[fmt] Format everything but package and testsuite

[RMeli]

Formatting of everything excluded from package and testsuite. I did not add a .black configuration file for these files that are not touched often, but will probably do at the very end of the whole process.

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📚 Documentation preview 📚: https://mdanalysis--4859.org.readthedocs.build/en/4859/

[pep8speaks]

Hello @RMeli! Thanks for opening this PR. We checked the lines you've touched for PEP 8 issues, and found:

• In the file benchmarks/benchmarks/ag_methods.py:

Line 367:80: E501 line too long (80 > 79 characters)

• In the file benchmarks/benchmarks/analysis/distances.py:

Line 27:80: E501 line too long (82 > 79 characters)
Line 29:80: E501 line too long (82 > 79 characters)
Line 31:80: E501 line too long (82 > 79 characters)
Line 33:80: E501 line too long (82 > 79 characters)
Line 35:80: E501 line too long (84 > 79 characters)
Line 37:80: E501 line too long (81 > 79 characters)
Line 40:42: E203 whitespace before ':'
Line 130:80: E501 line too long (80 > 79 characters)
Line 142:80: E501 line too long (82 > 79 characters)

• In the file benchmarks/benchmarks/analysis/rdf.py:

Line 35:80: E501 line too long (83 > 79 characters)

• In the file benchmarks/benchmarks/analysis/rms.py:

Line 17:80: E501 line too long (81 > 79 characters)

• In the file benchmarks/benchmarks/selections.py:

Line 67:80: E501 line too long (81 > 79 characters)

• In the file benchmarks/benchmarks/topology.py:

Line 28:80: E501 line too long (86 > 79 characters)

• In the file maintainer/adapt_sitemap.py:

Line 24:80: E501 line too long (84 > 79 characters)
Line 33:80: E501 line too long (88 > 79 characters)

[RMeli]

This is good to go IMO.

[codecov]

Codecov Report

All modified and coverable lines are covered by tests ✅

Project coverage is 93.63%. Comparing base (9110a6e) to head (c0274e3).
Report is 4 commits behind head on develop.

Additional details and impacted files

@@             Coverage Diff             @@
##           develop    #4859      +/-   ##
===========================================
- Coverage    93.65%   93.63%   -0.03%     
===========================================
  Files          177      189      +12     
  Lines        21779    22845    +1066     
  Branches      3064     3064              
===========================================
+ Hits         20398    21391     +993     
- Misses         929     1002      +73     
  Partials       452      452              

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[orbeckst]

blanket LGTM — please merge when you're happy with it @RMeli

🎄 🎁