simplify cleanup functions

[nwlandry]

This PR condenses unnecessary code and fixes #568.

[codecov]

Codecov Report

All modified and coverable lines are covered by tests ✅

Project coverage is 92.45%. Comparing base (e01ddd5) to head (9744e19).
Report is 45 commits behind head on main.

Additional details and impacted files

@@            Coverage Diff             @@
##             main     #569      +/-   ##
==========================================
- Coverage   92.51%   92.45%   -0.06%     
==========================================
  Files          59       59              
  Lines        4393     4361      -32     
==========================================
- Hits         4064     4032      -32     
  Misses        329      329              

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[maximelucas]

Looks good thanks! Just a few questions

[nwlandry]

Thanks for the review, @maximelucas! I moved the in-place vs. new network logic to the convert_labels_to_integers function and I think it streamlines things.