Removed old Bash script related installation.

This branch is a development branch used to create the next generation of the installation script.

It will be using PHP as the command line scripting language, and it will have multiple other features. Amongst others, people will be able to only install and upgrade specific parts of the system. Everything will be modular.
Initial (incomplete) version of this new generation of the OSF Installer script.
Fix the markdown syntax of the readme file.
Finishing the installPhp5() PHP5 installation method.
(1) starting to use ubuntu 12.10 in this version
(2) using the ubuntu 12.10 virtuoso package for installing it. Faster and better. Now using the latest version 6.1.6 which was required.
(3) fixing php5 installation steps to comply with ubuntu 12.10
Adding some more checks in installApache2():

 (1) check if Apache2 is running
 (2) check if Apache2 is running using IPv6
Adding installation options for:

 (1) mysql
 (2) phpmyadmin
Added, refactored and expended the installer.

Still a work in progress, more to come.
(1) move installOSF() into the abstract class as an implemented method
(2) load ontologies and create sub-structures when installing structWSF
Add the ontologies.lst file used to load the ontologies using the Ontologies Management Tool.
Fix an issue in the installation sequence.
Fix an issue in the sequence steps of the upgrade script.
Updated readme file with the latest instructions.
(1) unhold php5-odbc before installing virtuoso, re-putting it on hold after
(2) sleep 20 secs between stopping and starting virtuoso when we check if restarting works.
Fix a dependency issue related to the way php5-odbc that uses idobc get handled when installing Virtuoso.
(1) fix an issue when unzipping ARC2 (bad option for unzip)
(2) Change dir issue (was in an unknown place)
(3) missing slash in the path
(1) Refactored the classes system
(2) Added the initial version of the structWSF upgrader
(1) prompt the user to configure the OSF-Installer tool if it is the first time they use it
(2) new option to list all current configurations
(3) new option to re-configure the options, and save them into the installer.ini file
Remove all the questions requested to the users that are already in the configuration file.
Set the working directory of this script to its home directory. That way, if it is ran from elsewhere, the relative paths will follow.