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Re: [Treebase-devel] Deploying under Tomcat
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From: Rutger V. <rut...@gm...> - 2009-12-16 10:07:59
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I agree that it's useful to have a local web application inside a local tomcat, and it shouldn't be too hard to get that up and running beyond the point where you are now. I am aware of the mesquite.lib.* issues and have just sent out an email discussing this on the "Mesquite troubles" thread. On Wed, Dec 16, 2009 at 4:23 AM, Hilmar Lapp <hl...@ne...> wrote: > Youjun - I don't know whether by TreeBASE installation you mean the database > or the web-application or both. I think it's pretty critical that every > developer can bring up a local version of the web-application. They may all > be accessing the same database, but if everyone is updating and redeploying > on the same application server for every change or debugging run then chaos > of the unproductive kind will ensue quickly. > -hilmar > On Dec 15, 2009, at 11:17 PM, youjun guo wrote: > > Vladimir, > > Why do you want to deploy a new TreeBASE installation? If you just want to > add a java encrypt implementation like MD5 to TreeBASE code, I my be able to > help with it. Then you can focus on some other task. > > Youjun > > On Tue, Dec 15, 2009 at 5:50 PM, Vladimir Gapeyev <vga...@ne...> > wrote: >> >> 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 >> >> >> >> >> > > ------------------------------------------------------------------------------ > This SF.Net email is sponsored by the Verizon Developer Community > Take advantage of Verizon's best-in-class app development support > A streamlined, 14 day to market process makes app distribution fast and easy > Join now and get one step closer to millions of Verizon customers > http://p.sf.net/sfu/verizon-dev2dev > _______________________________________________ > Treebase-devel mailing list > Tre...@li... > https://lists.sourceforge.net/lists/listinfo/treebase-devel > > -- > =========================================================== > : Hilmar Lapp -:- Durham, NC -:- informatics.nescent.org : > =========================================================== > > > > ------------------------------------------------------------------------------ > This SF.Net email is sponsored by the Verizon Developer Community > Take advantage of Verizon's best-in-class app development support > A streamlined, 14 day to market process makes app distribution fast and easy > Join now and get one step closer to millions of Verizon customers > http://p.sf.net/sfu/verizon-dev2dev > _______________________________________________ > Treebase-devel mailing list > Tre...@li... > https://lists.sourceforge.net/lists/listinfo/treebase-devel > > -- Dr. Rutger A. Vos School of Biological Sciences Philip Lyle Building, Level 4 University of Reading Reading RG6 6BX United Kingdom Tel: +44 (0) 118 378 7535 http://www.nexml.org http://rutgervos.blogspot.com |
