move running of setup scripts to shell provisioner

Puppet is really handy for initial configuration of the environment,
however it's actually really poor at running stack.sh because you
don't get any output as you go. This instead moves that to the
shell provisioning tool to make for a better interactive experience.

Change-Id: Ia00a68d7ebd58a5b0ab653e53fb4e479b408c2a2