Git version control - upload to existing repo

Hi, I have a couple of issues with uploading my Mendix project to a Azure DevOps server... Firstly, new repos on our server are not empty, they are instantiated with a metadata file. This seems to prevent upload in the first instance as the repo is not empty. Secondly, I’m expecting an issue because there are branching rules on the server that mean you cannot push directly to the master branch, but have to raise a pull request. Has anyone got any tips to get this to work? Many thanks
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