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This is a worthy goal, and definitely seems doable for in-season updates. Some things standing in the way:
scan-headers doesn't modify pyproject.toml. Will want to use tomlkit for this, to ensure that existing format/comments are kept in the file.
You forgot about create-gen --write... though I guess it's not strictly necessary. It would also be nice if create-gen could modify the existing yaml files.
gen-imports doesn't modify __init__.py either, and there are some cases where imports are conditional. Would need a way to specify these.
Basically,
try:
Except:
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