Improve usage of SSSOM-py

[cthoyt]

This PR makes use of the higher-level interfaces to SSSOM with the 0.4.* series of SSSOM-py

Depends on

• What to do when I have a list of Mapping objects? mapping-commons/sssom-py#439 / Get MSDF from LinkML objects mapping-commons/sssom-py#440
• 0.4 Release mapping-commons/sssom-py#441

[cthoyt]

looking like it's passing except a spurious bug in the pubmed eutils (unrelated)

[codecov-commenter]

Codecov Report

Attention: 3 lines in your changes are missing coverage. Please review.

Comparison is base (9862ec0) 76.48% compared to head (99d5d84) 76.03%.

Files	Patch %	Lines
src/oaklib/utilities/mapping/sssom_utils.py	50.00%	2 Missing ⚠️
src/oaklib/interfaces/basic_ontology_interface.py	0.00%	1 Missing ⚠️

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Additional details and impacted files

@@            Coverage Diff             @@
##             main     #666      +/-   ##
==========================================
- Coverage   76.48%   76.03%   -0.46%     
==========================================
  Files         252      252              
  Lines       29386    29368      -18     
==========================================
- Hits        22477    22330     -147     
- Misses       6909     7038     +129     

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[cmungall]

I think this is the correct sequence

1. Make a separate PR where we pin sssom <0.4.0
2. Make an OAK release
3. Make a sssom 0.4.0 release
4. Modify this PR to be >= 0.4.0 (potentially <0.5.0 if more breaking changes are expected)

I wish python dependencies didn't lead to dependency hell, but here we are

(I just realized I said "dependency hell" on pull number 666, 🤘🤘🤘 😈 😈 😈 )

[hrshdhgd]

Bullets 1, 2 and 3 are done. @cthoyt , could you take care of bullet 4 please?

[cthoyt]

@hrshdhgd done