Copied apt-get stuff to install depencies back into the installer, so it is done before the git clone.
fixPermissions.sh and updateCron.sh are still executed from the repo.
In updater, call runAfterUpdate.sh
Do all the apt-get stuff in the installer too as the first step. InstallDependencies.sh from the script repo is not used by the installer anymore.
This was necessary because apache had to be installed first.
Temporarily checkout develop in the installer, for testing until we merge the new way of doing things into master.