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WIP: minor updates to get working with snakemake>=8.0
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The required changes are pretty minimal, just a couple things that have
been moved around.

I also updated the pyproject since snakemake 8 requires at least python
3.11.

NOTE: Still doesn't pass quality checks (pyright stubs), other typing stuff. My local tests were also intermittently failing, but seemed to be going over the runtime.
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@akhanf
akhanf committed Apr 9, 2024
1 parent 67daf1a commit 4488833
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