCall(AbstractSession.java:1717)
    at org.eclipse.persistence.sessions.server.ServerSession.executeCall(ServerSession.java:566)
    at org.eclipse.persistence.sessions.server.ClientSession.executeCall(ClientSession.java:207)
    at org.eclipse.persistence.internal.queries.DatasourceCallQueryMechanism.executeCall(DatasourceCallQueryMechanism.java:207)
    at org.eclipse.persistence.internal.queries.DatasourceCallQueryMechanism.executeCall(DatasourceCallQueryMechanism.java:193)
    at org.eclipse.persistence.internal.queries.DatasourceCallQueryMechanism.executeSelectCall(DatasourceCallQueryMechanism.java:264)
    at org.eclipse.persistence.internal.queries.DatasourceCallQueryMechanism.selectAllRows(DatasourceCallQueryMechanism.java:646)
    at org.eclipse.persistence.internal.queries.ExpressionQueryMechanism.selectAllRowsFromTable(ExpressionQueryMechanism.java:2611)
    at org.eclipse.persistence.internal.queries.ExpressionQueryMechanism.selectAllReportQueryRows(ExpressionQueryMechanism.java:2554)
    at org.eclipse.persistence.queries.ReportQuery.executeDatabaseQuery(ReportQuery.java:846)
    at org.eclipse.persistence.queries.DatabaseQuery.execute(DatabaseQuery.java:844)
    at org.eclipse.persistence.queries.ObjectLevelReadQuery.execute(ObjectLevelReadQuery.java:1040)
    at org.eclipse.persistence.queries.ReadAllQuery.execute(ReadAllQuery.java:392)
    at org.eclipse.persistence.queries.ObjectLevelReadQuery.executeInUnitOfWork(ObjectLevelReadQuery.java:1128)
    at org.eclipse.persistence.internal.sessions.UnitOfWorkImpl.internalExecuteQuery(UnitOfWorkImpl.java:2871)
    at org.eclipse.persistence.internal.sessions.AbstractSession.executeQuery(AbstractSession.java:1516)
    at org.eclipse.persistence.internal.sessions.AbstractSession.retryQuery(AbstractSession.java:1586)
    at org.eclipse.persistence.sessions.server.ClientSession.retryQuery(ClientSession.java:593)
    at org.eclipse.persistence.internal.sessions.UnitOfWorkImpl.retryQuery(UnitOfWorkImpl.java:5464)
    at org.eclipse.persistence.internal.sessions.AbstractSession.executeQuery(AbstractSession.java:1552)
    at org.eclipse.persistence.internal.sessions.AbstractSession.executeQuery(AbstractSession.java:1498)
    at org.eclipse.persistence.internal.sessions.AbstractSession.executeQuery(AbstractSession.java:1463)
    at org.eclipse.persistence.internal.jpa.EJBQueryImpl.executeReadQuery(EJBQueryImpl.java:485)
    at org.eclipse.persistence.internal.jpa.EJBQueryImpl.getSingleResult(EJBQueryImpl.java:773)
    at com.sun.ejb.containers.TimerBean.countTimersByApplication(TimerBean.java:215)
    at sun.reflect.NativeMethodAccessorImpl.invoke0(Native Method)
    at sun.reflect.NativeMethodAccessorImpl.invoke(NativeMethodAccessorImpl.java:57)
    at sun.reflect.DelegatingMethodAccessorImpl.invoke(DelegatingMethodAccessorImpl.java:43)
    at java.lang.reflect.Method.invoke(Method.java:601)
    at org.glassfish.ejb.security.application.EJBSecurityManager.runMethod(EJBSecurityManager.java:1052)
    at org.glassfish.ejb.security.application.EJBSecurityManager.invoke(EJBSecurityManager.java:1124)
    at com.sun.ejb.containers.BaseContainer.invokeBeanMethod(BaseContainer.java:5388)
    at com.sun.ejb.EjbInvocation.invokeBeanMethod(EjbInvocation.java:619)
    at com.sun.ejb.containers.interceptors.AroundInvokeChainImpl.invokeNext(InterceptorManager.java:800)
    at com.sun.ejb.EjbInvocation.proceed(EjbInvocation.java:571)
    at com.sun.ejb.containers.interceptors.SystemInterceptorProxy.doAround(SystemInterceptorProxy.java:162)
    at com.sun.ejb.containers.interceptors.SystemInterceptorProxy.aroundInvoke(SystemInterceptorProxy.java:144)
    at sun.reflect.GeneratedMethodAccessor85.invoke(Unknown Source)
    at sun.reflect.DelegatingMethodAccessorImpl.invoke(DelegatingMethodAccessorImpl.java:43)
    at java.lang.reflect.Method.invoke(Method.java:601)
    at com.sun.ejb.containers.interceptors.AroundInvokeInterceptor.intercept(InterceptorManager.java:861)
    at com.sun.ejb.containers.interceptors.AroundInvokeChainImpl.invokeNext(InterceptorManager.java:800)
    at com.sun.ejb.containers.interceptors.InterceptorManager.intercept(InterceptorManager.java:370)
    at com.sun.ejb.containers.BaseContainer.__intercept(BaseContainer.java:5360)
    at com.sun.ejb.containers.BaseContainer.intercept(BaseContainer.java:5348)
    at com.sun.ejb.containers.EJBLocalObjectInvocationHandler.invoke(EJBLocalObjectInvocationHandler.java:214)
    at com.sun.ejb.containers.EJBLocalObjectInvocationHandlerDelegate.invoke(EJBLocalObjectInvocationHandlerDelegate.java:88)
    at $Proxy242.countTimersByApplication(Unknown Source)
    at com.sun.ejb.containers.EJBTimerService._destroyTimers(EJBTimerService.java:840)
    at com.sun.ejb.containers.EJBTimerService.destroyAllTimers(EJBTimerService.java:834)
    at org.glassfish.ejb.startup.EjbDeployer.clean(EjbDeployer.java:378)
    at org.glassfish.internal.data.EngineInfo.clean(EngineInfo.java:129)
    at org.glassfish.internal.data.EngineRef.clean(EngineRef.java:175)
    at com.sun.enterprise.v3.server.ApplicationLifecycle$1.actOn(ApplicationLifecycle.java:303)
    at com.sun.enterprise.v3.server.ApplicationLifecycle.deploy(ApplicationLifecycle.java:465)
    at com.sun.enterprise.v3.server.ApplicationLifecycle.deploy(ApplicationLifecycle.java:240)
    at org.glassfish.deployment.admin.DeployCommand.execute(DeployCommand.java:389)
    at com.sun.enterprise.v3.admin.CommandRunnerImpl$1.execute(CommandRunnerImpl.java:348)
    at com.sun.enterprise.v3.admin.CommandRunnerImpl.doCommand(CommandRunnerImpl.java:363)
    at com.sun.enterprise.v3.admin.CommandRunnerImpl.doCommand(CommandRunnerImpl.java:1085)
    at com.sun.enterprise.v3.admin.CommandRunnerImpl.access$1200(CommandRunnerImpl.java:95)
    at com.sun.enterprise.v3.admin.CommandRunnerImpl$ExecutionContext.execute(CommandRunnerImpl.java:1291)
    at com.sun.enterprise.v3.admin.CommandRunnerImpl$ExecutionContext.execute(CommandRunnerImpl.java:1259)
    at com.sun.enterprise.v3.admin.AdminAdapter.doCommand(AdminAdapter.java:461)
    at com.sun.enterprise.v3.admin.AdminAdapter.service(AdminAdapter.java:212)
    at com.sun.grizzly.tcp.http11.GrizzlyAdapter.service(GrizzlyAdapter.java:179)
    at com.sun.enterprise.v3.server.HK2Dispatcher.dispath(HK2Dispatcher.java:117)
    at com.sun.enterprise.v3.services.impl.ContainerMapper$Hk2DispatcherCallable.call(ContainerMapper.java:354)
    at com.sun.enterprise.v3.services.impl.ContainerMapper.service(ContainerMapper.java:195)
    at com.sun.grizzly.http.ProcessorTask.invokeAdapter(ProcessorTask.java:849)
    at com.sun.grizzly.http.ProcessorTask.doProcess(ProcessorTask.java:746)
    at com.sun.grizzly.http.ProcessorTask.process(ProcessorTask.java:1045)
    at com.sun.grizzly.http.DefaultProtocolFilter.execute(DefaultProtocolFilter.java:228)
    at com.sun.grizzly.DefaultProtocolChain.executeProtocolFilter(DefaultProtocolChain.java:137)
    at com.sun.grizzly.DefaultProtocolChain.execute(DefaultProtocolChain.java:104)
    at com.sun.grizzly.DefaultProtocolChain.execute(DefaultProtocolChain.java:90)
    at com.sun.grizzly.http.HttpProtocolChain.execute(HttpProtocolChain.java:79)
    at com.sun.grizzly.ProtocolChainContextTask.doCall(ProtocolChainContextTask.java:54)
    at com.sun.grizzly.SelectionKeyContextTask.call(SelectionKeyContextTask.java:59)
    at com.sun.grizzly.ContextTask.run(ContextTask.java:71)
    at com.sun.grizzly.util.AbstractThreadPool$Worker.doWork(AbstractThreadPool.java:532)
    at com.sun.grizzly.util.AbstractThreadPool$Worker.run(AbstractThreadPool.java:513)
    at java.lang.Thread.run(Thread.java:722)
Caused by: java.sql.SQLNonTransientConnectionException: No current connection.
    at org.apache.derby.impl.jdbc.SQLExceptionFactory40.getSQLException(Unknown Source)
    at org.apache.derby.impl.jdbc.Util.newEmbedSQLException(Unknown Source)
    at org.apache.derby.impl.jdbc.Util.newEmbedSQLException(Unknown Source)
    at org.apache.derby.impl.jdbc.Util.noCurrentConnection(Unknown Source)
    at org.apache.derby.impl.jdbc.EmbedConnection.checkIfClosed(Unknown Source)
    at org.apache.derby.impl.jdbc.EmbedConnection.setupContextStack(Unknown Source)
    at org.apache.derby.impl.jdbc.EmbedConnection.prepareStatement(Unknown Source)
    at org.apache.derby.impl.jdbc.EmbedConnection.prepareStatement(Unknown Source)
    at org.apache.derby.iapi.jdbc.BrokeredConnection.prepareStatement(Unknown Source)
    at com.sun.gjc.spi.base.ConnectionHolder.prepareStatement(ConnectionHolder.java:562)
    at com.sun.gjc.spi.jdbc40.ConnectionWrapper40.prepareCachedStatement(ConnectionWrapper40.java:255)
    at com.sun.gjc.spi.jdbc40.ConnectionWrapper40.prepareCachedStatement(ConnectionWrapper40.java:52)
    at com.sun.gjc.spi.ManagedConnection.prepareCachedStatement(ManagedConnection.java:993)
    at com.sun.gjc.spi.jdbc40.ConnectionWrapper40.prepareStatement(ConnectionWrapper40.java:173)
    at org.eclipse.persistence.internal.databaseaccess.DatabaseAccessor.prepareStatement(DatabaseAccessor.java:1474)
    at org.eclipse.persistence.internal.databaseaccess.DatabaseAccessor.prepareStatement(DatabaseAccessor.java:1423)
    at org.eclipse.persistence.internal.databaseaccess.DatabaseCall.prepareStatement(DatabaseCall.java:697)
    at org.eclipse.persistence.internal.databaseaccess.DatabaseAccessor.basicExecuteCall(DatabaseAccessor.java:585)
    ... 84 more
Caused by: java.sql.SQLException: No current connection.
    at org.apache.derby.impl.jdbc.SQLExceptionFactory.getSQLException(Unknown Source)
    at org.apache.derby.impl.jdbc.SQLExceptionFactory40.wrapArgsForTransportAcrossDRDA(Unknown Source)
    ... 102 more
|#]

[#|2012-10-30T16:26:10.082-0400|WARNING|glassfish3.1.2|javax.enterprise.system.container.ejb.com.sun.ejb.containers|_ThreadID=61;_ThreadName=Thread-2;|EJB5184:A system exception occurred during an invocation on EJB TimerBean, method: public int com.sun.ejb.containers.TimerBean.countTimersByApplication(long)|#]
.............

The error appears on both my *nix based machines however the same application version can normally start with the same data in the DB on my windows based developer machine. It also has no troubles on *.nix based machine if the DB contains less data.

The application is built with maven. It has several modules including three web applications and EJB/JPA module that uses mysql RDBMS.

server environment (Application fails to start)

OS: ubuntu 11.10 x64
AS: glassfish 3.2.1
java: 1.7.0_09-b05(initially it was 1.7.0_03, i've upgrade it with no effect)

windows based developer machine (Application can start without troubles)

OS: win7 x64
AS: glassfish 3.2.1
java: 1.7.0_07-b10

I have another server with ubuntu x32. With almost the same environment. The application has the same problem as on the described Ubuntu based machine. I use the same Glassfish version and the same script to configure it on all hosts.

Any ideas what could be a reason. Thanks.

PS. I’m going to try a newer version of GF to see if it solves the problem. Glassfish upgrade to version 3.1.2.2 did not help