[Treebase-devel] Re-doing DeveloperEnvironment instructions

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I tried today to re-do, from scratch, the original Rutger's example  
configuration from http://sourceforge.net/apps/mediawiki/treebase/index.php?title=DeveloperEnvironment 
.  There are still a few more things to figure out.

Actually, I went through all the instructions successfully, concluding  
with creating a Tomcat server in Eclipse Servers view.  However,  
starting this server failed to start a treebase-web instance -- see  
the full log below.  There are 2 visible problems:

(1)  Missing jdbc.properties.  I do not know where it is missing  
from.  I see that treebase-web/pom.xml has a task that copies  
$JDBC_HOME/jdbc.properties to treebase-web/src/main/resources.  There  
is no similar task in treebase-core/pom.xml, and when I had  earlier  
followed Youjun's advice in another setting, I did create treebase- 
core/src/main/resources/jdbc.properties by hand.  I tried that now,  
but it did not help.

(2) The class org/apache/commons/digester/Digester is missing.  This  
is probably a build problem, since eclipse does complain that  
dependency M2_REPO/..../commons-digester-1.5.jar is missing (alongside  
with jta-1.0.1b.jar).  Where should I add these dependencies and which  
steps in the instructions should I redo?

Thanks,
--Vladimir

Dec 18, 2009 2:41:52 PM org.apache.catalina.core.AprLifecycleListener  
lifecycleEvent
INFO: The Apache Tomcat Native library which allows optimal  
performance in production environments was not found on the  
java.library.path: .:/Library/Java/Extensions:/System/Library/Java/ 
Extensions:/usr/lib/java
Dec 18, 2009 2:41:52 PM org.apache.coyote.http11.Http11BaseProtocol init
INFO: Initializing Coyote HTTP/1.1 on http-8080
Dec 18, 2009 2:41:52 PM org.apache.catalina.startup.Catalina load
INFO: Initialization processed in 587 ms
Dec 18, 2009 2:41:52 PM org.apache.catalina.core.StandardService start
INFO: Starting service Catalina
Dec 18, 2009 2:41:52 PM org.apache.catalina.core.StandardEngine start
INFO: Starting Servlet Engine: Apache Tomcat/5.5.28
Dec 18, 2009 2:41:52 PM org.apache.catalina.core.StandardHost start
INFO: XML validation disabled
Dec 18, 2009 2:41:53 PM org.apache.catalina.loader.WebappClassLoader  
validateJarFile
INFO: validateJarFile(/Users/vgapeyev/Work/TreeBase/devel2/treebase/ 
trunk/.metadata/.plugins/org.eclipse.wst.server.core/tmp0/wtpwebapps/ 
treebase-web/WEB-INF/lib/geronimo-servlet_2.5_spec-1.2.jar) - jar not  
loaded. See Servlet Spec 2.3, section 9.7.2. Offending class: javax/ 
servlet/Servlet.class
Dec 18, 2009 2:41:53 PM org.apache.catalina.loader.WebappClassLoader  
validateJarFile
INFO: validateJarFile(/Users/vgapeyev/Work/TreeBase/devel2/treebase/ 
trunk/.metadata/.plugins/org.eclipse.wst.server.core/tmp0/wtpwebapps/ 
treebase-web/WEB-INF/lib/servlet-api-2.4.jar) - jar not loaded. See  
Servlet Spec 2.3, section 9.7.2. Offending class: javax/servlet/ 
Servlet.class
[main] DEBUG org.cipres.treebase.web.listeners.StartupListener -  
contextInitialized(ServletContextEvent) - 
FORMAT_DELIMITER_MSG= :FORMAT_RETURN_VALUE_NAME=return valuestart
[main] ERROR org.springframework.web.context.ContextLoader - Context  
initialization failed
org.springframework.beans.factory.BeanInitializationException: Could  
not load properties; nested exception is  
java.io.FileNotFoundException: class path resource [jdbc.properties]  
cannot be opened because it does not exist
Caused by:
java.io.FileNotFoundException: class path resource [jdbc.properties]  
cannot be opened because it does not exist
	at  
org 
.springframework 
.core.io.ClassPathResource.getInputStream(ClassPathResource.java:135)
	at  
org 
.springframework 
.core 
.io 
.support 
.PropertiesLoaderSupport.loadProperties(PropertiesLoaderSupport.java: 
179)
	at  
org 
.springframework 
.core 
.io 
.support 
.PropertiesLoaderSupport.mergeProperties(PropertiesLoaderSupport.java: 
158)
	at  
org 
.springframework 
.beans 
.factory 
.config 
.PropertyResourceConfigurer 
.postProcessBeanFactory(PropertyResourceConfigurer.java:68)
	at  
org 
.springframework 
.context 
.support 
.AbstractApplicationContext 
.invokeBeanFactoryPostProcessors(AbstractApplicationContext.java:467)
	at  
org 
.springframework 
.context 
.support 
.AbstractApplicationContext.refresh(AbstractApplicationContext.java:334)
	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.start(ContainerBase.java: 
1014)
	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)
[main] ERROR org.apache.catalina.core.ContainerBase.[Catalina]. 
[localhost].[/treebase-web] - Exception sending context initialized  
event to listener instance of class org.cipres.treebase.web.listeners.StartupListener
org.springframework.beans.factory.BeanInitializationException: Could  
not load properties; nested exception is  
java.io.FileNotFoundException: class path resource [jdbc.properties]  
cannot be opened because it does not exist
Caused by:
java.io.FileNotFoundException: class path resource [jdbc.properties]  
cannot be opened because it does not exist
	at  
org 
.springframework 
.core.io.ClassPathResource.getInputStream(ClassPathResource.java:135)
	at  
org 
.springframework 
.core 
.io 
.support 
.PropertiesLoaderSupport.loadProperties(PropertiesLoaderSupport.java: 
179)
	at  
org 
.springframework 
.core 
.io 
.support 
.PropertiesLoaderSupport.mergeProperties(PropertiesLoaderSupport.java: 
158)
	at  
org 
.springframework 
.beans 
.factory 
.config 
.PropertyResourceConfigurer 
.postProcessBeanFactory(PropertyResourceConfigurer.java:68)
	at  
org 
.springframework 
.context 
.support 
.AbstractApplicationContext 
.invokeBeanFactoryPostProcessors(AbstractApplicationContext.java:467)
	at  
org 
.springframework 
.context 
.support 
.AbstractApplicationContext.refresh(AbstractApplicationContext.java:334)
	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.start(ContainerBase.java: 
1014)
	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)
[main] ERROR org.apache.catalina.core.ContainerBase.[Catalina]. 
[localhost].[/treebase-web] - Exception sending context initialized  
event to listener instance of class  
net.sf.navigator.menu.MenuContextListener
java.lang.NoClassDefFoundError: org/apache/commons/digester/Digester
	at  
net.sf.navigator.menu.MenuRepository.initDigester(MenuRepository.java: 
83)
	at net.sf.navigator.menu.MenuRepository.load(MenuRepository.java:210)
	at  
net 
.sf 
.navigator 
.menu.MenuContextListener.contextInitialized(MenuContextListener.java: 
64)
	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.start(ContainerBase.java: 
1014)
	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)
Dec 18, 2009 2:41:54 PM org.apache.catalina.core.StandardContext start
SEVERE: Error listenerStart
Dec 18, 2009 2:41:54 PM org.apache.catalina.core.StandardContext start
SEVERE: Context [/treebase-web] startup failed due to previous errors
WARN: The method class  
org.apache.commons.logging.impl.SLF4JLogFactory#release() was invoked.
WARN: Please see http://www.slf4j.org/codes.html for an explanation.
Dec 18, 2009 2:41:54 PM org.apache.coyote.http11.Http11BaseProtocol  
start
INFO: Starting Coyote HTTP/1.1 on http-8080
Dec 18, 2009 2:41:54 PM org.apache.jk.common.ChannelSocket init
INFO: JK: ajp13 listening on /0.0.0.0:8009
Dec 18, 2009 2:41:54 PM org.apache.jk.server.JkMain start
INFO: Jk running ID=0 time=0/17  config=null
Dec 18, 2009 2:41:54 PM org.apache.catalina.storeconfig.StoreLoader load
INFO: Find registry server-registry.xml at classpath resource
Dec 18, 2009 2:41:54 PM org.apache.catalina.startup.Catalina start
INFO: Server startup in 1983 ms