TomCat EE - Hibernate4 & Spring4: Session Factory ClassNotFoundException: javax.persistence.NamedStoredProcedureQuery

Question

I am trying to create a hibernate4 LocalSessionFactoryBean using spring beans to use with my MySQL database. This is done on an Apache Tomee server using Tomcat v7.0. There's some tiles 3 stuff in there too but that shouldn't interfere.

applicationContext.xml in WEB-INF

<?xml version="1.0" encoding="UTF-8"?>
<beans xmlns="http://www.springframework.org/schema/beans"
    xmlns:xsi="http://www.w3.org/2001/XMLSchema-instance"
    xsi:schemaLocation="http://www.springframework.org/schema/beans 
                           http://www.springframework.org/schema/beans/spring-beans.xsd">
    <bean id="myDataSource"
        class="org.springframework.jdbc.datasource.SimpleDriverDataSource">
        <property name="driverClass" value="com.mysql.jdbc.Driver" />
        <property name="url" value="jdbc:mysql://localhost:3306/Mysql" />
        <property name="username" value="root" />
        <property name="password" value="5uCbFidP%!C1" />
    </bean>

    <bean id="sessionFactory"
        class="org.springframework.orm.hibernate4.LocalSessionFactoryBean">
        <property name="dataSource" ref="myDataSource" />
        <property name="hibernateProperties">
            <props>
                <prop key="hibernate.dialect">org.hibernate.dialect.MySQLDialect</prop>
                <prop key="hibernate.show_sql">true</prop>
            </props>
        </property>
    </bean>
</beans>

web.xml

<?xml version="1.0" encoding="UTF-8"?>
<web-app xmlns:xsi="http://www.w3.org/2001/XMLSchema-instance"
    xmlns="http://java.sun.com/xml/ns/javaee"
    xsi:schemaLocation="http://java.sun.com/xml/ns/javaee http://java.sun.com/xml/ns/javaee/web-app_3_0.xsd"
    id="WebApp_ID" version="3.0">
    <display-name>MyServer</display-name>
    <listener>
        <description>Default listener for spring</description>
        <listener-class>org.springframework.web.context.ContextLoaderListener</listener-class>
    </listener>
    <servlet>
        <description>Default servlet</description>
        <servlet-name>web</servlet-name>
        <servlet-class>org.springframework.web.servlet.DispatcherServlet</servlet-class>
        <load-on-startup>1</load-on-startup>
    </servlet>
    <servlet-mapping>
        <servlet-name>web</servlet-name>
        <url-pattern>*.web</url-pattern>
    </servlet-mapping>
    <welcome-file-list>
        <welcome-file>index.html</welcome-file>
        <welcome-file>index.htm</welcome-file>
        <welcome-file>index.jsp</welcome-file>
        <welcome-file>default.html</welcome-file>
        <welcome-file>default.htm</welcome-file>
        <welcome-file>default.jsp</welcome-file>
    </welcome-file-list>
</web-app>

web-servlet.xml

<?xml version="1.0" encoding="UTF-8"?>
<beans xmlns="http://www.springframework.org/schema/beans"
    xmlns:context="http://www.springframework.org/schema/context"
    xmlns:xsi="http://www.w3.org/2001/XMLSchema-instance"
    xsi:schemaLocation="
   http://www.springframework.org/schema/beans     
   http://www.springframework.org/schema/beans/spring-beans-4.0.xsd
   http://www.springframework.org/schema/context 
   http://www.springframework.org/schema/context/spring-context-4.0.xsd">

    <bean name="/home.web" class="com.web.controller.HomeController">
        <property name="methodNameResolver" ref="paramResolver" />
    </bean>

    <bean id="tilesConfigurer"
        class="org.springframework.web.servlet.view.tiles3.TilesConfigurer">
        <property name="definitions">
            <list>
                <value>/WEB-INF/tile-defs.xml</value>
            </list>
        </property>
    </bean>

    <bean id="viewResolver"
        class="org.springframework.web.servlet.view.tiles3.TilesViewResolver">
        <property name="viewClass">
            <value>org.springframework.web.servlet.view.tiles3.TilesView</value>
        </property>
    </bean>

    <bean id="paramResolver"
        class="org.springframework.web.servlet.mvc.multiaction.ParameterMethodNameResolver">
        <property name="defaultMethodName" value="view" />
        <property name="paramName" value="action" />
    </bean>

</beans>

When I start up the server, I get the following error:

Aug 29, 2014 10:31:34 PM org.springframework.web.context.ContextLoader initWebApplicationContext
SEVERE: Context initialization failed
org.springframework.beans.factory.BeanCreationException: Error creating bean with name 'transactionManager' defined in ServletContext resource [/WEB-INF/applicationContext.xml]: Cannot resolve reference to bean 'sessionFactory' while setting bean property 'sessionFactory'; nested exception is org.springframework.beans.factory.BeanCreationException: Error creating bean with name 'sessionFactory' defined in ServletContext resource [/WEB-INF/applicationContext.xml]: Invocation of init method failed; nested exception is java.lang.NoClassDefFoundError: javax/persistence/NamedStoredProcedureQuery
    at org.springframework.beans.factory.support.BeanDefinitionValueResolver.resolveReference(BeanDefinitionValueResolver.java:336)
    at org.springframework.beans.factory.support.BeanDefinitionValueResolver.resolveValueIfNecessary(BeanDefinitionValueResolver.java:108)
    at org.springframework.beans.factory.support.AbstractAutowireCapableBeanFactory.applyPropertyValues(AbstractAutowireCapableBeanFactory.java:1456)
    at org.springframework.beans.factory.support.AbstractAutowireCapableBeanFactory.populateBean(AbstractAutowireCapableBeanFactory.java:1197)
    at org.springframework.beans.factory.support.AbstractAutowireCapableBeanFactory.doCreateBean(AbstractAutowireCapableBeanFactory.java:537)
    at org.springframework.beans.factory.support.AbstractAutowireCapableBeanFactory.createBean(AbstractAutowireCapableBeanFactory.java:475)
    at org.springframework.beans.factory.support.AbstractBeanFactory$1.getObject(AbstractBeanFactory.java:302)
    at org.springframework.beans.factory.support.DefaultSingletonBeanRegistry.getSingleton(DefaultSingletonBeanRegistry.java:228)
    at org.springframework.beans.factory.support.AbstractBeanFactory.doGetBean(AbstractBeanFactory.java:298)
    at org.springframework.beans.factory.support.AbstractBeanFactory.getBean(AbstractBeanFactory.java:193)
    at org.springframework.beans.factory.support.DefaultListableBeanFactory.preInstantiateSingletons(DefaultListableBeanFactory.java:703)
    at org.springframework.context.support.AbstractApplicationContext.finishBeanFactoryInitialization(AbstractApplicationContext.java:760)
    at org.springframework.context.support.AbstractApplicationContext.refresh(AbstractApplicationContext.java:482)
    at org.springframework.web.context.ContextLoader.configureAndRefreshWebApplicationContext(ContextLoader.java:403)
    at org.springframework.web.context.ContextLoader.initWebApplicationContext(ContextLoader.java:306)
    at org.springframework.web.context.ContextLoaderListener.contextInitialized(ContextLoaderListener.java:106)
    at org.apache.catalina.core.StandardContext.listenerStart(StandardContext.java:4992)
    at org.apache.catalina.core.StandardContext.startInternal(StandardContext.java:5490)
    at org.apache.catalina.util.LifecycleBase.start(LifecycleBase.java:150)
    at org.apache.catalina.core.ContainerBase$StartChild.call(ContainerBase.java:1575)
    at org.apache.catalina.core.ContainerBase$StartChild.call(ContainerBase.java:1565)
    at java.util.concurrent.FutureTask$Sync.innerRun(FutureTask.java:334)
    at java.util.concurrent.FutureTask.run(FutureTask.java:166)
    at java.util.concurrent.ThreadPoolExecutor.runWorker(ThreadPoolExecutor.java:1110)
    at java.util.concurrent.ThreadPoolExecutor$Worker.run(ThreadPoolExecutor.java:603)
    at java.lang.Thread.run(Thread.java:722)
Caused by: org.springframework.beans.factory.BeanCreationException: Error creating bean with name 'sessionFactory' defined in ServletContext resource [/WEB-INF/applicationContext.xml]: Invocation of init method failed; nested exception is java.lang.NoClassDefFoundError: javax/persistence/NamedStoredProcedureQuery
    at org.springframework.beans.factory.support.AbstractAutowireCapableBeanFactory.initializeBean(AbstractAutowireCapableBeanFactory.java:1553)
    at org.springframework.beans.factory.support.AbstractAutowireCapableBeanFactory.doCreateBean(AbstractAutowireCapableBeanFactory.java:539)
    at org.springframework.beans.factory.support.AbstractAutowireCapableBeanFactory.createBean(AbstractAutowireCapableBeanFactory.java:475)
    at org.springframework.beans.factory.support.AbstractBeanFactory$1.getObject(AbstractBeanFactory.java:302)
    at org.springframework.beans.factory.support.DefaultSingletonBeanRegistry.getSingleton(DefaultSingletonBeanRegistry.java:228)
    at org.springframework.beans.factory.support.AbstractBeanFactory.doGetBean(AbstractBeanFactory.java:298)
    at org.springframework.beans.factory.support.AbstractBeanFactory.getBean(AbstractBeanFactory.java:193)
    at org.springframework.beans.factory.support.BeanDefinitionValueResolver.resolveReference(BeanDefinitionValueResolver.java:328)
    ... 25 more
Caused by: java.lang.NoClassDefFoundError: javax/persistence/NamedStoredProcedureQuery
    at org.hibernate.cfg.AnnotationBinder.bindDefaults(AnnotationBinder.java:276)
    at org.hibernate.cfg.Configuration.secondPassCompile(Configuration.java:1402)
    at org.hibernate.cfg.Configuration.buildSessionFactory(Configuration.java:1844)
    at org.hibernate.cfg.Configuration.buildSessionFactory(Configuration.java:1928)
    at org.springframework.orm.hibernate4.LocalSessionFactoryBuilder.buildSessionFactory(LocalSessionFactoryBuilder.java:343)
    at org.springframework.orm.hibernate4.LocalSessionFactoryBean.buildSessionFactory(LocalSessionFactoryBean.java:431)
    at org.springframework.orm.hibernate4.LocalSessionFactoryBean.afterPropertiesSet(LocalSessionFactoryBean.java:416)
    at org.springframework.beans.factory.support.AbstractAutowireCapableBeanFactory.invokeInitMethods(AbstractAutowireCapableBeanFactory.java:1612)
    at org.springframework.beans.factory.support.AbstractAutowireCapableBeanFactory.initializeBean(AbstractAutowireCapableBeanFactory.java:1549)
    ... 32 more
Caused by: java.lang.ClassNotFoundException: javax.persistence.NamedStoredProcedureQuery
    at org.apache.catalina.loader.WebappClassLoader.loadClass(WebappClassLoader.java:1720)
    at org.apache.catalina.loader.WebappClassLoader.loadClass(WebappClassLoader.java:1571)
    at org.apache.tomee.catalina.LazyStopWebappClassLoader.loadClass(LazyStopWebappClassLoader.java:129)
    ... 41 more

Aug 29, 2014 10:31:34 PM org.apache.catalina.core.StandardContext listenerStart
SEVERE: Exception sending context initialized event to listener instance of class org.springframework.web.context.ContextLoaderListener
org.springframework.beans.factory.BeanCreationException: Error creating bean with name 'transactionManager' defined in ServletContext resource [/WEB-INF/applicationContext.xml]: Cannot resolve reference to bean 'sessionFactory' while setting bean property 'sessionFactory'; nested exception is org.springframework.beans.factory.BeanCreationException: Error creating bean with name 'sessionFactory' defined in ServletContext resource [/WEB-INF/applicationContext.xml]: Invocation of init method failed; nested exception is java.lang.NoClassDefFoundError: javax/persistence/NamedStoredProcedureQuery
    at org.springframework.beans.factory.support.BeanDefinitionValueResolver.resolveReference(BeanDefinitionValueResolver.java:336)
    at org.springframework.beans.factory.support.BeanDefinitionValueResolver.resolveValueIfNecessary(BeanDefinitionValueResolver.java:108)
    at org.springframework.beans.factory.support.AbstractAutowireCapableBeanFactory.applyPropertyValues(AbstractAutowireCapableBeanFactory.java:1456)
    at org.springframework.beans.factory.support.AbstractAutowireCapableBeanFactory.populateBean(AbstractAutowireCapableBeanFactory.java:1197)
    at org.springframework.beans.factory.support.AbstractAutowireCapableBeanFactory.doCreateBean(AbstractAutowireCapableBeanFactory.java:537)
    at org.springframework.beans.factory.support.AbstractAutowireCapableBeanFactory.createBean(AbstractAutowireCapableBeanFactory.java:475)
    at org.springframework.beans.factory.support.AbstractBeanFactory$1.getObject(AbstractBeanFactory.java:302)
    at org.springframework.beans.factory.support.DefaultSingletonBeanRegistry.getSingleton(DefaultSingletonBeanRegistry.java:228)
    at org.springframework.beans.factory.support.AbstractBeanFactory.doGetBean(AbstractBeanFactory.java:298)
    at org.springframework.beans.factory.support.AbstractBeanFactory.getBean(AbstractBeanFactory.java:193)
    at org.springframework.beans.factory.support.DefaultListableBeanFactory.preInstantiateSingletons(DefaultListableBeanFactory.java:703)
    at org.springframework.context.support.AbstractApplicationContext.finishBeanFactoryInitialization(AbstractApplicationContext.java:760)
    at org.springframework.context.support.AbstractApplicationContext.refresh(AbstractApplicationContext.java:482)
    at org.springframework.web.context.ContextLoader.configureAndRefreshWebApplicationContext(ContextLoader.java:403)
    at org.springframework.web.context.ContextLoader.initWebApplicationContext(ContextLoader.java:306)
    at org.springframework.web.context.ContextLoaderListener.contextInitialized(ContextLoaderListener.java:106)
    at org.apache.catalina.core.StandardContext.listenerStart(StandardContext.java:4992)
    at org.apache.catalina.core.StandardContext.startInternal(StandardContext.java:5490)
    at org.apache.catalina.util.LifecycleBase.start(LifecycleBase.java:150)
    at org.apache.catalina.core.ContainerBase$StartChild.call(ContainerBase.java:1575)
    at org.apache.catalina.core.ContainerBase$StartChild.call(ContainerBase.java:1565)
    at java.util.concurrent.FutureTask$Sync.innerRun(FutureTask.java:334)
    at java.util.concurrent.FutureTask.run(FutureTask.java:166)
    at java.util.concurrent.ThreadPoolExecutor.runWorker(ThreadPoolExecutor.java:1110)
    at java.util.concurrent.ThreadPoolExecutor$Worker.run(ThreadPoolExecutor.java:603)
    at java.lang.Thread.run(Thread.java:722)
Caused by: org.springframework.beans.factory.BeanCreationException: Error creating bean with name 'sessionFactory' defined in ServletContext resource [/WEB-INF/applicationContext.xml]: Invocation of init method failed; nested exception is java.lang.NoClassDefFoundError: javax/persistence/NamedStoredProcedureQuery
    at org.springframework.beans.factory.support.AbstractAutowireCapableBeanFactory.initializeBean(AbstractAutowireCapableBeanFactory.java:1553)
    at org.springframework.beans.factory.support.AbstractAutowireCapableBeanFactory.doCreateBean(AbstractAutowireCapableBeanFactory.java:539)
    at org.springframework.beans.factory.support.AbstractAutowireCapableBeanFactory.createBean(AbstractAutowireCapableBeanFactory.java:475)
    at org.springframework.beans.factory.support.AbstractBeanFactory$1.getObject(AbstractBeanFactory.java:302)
    at org.springframework.beans.factory.support.DefaultSingletonBeanRegistry.getSingleton(DefaultSingletonBeanRegistry.java:228)
    at org.springframework.beans.factory.support.AbstractBeanFactory.doGetBean(AbstractBeanFactory.java:298)
    at org.springframework.beans.factory.support.AbstractBeanFactory.getBean(AbstractBeanFactory.java:193)
    at org.springframework.beans.factory.support.BeanDefinitionValueResolver.resolveReference(BeanDefinitionValueResolver.java:328)
    ... 25 more
Caused by: java.lang.NoClassDefFoundError: javax/persistence/NamedStoredProcedureQuery
    at org.hibernate.cfg.AnnotationBinder.bindDefaults(AnnotationBinder.java:276)
    at org.hibernate.cfg.Configuration.secondPassCompile(Configuration.java:1402)
    at org.hibernate.cfg.Configuration.buildSessionFactory(Configuration.java:1844)
    at org.hibernate.cfg.Configuration.buildSessionFactory(Configuration.java:1928)
    at org.springframework.orm.hibernate4.LocalSessionFactoryBuilder.buildSessionFactory(LocalSessionFactoryBuilder.java:343)
    at org.springframework.orm.hibernate4.LocalSessionFactoryBean.buildSessionFactory(LocalSessionFactoryBean.java:431)
    at org.springframework.orm.hibernate4.LocalSessionFactoryBean.afterPropertiesSet(LocalSessionFactoryBean.java:416)
    at org.springframework.beans.factory.support.AbstractAutowireCapableBeanFactory.invokeInitMethods(AbstractAutowireCapableBeanFactory.java:1612)
    at org.springframework.beans.factory.support.AbstractAutowireCapableBeanFactory.initializeBean(AbstractAutowireCapableBeanFactory.java:1549)
    ... 32 more
Caused by: java.lang.ClassNotFoundException: javax.persistence.NamedStoredProcedureQuery
    at org.apache.catalina.loader.WebappClassLoader.loadClass(WebappClassLoader.java:1720)
    at org.apache.catalina.loader.WebappClassLoader.loadClass(WebappClassLoader.java:1571)
    at org.apache.tomee.catalina.LazyStopWebappClassLoader.loadClass(LazyStopWebappClassLoader.java:129)
    ... 41 more

Aug 29, 2014 10:31:34 PM org.apache.catalina.core.StandardContext startInternal
SEVERE: Error listenerStart
Aug 29, 2014 10:31:34 PM org.apache.catalina.core.StandardContext startInternal
SEVERE: Context [/MyServer] startup failed due to previous errors
Aug 29, 2014 10:31:34 PM org.apache.catalina.core.ApplicationContext log
INFO: Closing Spring root WebApplicationContext
Aug 29, 2014 10:31:34 PM org.apache.openejb.assembler.classic.Assembler destroyApplication
INFO: Undeploying app: D:\workspace\.metadata\.plugins\org.eclipse.wst.server.core\tmp3\wtpwebapps\MyServer
Aug 29, 2014 10:31:34 PM org.apache.catalina.loader.WebappClassLoader clearReferencesJdbc
SEVERE: The web application [/MyServer] registered the JDBC driver [com.mysql.jdbc.Driver] but failed to unregister it when the web application was stopped. To prevent a memory leak, the JDBC Driver has been forcibly unregistered.
Aug 29, 2014 10:31:34 PM org.apache.catalina.loader.WebappClassLoader clearReferencesThreads
SEVERE: The web application [/MyServer] appears to have started a thread named [MySQL Statement Cancellation Timer] but has failed to stop it. This is very likely to create a memory leak.
Aug 29, 2014 10:31:34 PM org.apache.coyote.AbstractProtocol start
INFO: Starting ProtocolHandler ["http-bio-8080"]
Aug 29, 2014 10:31:34 PM org.apache.coyote.AbstractProtocol start
INFO: Starting ProtocolHandler ["ajp-bio-8009"]
Aug 29, 2014 10:31:34 PM org.apache.catalina.startup.Catalina start
INFO: Server startup in 2058 ms

I have in my web library the jar file 'hibernate-jpa-2.1-api-1.0.0.Final.jar' which contains javax.persistence.NamedStoredProcedureQuery. No other library (neither web nor server) has this class definition. Eclipse does have its own NamedStoredProcedureQuery class though (org.eclipse.persistence.annotations.NamedStoredProcedureQuery).

Any ideas on what might cause this? I have deleted the project and started over with no luck. I do not know what could cause Java to not see the class file. As you can probably tell I am not very experienced with the Spring configuration. Any advice is appreciated.

Answer 1

java.lang.NoClassDefFoundError: javax/persistence/NamedStoredProcedureQuery

Caused by: org.springframework.beans.factory.BeanCreationException: Error creating bean with name 'sessionFactory' defined in ServletContext resource [/WEB-INF/applicationContext.xml]: Invocation of init method failed; nested exception is java.lang.NoClassDefFoundError: javax/persistence/NamedStoredProcedureQuery

Thos above two errors basically tell me that it is expecting this to properly be defined in your application context file. However that is obviously not correctly done. I've run across this error myself numerous times and 90% of the time I have this error my mappings are wrong in the application context and the other 10% of the time they magically fix this with a clean/rebuild/refresh.

I can narrow it down though for you it's not the .jar file that is causing the issue since that's the version I frequently use. I would take a look at your session factory declaration. I'll attach how I usually define it.

<bean id="sessionFactory" class="org.springframework.orm.hibernate3.LocalSessionFactoryBean">

Answer 2

For this error, it can mean that a file was not on the run-time classpath. But to fix this, you just go Run->Run Configuration->Classpath->Add Jar->and then select the jar with the class file in it. This fixed the error that I was having.