"The .git directory is missing in" and "Running 'git init'..."

I am wondering what is causing a build to run a git init during checkout.  I have a VCS defined to checkout on the agent with no checkout rules and I've tried turning the "use mirrors" option off, I'm not sure why teamcity wants the workspace folder to be a git repo.  I would prefer that the vcs just be checked out top level and I would like teamcity to not do a git init.  What is causing this?

Thank you!
--dave

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I'm not sure I understand how it is possible to get sources with agent-side checkout but without initializing a git repository, could you please clarify that? 

BTW, you can get just the sources using the server-side checkout.

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