Re: [Treebase-devel] Deploying under Tomcat

[Vladimir G. <vga...@ne...>]

On Dec 15, 2009, at 4:41 PM, youjun guo wrote:

> Vladimir,
>
> jdbc.properties should be add to main/resource of treebase-core  
> before bilud, and it will be built into treebase-core jar file.
>

Thanks, this has moved me forward.  The deployment still fails,  
apparently due to mesquite again. See the excerpt from logs/ 
catalina.out below.

I do see numerous Eclipse complaints about failing 'import  
mesquite.lib.*'., which I did not see earlier in the day!  I did  
update from SVN, as well as all Maven-related update commands I could  
see in the UI.

--Vladimir



[main] ERROR org.springframework.web.context.ContextLoader - Context  
initialization failed
org.springframework.beans.factory.BeanCreationException: Error  
creating bean with name 'sessionFactory' defined in URL [jar:file:/ 
Users/vgapeyev/Work/TreeBase/devel/applications/apache-tomcat-5.5.28/ 
webapps/treebase-web/WEB-INF/lib/treebase-core-1.0-SNAPSHOT.jar!/ 
applicationContext-dao.xml]: Invocation of init method failed; nested  
exception is org.hibernate.InstantiationException: could not  
instantiate test objectorg.cipres.treebase.domain.taxon.TaxonLabelSet
Caused by:
org.hibernate.InstantiationException: could not instantiate test  
objectorg.cipres.treebase.domain.taxon.TaxonLabelSet
	at  
org 
.hibernate 
.engine.UnsavedValueFactory.instantiate(UnsavedValueFactory.java:25)
	at  
org 
.hibernate 
.engine 
.UnsavedValueFactory 
.getUnsavedIdentifierValue(UnsavedValueFactory.java:44)
	at  
org 
.hibernate 
.tuple.PropertyFactory.buildIdentifierProperty(PropertyFactory.java:44)
	at  
org.hibernate.tuple.entity.EntityMetamodel.<init>(EntityMetamodel.java: 
124)
	at  
org 
.hibernate 
.persister 
.entity.AbstractEntityPersister.<init>(AbstractEntityPersister.java:434)
	at  
org 
.hibernate 
.persister 
.entity 
.SingleTableEntityPersister.<init>(SingleTableEntityPersister.java:109)
	at  
org 
.hibernate 
.persister.PersisterFactory.createClassPersister(PersisterFactory.java: 
55)
	at  
org.hibernate.impl.SessionFactoryImpl.<init>(SessionFactoryImpl.java: 
226)
	at  
org.hibernate.cfg.Configuration.buildSessionFactory(Configuration.java: 
1300)
	at  
org 
.hibernate 
.cfg 
.AnnotationConfiguration 
.buildSessionFactory(AnnotationConfiguration.java:859)
	at  
org 
.springframework 
.orm 
.hibernate3 
.LocalSessionFactoryBean 
.newSessionFactory(LocalSessionFactoryBean.java:805)
	at  
org 
.springframework 
.orm 
.hibernate3 
.LocalSessionFactoryBean 
.buildSessionFactory(LocalSessionFactoryBean.java:745)
	at  
org 
.springframework 
.orm 
.hibernate3 
.AbstractSessionFactoryBean 
.afterPropertiesSet(AbstractSessionFactoryBean.java:134)
	at  
org 
.springframework 
.beans 
.factory 
.support 
.AbstractAutowireCapableBeanFactory 
.invokeInitMethods(AbstractAutowireCapableBeanFactory.java:1198)
	at  
org 
.springframework 
.beans 
.factory 
.support 
.AbstractAutowireCapableBeanFactory 
.initializeBean(AbstractAutowireCapableBeanFactory.java:1167)
	at  
org 
.springframework 
.beans 
.factory 
.support 
.AbstractAutowireCapableBeanFactory 
.createBean(AbstractAutowireCapableBeanFactory.java:427)
	at org.springframework.beans.factory.support.AbstractBeanFactory 
$1.getObject(AbstractBeanFactory.java:249)
	at  
org 
.springframework 
.beans 
.factory 
.support 
.DefaultSingletonBeanRegistry 
.getSingleton(DefaultSingletonBeanRegistry.java:155)
	at  
org 
.springframework 
.beans 
.factory.support.AbstractBeanFactory.getBean(AbstractBeanFactory.java: 
246)
	at  
org 
.springframework 
.beans 
.factory.support.AbstractBeanFactory.getBean(AbstractBeanFactory.java: 
160)
	at  
org 
.springframework 
.beans 
.factory 
.support 
.DefaultListableBeanFactory 
.preInstantiateSingletons(DefaultListableBeanFactory.java:285)
	at  
org 
.springframework 
.context 
.support 
.AbstractApplicationContext.refresh(AbstractApplicationContext.java:352)
	at org.springframework.web.context.ContextLoader.createWebApplicationContext 
(ContextLoader.java:245)
	at org.springframework.web.context.ContextLoader.initWebApplicationContext 
(ContextLoader.java:188)
	at org.springframework.web.context.ContextLoaderListener.contextInitialized 
(ContextLoaderListener.java:49)
	at  
org 
.cipres 
.treebase 
.web.listeners.StartupListener.contextInitialized(StartupListener.java: 
45)
	at  
org 
.apache 
.catalina.core.StandardContext.listenerStart(StandardContext.java:3795)
	at  
org.apache.catalina.core.StandardContext.start(StandardContext.java: 
4252)
	at  
org 
.apache 
.catalina.core.ContainerBase.addChildInternal(ContainerBase.java:760)
	at org.apache.catalina.core.ContainerBase.addChild(ContainerBase.java: 
740)
	at org.apache.catalina.core.StandardHost.addChild(StandardHost.java: 
544)
	at org.apache.catalina.startup.HostConfig.deployWAR(HostConfig.java: 
831)
	at org.apache.catalina.startup.HostConfig.deployWARs(HostConfig.java: 
720)
	at org.apache.catalina.startup.HostConfig.deployApps(HostConfig.java: 
490)
	at org.apache.catalina.startup.HostConfig.start(HostConfig.java:1150)
	at  
org.apache.catalina.startup.HostConfig.lifecycleEvent(HostConfig.java: 
311)
	at  
org 
.apache 
.catalina 
.util.LifecycleSupport.fireLifecycleEvent(LifecycleSupport.java:120)
	at org.apache.catalina.core.ContainerBase.start(ContainerBase.java: 
1022)
	at org.apache.catalina.core.StandardHost.start(StandardHost.java:736)
	at org.apache.catalina.core.ContainerBase.start(ContainerBase.java: 
1014)
	at org.apache.catalina.core.StandardEngine.start(StandardEngine.java: 
443)
	at  
org.apache.catalina.core.StandardService.start(StandardService.java:448)
	at org.apache.catalina.core.StandardServer.start(StandardServer.java: 
700)
	at org.apache.catalina.startup.Catalina.start(Catalina.java:552)
	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:592)
	at org.apache.catalina.startup.Bootstrap.start(Bootstrap.java:295)
	at org.apache.catalina.startup.Bootstrap.main(Bootstrap.java:433)
Caused by: java.lang.reflect.InvocationTargetException
	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:501)
	at  
org 
.hibernate 
.engine.UnsavedValueFactory.instantiate(UnsavedValueFactory.java:22)
	... 49 more
Caused by: java.lang.Error: Unresolved compilation problems:
	The import mesquite.lib cannot be resolved
	StringUtil cannot be resolved
	StringUtil cannot be resolved
	StringUtil cannot be resolved
	StringUtil cannot be resolved

	at  
org 
.cipres.treebase.domain.taxon.TaxonLabelSet.<init>(TaxonLabelSet.java: 
18)
	... 54 more