chore: remove singularity tools and update haiku version

[limbryan]

Related issues: #146

This PR :

• removes singularity tools and related documentation to remove the need to maintain a redundancy. singularity can still be used but can just be installed with pip (via pypi) or with the requirements.txt file directly.
• updates haiku version to stop jax warnings for tree_utils.

Checks

• a clear description of the PR has been added
• sufficient tests have been written (N/A)
• relevant section added to the documentation
• example notebook added to the repo (N/A)
• clean docstrings and comments have been written (N/A)
• if any issue/observation has been discovered, a new issue has been opened

[codecov-commenter]

Codecov Report

Merging #147 (12124eb) into develop (6fa19e7) will increase coverage by 0.01%.
The diff coverage is n/a.

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@@             Coverage Diff             @@
##           develop     #147      +/-   ##
===========================================
+ Coverage    92.28%   92.29%   +0.01%     
===========================================
  Files          116      116              
  Lines         6763     6772       +9     
===========================================
+ Hits          6241     6250       +9     
  Misses         522      522              

see 14 files with indirect coverage changes

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[felixchalumeau]

Just leaving one question. Ok with the rest 👍

[felixchalumeau]

Any reason for this update?

[Lookatator]

yes! The method: pip path: . actually overrides all the dependencies and put them to the lastest version (not respecting the requirements.txt).

So by putting pip install -r requirements.txt after, we enfore and respect all the dependencies to be like in the requirements.txt file.