Pyrenew class for Infections with susceptible depletion

[sbidari]

Adds:

• InfectionsWithSusceptibleDepletion class
• compute_infections_with_susceptible_depletion() function called by InfectionsWithSusceptibleDepletion class to calculate infections and Rt
• Adds tests for new functions

[codecov]

Codecov Report

❌ Patch coverage is 90.47619% with 4 lines in your changes missing coverage. Please review.
✅ Project coverage is 97.76%. Comparing base (d265289) to head (7472163).

Files with missing lines	Patch %	Lines
...ew/latent/infections_with_susceptible_depletion.py	86.20%	4 Missing ⚠️

Additional details and impacted files

@@            Coverage Diff             @@
##             main     #733      +/-   ##
==========================================
- Coverage   97.95%   97.76%   -0.20%     
==========================================
  Files          51       52       +1     
  Lines        1617     1658      +41     
==========================================
+ Hits         1584     1621      +37     
- Misses         33       37       +4     

Flag	Coverage Δ
unittests	97.76% <90.47%> (-0.20%)	⬇️

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[github-actions]

Thank you for your contribution @sbidari 🚀! Your github-pages is ready for download 👉 here 👈!
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[damonbayer]

I think this contribution needs to be made to the multisignal repo, so that we can test it without rewriting the hew model.

[sbidari]

I think this contribution needs to be made to the multisignal repo, so that we can test it without rewriting the hew model.

I plan to swap InfectionWithFeedback with this new class and not rewrite hew model. If you disagree with this approach, can you explain in more detail what you are proposing.

[damonbayer]

@sbidari I am concerned that you won't be able to use this class in PyRenew-multisignal because PyRenew-hew might require an older version of PyRenew. The version we have pinned in PyRenew-multisignal predates the refactor we've been working on the last few months, but I don't know for sure that the refactor breaks PyRenew-hew.