parametrised LAMP script

- Added PHP Version and webroot in LAMP script
- renamed mysql-install as LAMP-install
fixed default vhost for php5.5
fixed errors with Apache 2.4 when installing php5.5

- added new default vhost
- fixed a small symlinking bug
fixed mysql pass not set, fixed symbolic links created for nothing
fixed small bug on mysql snapshot loading
Avoiding root user creation
cleaned up all directory structure, updated README and Vagrantfile-sample