Re-organize repository

[rvhonorato]

This PR updates the installation in order to facilitate ci/cd publishing it at PyPi (upcoming PR) and adds missing documentations and code-style checks.

I've update the old setup.py in favor of the newer and pyproject.toml (pypa/setuptools#1688).

[codecov-commenter]

Codecov Report

Base: 56.68% // Head: 56.49% // Decreases project coverage by -0.20% ⚠️

Coverage data is based on head (ae88ec8) compared to base (a933bb0).
Patch coverage: 37.50% of modified lines in pull request are covered.

Additional details and impacted files

@@            Coverage Diff             @@
##             main      #20      +/-   ##
==========================================
- Coverage   56.68%   56.49%   -0.20%     
==========================================
  Files           9        8       -1     
  Lines         441      439       -2     
==========================================
- Hits          250      248       -2     
  Misses        191      191              

Impacted Files	Coverage Δ
prodigy/lib/freesasa_tools.py	45.79% <ø> (ø)
prodigy/predict_IC.py	47.05% <28.57%> (ø)
tests/test_prodigy.py	94.23% <100.00%> (ø)

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