Upgrade from 4.5.6 to 4.5.10 OpenSource on Ubuntu 6.06

Full off-line backup before upgrade.

I have reverted back to the backup three times and verified that it it works, then I upgrade and not so good.

No errors at time of update, or at boot. Just no web interface, admin interface and IMAP from Thunderbird times out.

zimbra@zimbra:~$ zmcontrol start
Host zimbra.collaborative.org
Starting ldap...Done.
Starting logger...Done.
Starting mailbox...Done.
Starting imapproxy...Done.
Starting antispam...Done.
Starting antivirus...Done.
Starting snmp...Done.
Starting spell...Done.
Starting mta...Done.
Starting stats...Done.

Everything looks good, except ...

zimbra@zimbra:~$ zmcontrol status
Host zimbra.collaborative.org
antispam Running
antivirus Running
imapproxy Running
ldap Running
logger Running
mailbox Stopped
tomcat is not running
mta Running
snmp Running
spell Running
stats Running

Catalin says:
zimbra@zimbra:~$ cat /opt/zimbra/tomcat/logs/catalina.out
Dec 4, 2007 5:13:45 PM org.apache.coyote.http11.Http11BaseProtocol init
INFO: Initializing Coyote HTTP/1.1 on http-80
Dec 4, 2007 5:13:46 PM org.apache.coyote.http11.Http11BaseProtocol init
INFO: Initializing Coyote HTTP/1.1 on http-443
Dec 4, 2007 5:13:46 PM org.apache.coyote.http11.Http11BaseProtocol init
INFO: Initializing Coyote HTTP/1.1 on http-7071
Dec 4, 2007 5:13:46 PM org.apache.catalina.startup.Catalina load
INFO: Initialization processed in 2204 ms
Dec 4, 2007 5:13:46 PM org.apache.catalina.core.StandardService start
INFO: Starting service Catalina
Dec 4, 2007 5:13:46 PM org.apache.catalina.core.StandardEngine start
INFO: Starting Servlet Engine: Apache Tomcat/5.5.15
Dec 4, 2007 5:13:46 PM org.apache.catalina.core.StandardHost start
INFO: XML validation disabled
log4j:WARN No appenders could be found for logger (org.apache.catalina.startup.T ldConfig).
log4j:WARN Please initialize the log4j system properly.
Dec 4, 2007 5:13:47 PM org.apache.catalina.core.StandardContext resourcesStart
SEVERE: Error starting static Resources
java.lang.IllegalArgumentException: Document base /opt/zimbra/apache-tomcat-5.5. 15/server/webapps/host-manager does not exist or is not a readable directory
at org.apache.naming.resources.FileDirContext.setDocB ase(FileDirContext. java:140)
at org.apache.catalina.core.StandardContext.resources Start(StandardConte xt.java:3812)
at org.apache.catalina.core.StandardContext.start(Sta ndardContext.java:3 983)
at org.apache.catalina.core.ContainerBase.addChildInt ernal(ContainerBase .java:759)
at org.apache.catalina.core.ContainerBase.addChild(Co ntainerBase.java:73 9)
at org.apache.catalina.core.StandardHost.addChild(Sta ndardHost.java:524)
at org.apache.catalina.startup.HostConfig.deployDescr iptor(HostConfig.ja va:603)
at org.apache.catalina.startup.HostConfig.deployDescr iptors(HostConfig.j ava:535)
at org.apache.catalina.startup.HostConfig.deployApps( HostConfig.java:470 )
at org.apache.catalina.startup.HostConfig.start(HostC onfig.java:1118)
at org.apache.catalina.startup.HostConfig.lifecycleEv ent(HostConfig.java :310)
at org.apache.catalina.util.LifecycleSupport.fireLife cycleEvent(Lifecycl eSupport.java:119)
at org.apache.catalina.core.ContainerBase.start(Conta inerBase.java:1020)
at org.apache.catalina.core.StandardHost.start(Standa rdHost.java:718)
at org.apache.catalina.core.ContainerBase.start(Conta inerBase.java:1012)
at org.apache.catalina.core.StandardEngine.start(Stan dardEngine.java:442 )
at org.apache.catalina.core.StandardService.start(Sta ndardService.java:4 50)
at org.apache.catalina.core.StandardServer.start(Stan dardServer.java:700 )
at org.apache.catalina.startup.Catalina.start(Catalin a.java:551)
at sun.reflect.NativeMethodAccessorImpl.invoke0(Nativ e Method)
at sun.reflect.NativeMethodAccessorImpl.invoke(Native MethodAccessorImpl. java:39)
at sun.reflect.DelegatingMethodAccessorImpl.invoke(De legatingMethodAcces sorImpl.java:25)
at java.lang.reflect.Method.invoke(Method.java:597)
at org.apache.catalina.startup.Bootstrap.start(Bootst rap.java:275)
at org.apache.catalina.startup.Bootstrap.main(Bootstr ap.java:406)
at sun.reflect.NativeMethodAccessorImpl.invoke0(Nativ e Method)
at sun.reflect.NativeMethodAccessorImpl.invoke(Native MethodAccessorImpl. java:39)
at sun.reflect.DelegatingMethodAccessorImpl.invoke(De legatingMethodAcces sorImpl.java:25)
at java.lang.reflect.Method.invoke(Method.java:597)
at com.zimbra.cs.launcher.TomcatLauncher.start(Tomcat Launcher.java:42)
at com.zimbra.cs.launcher.TomcatLauncher.main(TomcatL auncher.java:64)
Dec 4, 2007 5:13:47 PM org.apache.catalina.core.StandardContext start
SEVERE: Error in resourceStart()
Dec 4, 2007 5:13:47 PM org.apache.catalina.core.StandardContext start
SEVERE: Error getConfigured
Dec 4, 2007 5:13:47 PM org.apache.catalina.core.StandardContext start
SEVERE: Context [/host-manager] startup failed due to previous errors
Dec 4, 2007 5:13:47 PM org.apache.catalina.core.StandardContext stop
INFO: Container org.apache.catalina.core.ContainerBase.[Catalina].[localhost].[/ host-manager] has not been started
Dec 4, 2007 5:13:47 PM org.apache.catalina.startup.HostConfig deployDescriptor
WARNING: A docBase /opt/zimbra/apache-tomcat-5.5.15/webapps/zimbra inside the ho st appBase has been specified, and will be ignored
log4j:WARN No appenders could be found for logger (org.apache.catalina.session.M anagerBase).
log4j:WARN Please initialize the log4j system properly.
Dec 4, 2007 5:13:48 PM org.apache.catalina.core.StandardContext resourcesStart
SEVERE: Error starting static Resources
j
at org.apache.catalina.startup.Bootstrap.main(Bootstr ap.java:406)
at sun.reflect.NativeMethodAccessorImpl.invoke0(Nativ e Method)
at sun.reflect.NativeMethodAccessorImpl.invoke(Native MethodAccessorImpl. java:39)
at sun.reflect.DelegatingMethodAccessorImpl.invoke(De legatingMethodAcces sorImpl.java:25)
at java.lang.reflect.Method.invoke(Method.java:597)
at com.zimbra.cs.launcher.TomcatLauncher.start(Tomcat Launcher.java:42)
at com.zimbra.cs.launcher.TomcatLauncher.main(TomcatL auncher.java:64)
Dec 4, 2007 5:13:48 PM org.apache.catalina.core.StandardContext start
SEVERE: Error in resourceStart()
Dec 4, 2007 5:13:48 PM org.apache.catalina.core.StandardContext start
SEVERE: Error getConfigured
Dec 4, 2007 5:13:48 PM org.apache.catalina.core.StandardContext start
SEVERE: Context [/manager] startup failed due to previous errors
Dec 4, 2007 5:13:48 PM org.apache.catalina.core.StandardContext stop
INFO: Container org.apache.catalina.core.ContainerBase.[Catalina].[localhost].[/ manager] has not been started
log4j:WARN No appenders could be found for logger (org.apache.catalina.session.M anagerBase).
log4j:WARN Please initialize the log4j system properly.
Zimbra server reserving server socket port=995 bindaddr=null ssl=true
Fatal error: terminating: PrivilegedServlet init failed




Any help at all is appreciated. I have gone through the forum and tried many fixes, but none work.

Thank you.

'topher