Allow hidden options to be added to a command. This allows certain commands (like apt-get) to be forced during the build without making that a part of the documentation.
Release notes are now broken into sections so that bugs, features, and refactors are clearly delineated. An "Additional Notes" section has been added for changes to documentation and the test suite that do not affect the core code.
The change log was the last piece of documentation to be rendered in Markdown only. Wrote a converter so the document can be output by the standard renderers. The change log will now be located on the website and has been renamed to "Releases".
1) Started on a general markdown renderer
2) Internal links now work in PDF
3) Improvements to PDF styling
4) Some comment and formatting fixes
5) User guide edits.
