Added modules, core includes logic and stage file proxy.

Makefile:
	- Added Coffee module.
	- Added Context module.
	- Added Contextual modules module.
	- Added Contextual variables module.
	- Added Context server variables module.
	- Added Features override module.
	- Added Stage file proxy module.
Feature:
	- Added includes logic.
	- Added Stage file proxy variables/toggle.
#4: Hide 'Groups' menu item.
Re-arranged makefile structure and added upgrade path.