Eclipse with Tomcat 6 Problem

Hello,
When I try to start Tomcat 6 in Eclipse, I get the following error message:
Publishing failed
Could not load the Tomcat server configuration at \Servers\Tomcat v6.0 Server at localhost-config. The configuration may be corrupt or incomplete.
Resource is out of sync with the file system: '/Servers/Tomcat v6.0 Server at localhost-config/web.xml'.
In the beginning I thought the problem might be caused by me inserting a few changes to the web.xml global file and maybe corrupting it in the process. However, I restored the original file and the problem still persists. I have no problem starting Tomcat using the standard start-up script, which indicates web.xml is actually valid, it fails just when starting from Eclipse.
Does anyone have an idea what the problem is?
Thanks.

Bug 228039 from Eclipse MIGHT help, but I'm not sure.
https://bugs.eclipse.org/bugs/show_bug.cgi?id=228039
It says to manually refresh the file in Eclipse explorer.
Bug 107386 from Eclipse MIGHT also help.
https://bugs.eclipse.org/bugs/show_bug.cgi?id=107386
No workaround yet.

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