How do I control which files I want to generate?

[segfaultxavi]

Doxygen is very verbose, and I would like to remove most of the files it generates. I probably can get away with only the class files.
But the SHOW_FILES or HIDE_NAMESPACES Doxygen options do not seem to work.
I am generating the nav file using the gen-files plugin, but if I tweak it so it does not include the files I am not interested in, I get mkdocs warnings about source files not present in the navigation.

Is there a way to tell MkDoxy what files to generate, or do I need to add some hack, like a hook to remove the files I don't want in the on_files event?

Thanks!