Update flake8 and black

[eirikurj]

Description

We are currently using pretty old versions of both flake8 and black. We should update sooner than later. This can be done independently, but is probably fine to do at the same time. This is also important since https://github.com/mdolab/docker/pull/290 will update python.

• update flake8
• update black
• update MACH-Aero documentation

[eirikurj]

Closing since we have move to ruff see #73