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Do not set config_version when using directory envs

According to the docs¹, config_version can't be used with directory
environments since it will never be used. This also removes a
deprecation warning users of directory environments will see.

[1]: https://docs.puppetlabs.com/puppet/latest/reference/config_file_environment.html#configversion...

add module_repository parameter

Updated agent config and tests to work on Windows.

add support for [pre|post]run_command for agent

closes GH-157

issue #206
basemodulepath is written in master section

Added support for pluginfactsource, required for SRV and 3.7

ensures ca_port is evaluated correctly

closes GH-207

add ca_port parameter

Closes GH-205

Added ability to customize servers allowed to kick the agent (/run in auth.conf)

Fixes GH-203

Allow to add arbitrary additional settings to [master] section

Including the "recommended and safe" (https://docs.puppetlabs.com/puppet/latest/reference/config_important_settings.html#recommended-and-safe)