replace black, flake8, and isort with ruff

[natestemen]

Description

Does what it says on the 🥫.

Motivation

It's what the cool kids are using... jk

Ruff consolidates both linting (flake8) and formatting (black and isort) into a single tool which is configurable via the pyproject.toml file (flake8 refuses to support this feature, despite it becoming the defacto standard). This PR also consolidates the makefile so only one command is needed for linting/formatting checks and one command for fixing those problems (if possible).

Request from reviewer

I want to make sure that the formatting that was done is required, given the ruff configuration. As part of the review, can you

1. Be on master
2. Install ruff
3. Copy the ruff config in pyproject.toml to your local machine
4. run make format
5. Ensure the changes are the same as what are in this PR

[codecov]

Codecov Report

All modified and coverable lines are covered by tests ✅

Project coverage is 98.28%. Comparing base (244d52a) to head (787cab2).

Additional details and impacted files

@@            Coverage Diff             @@
##           master    #2222      +/-   ##
==========================================
- Coverage   98.28%   98.28%   -0.01%     
==========================================
  Files          90       90              
  Lines        4259     4257       -2     
==========================================
- Hits         4186     4184       -2     
  Misses         73       73              

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[bdg221]

Nate, there are more arrays and tuples that are expanded into multiple lines, as well as arithmetic lines that are condensed into a single line.

Also, there is a question about running make format before, rather than after make check-format.

[natestemen]

@bdg221 Thanks for finding those additional examples of exploded lists/tuples/args. I've now split the original commit into two (one for adding ruff, and another for running it) and rerun ruff on our codebase ensuring we have the correct config. All the unnecessary changes should be gone now!

[bdg221]

Looks good!