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Making pb2 auto-gen script also copy over .proto files.
Fully revamping the script to be more read-able, split into sections: - Compile `.proto` to `_pb2.py` files - Move over `_pb2.py` files into our library - Clear out old `.proto` files in library - Move over the newly compiled `.proto` files into library and remove the executable bits and prepend them with `_`
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