Replace chocolatey-chocolatey references with puppetlabs-chocolatey since the latter appears to be maintained.
Comment out gentoo-portage and puppetlabs-chocolatey entries for Beaker acceptance tests, since we currently do not run Beaker tests on Windows or Gentoo.
Allow a newer version of puppetlabs-apt to be used for Beaker acceptance tests, since it allows the use of a newer puppetlabs-stdlib version.