init script and documentation clean up

New, more robust init script directly executes the pytomation script without calling the pytomation.sh shim script. PID creation handled by start-stop-daemon. LSB functions used in init script for better integration with Debian start-up process. Install.sh updated to remove old init scripts and set runlevels properly (including mark for shutdown at lower runlevels).

Updated documentation to refer to Debian packages for python libraries where applicable.