[python] Geneformer updates for July 2024 LTS

[mlin]

Sorry for the heavyweight PR -- numerous changes to our Geneformer API and workflows accumulated for the new LTS:

• Run tokenization/fine-tuning/forward-pass WDLs on AWS HealthOmics instead of Batch
• Update the upstream Geneformer version
  • Add new special_token flag
  • Use a gene ID consolidation mapping, with modifications to the sparse math to implement
  • Add WDL inputs for slight variations on embeddings we want to try
• Update ontologies for cell subclasses

Noting loose ends for potential future cleanup:

• Use published version of new Geneformer model, once available
• Replace legacy cell subclass mapper with cellxgene-ontology-guide

[codecov]

Codecov Report

Attention: Patch coverage is 72.54902% with 14 lines in your changes missing coverage. Please review.

Project coverage is 91.12%. Comparing base (f775282) to head (e12a102).
Report is 2 commits behind head on main.

Files	Patch %	Lines
...xperimental/ml/huggingface/geneformer_tokenizer.py	72.34%	13 Missing ⚠️
...sts/experimental/ml/huggingface/test_geneformer.py	66.66%	1 Missing ⚠️

Additional details and impacted files

@@            Coverage Diff             @@
##             main     #961      +/-   ##
==========================================
- Coverage   91.19%   91.12%   -0.07%     
==========================================
  Files          77       79       +2     
  Lines        5971     6173     +202     
==========================================
+ Hits         5445     5625     +180     
- Misses        526      548      +22     

Flag	Coverage Δ
unittests	91.12% <72.54%> (-0.07%)	⬇️

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