Doc: update 00-INDEX files to reflect the runnable code move

Update 00-INDEX files with the current file list to reflect the runnable
code move.

Acked-by: Michal Marek <mmarek@suse.com>
Acked-by: Jonathan Corbet <corbet@lwn.net>
Reviewed-by: Kees Cook <keescook@chromium.org>
Signed-off-by: Shuah Khan <shuahkh@osg.samsung.com>