1.0.0/dir organize. Fixes #92

Fixes #92 by moving a bunch of folders. Here is the list of folders in the root now.

* content
* docs
* lib
* plugins
* themes

This is the lib folder now

* Phile
* cache
* datastorage
* vendor

This also includes Twig 1.15.1

Please review @NeoBlack in case there was something I missed.