dependencies: Upgrade Black, Typer, etc (issue #323) #325
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Upgrading black required us to also upgrade some additional dependencies in the `pyproject.toml` and `.pre-commit-config.yml`.
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This PR upgrades
python,black,typer,snakefmt, andimportlib-metadata. Our initial goal was to ensure that the Black version for the pre-commit hooks matched the version specified inpyproject.toml, which is what gets executed by the GitHub Actionspython-package.ymlworkflow. However, we needed to upgrade some of the other dependencies in order to get this to work.Additionally, this PR adds some nice UI enhancements in the terminal, since we upgraded Typer to the latest version.
Fixes #323