Update puppetserver configuration values

The "master-conf-dir", "master-code-dir", "master-var-dir", "master-log-dir", and "master-run-dir" config settings have been deprecated in favor of "server-conf-dir", "server-code-dir", "server-var-dir", "server-log-dir", and "server-run-dir" respectively. As part of the next release new config files which use the new terms will ship with the package. The old names are still honored for backwards compatibility but users should upgrade to the newer settings names at their earliest convenience.