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JpaPagingItemReader transaction issue : StaleObjectStateException

Below is my spring batch chunk configuration
Reader - Reading entity using JpaPagingItemReader
Processor - Processing entity returned by reader and updating some fields in same entity based on different conditions
Writer - simple logic to call entitymanager.merge(entity) to merge changes done in processor
<batch:step id="matchUploadedTradesWithUbsTrades" next="updateJobStatus">
<batch:tasklet>
<batch:chunk
reader="matchingDatasetReader"
processor="matchingDatasetProcessor"
writer="matchingDatasetWriter"
commit-interval="10"
/>
</batch:tasklet>
<batch:listeners>
<batch:listener ref="stepExecutionListener" />
</batch:listeners>
</batch:step>
<bean id="matchingDatasetReader" class="com.batch.reader.MatchingJobDatasetReader" scope="job">
<property name="entityManagerFactory" ref="entityManagerFactoryBean" />
<property name="queryString" value="#{ T(com.batch.jpa.entity.Entity).QUERY_FIND_RECORDDS}"/>
<property name="pageSize" value="10" />
</bean>
<bean id="matchingDatasetProcessor" class="com.batch.processor.MatchingJobDatasetProcessor" scope="job"/>
<bean id="matchingDatasetWriter" class="com.batch.writer.MatchingJobDatasetWriter" scope="job"/>
I am facing issue with JpaPagingItemReader with below two scenarios.
Scenario-1 – I have set commit-interval (10) in batch configuration less than total number of records(15 records) in entity and call to entitymanager.merge(entity) is commented in writer
commit-interval = 10
Total records = 15
Observation : Records are getting updated in database. Reason for this is when keep commit-interval less than no of records, JpaPagingItemReader calls entitymanager.flush before reading next batch which commits changes to database without calling entitymanager.merge method.
Scenario-2 – I have set commit-interval in batch configuration less than total number of records in client trades and call update method in writer
commit-interval = 10
Total records = 15
Observation : I am getting StaleObjectStateException because entity is already updated from writer by calling entitymanager.merge and Reader will try to flush changes done by writer.
javax.persistence.OptimisticLockException: Row was updated or deleted by another transaction (or unsaved-value mapping was incorrect) : [com.batch.jpa.entity.Client#29657]
at org.hibernate.jpa.spi.AbstractEntityManagerImpl.wrapStaleStateException(AbstractEntityManagerImpl.java:1785)
at org.hibernate.jpa.spi.AbstractEntityManagerImpl.convert(AbstractEntityManagerImpl.java:1705)
at org.hibernate.jpa.spi.AbstractEntityManagerImpl.convert(AbstractEntityManagerImpl.java:1677)
at org.hibernate.jpa.spi.AbstractEntityManagerImpl.convert(AbstractEntityManagerImpl.java:1683)
at org.hibernate.jpa.spi.AbstractEntityManagerImpl.flush(AbstractEntityManagerImpl.java:1338)
at sun.reflect.NativeMethodAccessorImpl.invoke0(Native Method)
at sun.reflect.NativeMethodAccessorImpl.invoke(NativeMethodAccessorImpl.java:62)
at sun.reflect.DelegatingMethodAccessorImpl.invoke(DelegatingMethodAccessorImpl.java:43)
at java.lang.reflect.Method.invoke(Method.java:497)
at org.springframework.orm.jpa.ExtendedEntityManagerCreator$ExtendedEntityManagerInvocationHandler.invoke(ExtendedEntityManagerCreator.java:366)
at com.sun.proxy.$Proxy76.flush(Unknown Source)
at org.springframework.batch.item.database.JpaPagingItemReader.doReadPage(JpaPagingItemReader.java:199)
at org.springframework.batch.item.database.AbstractPagingItemReader.doRead(AbstractPagingItemReader.java:108)
at org.springframework.batch.item.support.AbstractItemCountingItemStreamItemReader.read(AbstractItemCountingItemStreamItemReader.java:88)
at sun.reflect.GeneratedMethodAccessor42.invoke(Unknown Source)
at sun.reflect.DelegatingMethodAccessorImpl.invoke(DelegatingMethodAccessorImpl.java:43)
at java.lang.reflect.Method.invoke(Method.java:497)
at org.springframework.aop.support.AopUtils.invokeJoinpointUsingReflection(AopUtils.java:317)
at org.springframework.aop.framework.ReflectiveMethodInvocation.invokeJoinpoint(ReflectiveMethodInvocation.java:183)
at org.springframework.aop.framework.ReflectiveMethodInvocation.proceed(ReflectiveMethodInvocation.java:150)
at org.springframework.aop.support.DelegatingIntroductionInterceptor.doProceed(DelegatingIntroductionInterceptor.java:132)
at org.springframework.aop.support.DelegatingIntroductionInterceptor.invoke(DelegatingIntroductionInterceptor.java:120)
at org.springframework.aop.framework.ReflectiveMethodInvocation.proceed(ReflectiveMethodInvocation.java:172)
at org.springframework.aop.framework.JdkDynamicAopProxy.invoke(JdkDynamicAopProxy.java:204)
at com.sun.proxy.$Proxy85.read(Unknown Source)
at org.springframework.batch.core.step.item.SimpleChunkProvider.doRead(SimpleChunkProvider.java:91)
at org.springframework.batch.core.step.item.SimpleChunkProvider.read(SimpleChunkProvider.java:157)
at org.springframework.batch.core.step.item.SimpleChunkProvider$1.doInIteration(SimpleChunkProvider.java:116)
at org.springframework.batch.repeat.support.RepeatTemplate.getNextResult(RepeatTemplate.java:374)
at org.springframework.batch.repeat.support.RepeatTemplate.executeInternal(RepeatTemplate.java:215)
at org.springframework.batch.repeat.support.RepeatTemplate.iterate(RepeatTemplate.java:144)
at org.springframework.batch.core.step.item.SimpleChunkProvider.provide(SimpleChunkProvider.java:110)
at org.springframework.batch.core.step.item.ChunkOrientedTasklet.execute(ChunkOrientedTasklet.java:69)
at org.springframework.batch.core.step.tasklet.TaskletStep$ChunkTransactionCallback.doInTransaction(TaskletStep.java:406)
at org.springframework.batch.core.step.tasklet.TaskletStep$ChunkTransactionCallback.doInTransaction(TaskletStep.java:330)
at org.springframework.transaction.support.TransactionTemplate.execute(TransactionTemplate.java:131)
at org.springframework.batch.core.step.tasklet.TaskletStep$2.doInChunkContext(TaskletStep.java:272)
at org.springframework.batch.core.scope.context.StepContextRepeatCallback.doInIteration(StepContextRepeatCallback.java:81)
at org.springframework.batch.repeat.support.RepeatTemplate.getNextResult(RepeatTemplate.java:374)
at org.springframework.batch.repeat.support.RepeatTemplate.executeInternal(RepeatTemplate.java:215)
at org.springframework.batch.repeat.support.RepeatTemplate.iterate(RepeatTemplate.java:144)
at org.springframework.batch.core.step.tasklet.TaskletStep.doExecute(TaskletStep.java:257)
at org.springframework.batch.core.step.AbstractStep.execute(AbstractStep.java:200)
at org.springframework.batch.core.job.SimpleStepHandler.handleStep(SimpleStepHandler.java:148)
at org.springframework.batch.core.job.flow.JobFlowExecutor.executeStep(JobFlowExecutor.java:64)
at org.springframework.batch.core.job.flow.support.state.StepState.handle(StepState.java:67)
at org.springframework.batch.core.job.flow.support.SimpleFlow.resume(SimpleFlow.java:169)
at org.springframework.batch.core.job.flow.support.SimpleFlow.start(SimpleFlow.java:144)
at org.springframework.batch.core.job.flow.FlowJob.doExecute(FlowJob.java:134)
at org.springframework.batch.core.job.AbstractJob.execute(AbstractJob.java:306)
at org.springframework.batch.core.launch.support.SimpleJobLauncher$1.run(SimpleJobLauncher.java:135)
at org.springframework.core.task.SyncTaskExecutor.execute(SyncTaskExecutor.java:49)
at org.springframework.batch.core.launch.support.SimpleJobLauncher.run(SimpleJobLauncher.java:128)
Caused by: org.hibernate.StaleObjectStateException: Row was updated or deleted by another transaction (or unsaved-value mapping was incorrect) : [com.batch.jpa.entity.Client#29657]
at org.hibernate.persister.entity.AbstractEntityPersister.check(AbstractEntityPersister.java:2541)
at org.hibernate.persister.entity.AbstractEntityPersister.update(AbstractEntityPersister.java:3285)
at org.hibernate.persister.entity.AbstractEntityPersister.updateOrInsert(AbstractEntityPersister.java:3183)
at org.hibernate.persister.entity.AbstractEntityPersister.update(AbstractEntityPersister.java:3525)
at org.hibernate.action.internal.EntityUpdateAction.execute(EntityUpdateAction.java:158)
at org.hibernate.engine.spi.ActionQueue.executeActions(ActionQueue.java:453)
at org.hibernate.engine.spi.ActionQueue.executeActions(ActionQueue.java:345)
at org.hibernate.event.internal.AbstractFlushingEventListener.performExecutions(AbstractFlushingEventListener.java:350)
at org.hibernate.event.internal.DefaultFlushEventListener.onFlush(DefaultFlushEventListener.java:56)
at org.hibernate.internal.SessionImpl.flush(SessionImpl.java:1218)
at org.hibernate.jpa.spi.AbstractEntityManagerImpl.flush(AbstractEntityManagerImpl.java:1335)
... 61 more
I tried setting custom chunk Policy also but same behavior I have observed.
Can someone help me to handle both scenarios?

How to make Spring batch play nice in Java EE container

I am trying to use Spring Batch in a Java EE container (Websphere 8.0)
I got it working so far, but I'd like it to use a container-provided datasource and transaction manager. (I am using a derby database instead of the default hsql-db)
I copied the baseContext.xml from the spring-batch-core.jar to my classpath, and changed the beans for dataSource and transactionManager. (see below)
It seems to work as far as it seems to be able to start a transaction and access the database, but then it fails with a timeout ("could not obtain IDENTITY value").
Has anyone managed to use a Java EE dataSource with spring batch? I could find nothing online, and the spring batch documentation does not even contain the word "JEE".
This is my adapted baseContext.jar. The original bean definitions for dataSource and transaction manager have been comented out:
<?xml version="1.0" encoding="UTF-8"?>
<beans xmlns="http://www.springframework.org/schema/beans"
xmlns:batch="http://www.springframework.org/schema/batch"
xmlns:jdbc="http://www.springframework.org/schema/jdbc"
xmlns:xsi="http://www.w3.org/2001/XMLSchema-instance"
xmlns:jee="http://www.springframework.org/schema/jee"
xmlns:tx="http://www.springframework.org/schema/tx"
xsi:schemaLocation="http://www.springframework.org/schema/beans
http://www.springframework.org/schema/beans/spring-beans.xsd
http://www.springframework.org/schema/batch
http://www.springframework.org/schema/batch/spring-batch.xsd
http://www.springframework.org/schema/jee
http://www.springframework.org/schema/jee/spring-jee-3.1.xsd
http://www.springframework.org/schema/tx
http://www.springframework.org/schema/tx/spring-tx.xsd
http://www.springframework.org/schema/jdbc
http://www.springframework.org/schema/jdbc/spring-jdbc.xsd">
<tx:jta-transaction-manager />
<jee:jndi-lookup id="dataSource" jndi-name="jbatchSampleDB" expected-type="javax.sql.DataSource" lookup-on-startup="true" cache="true" />
<batch:job-repository data-source="dataSource" id="jobRepository"
transaction-manager="transactionManager" table-prefix="${batch.table.prefix}"/>
<bean id="jobLauncher" class="org.springframework.batch.core.launch.support.SimpleJobLauncher">
<property name="jobRepository" ref="jobRepository"/>
</bean>
<bean id="batchJobOperator" class="org.springframework.batch.core.launch.support.SimpleJobOperator">
<property name="jobExplorer" ref="jobExplorer"/>
<property name="jobLauncher" ref="jobLauncher"/>
<property name="jobRepository" ref="jobRepository"/>
<property name="jobRegistry" ref="jobRegistry"/>
</bean>
<bean id="jobExplorer" class="org.springframework.batch.core.explore.support.JobExplorerFactoryBean">
<property name="dataSource" ref="dataSource"/>
</bean>
<!-- bean id="dataSource" class="org.apache.commons.dbcp.BasicDataSource">
<property name="driverClassName" value="${batch.jdbc.driver}" />
<property name="url" value="${batch.jdbc.url}" />
<property name="username" value="${batch.jdbc.user}" />
<property name="password" value="${batch.jdbc.password}" />
<property name="testWhileIdle" value="${batch.jdbc.testWhileIdle}"/>
<property name="validationQuery" value="${batch.jdbc.validationQuery}"/>
</bean -->
<!-- bean id="transactionManager"
class="org.springframework.jdbc.datasource.DataSourceTransactionManager">
<property name="dataSource" ref="dataSource" />
</bean -->
<!-- Initialise the database if enabled: -->
<jdbc:initialize-database data-source="dataSource" enabled="${batch.data.source.init}" ignore-failures="DROPS">
<jdbc:script location="${batch.drop.script}"/>
<jdbc:script location="${batch.schema.script}"/>
</jdbc:initialize-database>
<bean id="jobParametersConverter" class="org.springframework.batch.core.jsr.JsrJobParametersConverter">
<constructor-arg ref="dataSource"/>
</bean>
<bean id="jobRegistry" class="org.springframework.batch.core.configuration.support.MapJobRegistry"/>
<bean id="placeholderProperties" class="org.springframework.beans.factory.config.PropertyPlaceholderConfigurer">
<property name="locations">
<list>
<value>classpath:batch-${ENVIRONMENT:derby}.properties</value>
</list>
</property>
<property name="systemPropertiesModeName" value="SYSTEM_PROPERTIES_MODE_OVERRIDE" />
<property name="ignoreResourceNotFound" value="true" />
<property name="ignoreUnresolvablePlaceholders" value="false" />
<property name="order" value="1" />
</bean>
</beans>
These are the errors I am getting:
[21.10.14 11:00:27:961 CEST] 0000002a WSRdbXaResour E DSRA0302E: XAException occurred. Error code is: XA_RBTIMEOUT (106). Exception is: XA_RBTIMEOUT : Fehler beim Ausführen von XAResource.end(). Der Server hat Folgendes zurückgegeben: XA_RBTIMEOUT
[21.10.14 11:00:28:050 CEST] 0000002a FfdcProvider W com.ibm.ws.ffdc.impl.FfdcProvider logIncident FFDC1003I: FFDC Incident emitted on C:\Program Files (x86)\IBM\WebSphere\AppServer\profiles\AppSrv01\logs\ffdc\server1_df9126ba_14.10.21_11.00.27.962173746269389570625.txt com.ibm.ejs.j2c.XATransactionWrapper.end 417
[21.10.14 11:00:28:050 CEST] 0000002a XATransaction E J2CA0027E: An exception occurred while invoking end on an XA Resource Adapter from DataSource jbatchSampleDB, within transaction ID {XidImpl: formatId(57415344), gtrid_length(36), bqual_length(54),
data(0000014931eeb4a80000000247b5d940930c671bd3532a7d4a65bea7645c1bb4338195240000014931eeb4a80000000247b5d940930c671bd3532a7d4a65bea7645c1bb433819524000000010000000000000000000000000001)} : org.apache.derby.client.am.XaException: XA_RBTIMEOUT : Fehler beim Ausführen von XAResource.end(). Der Server hat Folgendes zurückgegeben: XA_RBTIMEOUT
at org.apache.derby.client.net.NetXAResource.throwXAException(Unknown Source)
at org.apache.derby.client.net.NetXAResource.end(Unknown Source)
at com.ibm.ws.rsadapter.spi.WSRdbXaResourceImpl.end(WSRdbXaResourceImpl.java:623)
at com.ibm.ejs.j2c.XATransactionWrapper.end(XATransactionWrapper.java:608)
at com.ibm.ws.Transaction.JTA.JTAResourceBase.end(JTAResourceBase.java:254)
at com.ibm.tx.jta.impl.RegisteredResources.sendEnd(RegisteredResources.java:1152)
at com.ibm.tx.jta.impl.RegisteredResources.distributeEnd(RegisteredResources.java:1128)
at com.ibm.tx.jta.impl.TransactionImpl.internalRollback(TransactionImpl.java:1992)
at com.ibm.tx.jta.impl.TransactionImpl.internalRollback(TransactionImpl.java:1957)
at com.ibm.tx.jta.impl.TransactionImpl.rollback(TransactionImpl.java:1359)
at com.ibm.ws.tx.jta.TransactionImpl.rollback(TransactionImpl.java:3608)
at com.ibm.ws.tx.jta.TranManagerImpl.rollback(TranManagerImpl.java:478)
at com.ibm.tx.jta.impl.TranManagerSet.rollback(TranManagerSet.java:206)
at com.ibm.ws.uow.UOWManagerImpl.uowRollback(UOWManagerImpl.java:829)
at com.ibm.ws.uow.EmbeddableUOWManagerImpl.uowEnd(EmbeddableUOWManagerImpl.java:855)
at com.ibm.ws.uow.UOWManagerImpl.uowEnd(UOWManagerImpl.java:777)
at com.ibm.ws.uow.EmbeddableUOWManagerImpl.runUnderNewUOW(EmbeddableUOWManagerImpl.java:814)
at com.ibm.ws.uow.EmbeddableUOWManagerImpl.runUnderUOW(EmbeddableUOWManagerImpl.java:366)
at org.springframework.transaction.jta.WebSphereUowTransactionManager.execute(WebSphereUowTransactionManager.java:290)
at org.springframework.transaction.interceptor.TransactionAspectSupport.invokeWithinTransaction(TransactionAspectSupport.java:279)
at org.springframework.transaction.interceptor.TransactionInterceptor.invoke(TransactionInterceptor.java:95)
at org.springframework.aop.framework.ReflectiveMethodInvocation.proceed(ReflectiveMethodInvocation.java:179)
at org.springframework.batch.core.repository.support.AbstractJobRepositoryFactoryBean$1.invoke(AbstractJobRepositoryFactoryBean.java:172)
at org.springframework.aop.framework.ReflectiveMethodInvocation.proceed(ReflectiveMethodInvocation.java:179)
at org.springframework.aop.framework.JdkDynamicAopProxy.invoke(JdkDynamicAopProxy.java:207)
at com.sun.proxy.$Proxy52.createJobInstance(Unknown Source)
at org.springframework.batch.core.jsr.launch.JsrJobOperator.start(JsrJobOperator.java:630)
at vwg.jbatchtest.ejb.BatchMonitorEJB.startJob(BatchMonitorEJB.java:32)
at vwg.jbatchtest.ejb.EJSLocalNSFBatchMonitorEJB_88c81e47.startJob(EJSLocalNSFBatchMonitorEJB_88c81e47.java)
at vwg.jbatchtest.ui.controller.BatchMonitorUIController.getStatus(BatchMonitorUIController.java:19)
at sun.reflect.NativeMethodAccessorImpl.invoke0(Native Method)
at sun.reflect.NativeMethodAccessorImpl.invoke(NativeMethodAccessorImpl.java:60)
at sun.reflect.DelegatingMethodAccessorImpl.invoke(DelegatingMethodAccessorImpl.java:37)
at java.lang.reflect.Method.invoke(Method.java:611)
at org.apache.webbeans.intercept.InterceptorHandler.invoke(InterceptorHandler.java:297)
at org.apache.webbeans.intercept.NormalScopedBeanInterceptorHandler.invoke(NormalScopedBeanInterceptorHandler.java:98)
at vwg.jbatchtest.ui.controller.BatchMonitorUIController_$$_javassist_1.getStatus(BatchMonitorUIController_$$_javassist_1.java)
at sun.reflect.NativeMethodAccessorImpl.invoke0(Native Method)
at sun.reflect.NativeMethodAccessorImpl.invoke(NativeMethodAccessorImpl.java:60)
at sun.reflect.DelegatingMethodAccessorImpl.invoke(DelegatingMethodAccessorImpl.java:37)
at java.lang.reflect.Method.invoke(Method.java:611)
at javax.el.BeanELResolver.getValue(BeanELResolver.java:91)
at javax.el.CompositeELResolver.getValue(CompositeELResolver.java:55)
at org.apache.myfaces.el.unified.resolver.FacesCompositeELResolver.getValue(FacesCompositeELResolver.java:142)
at org.apache.el.parser.AstValue.getValue(AstValue.java:174)
at org.apache.el.ValueExpressionImpl.getValue(ValueExpressionImpl.java:283)
at org.apache.webbeans.el.WrappedValueExpression.getValue(WrappedValueExpression.java:68)
at org.apache.myfaces.view.facelets.el.TagValueExpression.getValue(TagValueExpression.java:85)
at javax.faces.component._DeltaStateHelper.eval(_DeltaStateHelper.java:243)
at javax.faces.component.UIOutput.getValue(UIOutput.java:71)
at org.apache.myfaces.shared_impl.renderkit.RendererUtils.getValue(RendererUtils.java:343)
at org.apache.myfaces.shared_impl.renderkit.RendererUtils.getStringValue(RendererUtils.java:295)
at org.apache.myfaces.renderkit.html.HtmlLabelRenderer.encodeBegin(HtmlLabelRenderer.java:126)
at javax.faces.component.UIComponentBase.encodeBegin(UIComponentBase.java:502)
at javax.faces.component.UIComponent.encodeAll(UIComponent.java:613)
at javax.faces.component.UIComponent.encodeAll(UIComponent.java:622)
at org.apache.myfaces.view.facelets.FaceletViewDeclarationLanguage.renderView(FaceletViewDeclarationLanguage.java:1364)
at org.apache.myfaces.application.ViewHandlerImpl.renderView(ViewHandlerImpl.java:263)
at javax.faces.application.ViewHandlerWrapper.renderView(ViewHandlerWrapper.java:59)
at org.apache.myfaces.lifecycle.RenderResponseExecutor.execute(RenderResponseExecutor.java:85)
at org.apache.myfaces.lifecycle.LifecycleImpl.render(LifecycleImpl.java:240)
at javax.faces.webapp.FacesServlet.service(FacesServlet.java:191)
at com.ibm.ws.webcontainer.servlet.ServletWrapper.service(ServletWrapper.java:1230)
at com.ibm.ws.webcontainer.servlet.ServletWrapper.handleRequest(ServletWrapper.java:779)
at com.ibm.ws.webcontainer.servlet.ServletWrapper.handleRequest(ServletWrapper.java:478)
at com.ibm.ws.webcontainer.servlet.ServletWrapperImpl.handleRequest(ServletWrapperImpl.java:178)
at com.ibm.ws.webcontainer.filter.WebAppFilterManager.invokeFilters(WebAppFilterManager.java:1071)
at com.ibm.ws.webcontainer.webapp.WebAppRequestDispatcher.dispatch(WebAppRequestDispatcher.java:1385)
at com.ibm.ws.webcontainer.webapp.WebAppRequestDispatcher.forward(WebAppRequestDispatcher.java:194)
at com.ibm.ws.webcontainer.extension.DefaultExtensionProcessor.handleRequest(DefaultExtensionProcessor.java:654)
at com.ibm.ws.webcontainer.filter.WebAppFilterManager.invokeFilters(WebAppFilterManager.java:1071)
at com.ibm.ws.webcontainer.webapp.WebApp.handleRequest(WebApp.java:3774)
at com.ibm.ws.webcontainer.webapp.WebGroup.handleRequest(WebGroup.java:304)
at com.ibm.ws.webcontainer.WebContainer.handleRequest(WebContainer.java:981)
at com.ibm.ws.webcontainer.WSWebContainer.handleRequest(WSWebContainer.java:1662)
at com.ibm.ws.webcontainer.channel.WCChannelLink.ready(WCChannelLink.java:200)
at com.ibm.ws.http.channel.inbound.impl.HttpInboundLink.handleDiscrimination(HttpInboundLink.java:453)
at com.ibm.ws.http.channel.inbound.impl.HttpInboundLink.handleNewRequest(HttpInboundLink.java:515)
at com.ibm.ws.http.channel.inbound.impl.HttpInboundLink.processRequest(HttpInboundLink.java:306)
at com.ibm.ws.http.channel.inbound.impl.HttpInboundLink.ready(HttpInboundLink.java:277)
at com.ibm.ws.tcp.channel.impl.NewConnectionInitialReadCallback.sendToDiscriminators(NewConnectionInitialReadCallback.java:214)
at com.ibm.ws.tcp.channel.impl.NewConnectionInitialReadCallback.complete(NewConnectionInitialReadCallback.java:113)
at com.ibm.ws.tcp.channel.impl.AioReadCompletionListener.futureCompleted(AioReadCompletionListener.java:175)
at com.ibm.io.async.AbstractAsyncFuture.invokeCallback(AbstractAsyncFuture.java:217)
at com.ibm.io.async.AsyncChannelFuture.fireCompletionActions(AsyncChannelFuture.java:161)
at com.ibm.io.async.AsyncFuture.completed(AsyncFuture.java:138)
at com.ibm.io.async.ResultHandler.complete(ResultHandler.java:204)
at com.ibm.io.async.ResultHandler.runEventProcessingLoop(ResultHandler.java:775)
at com.ibm.io.async.ResultHandler$2.run(ResultHandler.java:905)
at com.ibm.ws.util.ThreadPool$Worker.run(ThreadPool.java:1702)
Caused by: org.apache.derby.client.am.SqlException: Fehler beim Ausführen von XAResource.end(). Der Server hat Folgendes zurückgegeben: XA_RBTIMEOUT
at org.apache.derby.client.net.NetXAResource.xaRetValErrorAccumSQL(Unknown Source)
... 89 more
.
[21.10.14 11:00:28:087 CEST] 0000002a FfdcProvider W com.ibm.ws.ffdc.impl.FfdcProvider logIncident FFDC1003I: FFDC Incident emitted on C:\Program Files (x86)\IBM\WebSphere\AppServer\profiles\AppSrv01\logs\ffdc\server1_df9126ba_14.10.21_11.00.28.0529176547779395125373.txt com.ibm.ws.tx.jta.JTAXAResourceImpl.end 307
[21.10.14 11:00:28:088 CEST] 0000002a BusinessExcep E CNTR0020E: EJB threw an unexpected (non-declared) exception during invocation of method "startJob" on bean "BeanId(jbatchTestAppl-EAR#jbatchTestAppl-EJB.jar#BatchMonitorEJB, 31EEAC2F-0149-4000-E000-15B00AB49C66)". Exception data: javax.batch.operations.JobStartException: org.springframework.dao.DataAccessResourceFailureException: Could not obtain IDENTITY value; nested exception is java.sql.SQLTransactionRollbackException: Eine Sperre konnte innerhalb der vorgegebenen Zeit nicht angefordert werden.
at org.springframework.batch.core.jsr.launch.JsrJobOperator.start(JsrJobOperator.java:633)
at vwg.jbatchtest.ejb.BatchMonitorEJB.startJob(BatchMonitorEJB.java:32)
at vwg.jbatchtest.ejb.EJSLocalNSFBatchMonitorEJB_88c81e47.startJob(EJSLocalNSFBatchMonitorEJB_88c81e47.java)
at vwg.jbatchtest.ui.controller.BatchMonitorUIController.getStatus(BatchMonitorUIController.java:19)
at sun.reflect.NativeMethodAccessorImpl.invoke0(Native Method)
at sun.reflect.NativeMethodAccessorImpl.invoke(NativeMethodAccessorImpl.java:60)
at sun.reflect.DelegatingMethodAccessorImpl.invoke(DelegatingMethodAccessorImpl.java:37)
at java.lang.reflect.Method.invoke(Method.java:611)
at org.apache.webbeans.intercept.InterceptorHandler.invoke(InterceptorHandler.java:297)
at org.apache.webbeans.intercept.NormalScopedBeanInterceptorHandler.invoke(NormalScopedBeanInterceptorHandler.java:98)
at vwg.jbatchtest.ui.controller.BatchMonitorUIController_$$_javassist_1.getStatus(BatchMonitorUIController_$$_javassist_1.java)
at sun.reflect.NativeMethodAccessorImpl.invoke0(Native Method)
at sun.reflect.NativeMethodAccessorImpl.invoke(NativeMethodAccessorImpl.java:60)
at sun.reflect.DelegatingMethodAccessorImpl.invoke(DelegatingMethodAccessorImpl.java:37)
at java.lang.reflect.Method.invoke(Method.java:611)
at javax.el.BeanELResolver.getValue(BeanELResolver.java:91)
at javax.el.CompositeELResolver.getValue(CompositeELResolver.java:55)
at org.apache.myfaces.el.unified.resolver.FacesCompositeELResolver.getValue(FacesCompositeELResolver.java:142)
at org.apache.el.parser.AstValue.getValue(AstValue.java:174)
at org.apache.el.ValueExpressionImpl.getValue(ValueExpressionImpl.java:283)
at org.apache.webbeans.el.WrappedValueExpression.getValue(WrappedValueExpression.java:68)
at org.apache.myfaces.view.facelets.el.TagValueExpression.getValue(TagValueExpression.java:85)
at javax.faces.component._DeltaStateHelper.eval(_DeltaStateHelper.java:243)
at javax.faces.component.UIOutput.getValue(UIOutput.java:71)
at org.apache.myfaces.shared_impl.renderkit.RendererUtils.getValue(RendererUtils.java:343)
at org.apache.myfaces.shared_impl.renderkit.RendererUtils.getStringValue(RendererUtils.java:295)
at org.apache.myfaces.renderkit.html.HtmlLabelRenderer.encodeBegin(HtmlLabelRenderer.java:126)
at javax.faces.component.UIComponentBase.encodeBegin(UIComponentBase.java:502)
at javax.faces.component.UIComponent.encodeAll(UIComponent.java:613)
at javax.faces.component.UIComponent.encodeAll(UIComponent.java:622)
at org.apache.myfaces.view.facelets.FaceletViewDeclarationLanguage.renderView(FaceletViewDeclarationLanguage.java:1364)
at org.apache.myfaces.application.ViewHandlerImpl.renderView(ViewHandlerImpl.java:263)
at javax.faces.application.ViewHandlerWrapper.renderView(ViewHandlerWrapper.java:59)
at org.apache.myfaces.lifecycle.RenderResponseExecutor.execute(RenderResponseExecutor.java:85)
at org.apache.myfaces.lifecycle.LifecycleImpl.render(LifecycleImpl.java:240)
at javax.faces.webapp.FacesServlet.service(FacesServlet.java:191)
at com.ibm.ws.webcontainer.servlet.ServletWrapper.service(ServletWrapper.java:1230)
at com.ibm.ws.webcontainer.servlet.ServletWrapper.handleRequest(ServletWrapper.java:779)
at com.ibm.ws.webcontainer.servlet.ServletWrapper.handleRequest(ServletWrapper.java:478)
at com.ibm.ws.webcontainer.servlet.ServletWrapperImpl.handleRequest(ServletWrapperImpl.java:178)
at com.ibm.ws.webcontainer.filter.WebAppFilterManager.invokeFilters(WebAppFilterManager.java:1071)
at com.ibm.ws.webcontainer.webapp.WebAppRequestDispatcher.dispatch(WebAppRequestDispatcher.java:1385)
at com.ibm.ws.webcontainer.webapp.WebAppRequestDispatcher.forward(WebAppRequestDispatcher.java:194)
at com.ibm.ws.webcontainer.extension.DefaultExtensionProcessor.handleRequest(DefaultExtensionProcessor.java:654)
at com.ibm.ws.webcontainer.filter.WebAppFilterManager.invokeFilters(WebAppFilterManager.java:1071)
at com.ibm.ws.webcontainer.webapp.WebApp.handleRequest(WebApp.java:3774)
at com.ibm.ws.webcontainer.webapp.WebGroup.handleRequest(WebGroup.java:304)
at com.ibm.ws.webcontainer.WebContainer.handleRequest(WebContainer.java:981)
at com.ibm.ws.webcontainer.WSWebContainer.handleRequest(WSWebContainer.java:1662)
at com.ibm.ws.webcontainer.channel.WCChannelLink.ready(WCChannelLink.java:200)
at com.ibm.ws.http.channel.inbound.impl.HttpInboundLink.handleDiscrimination(HttpInboundLink.java:453)
at com.ibm.ws.http.channel.inbound.impl.HttpInboundLink.handleNewRequest(HttpInboundLink.java:515)
at com.ibm.ws.http.channel.inbound.impl.HttpInboundLink.processRequest(HttpInboundLink.java:306)
at com.ibm.ws.http.channel.inbound.impl.HttpInboundLink.ready(HttpInboundLink.java:277)
at com.ibm.ws.tcp.channel.impl.NewConnectionInitialReadCallback.sendToDiscriminators(NewConnectionInitialReadCallback.java:214)
at com.ibm.ws.tcp.channel.impl.NewConnectionInitialReadCallback.complete(NewConnectionInitialReadCallback.java:113)
at com.ibm.ws.tcp.channel.impl.AioReadCompletionListener.futureCompleted(AioReadCompletionListener.java:175)
at com.ibm.io.async.AbstractAsyncFuture.invokeCallback(AbstractAsyncFuture.java:217)
at com.ibm.io.async.AsyncChannelFuture.fireCompletionActions(AsyncChannelFuture.java:161)
at com.ibm.io.async.AsyncFuture.completed(AsyncFuture.java:138)
at com.ibm.io.async.ResultHandler.complete(ResultHandler.java:204)
at com.ibm.io.async.ResultHandler.runEventProcessingLoop(ResultHandler.java:775)
at com.ibm.io.async.ResultHandler$2.run(ResultHandler.java:905)
at com.ibm.ws.util.ThreadPool$Worker.run(ThreadPool.java:1702)
Caused by: org.springframework.dao.DataAccessResourceFailureException: Could not obtain IDENTITY value; nested exception is java.sql.SQLTransactionRollbackException: Eine Sperre konnte innerhalb der vorgegebenen Zeit nicht angefordert werden.
at org.springframework.jdbc.support.incrementer.DerbyMaxValueIncrementer.getNextKey(DerbyMaxValueIncrementer.java:160)
at org.springframework.jdbc.support.incrementer.AbstractDataFieldMaxValueIncrementer.nextLongValue(AbstractDataFieldMaxValueIncrementer.java:128)
at org.springframework.batch.core.repository.dao.JdbcJobInstanceDao.createJobInstance(JdbcJobInstanceDao.java:108)
at org.springframework.batch.core.repository.support.SimpleJobRepository.createJobInstance(SimpleJobRepository.java:303)
at sun.reflect.NativeMethodAccessorImpl.invoke0(Native Method)
at sun.reflect.NativeMethodAccessorImpl.invoke(NativeMethodAccessorImpl.java:60)
at sun.reflect.DelegatingMethodAccessorImpl.invoke(DelegatingMethodAccessorImpl.java:37)
at java.lang.reflect.Method.invoke(Method.java:611)
at org.springframework.aop.support.AopUtils.invokeJoinpointUsingReflection(AopUtils.java:317)
at org.springframework.aop.framework.ReflectiveMethodInvocation.invokeJoinpoint(ReflectiveMethodInvocation.java:190)
at org.springframework.aop.framework.ReflectiveMethodInvocation.proceed(ReflectiveMethodInvocation.java:157)
at org.springframework.transaction.interceptor.TransactionInterceptor$1.proceedWithInvocation(TransactionInterceptor.java:98)
at org.springframework.transaction.interceptor.TransactionAspectSupport$1.doInTransaction(TransactionAspectSupport.java:285)
at org.springframework.transaction.jta.WebSphereUowTransactionManager$UOWActionAdapter.run(WebSphereUowTransactionManager.java:347)
at com.ibm.ws.uow.EmbeddableUOWManagerImpl.runUnderNewUOW(EmbeddableUOWManagerImpl.java:787)
at com.ibm.ws.uow.EmbeddableUOWManagerImpl.runUnderUOW(EmbeddableUOWManagerImpl.java:366)
at org.springframework.transaction.jta.WebSphereUowTransactionManager.execute(WebSphereUowTransactionManager.java:290)
at org.springframework.transaction.interceptor.TransactionAspectSupport.invokeWithinTransaction(TransactionAspectSupport.java:279)
at org.springframework.transaction.interceptor.TransactionInterceptor.invoke(TransactionInterceptor.java:95)
at org.springframework.aop.framework.ReflectiveMethodInvocation.proceed(ReflectiveMethodInvocation.java:179)
at org.springframework.batch.core.repository.support.AbstractJobRepositoryFactoryBean$1.invoke(AbstractJobRepositoryFactoryBean.java:172)
at org.springframework.aop.framework.ReflectiveMethodInvocation.proceed(ReflectiveMethodInvocation.java:179)
at org.springframework.aop.framework.JdkDynamicAopProxy.invoke(JdkDynamicAopProxy.java:207)
at com.sun.proxy.$Proxy52.createJobInstance(Unknown Source)
at org.springframework.batch.core.jsr.launch.JsrJobOperator.start(JsrJobOperator.java:630)
... 63 more
Caused by: java.sql.SQLTransactionRollbackException: Eine Sperre konnte innerhalb der vorgegebenen Zeit nicht angefordert werden.
at org.apache.derby.client.am.SQLExceptionFactory40.getSQLException(Unknown Source)
at org.apache.derby.client.am.SqlException.getSQLException(Unknown Source)
at org.apache.derby.client.am.Statement.executeQuery(Unknown Source)
at com.ibm.ws.rsadapter.jdbc.WSJdbcStatement.pmiExecuteQuery(WSJdbcStatement.java:1723)
at com.ibm.ws.rsadapter.jdbc.WSJdbcStatement.executeQuery(WSJdbcStatement.java:1014)
at org.springframework.jdbc.support.incrementer.DerbyMaxValueIncrementer.getNextKey(DerbyMaxValueIncrementer.java:145)
... 87 more
Caused by: org.apache.derby.client.am.SqlException: Eine Sperre konnte innerhalb der vorgegebenen Zeit nicht angefordert werden.
at org.apache.derby.client.am.Statement.completeSqlca(Unknown Source)
at org.apache.derby.client.net.NetStatementReply.parseOpenQueryError(Unknown Source)
at org.apache.derby.client.net.NetStatementReply.parseOPNQRYreply(Unknown Source)
at org.apache.derby.client.net.NetStatementReply.readOpenQuery(Unknown Source)
at org.apache.derby.client.net.StatementReply.readOpenQuery(Unknown Source)
at org.apache.derby.client.net.NetStatement.readOpenQuery_(Unknown Source)
at org.apache.derby.client.am.Statement.readOpenQuery(Unknown Source)
at org.apache.derby.client.am.Statement.flowExecute(Unknown Source)
at org.apache.derby.client.am.Statement.executeQueryX(Unknown Source)
... 91 more
The german error message of the last few exceptions ("Eine Sperre konnte innerhalb der vorgegebenen Zeit nicht angefordert werden.") translates roughly to "A lock could not be obtained in the specified time"

Broken pipe with jpa 2.1, Hibernate 4.3.7 and C3P0

I have a problem of broken pipe in my software. I'm using Hibernate 4.3.7 and JPA 2.1 Final along with C3P0, I've tried everything, but still giving broken pipe when the time expires MySQL.
Logs from tomcat:
ERROR: The last packet successfully received from the server was 57,069,477 milliseconds ago. The last packet sent successfully to the server was 57,069,477 milliseconds ago. is longer than the server configured value of 'wait_timeout'. You should consider either expiring and/or testing connection validity before use in your application, increasing the server configured values for client timeouts, or using the Connector/J connection property 'autoReconnect=true' to avoid this problem.
Nov 06, 2014 8:27:23 AM com.sun.faces.lifecycle.InvokeApplicationPhase execute
WARNING: #{controleLogin.efetuarLogin()}: javax.persistence.PersistenceException: org.hibernate.exception.JDBCConnectionException: could not extract ResultSet
javax.faces.FacesException: #{controleLogin.efetuarLogin()}: javax.persistence.PersistenceException: org.hibernate.exception.JDBCConnectionException: could not extract ResultSet
at com.sun.faces.application.ActionListenerImpl.processAction(ActionListenerImpl.java:118)
at javax.faces.component.UICommand.broadcast(UICommand.java:315)
at javax.faces.component.UIViewRoot.broadcastEvents(UIViewRoot.java:790)
at javax.faces.component.UIViewRoot.processApplication(UIViewRoot.java:1282)
at com.sun.faces.lifecycle.InvokeApplicationPhase.execute(InvokeApplicationPhase.java:81)
at com.sun.faces.lifecycle.Phase.doPhase(Phase.java:101)
at com.sun.faces.lifecycle.LifecycleImpl.execute(LifecycleImpl.java:198)
at javax.faces.webapp.FacesServlet.service(FacesServlet.java:646)
at org.apache.catalina.core.ApplicationFilterChain.internalDoFilter(ApplicationFilterChain.java:305)
at org.apache.catalina.core.ApplicationFilterChain.doFilter(ApplicationFilterChain.java:210)
at org.primefaces.webapp.filter.FileUploadFilter.doFilter(FileUploadFilter.java:72)
at org.apache.catalina.core.ApplicationFilterChain.internalDoFilter(ApplicationFilterChain.java:243)
at org.apache.catalina.core.ApplicationFilterChain.doFilter(ApplicationFilterChain.java:210)
at org.apache.catalina.core.StandardWrapperValve.invoke(StandardWrapperValve.java:222)
at org.apache.catalina.core.StandardContextValve.invoke(StandardContextValve.java:123)
at org.apache.catalina.authenticator.AuthenticatorBase.invoke(AuthenticatorBase.java:472)
at org.apache.catalina.core.StandardHostValve.invoke(StandardHostValve.java:171)
at org.apache.catalina.valves.ErrorReportValve.invoke(ErrorReportValve.java:99)
at org.apache.catalina.valves.AccessLogValve.invoke(AccessLogValve.java:936)
at org.apache.catalina.core.StandardEngineValve.invoke(StandardEngineValve.java:118)
at org.apache.catalina.connector.CoyoteAdapter.service(CoyoteAdapter.java:407)
at org.apache.coyote.ajp.AjpProcessor.process(AjpProcessor.java:200)
at org.apache.coyote.AbstractProtocol$AbstractConnectionHandler.process(AbstractProtocol.java:589)
at org.apache.tomcat.util.net.JIoEndpoint$SocketProcessor.run(JIoEndpoint.java:310)
at java.util.concurrent.ThreadPoolExecutor.runWorker(ThreadPoolExecutor.java:1145)
at java.util.concurrent.ThreadPoolExecutor$Worker.run(ThreadPoolExecutor.java:615)
at java.lang.Thread.run(Thread.java:744)
Caused by: javax.faces.el.EvaluationException: javax.persistence.PersistenceException: org.hibernate.exception.JDBCConnectionException: could not extract ResultSet
at javax.faces.component.MethodBindingMethodExpressionAdapter.invoke(MethodBindingMethodExpressionAdapter.java:101)
at com.sun.faces.application.ActionListenerImpl.processAction(ActionListenerImpl.java:102)
... 26 more
Caused by: javax.persistence.PersistenceException: org.hibernate.exception.JDBCConnectionException: could not extract ResultSet
at org.hibernate.jpa.spi.AbstractEntityManagerImpl.convert(AbstractEntityManagerImpl.java:1763)
at org.hibernate.jpa.spi.AbstractEntityManagerImpl.convert(AbstractEntityManagerImpl.java:1677)
at org.hibernate.jpa.internal.QueryImpl.getResultList(QueryImpl.java:458)
at br.com.clikyapp1.modelo.UsuarioDAO.login(UsuarioDAO.java:26)
at br.com.clikyapp1.controle.ControleLogin.efetuarLogin(ControleLogin.java:29)
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:606)
at org.apache.el.parser.AstValue.invoke(AstValue.java:278)
at org.apache.el.MethodExpressionImpl.invoke(MethodExpressionImpl.java:274)
at com.sun.faces.facelets.el.TagMethodExpression.invoke(TagMethodExpression.java:105)
at javax.faces.component.MethodBindingMethodExpressionAdapter.invoke(MethodBindingMethodExpressionAdapter.java:87)
... 27 more
Caused by: org.hibernate.exception.JDBCConnectionException: could not extract ResultSet
at org.hibernate.exception.internal.SQLStateConversionDelegate.convert(SQLStateConversionDelegate.java:132)
at org.hibernate.exception.internal.StandardSQLExceptionConverter.convert(StandardSQLExceptionConverter.java:49)
at org.hibernate.engine.jdbc.spi.SqlExceptionHelper.convert(SqlExceptionHelper.java:126)
at org.hibernate.engine.jdbc.spi.SqlExceptionHelper.convert(SqlExceptionHelper.java:112)
at org.hibernate.engine.jdbc.internal.ResultSetReturnImpl.extract(ResultSetReturnImpl.java:91)
at org.hibernate.loader.Loader.getResultSet(Loader.java:2066)
at org.hibernate.loader.Loader.executeQueryStatement(Loader.java:1863)
at org.hibernate.loader.Loader.executeQueryStatement(Loader.java:1839)
at org.hibernate.loader.Loader.doQuery(Loader.java:910)
at org.hibernate.loader.Loader.doQueryAndInitializeNonLazyCollections(Loader.java:355)
at org.hibernate.loader.Loader.doList(Loader.java:2554)
at org.hibernate.loader.Loader.doList(Loader.java:2540)
at org.hibernate.loader.Loader.listIgnoreQueryCache(Loader.java:2370)
at org.hibernate.loader.Loader.list(Loader.java:2365)
at org.hibernate.loader.hql.QueryLoader.list(QueryLoader.java:497)
at org.hibernate.hql.internal.ast.QueryTranslatorImpl.list(QueryTranslatorImpl.java:387)
at org.hibernate.engine.query.spi.HQLQueryPlan.performList(HQLQueryPlan.java:236)
at org.hibernate.internal.SessionImpl.list(SessionImpl.java:1264)
at org.hibernate.internal.QueryImpl.list(QueryImpl.java:103)
at org.hibernate.jpa.internal.QueryImpl.list(QueryImpl.java:573)
at org.hibernate.jpa.internal.QueryImpl.getResultList(QueryImpl.java:449)
... 37 more
Caused by: com.mysql.jdbc.exceptions.jdbc4.CommunicationsException: The last packet successfully received from the server was 57,069,477 milliseconds ago. The last packet sent successfully to the server was 57,069,477 milliseconds ago. is longer than the server configured value of 'wait_timeout'. You should consider either expiring and/or testing connection validity before use in your application, increasing the server configured values for client timeouts, or using the Connector/J connection property 'autoReconnect=true' to avoid this problem.
at sun.reflect.NativeConstructorAccessorImpl.newInstance0(Native Method)
at sun.reflect.NativeConstructorAccessorImpl.newInstance(NativeConstructorAccessorImpl.java:57)
at sun.reflect.DelegatingConstructorAccessorImpl.newInstance(DelegatingConstructorAccessorImpl.java:45)
at java.lang.reflect.Constructor.newInstance(Constructor.java:526)
at com.mysql.jdbc.Util.handleNewInstance(Util.java:408)
at com.mysql.jdbc.SQLError.createCommunicationsException(SQLError.java:1137)
at com.mysql.jdbc.MysqlIO.send(MysqlIO.java:3983)
at com.mysql.jdbc.MysqlIO.sendCommand(MysqlIO.java:2596)
at com.mysql.jdbc.MysqlIO.sqlQueryDirect(MysqlIO.java:2776)
at com.mysql.jdbc.ConnectionImpl.execSQL(ConnectionImpl.java:2840)
at com.mysql.jdbc.PreparedStatement.executeInternal(PreparedStatement.java:2082)
at com.mysql.jdbc.PreparedStatement.executeQuery(PreparedStatement.java:2212)
at com.mchange.v2.c3p0.impl.NewProxyPreparedStatement.executeQuery(NewProxyPreparedStatement.java:116)
at org.hibernate.engine.jdbc.internal.ResultSetReturnImpl.extract(ResultSetReturnImpl.java:82)
... 53 more
Caused by: java.net.SocketException: Broken pipe
at java.net.SocketOutputStream.socketWrite0(Native Method)
at java.net.SocketOutputStream.socketWrite(SocketOutputStream.java:113)
at java.net.SocketOutputStream.write(SocketOutputStream.java:159)
at java.io.BufferedOutputStream.flushBuffer(BufferedOutputStream.java:82)
at java.io.BufferedOutputStream.flush(BufferedOutputStream.java:140)
at com.mysql.jdbc.MysqlIO.send(MysqlIO.java:3964)
... 60 more
Nov 06, 2014 8:27:23 AM com.sun.faces.context.AjaxExceptionHandlerImpl handlePartialResponseError
SEVERE: javax.faces.el.EvaluationException: javax.persistence.PersistenceException: org.hibernate.exception.JDBCConnectionException: could not extract ResultSet
at javax.faces.component.MethodBindingMethodExpressionAdapter.invoke(MethodBindingMethodExpressionAdapter.java:101)
at com.sun.faces.application.ActionListenerImpl.processAction(ActionListenerImpl.java:102)
at javax.faces.component.UICommand.broadcast(UICommand.java:315)
at javax.faces.component.UIViewRoot.broadcastEvents(UIViewRoot.java:790)
at javax.faces.component.UIViewRoot.processApplication(UIViewRoot.java:1282)
at com.sun.faces.lifecycle.InvokeApplicationPhase.execute(InvokeApplicationPhase.java:81)
at com.sun.faces.lifecycle.Phase.doPhase(Phase.java:101)
at com.sun.faces.lifecycle.LifecycleImpl.execute(LifecycleImpl.java:198)
at javax.faces.webapp.FacesServlet.service(FacesServlet.java:646)
at org.apache.catalina.core.ApplicationFilterChain.internalDoFilter(ApplicationFilterChain.java:305)
at org.apache.catalina.core.ApplicationFilterChain.doFilter(ApplicationFilterChain.java:210)
at org.primefaces.webapp.filter.FileUploadFilter.doFilter(FileUploadFilter.java:72)
at org.apache.catalina.core.ApplicationFilterChain.internalDoFilter(ApplicationFilterChain.java:243)
at org.apache.catalina.core.ApplicationFilterChain.doFilter(ApplicationFilterChain.java:210)
at org.apache.catalina.core.StandardWrapperValve.invoke(StandardWrapperValve.java:222)
at org.apache.catalina.core.StandardContextValve.invoke(StandardContextValve.java:123)
at org.apache.catalina.authenticator.AuthenticatorBase.invoke(AuthenticatorBase.java:472)
at org.apache.catalina.core.StandardHostValve.invoke(StandardHostValve.java:171)
at org.apache.catalina.valves.ErrorReportValve.invoke(ErrorReportValve.java:99)
at org.apache.catalina.valves.AccessLogValve.invoke(AccessLogValve.java:936)
at org.apache.catalina.core.StandardEngineValve.invoke(StandardEngineValve.java:118)
at org.apache.catalina.connector.CoyoteAdapter.service(CoyoteAdapter.java:407)
at org.apache.coyote.ajp.AjpProcessor.process(AjpProcessor.java:200)
at org.apache.coyote.AbstractProtocol$AbstractConnectionHandler.process(AbstractProtocol.java:589)
at org.apache.tomcat.util.net.JIoEndpoint$SocketProcessor.run(JIoEndpoint.java:310)
at java.util.concurrent.ThreadPoolExecutor.runWorker(ThreadPoolExecutor.java:1145)
at java.util.concurrent.ThreadPoolExecutor$Worker.run(ThreadPoolExecutor.java:615)
at java.lang.Thread.run(Thread.java:744)
Caused by: javax.persistence.PersistenceException: org.hibernate.exception.JDBCConnectionException: could not extract ResultSet
at org.hibernate.jpa.spi.AbstractEntityManagerImpl.convert(AbstractEntityManagerImpl.java:1763)
at org.hibernate.jpa.spi.AbstractEntityManagerImpl.convert(AbstractEntityManagerImpl.java:1677)
at org.hibernate.jpa.internal.QueryImpl.getResultList(QueryImpl.java:458)
at br.com.clikyapp1.modelo.UsuarioDAO.login(UsuarioDAO.java:26)
at br.com.clikyapp1.controle.ControleLogin.efetuarLogin(ControleLogin.java:29)
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:606)
at org.apache.el.parser.AstValue.invoke(AstValue.java:278)
at org.apache.el.MethodExpressionImpl.invoke(MethodExpressionImpl.java:274)
at com.sun.faces.facelets.el.TagMethodExpression.invoke(TagMethodExpression.java:105)
at javax.faces.component.MethodBindingMethodExpressionAdapter.invoke(MethodBindingMethodExpressionAdapter.java:87)
... 27 more
Caused by: org.hibernate.exception.JDBCConnectionException: could not extract ResultSet
at org.hibernate.exception.internal.SQLStateConversionDelegate.convert(SQLStateConversionDelegate.java:132)
at org.hibernate.exception.internal.StandardSQLExceptionConverter.convert(StandardSQLExceptionConverter.java:49)
at org.hibernate.engine.jdbc.spi.SqlExceptionHelper.convert(SqlExceptionHelper.java:126)
at org.hibernate.engine.jdbc.spi.SqlExceptionHelper.convert(SqlExceptionHelper.java:112)
at org.hibernate.engine.jdbc.internal.ResultSetReturnImpl.extract(ResultSetReturnImpl.java:91)
at org.hibernate.loader.Loader.getResultSet(Loader.java:2066)
at org.hibernate.loader.Loader.executeQueryStatement(Loader.java:1863)
at org.hibernate.loader.Loader.executeQueryStatement(Loader.java:1839)
at org.hibernate.loader.Loader.doQuery(Loader.java:910)
at org.hibernate.loader.Loader.doQueryAndInitializeNonLazyCollections(Loader.java:355)
at org.hibernate.loader.Loader.doList(Loader.java:2554)
at org.hibernate.loader.Loader.doList(Loader.java:2540)
at org.hibernate.loader.Loader.listIgnoreQueryCache(Loader.java:2370)
at org.hibernate.loader.Loader.list(Loader.java:2365)
at org.hibernate.loader.hql.QueryLoader.list(QueryLoader.java:497)
at org.hibernate.hql.internal.ast.QueryTranslatorImpl.list(QueryTranslatorImpl.java:387)
at org.hibernate.engine.query.spi.HQLQueryPlan.performList(HQLQueryPlan.java:236)
at org.hibernate.internal.SessionImpl.list(SessionImpl.java:1264)
at org.hibernate.internal.QueryImpl.list(QueryImpl.java:103)
at org.hibernate.jpa.internal.QueryImpl.list(QueryImpl.java:573)
at org.hibernate.jpa.internal.QueryImpl.getResultList(QueryImpl.java:449)
... 37 more
Caused by: com.mysql.jdbc.exceptions.jdbc4.CommunicationsException: The last packet successfully received from the server was 57,069,477 milliseconds ago. The last packet sent successfully to the server was 57,069,477 milliseconds ago. is longer than the server configured value of 'wait_timeout'. You should consider either expiring and/or testing connection validity before use in your application, increasing the server configured values for client timeouts, or using the Connector/J connection property 'autoReconnect=true' to avoid this problem.
at sun.reflect.NativeConstructorAccessorImpl.newInstance0(Native Method)
at sun.reflect.NativeConstructorAccessorImpl.newInstance(NativeConstructorAccessorImpl.java:57)
at sun.reflect.DelegatingConstructorAccessorImpl.newInstance(DelegatingConstructorAccessorImpl.java:45)
at java.lang.reflect.Constructor.newInstance(Constructor.java:526)
at com.mysql.jdbc.Util.handleNewInstance(Util.java:408)
at com.mysql.jdbc.SQLError.createCommunicationsException(SQLError.java:1137)
at com.mysql.jdbc.MysqlIO.send(MysqlIO.java:3983)
at com.mysql.jdbc.MysqlIO.sendCommand(MysqlIO.java:2596)
at com.mysql.jdbc.MysqlIO.sqlQueryDirect(MysqlIO.java:2776)
at com.mysql.jdbc.ConnectionImpl.execSQL(ConnectionImpl.java:2840)
at com.mysql.jdbc.PreparedStatement.executeInternal(PreparedStatement.java:2082)
at com.mysql.jdbc.PreparedStatement.executeQuery(PreparedStatement.java:2212)
at com.mchange.v2.c3p0.impl.NewProxyPreparedStatement.executeQuery(NewProxyPreparedStatement.java:116)
at org.hibernate.engine.jdbc.internal.ResultSetReturnImpl.extract(ResultSetReturnImpl.java:82)
... 53 more
Caused by: java.net.SocketException: Broken pipe
at java.net.SocketOutputStream.socketWrite0(Native Method)
at java.net.SocketOutputStream.socketWrite(SocketOutputStream.java:113)
at java.net.SocketOutputStream.write(SocketOutputStream.java:159)
at java.io.BufferedOutputStream.flushBuffer(BufferedOutputStream.java:82)
at java.io.BufferedOutputStream.flush(BufferedOutputStream.java:140)
at com.mysql.jdbc.MysqlIO.send(MysqlIO.java:3964)
... 60 more
Here is my persistence.xml
<?xml version="1.0" encoding="UTF-8"?>
http://xmlns.jcp.org/xml/ns/persistence/persistence_2_1.xsd">
<persistence-unit name="clikyapp1">
<provider>org.hibernate.jpa.HibernatePersistenceProvider</provider>
<class>br.com.clikyapp1.bean.Cultura</class>
<class>br.com.clikyapp1.bean.Cidade</class>
<class>br.com.clikyapp1.bean.Estado</class>
<class>br.com.clikyapp1.bean.TipoDespesa</class>
<class>br.com.clikyapp1.bean.Safra</class>
<class>br.com.clikyapp1.bean.TipoContrato</class>
<class>br.com.clikyapp1.bean.Area</class>
<class>br.com.clikyapp1.bean.Armazem</class>
<class>br.com.clikyapp1.bean.Conta</class>
<class>br.com.clikyapp1.bean.Parceiro</class>
<class>br.com.clikyapp1.bean.Usuario</class>
<class>br.com.clikyapp1.bean.Contrato</class>
<properties>
<property name="javax.persistence.jdbc.user" value="root" />
<property name="javax.persistence.jdbc.password" value="senha" />
<property name="javax.persistence.jdbc.url" value="jdbc:mysql://localhost:3306/clikyapp1" />
<property name="javax.persistence.jdbc.driver" value="com.mysql.jdbc.Driver" />
<property name="hibernate.cache.provider_class" value="org.hibernate.cache.NoCacheProvider" />
<property name="hibernate.dialect" value="org.hibernate.dialect.MySQL5Dialect" />
<property name="hibernate.connection.autocommit" value="false" />
<property name="hibernate.hbm2ddl.auto" value="update" />
<property name="hibernate.connection.provider_class"
value="org.hibernate.connection.C3P0ConnectionProvider" />
<property name="hibernate.c3p0.acquire_increment" value="1" />
<property name="hibernate.c3p0.idle_test_period" value="100" />
<property name="hibernate.c3p0.timeout" value="1800" />
<property name="hibernate.c3p0.max_size" value="5" />
<property name="hibernate.c3p0.min_size" value="3" />
<property name="hibernate.c3p0.max_statement" value="50" />
<property name="hibernate.c3p0.preferredTestQuery" value="select 1;" />
<property name="hibernate.c3p0.interactive_timeout" value="10" />
<property name="hibernate.c3p0.connect_timeout" value="20" />
</properties>
</persistence-unit>
any idea?

1) There's a typo in your c3p0 config.
<property name="hibernate.c3p0.max_statement" value="50" />
should be
<property name="hibernate.c3p0.max_statements" value="50" />
2) In
<property name="hibernate.c3p0.preferredTestQuery" value="select 1;" />
...get rid of the semicolon. That is, just...
<property name="hibernate.c3p0.preferredTestQuery" value="select 1" />
3) These two properties are not valid c3p0 configuration:
<property name="hibernate.c3p0.interactive_timeout" value="10" />
<property name="hibernate.c3p0.connect_timeout" value="20" />
It looks like you are trying to set mysql server properties. interactive_timout is irrelevant; it is a config param for mysql command line tools. connect_timout (and wait_timeout) are system variables you can set on the server side
4) Verify that the config you want is the config c3p0 is actually seeing. c3p0 dumps its config at INFO on pool initialization. Look at that.
5) Assuming the configuration you intend has got through, you haven't quite got a reliable test regime configured. You are frequently testing idle Connections, but in theory a busy pool might never leave Connections idle for long enough to be tested. Given that MySQL is complaining about a disused rather than busy Connection, this is unlikely to be your problem. But still, it'd be good to impose a better testing regime, by, for example, setting testConnectionOnCheckin to true.
6) Once you get your config right, if you still see the error, the likely cause is that your application is holding onto Connections for long periods of time (e.g. as member variables) rather than checking them out as-necessary and close()ing them immediately. That's a bad idea. c3p0 can't help keep your Connections fresh if your application keeps them checked out, and the point of a Connection pool is to eliminate the performance cost of just-in-time Connection checkout. So, fix that.
If you aren't sure or don't think that any Connections are held open for long periods of time by your application, you can use the two settings unreturnedConnectionTimeout and debugUnreturnedConnectionStackTraces. The first will cause any Connections held open by your client application by more than the number of seconds configured to be forceably returned to the pool. The second will cause the stack trace of the code that checkout out the bad Connection to be dumped into log. See here.

Error when saving #Lob with hibernate java mysql

Technology:
hibernate 4.3.4.Final
spring-data-jpa 1.5.0.RELEASE
mysql-connector-java 5.1.30
c3p0 0.9.5-pre8
Some part of dao context:
<bean id="dataSource" destroy-method="close"
class="com.mchange.v2.c3p0.ComboPooledDataSource">
<property name="driverClass"
value="${MyApp_Persistance.connection.driver_class}" />
<property name="jdbcUrl" value="${MyApp_Persistance.connection.url}" />
<property name="user" value="${MyApp_Persistance.connection.username}" />
<property name="password" value="${MyApp_Persistance.connection.password}" />
</bean>
I have entity OrganizationDetail:
#Entity
#Table(name = "OrganizationDetails")
public class OrganizationDetail implements Serializable {
...
...
...
#Lob
private String address;
...
and when im trying to save entity into database i get:
Caused by: java.lang.AbstractMethodError: Method com/mchange/v2/c3p0/impl/NewProxyPreparedStatement.setCharacterStream(ILjava/io/Reader;J)V is abstract
at com.mchange.v2.c3p0.impl.NewProxyPreparedStatement.setCharacterStream(NewProxyPreparedStatement.java)
at org.hibernate.type.descriptor.sql.ClobTypeDescriptor$4$1.doBind(ClobTypeDescriptor.java:131)
at org.hibernate.type.descriptor.sql.BasicBinder.bind(BasicBinder.java:90)
at org.hibernate.type.AbstractStandardBasicType.nullSafeSet(AbstractStandardBasicType.java:286)
at org.hibernate.type.AbstractStandardBasicType.nullSafeSet(AbstractStandardBasicType.java:281)
at org.hibernate.type.AbstractSingleColumnStandardBasicType.nullSafeSet(AbstractSingleColumnStandardBasicType.java:56)
at org.hibernate.persister.entity.AbstractEntityPersister.dehydrate(AbstractEntityPersister.java:2843)
at org.hibernate.persister.entity.AbstractEntityPersister.update(AbstractEntityPersister.java:3248)
at org.hibernate.persister.entity.AbstractEntityPersister.updateOrInsert(AbstractEntityPersister.java:3183)
at org.hibernate.persister.entity.AbstractEntityPersister.update(AbstractEntityPersister.java:3525)
at org.hibernate.action.internal.EntityUpdateAction.execute(EntityUpdateAction.java:158)
at org.hibernate.engine.spi.ActionQueue.executeActions(ActionQueue.java:461)
at org.hibernate.engine.spi.ActionQueue.executeActions(ActionQueue.java:347)
at org.hibernate.event.internal.AbstractFlushingEventListener.performExecutions(AbstractFlushingEventListener.java:350)
at org.hibernate.event.internal.DefaultFlushEventListener.onFlush(DefaultFlushEventListener.java:56)
at org.hibernate.internal.SessionImpl.flush(SessionImpl.java:1222)
at org.hibernate.internal.SessionImpl.managedFlush(SessionImpl.java:425)
at org.hibernate.engine.transaction.internal.jdbc.JdbcTransaction.beforeTransactionCommit(JdbcTransaction.java:101)
at org.hibernate.engine.transaction.spi.AbstractTransactionImpl.commit(AbstractTransactionImpl.java:177)
at org.hibernate.jpa.internal.TransactionImpl.commit(TransactionImpl.java:77)
at org.springframework.orm.jpa.JpaTransactionManager.doCommit(JpaTransactionManager.java:513)
at org.springframework.transaction.support.AbstractPlatformTransactionManager.processCommit(AbstractPlatformTransactionManager.java:757)
at org.springframework.transaction.support.AbstractPlatformTransactionManager.commit(AbstractPlatformTransactionManager.java:726)
at org.springframework.transaction.interceptor.TransactionAspectSupport.commitTransactionAfterReturning(TransactionAspectSupport.java:478)
at org.springframework.transaction.interceptor.TransactionAspectSupport.invokeWithinTransaction(TransactionAspectSupport.java:272)
at org.springframework.transaction.interceptor.TransactionInterceptor.invoke(TransactionInterceptor.java:95)
at org.springframework.aop.framework.ReflectiveMethodInvocation.proceed(ReflectiveMethodInvocation.java:179)
at org.springframework.dao.support.PersistenceExceptionTranslationInterceptor.invoke(PersistenceExceptionTranslationInterceptor.java:136)
at org.springframework.aop.framework.ReflectiveMethodInvocation.proceed(ReflectiveMethodInvocation.java:179)
at org.springframework.data.jpa.repository.support.LockModeRepositoryPostProcessor$LockModePopulatingMethodIntercceptor.invoke(LockModeRepositoryPostProcessor.java:92)
at org.springframework.aop.framework.ReflectiveMethodInvocation.proceed(ReflectiveMethodInvocation.java:179)
at org.springframework.aop.interceptor.ExposeInvocationInterceptor.invoke(ExposeInvocationInterceptor.java:92)
at org.springframework.aop.framework.ReflectiveMethodInvocation.proceed(ReflectiveMethodInvocation.java:179)
at org.springframework.aop.framework.JdkDynamicAopProxy.invoke(JdkDynamicAopProxy.java:207)
at com.sun.proxy.$Proxy55.save(Unknown Source)
at hr.myapp.service.impl.OrganizationServiceImpl.save(OrganizationServiceImpl.java:50)
at hr.myapp.web.bean.OrganizationBean.saveOrganizationAction(OrganizationBean.java:44)
at sun.reflect.NativeMethodAccessorImpl.invoke0(Native Method)
at sun.reflect.NativeMethodAccessorImpl.invoke(Unknown Source)
at sun.reflect.DelegatingMethodAccessorImpl.invoke(Unknown Source)
at java.lang.reflect.Method.invoke(Unknown Source)
at com.sun.el.parser.AstValue.invoke(AstValue.java:234)
at com.sun.el.MethodExpressionImpl.invoke(MethodExpressionImpl.java:297)
at com.sun.faces.facelets.el.TagMethodExpression.invoke(TagMethodExpression.java:105)
at javax.faces.component.MethodBindingMethodExpressionAdapter.invoke(MethodBindingMethodExpressionAdapter.java:87)
... 76 more
Can anyone point me to right direction ? Is there any jar missing ?
I'm sure that this error pops up when i use #Lob annotation!

I had same problem with Java, Hibernate, Oracle 11g and #Lob annotation.
Searching on web i found that it is fixed by upgrading C3P0 to stable version 0.9.2.1.
Link to MVN Repository, useful if you are using Maven: http://mvnrepository.com/artifact/com.mchange/c3p0/0.9.2.1
If not using Maven just download from Sourceforge C3PO site:
http://sourceforge.net/projects/c3p0/files/c3p0-bin/c3p0-0.9.2.1/
That worked for me.

Hibernate/C3P0: Server crashes after MySQL timeout

I have a webapp that is using MySQL and c3p0 through Hibernate. Usually everything is running fine, but when MySQL hits its interactive_timeout and I try another query, this comes up:
WARN [SqlExceptionHelper] - SQL Error: 0, SQLState: 08S01
ERROR [SqlExceptionHelper] - Communications link failure
Last packet sent to the server was 1 ms ago.
[ERROR] c.l.w.p.resources.AdminResource - Cannot pull data from remote server
javax.persistence.PersistenceException: org.hibernate.exception.JDBCConnectionException: could not extract ResultSet
at org.hibernate.ejb.AbstractEntityManagerImpl.convert(AbstractEntityManagerImpl.java:1387) ~[hibernate-entitymanager-4.2.7.Final.jar:4.2.7.Final]
at org.hibernate.ejb.AbstractEntityManagerImpl.convert(AbstractEntityManagerImpl.java:1310) ~[hibernate-entitymanager-4.2.7.Final.jar:4.2.7.Final]
at org.hibernate.ejb.QueryImpl.getResultList(QueryImpl.java:277) ~[hibernate-entitymanager-4.2.7.Final.jar:4.2.7.Final]
at com.logicdrop.wam.services.ClassroomService.findSessions(ClassroomService.java:159) ~[com.logicdrop.wam.shared-1.1.6-SNAPSHOT.jar:1.1.6-SNAPSHOT]
at com.logicdrop.wam.portal.resources.AdminResource.getSessions(AdminResource.java:51) ~[classes/:na]
at sun.reflect.NativeMethodAccessorImpl.invoke0(Native Method) ~[na:1.7.0_40]
at sun.reflect.NativeMethodAccessorImpl.invoke(NativeMethodAccessorImpl.java:57) ~[na:1.7.0_40]
at sun.reflect.DelegatingMethodAccessorImpl.invoke(DelegatingMethodAccessorImpl.java:43) ~[na:1.7.0_40]
at java.lang.reflect.Method.invoke(Method.java:606) ~[na:1.7.0_40]
at com.sun.jersey.spi.container.JavaMethodInvokerFactory$1.invoke(JavaMethodInvokerFactory.java:60) [jersey-server-1.17.1.jar:1.17.1]
at com.sun.jersey.server.impl.model.method.dispatch.AbstractResourceMethodDispatchProvider$TypeOutInvoker._dispatch(AbstractResourceMethodDispatchProvider.java:185) [jersey-server-1.17.1.jar:1.17.1]
at com.sun.jersey.server.impl.model.method.dispatch.ResourceJavaMethodDispatcher.dispatch(ResourceJavaMethodDispatcher.java:75) [jersey-server-1.17.1.jar:1.17.1]
at com.sun.jersey.server.impl.uri.rules.HttpMethodRule.accept(HttpMethodRule.java:302) [jersey-server-1.17.1.jar:1.17.1]
at com.sun.jersey.server.impl.uri.rules.RightHandPathRule.accept(RightHandPathRule.java:147) [jersey-server-1.17.1.jar:1.17.1]
at com.sun.jersey.server.impl.uri.rules.ResourceClassRule.accept(ResourceClassRule.java:108) [jersey-server-1.17.1.jar:1.17.1]
at com.sun.jersey.server.impl.uri.rules.RightHandPathRule.accept(RightHandPathRule.java:147) [jersey-server-1.17.1.jar:1.17.1]
at com.sun.jersey.server.impl.uri.rules.RootResourceClassesRule.accept(RootResourceClassesRule.java:84) [jersey-server-1.17.1.jar:1.17.1]
at com.sun.jersey.server.impl.application.WebApplicationImpl._handleRequest(WebApplicationImpl.java:1511) [jersey-server-1.17.1.jar:1.17.1]
at com.sun.jersey.server.impl.application.WebApplicationImpl._handleRequest(WebApplicationImpl.java:1442) [jersey-server-1.17.1.jar:1.17.1]
at com.sun.jersey.server.impl.application.WebApplicationImpl.handleRequest(WebApplicationImpl.java:1391) [jersey-server-1.17.1.jar:1.17.1]
at com.sun.jersey.server.impl.application.WebApplicationImpl.handleRequest(WebApplicationImpl.java:1381) [jersey-server-1.17.1.jar:1.17.1]
at com.sun.jersey.spi.container.servlet.WebComponent.service(WebComponent.java:416) [jersey-servlet-1.17.1.jar:1.17.1]
at com.sun.jersey.spi.container.servlet.ServletContainer.service(ServletContainer.java:538) [jersey-servlet-1.17.1.jar:1.17.1]
at com.sun.jersey.spi.container.servlet.ServletContainer.service(ServletContainer.java:716) [jersey-servlet-1.17.1.jar:1.17.1]
at javax.servlet.http.HttpServlet.service(HttpServlet.java:848) [javax.servlet-3.0.0.v201112011016.jar:na]
at com.google.inject.servlet.ServletDefinition.doService(ServletDefinition.java:263) [guice-servlet-3.0.jar:na]
at com.google.inject.servlet.ServletDefinition.service(ServletDefinition.java:178) [guice-servlet-3.0.jar:na]
at com.google.inject.servlet.ManagedServletPipeline.service(ManagedServletPipeline.java:91) [guice-servlet-3.0.jar:na]
at com.google.inject.servlet.FilterChainInvocation.doFilter(FilterChainInvocation.java:62) [guice-servlet-3.0.jar:na]
at com.logicdrop.wam.web.CorsFilter.doFilter(CorsFilter.java:59) [com.logicdrop.wam.shared-1.1.6-SNAPSHOT.jar:1.1.6-SNAPSHOT]
at com.google.inject.servlet.FilterDefinition.doFilter(FilterDefinition.java:163) [guice-servlet-3.0.jar:na]
at com.google.inject.servlet.FilterChainInvocation.doFilter(FilterChainInvocation.java:58) [guice-servlet-3.0.jar:na]
at com.google.inject.servlet.ManagedFilterPipeline.dispatch(ManagedFilterPipeline.java:118) [guice-servlet-3.0.jar:na]
at com.google.inject.servlet.GuiceFilter.doFilter(GuiceFilter.java:113) [guice-servlet-3.0.jar:na]
at org.eclipse.jetty.servlet.ServletHandler$CachedChain.doFilter(ServletHandler.java:1419) [jetty-servlet-8.1.11.v20130520.jar:8.1.11.v20130520]
at org.eclipse.jetty.servlet.ServletHandler.doHandle(ServletHandler.java:455) [jetty-servlet-8.1.11.v20130520.jar:8.1.11.v20130520]
at org.eclipse.jetty.server.handler.ScopedHandler.handle(ScopedHandler.java:137) [jetty-server-8.1.11.v20130520.jar:8.1.11.v20130520]
at org.eclipse.jetty.security.SecurityHandler.handle(SecurityHandler.java:557) [jetty-security-8.1.11.v20130520.jar:8.1.11.v20130520]
at org.eclipse.jetty.server.session.SessionHandler.doHandle(SessionHandler.java:231) [jetty-server-8.1.11.v20130520.jar:8.1.11.v20130520]
at org.eclipse.jetty.server.handler.ContextHandler.doHandle(ContextHandler.java:1075) [jetty-server-8.1.11.v20130520.jar:8.1.11.v20130520]
at org.eclipse.jetty.servlet.ServletHandler.doScope(ServletHandler.java:384) [jetty-servlet-8.1.11.v20130520.jar:8.1.11.v20130520]
at org.eclipse.jetty.server.session.SessionHandler.doScope(SessionHandler.java:193) [jetty-server-8.1.11.v20130520.jar:8.1.11.v20130520]
at org.eclipse.jetty.server.handler.ContextHandler.doScope(ContextHandler.java:1009) [jetty-server-8.1.11.v20130520.jar:8.1.11.v20130520]
at org.eclipse.jetty.server.handler.ScopedHandler.handle(ScopedHandler.java:135) [jetty-server-8.1.11.v20130520.jar:8.1.11.v20130520]
at org.eclipse.jetty.server.handler.ContextHandlerCollection.handle(ContextHandlerCollection.java:255) [jetty-server-8.1.11.v20130520.jar:8.1.11.v20130520]
at org.eclipse.jetty.server.handler.HandlerCollection.handle(HandlerCollection.java:154) [jetty-server-8.1.11.v20130520.jar:8.1.11.v20130520]
at org.eclipse.jetty.server.handler.HandlerWrapper.handle(HandlerWrapper.java:116) [jetty-server-8.1.11.v20130520.jar:8.1.11.v20130520]
at org.eclipse.jetty.server.Server.handle(Server.java:370) [jetty-server-8.1.11.v20130520.jar:8.1.11.v20130520]
at org.eclipse.jetty.server.AbstractHttpConnection.handleRequest(AbstractHttpConnection.java:489) [jetty-server-8.1.11.v20130520.jar:8.1.11.v20130520]
at org.eclipse.jetty.server.AbstractHttpConnection.headerComplete(AbstractHttpConnection.java:949) [jetty-server-8.1.11.v20130520.jar:8.1.11.v20130520]
at org.eclipse.jetty.server.AbstractHttpConnection$RequestHandler.headerComplete(AbstractHttpConnection.java:1011) [jetty-server-8.1.11.v20130520.jar:8.1.11.v20130520]
at org.eclipse.jetty.http.HttpParser.parseNext(HttpParser.java:644) [jetty-http-8.1.11.v20130520.jar:8.1.11.v20130520]
at org.eclipse.jetty.http.HttpParser.parseAvailable(HttpParser.java:235) [jetty-http-8.1.11.v20130520.jar:8.1.11.v20130520]
at org.eclipse.jetty.server.AsyncHttpConnection.handle(AsyncHttpConnection.java:82) [jetty-server-8.1.11.v20130520.jar:8.1.11.v20130520]
at org.eclipse.jetty.io.nio.SelectChannelEndPoint.handle(SelectChannelEndPoint.java:668) [jetty-io-8.1.11.v20130520.jar:8.1.11.v20130520]
at org.eclipse.jetty.io.nio.SelectChannelEndPoint$1.run(SelectChannelEndPoint.java:52) [jetty-io-8.1.11.v20130520.jar:8.1.11.v20130520]
at org.eclipse.jetty.util.thread.QueuedThreadPool.runJob(QueuedThreadPool.java:608) [jetty-util-8.1.11.v20130520.jar:8.1.11.v20130520]
at org.eclipse.jetty.util.thread.QueuedThreadPool$3.run(QueuedThreadPool.java:543) [jetty-util-8.1.11.v20130520.jar:8.1.11.v20130520]
at java.lang.Thread.run(Thread.java:724) [na:1.7.0_40]
Caused by: org.hibernate.exception.JDBCConnectionException: could not extract ResultSet
at org.hibernate.exception.internal.SQLStateConversionDelegate.convert(SQLStateConversionDelegate.java:132) ~[hibernate-core-4.2.7.Final.jar:4.2.7.Final]
at org.hibernate.exception.internal.StandardSQLExceptionConverter.convert(StandardSQLExceptionConverter.java:49) ~[hibernate-core-4.2.7.Final.jar:4.2.7.Final]
at org.hibernate.engine.jdbc.spi.SqlExceptionHelper.convert(SqlExceptionHelper.java:125) ~[hibernate-core-4.2.7.Final.jar:4.2.7.Final]
at org.hibernate.engine.jdbc.spi.SqlExceptionHelper.convert(SqlExceptionHelper.java:110) ~[hibernate-core-4.2.7.Final.jar:4.2.7.Final]
at org.hibernate.engine.jdbc.internal.ResultSetReturnImpl.extract(ResultSetReturnImpl.java:61) ~[hibernate-core-4.2.7.Final.jar:4.2.7.Final]
at org.hibernate.loader.Loader.getResultSet(Loader.java:2040) ~[hibernate-core-4.2.7.Final.jar:4.2.7.Final]
at org.hibernate.loader.Loader.executeQueryStatement(Loader.java:1837) ~[hibernate-core-4.2.7.Final.jar:4.2.7.Final]
at org.hibernate.loader.Loader.executeQueryStatement(Loader.java:1816) ~[hibernate-core-4.2.7.Final.jar:4.2.7.Final]
at org.hibernate.loader.Loader.doQuery(Loader.java:900) ~[hibernate-core-4.2.7.Final.jar:4.2.7.Final]
at org.hibernate.loader.Loader.doQueryAndInitializeNonLazyCollections(Loader.java:342) ~[hibernate-core-4.2.7.Final.jar:4.2.7.Final]
at org.hibernate.loader.Loader.doList(Loader.java:2526) ~[hibernate-core-4.2.7.Final.jar:4.2.7.Final]
at org.hibernate.loader.Loader.doList(Loader.java:2512) ~[hibernate-core-4.2.7.Final.jar:4.2.7.Final]
at org.hibernate.loader.Loader.listIgnoreQueryCache(Loader.java:2342) ~[hibernate-core-4.2.7.Final.jar:4.2.7.Final]
at org.hibernate.loader.Loader.list(Loader.java:2337) ~[hibernate-core-4.2.7.Final.jar:4.2.7.Final]
at org.hibernate.loader.hql.QueryLoader.list(QueryLoader.java:495) ~[hibernate-core-4.2.7.Final.jar:4.2.7.Final]
at org.hibernate.hql.internal.ast.QueryTranslatorImpl.list(QueryTranslatorImpl.java:357) ~[hibernate-core-4.2.7.Final.jar:4.2.7.Final]
at org.hibernate.engine.query.spi.HQLQueryPlan.performList(HQLQueryPlan.java:195) ~[hibernate-core-4.2.7.Final.jar:4.2.7.Final]
at org.hibernate.internal.SessionImpl.list(SessionImpl.java:1275) ~[hibernate-core-4.2.7.Final.jar:4.2.7.Final]
at org.hibernate.internal.QueryImpl.list(QueryImpl.java:101) ~[hibernate-core-4.2.7.Final.jar:4.2.7.Final]
at org.hibernate.ejb.QueryImpl.getResultList(QueryImpl.java:268) ~[hibernate-entitymanager-4.2.7.Final.jar:4.2.7.Final]
... 56 common frames omitted
Caused by: com.mysql.jdbc.exceptions.jdbc4.CommunicationsException: Communications link failure
Last packet sent to the server was 3 ms ago.
at sun.reflect.NativeConstructorAccessorImpl.newInstance0(Native Method) ~[na:1.7.0_40]
at sun.reflect.NativeConstructorAccessorImpl.newInstance(NativeConstructorAccessorImpl.java:57) ~[na:1.7.0_40]
at sun.reflect.DelegatingConstructorAccessorImpl.newInstance(DelegatingConstructorAccessorImpl.java:45) ~[na:1.7.0_40]
at java.lang.reflect.Constructor.newInstance(Constructor.java:526) ~[na:1.7.0_40]
at com.mysql.jdbc.Util.handleNewInstance(Util.java:406) ~[mysql-connector-java-5.1.6.jar:na]
at com.mysql.jdbc.SQLError.createCommunicationsException(SQLError.java:1074) ~[mysql-connector-java-5.1.6.jar:na]
at com.mysql.jdbc.MysqlIO.reuseAndReadPacket(MysqlIO.java:2985) ~[mysql-connector-java-5.1.6.jar:na]
at com.mysql.jdbc.MysqlIO.reuseAndReadPacket(MysqlIO.java:2871) ~[mysql-connector-java-5.1.6.jar:na]
at com.mysql.jdbc.MysqlIO.checkErrorPacket(MysqlIO.java:3414) ~[mysql-connector-java-5.1.6.jar:na]
at com.mysql.jdbc.MysqlIO.sendCommand(MysqlIO.java:1936) ~[mysql-connector-java-5.1.6.jar:na]
at com.mysql.jdbc.MysqlIO.sqlQueryDirect(MysqlIO.java:2060) ~[mysql-connector-java-5.1.6.jar:na]
at com.mysql.jdbc.ConnectionImpl.execSQL(ConnectionImpl.java:2542) ~[mysql-connector-java-5.1.6.jar:na]
at com.mysql.jdbc.PreparedStatement.executeInternal(PreparedStatement.java:1734) ~[mysql-connector-java-5.1.6.jar:na]
at com.mysql.jdbc.PreparedStatement.executeQuery(PreparedStatement.java:1885) ~[mysql-connector-java-5.1.6.jar:na]
at com.mchange.v2.c3p0.impl.NewProxyPreparedStatement.executeQuery(NewProxyPreparedStatement.java:116) ~[c3p0-0.9.2.1.jar:0.9.2.1]
at org.hibernate.engine.jdbc.internal.ResultSetReturnImpl.extract(ResultSetReturnImpl.java:56) ~[hibernate-core-4.2.7.Final.jar:4.2.7.Final]
... 71 common frames omitted
Caused by: java.io.EOFException: Can not read response from server. Expected to read 4 bytes, read 0 bytes before connection was unexpectedly lost.
at com.mysql.jdbc.MysqlIO.readFully(MysqlIO.java:2431) ~[mysql-connector-java-5.1.6.jar:na]
at com.mysql.jdbc.MysqlIO.reuseAndReadPacket(MysqlIO.java:2882) ~[mysql-connector-java-5.1.6.jar:na]
... 80 common frames omitted
Here's the c3p0 settings I currently have:
<property name="hibernate.connection.provider_class" value="org.hibernate.service.jdbc.connections.internal.C3P0ConnectionProvider" />
<property name="hibernate.c3p0.acquire_increment" value="2" />
<property name="hibernate.c3p0.max_statements" value="0" />
<property name="hibernate.c3p0.min_size" value="5" />
<property name="hibernate.c3p0.max_size" value="25" />
<property name="hibernate.c3p0.timeout" value="0" />
<property name="hibernate.c3p0.validate" value="true" />
<property name="hibernate.c3p0.idle_test_period" value="5" />
<property name="hibernate.c3p0.preferred_test_query" value="SELECT 1;" />
I'm pretty sure I need to change something in these settings, but I'm not quite sure. Can anyone shed some light on what's going on here?
Thanks,
Tyler

I found out what's going on. MySQL times out, but c3p0 can't recognize when it happens, so we have to restart the pooled connections before MySQL times out.
First, I created a new file in my classpath called c3p0-config.xml where I can put all my c3p0 settings. I don't know if this actually helps anything, but I wanted to dissociate c3p0 with hibernate anyway.
Then, I put this in the new config file:
<c3p0-config>
<default-config>
<property name="acquireIncrement">3</property>
<property name="idleConnectionTestPeriod">5</property>
<property name="maxConnectionAge">30</property>
<property name="maxIdleTime">10</property>
<property name="maxPoolSize">25</property>
<property name="maxStatements">0</property>
<property name="minPoolSize">5</property>
<property name="preferredTestQuery">SELECT 1</property>
<property name="testConnectionOnCheckin">true</property>
<property name="testConnectionOnCheckout">true</property>
</default-config>
</c3p0-config>
The big things are maxConnectionAge and maxIdleTime, which dicard connections that are so many seconds old. A description of all the variables can be found here.
This doesn't solve all my problems with my project, but at least this bug is fixed.