Application run well from eclipse, but fails to start, when it is deployed manually

I have web application using SpringFramework3.0.3.RELEASE, developed in Eclipse with m2eclipse plugin and deployed into Tomcat6.0.26. I can run it from Eclipse, but when copy target WAR int same tomcat instance ( removing WTP webapp first ) and restart I see following exception:

Sep 14, 2010 5:54:42 PM org.apache.catalina.core.ApplicationContext log
INFO: Initializing Spring root WebApplicationContext
Sep 14, 2010 5:54:45 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 'onboardSessionFactory' defined in class path resource [applicationContext.xml]: Cannot resolve reference to bean 'customListener' while setting bean property 'eventListeners' with key [TypedStringValue: value [pre-insert], target type [null]]; nested exception is org.springframework.beans.factory.BeanCreationException: Error creating bean with name 'customListener' defined in class path resource [applicationContext.xml]: Instantiation of bean failed; nested exception is java.lang.NoClassDefFoundError: Could not initialize class org.apache.log4j.LogManager
 at org.springframework.beans.factory.support.BeanDefinitionValueResolver.resolveReference(BeanDefinitionValueResolver.java:328)
 at org.springframework.beans.factory.support.BeanDefinitionValueResolver.resolveValueIfNecessary(BeanDefinitionValueResolver.java:106)
 at org.springframework.beans.factory.support.BeanDefinitionValueResolver.resolveManagedMap(BeanDefinitionValueResolver.java:383)
 at org.springframework.beans.factory.support.BeanDefinitionValueResolver.resolveValueIfNecessary(BeanDefinitionValueResolver.java:161)
 at org.springframework.beans.factory.support.AbstractAutowireCapableBeanFactory.applyPropertyValues(AbstractAutowireCapableBeanFactory.java:1317)
 at org.springframework.beans.factory.support.AbstractAutowireCapableBeanFactory.populateBean(AbstractAutowireCapableBeanFactory.java:1076)
 at org.springframework.beans.factory.support.AbstractAutowireCapableBeanFactory.doCreateBean(AbstractAutowireCapableBeanFactory.java:517)
 at org.springframework.beans.factory.support.AbstractAutowireCapableBeanFactory.createBean(AbstractAutowireCapableBeanFactory.java:456)
 at org.springframework.beans.factory.support.AbstractBeanFactory$1.getObject(AbstractBeanFactory.java:291)
 at org.springframework.beans.factory.support.DefaultSingletonBeanRegistry.getSingleton(DefaultSingletonBeanRegistry.java:222)
 at org.springframework.beans.factory.support.AbstractBeanFactory.doGetBean(AbstractBeanFactory.java:288)
 at org.springframework.beans.factory.support.AbstractBeanFactory.getBean(AbstractBeanFactory.java:190)
 at org.springframework.beans.factory.support.DefaultListableBeanFactory.preInstantiateSingletons(DefaultListableBeanFactory.java:557)
 at org.springframework.context.support.AbstractApplicationContext.finishBeanFactoryInitialization(AbstractApplicationContext.java:895)
 at org.springframework.context.support.AbstractApplicationContext.refresh(AbstractApplicationContext.java:425)
 at org.springframework.web.context.ContextLoader.createWebApplicationContext(ContextLoader.java:276)
 at org.springframework.web.context.ContextLoader.initWebApplicationContext(ContextLoader.java:197)
 at org.springframework.web.context.ContextLoaderListener.contextInitialized(ContextLoaderListener.java:47)
 at org.apache.catalina.core.StandardContext.listenerStart(StandardContext.java:3972)
 at org.apache.catalina.core.StandardContext.start(StandardContext.java:4467)
 at org.apache.catalina.core.ContainerBase.addChildInternal(ContainerBase.java:791)
 at org.apache.catalina.core.ContainerBase.addChild(ContainerBase.java:771)
 at org.apache.catalina.core.StandardHost.addChild(StandardHost.java:546)
 at org.apache.catalina.startup.HostConfig.deployWAR(HostConfig.java:905)
 at org.apache.catalina.startup.HostConfig.deployWARs(HostConfig.java:740)
 at org.apache.catalina.startup.HostConfig.deployApps(HostConfig.java:500)
 at org.apache.catalina.startup.HostConfig.start(HostConfig.java:1277)
 at org.apache.catalina.startup.HostConfig.lifecycleEvent(HostConfig.java:321)
 at org.apache.catalina.util.LifecycleSupport.fireLifecycleEvent(LifecycleSupport.java:119)
 at org.apache.catalina.core.ContainerBase.start(ContainerBase.java:1053)
 at org.apache.catalina.core.StandardHost.start(StandardHost.java:785)
 at org.apache.catalina.core.ContainerBase.start(ContainerBase.java:1045)
 at org.apache.catalina.core.StandardEngine.start(StandardEngine.java:443)
 at org.apache.catalina.core.StandardService.start(StandardService.java:519)
 at org.apache.catalina.core.StandardServer.start(StandardServer.java:710)
 at org.apache.catalina.startup.Catalina.start(Catalina.java:581)
 at sun.reflect.NativeMethodAccessorImpl.invoke0(Native Method)
 at sun.reflect.NativeMethodAccessorImpl.invoke(NativeMethodAccessorImpl.java:39)
 at sun.reflect.DelegatingMethodAccessorImpl.invoke(DelegatingMethodAccessorImpl.java:25)
 at java.lang.reflect.Method.invoke(Method.java:597)
 at org.apache.catalina.startup.Bootstrap.start(Bootstrap.java:289)
 at org.apache.catalina.startup.Bootstrap.main(Bootstrap.java:414)
Caused by: org.springframework.beans.factory.BeanCreationException: Error creating bean with name 'customListener' defined in class path resource [applicationContext.xml]: Instantiation of bean failed; nested exception is java.lang.NoClassDefFoundError: Could not initialize class org.apache.log4j.LogManager
 at org.springframework.beans.factory.support.AbstractAutowireCapableBeanFactory.instantiateBean(AbstractAutowireCapableBeanFactory.java:955)
 at org.springframework.beans.factory.support.AbstractAutowireCapableBeanFactory.createBeanInstance(AbstractAutowireCapableBeanFactory.java:901)
 at org.springframework.beans.factory.support.AbstractAutowireCapableBeanFactory.doCreateBean(AbstractAutowireCapableBeanFactory.java:485)
 at org.springframework.beans.factory.support.AbstractAutowireCapableBeanFactory.createBean(AbstractAutowireCapableBeanFactory.java:456)
 at org.springframework.beans.factory.support.AbstractBeanFactory$1.getObject(AbstractBeanFactory.java:291)
 at org.springframework.beans.factory.support.DefaultSingletonBeanRegistry.getSingleton(DefaultSingletonBeanRegistry.java:222)
 at org.springframework.beans.factory.support.AbstractBeanFactory.doGetBean(AbstractBeanFactory.java:288)
 at org.springframework.beans.factory.support.AbstractBeanFactory.getBean(AbstractBeanFactory.java:190)
 at org.springframework.beans.factory.support.BeanDefinitionValueResolver.resolveReference(BeanDefinitionValueResolver.java:322)
 ... 41 more
Caused by: java.lang.NoClassDefFoundError: Could not initialize class org.apache.log4j.LogManager
 at org.apache.log4j.Logger.getLogger(Logger.java:117)
 at com.mycompany.listener.CustomHibernateListener.<clinit>(CustomHibernateListener.java:69)
 at sun.reflect.NativeConstructorAccessorImpl.newInstance0(Native Method)
 at sun.reflect.NativeConstructorAccessorImpl.newInstance(NativeConstructorAccessorImpl.java:39)
 at sun.reflect.DelegatingConstructorAccessorImpl.newInstance(DelegatingConstructorAccessorImpl.java:27)
 at java.lang.reflect.Constructor.newInstance(Constructor.java:513)
 at org.springframework.beans.BeanUtils.instantiateClass(BeanUtils.java:126)
 at org.springframework.beans.factory.support.SimpleInstantiationStrategy.instantiate(SimpleInstantiationStrategy.java:71)
 at org.springframework.beans.factory.support.AbstractAutowireCapableBeanFactory.instantiateBean(AbstractAutowireCapableBeanFactory.java:948)
 ... 49 more
Sep 14, 2010 5:54:50 PM org.apache.catalina.core.ApplicationContext log
INFO: Closing Spring root WebApplicationContext

I've checked and the only org.apache.log4j.Logger.class file is inside log4j-1.2.14.jar of my application. LogManager present in same package, but it is reported as missed. My pom.xml:

<project xmlns="http://maven.apache.org/POM/4.0.0" xmlns:xsi="http://www.w3.org/2001/XMLSchema-instance"
  xsi:schemaLocation="http://maven.apache.org/POM/4.0.0 http://maven.apache.org/maven-v4_0_0.xsd">
 <modelVersion>4.0.0</modelVersion>
 <groupId>com.mycompany</groupId>
 <artifactId>mainProject</artifactI开发者_StackOverflowd>
 <version>1.1.8</version>
 <packaging>war</packaging>

 <build>
  <sourceDirectory>src</sourceDirectory>  
  <plugins>           
   <plugin>
    <groupId>org.apache.maven.plugins</groupId>
    <artifactId>maven-war-plugin</artifactId>
    <version>2.1</version>
    <configuration>
     <webXml>WebContent/WEB-INF/web.xml</webXml>
     <webResources>
      <resource> 
       <directory>src</directory>
       <targetPath>WEB-INF/classes</targetPath> 
       <excludes>
        <exclude>**/*.java</exclude> 
       </excludes> 
      </resource>
     </webResources>
     <warSourceDirectory>WebContent</warSourceDirectory>
    </configuration>
   </plugin>     

   <plugin>
    <groupId>org.apache.maven.plugins</groupId>
    <artifactId>maven-compiler-plugin</artifactId>
    <version>2.3.1</version>    
   </plugin>

  </plugins>
 </build>
 <repositories>..</repositories>

 <dependencies>

  <dependency>
   <groupId>javax.servlet</groupId>
   <artifactId>servlet-api</artifactId>
   <version>2.5</version>
   <type>jar</type>
   <scope>provided</scope>
  </dependency>

  <dependency>
   <groupId>dom4j</groupId>
   <artifactId>dom4j</artifactId>
   <version>1.6.1</version>
   <type>jar</type>
  </dependency>

  <!-- Hibernate, Hibernate Search and dependencies -->
  <dependency>
   <groupId>org.hibernate</groupId>
   <artifactId>hibernate-search</artifactId>
   <version>3.2.0.Final</version>
  </dependency>
  <dependency>
   <groupId>commons-dbcp</groupId>
   <artifactId>commons-dbcp</artifactId>
   <version>1.4</version>
  </dependency>
  <dependency>
   <groupId>org.apache.lucene</groupId>
   <artifactId>lucene-queryparser</artifactId>
   <version>2.9.2</version>
  </dependency>
  <dependency>
   <groupId>javassist</groupId>
   <artifactId>javassist</artifactId>
   <version>3.8.0.GA</version>
  </dependency>
  <dependency>
   <groupId>org.hibernate</groupId>
   <artifactId>hibernate-annotations</artifactId>
   <version>3.5.0-Final</version>
  </dependency>

  <!-- Spring Framework, Spring Security and dependencies -->
  <dependency>
   <groupId>org.springframework.security</groupId>
   <artifactId>spring-security-core</artifactId>
   <version>3.0.3.RELEASE</version>
   <type>jar</type>
  </dependency>   
  <dependency>
   <groupId>org.springframework</groupId>
   <artifactId>spring-web</artifactId>
   <version>3.0.3.RELEASE</version>
   <type>jar</type>
  </dependency>
  <dependency>
   <groupId>org.springframework</groupId>
   <artifactId>spring-orm</artifactId>
   <version>3.0.3.RELEASE</version>
   <type>jar</type>
  </dependency>  

  <!-- JUnit, JSFUnit and etc. -->
  <dependency>
   <groupId>org.jboss.jsfunit</groupId>
   <artifactId>jboss-jsfunit-core</artifactId>
   <version>1.3.0.Final</version>
  </dependency>

  <!--  JSF -->
  <dependency>
   <groupId>javax.faces</groupId>
   <artifactId>jsf-api</artifactId>
   <version>2.0.2-FCS</version>
  </dependency>
  <dependency>
   <groupId>javax.faces</groupId>
   <artifactId>jsf-impl</artifactId>
   <version>2.0.2-FCS</version>
  </dependency>

  <!-- PrimeFaces and dependencies -->
  <dependency>
   <groupId>org.primefaces</groupId>
   <artifactId>primefaces</artifactId>
   <version>2.1.RC1</version>
  </dependency>
  <dependency>
   <groupId>commons-fileupload</groupId>
   <artifactId>commons-fileupload</artifactId>
   <version>1.2.1</version>
   <type>jar</type>
   <scope>compile</scope>
  </dependency>

  <!-- Sintecmedia infrastructure -->
  <dependency>
   <groupId>com.mycompany</groupId>
   <artifactId>rc-infra</artifactId>
   <version>1.2</version>
  </dependency>

 </dependencies>

</project>

Another pom.xml from infra project:

<project xmlns="http://maven.apache.org/POM/4.0.0" xmlns:xsi="http://www.w3.org/2001/XMLSchema-instance" xsi:schemaLocation="http://maven.apache.org/POM/4.0.0 http://maven.apache.org/maven-v4_0_0.xsd">
 <modelVersion>4.0.0</modelVersion>
 <groupId>com.mycompany/groupId>
 <artifactId>rc-infra</artifactId>
 <packaging>jar</packaging>
 <version>1.2</version>
 <name>infra</name>
 <description>Spring-Hibernate Infrastructure</description>

 <repositories>..</repositories>

 <build>
        <defaultGoal>install</defaultGoal>
        <sourceDirectory>src</sourceDirectory>
        <plugins>

            <!-- http://maven.apache.org/plugins/maven-clean-plugin/clean-mojo.html -->
            <plugin>
                <artifactId>maven-clean-plugin</artifactId>
                <version>2.1</version>
            </plugin>

            <!-- http://maven.apache.org/plugins/maven-compiler-plugin/compile-mojo.html -->
            <plugin>
                <artifactId>maven-compiler-plugin</artifactId>
                <configuration>                 
                    <source>1.5</source>
                    <target>1.5</target>
                    <showDeprecation>true</showDeprecation>
                    <compilerArgument>-Xlint:all</compilerArgument>
                </configuration>
            </plugin>

   <plugin>
     <groupId>org.apache.maven.plugins</groupId>
     <artifactId>maven-source-plugin</artifactId>
     <executions>
       <execution>
         <id>attach-sources</id>
         <goals>
           <goal>jar</goal>
         </goals>
       </execution>
     </executions>
   </plugin>

            <plugin>
                <groupId>org.apache.maven.plugins</groupId>
                <artifactId>maven-eclipse-plugin</artifactId>
                <version>2.6</version>
                <configuration>
                    <workspace>${eclipse.workspace.dir}</workspace>
                </configuration>
            </plugin>

            <plugin>
             <groupId>org.apache.maven.plugins</groupId>
             <artifactId>maven-javadoc-plugin</artifactId>
             <version>2.7</version>
             <configuration>
              <outputDirectory>${eclipse.workspace.dir}/doc</outputDirectory>
              <sourcePath>${eclipse.workspace.dir}/src/main/java</sourcePath>
             </configuration>
            </plugin>
        </plugins>
    </build>

    <dependencies>

     <dependency>
         <groupId>log4j</groupId>
         <artifactId>log4j</artifactId>
         <version>1.2.14</version>
        </dependency>

  <!-- Hibernate dependencies -->
        <dependency>
         <groupId>org.hibernate</groupId>
         <artifactId>hibernate-core</artifactId>
         <version>3.5.1-Final</version>
        </dependency>

        <!-- Spring dependencies -->               
        <dependency>
         <groupId>org.springframework</groupId>
         <artifactId>spring-core</artifactId>
         <version>3.0.3.RELEASE</version>
        </dependency>                     
        <dependency>
         <groupId>org.springframework</groupId>
         <artifactId>spring-context</artifactId>
         <version>3.0.3.RELEASE</version>
        </dependency>
        <dependency>
         <groupId>org.springframework</groupId>
         <artifactId>spring-tx</artifactId>
         <version>3.0.3.RELEASE</version>
        </dependency>

    </dependencies>

</project>

Is anybody know what is the problem and how to fix it?

NoClassDefFoundError: Could not initialize class org.apache.log4j.LogManager

This trace indicates a problem in the static initialization block of org.apache.log4j.LogManager.

I don't have the full explanation but I would start by doing some clean up in your dependencies, they are a bit messy:

• Why do you have several versions of Hibernate JARs (3.5.0-Final and 3.5.1-Final). You should make them converge.
• Hibernate uses SLF4J, why don't you have any binding for log4j?
• Spring uses commons-logging, I would configure it to use SLF4J also to avoid any conflicts and potential classloading problems. See Logging Dependencies in Spring for full explanations.

The last point is IMO the most important.

Is the log4j property file on your app classpath? LogManager might use it as a static resource and doesn't initalize if it is missing.

Pascal's answer contains a link to useful 'Logging Dependencies in Spring' article. It describes how to override old commons-logging jar and to use slf4j or log4j. The problem was that log4j conflicted with commons-logging. Excluding it from maven dependencies of spring-context, solved the issue. However, I still don't understand why the issue was with manual deploy only and doesn't happened if the webapp is run from Eclipse?