What kind of application is this (where's the POD, inline or what)?
Don't rule out pod just yet -- just because officially only head1..4 is supported, don't mean you can't make it head1..n -- grab one of the following, and work some magic ;D Pod::POM, Pod::Tree (watchout for pod2html), Pod::Parser.
XML + templating system is something to think about.
You might also wanna exploit Exuberant CTags (http://ctags.sf.net)
and look into DocBook (http://docbook.org)
MJD says you
can't just make shit up and expect the computer to know what you mean, retardo!
** The Third rule of perl club is a statement of fact: pod is sexy.
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