Managing Java applications in CMS

I've tried posting this a few times now. Apologies if more than one copy 
appears.

At our shop we are using J2EE to build Web apps. For example, we have 
signup forms for some of our various programs implemented as servlet/JSP 
applications. We will soon purchase a CMS. I am wondering how those two 
things are going to go together. The way we set up Java applications is to 
package the whole application into a ".war" file (.war : "Web archive") and 
place that into the anointed directory of JRun. Every part of the 
application, servlets and JSP files, images, etc., is inside this .war file.

This mode of operation does not seem like it would work in a CMS 
environment. From what I understand, a CMS stores all these page elements 
in a database and assembles them either at run time or in advance. But you 
can't break a .war file apart and store the pieces in a database and still 
have a working application.

There are many Web apps and they are scattered throughout the site. So what 
we really need is to manage their page elements at the same time that we 
manage the elements of our HTML pages.

Any insight or information about this issue would be greatly appreciated.

Thanks,

Ethan

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