[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[bot]]

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 :warning:
...sts/experimental/ml/huggingface/test_geneformer.py	66.66%	1 Missing :warning:

Additional details and impacted files

```diff @@ 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](https://app.codecov.io/gh/chanzuckerberg/cellxgene-census/pull/961/flags?src=pr&el=flags&utm_medium=referral&utm_source=github&utm_content=comment&utm_campaign=pr+comments&utm_term=chanzuckerberg) | Coverage Δ | | |---|---|---| | [unittests](https://app.codecov.io/gh/chanzuckerberg/cellxgene-census/pull/961/flags?src=pr&el=flag&utm_medium=referral&utm_source=github&utm_content=comment&utm_campaign=pr+comments&utm_term=chanzuckerberg) | `91.12% <72.54%> (-0.07%)` | :arrow_down: | Flags with carried forward coverage won't be shown. [Click here](https://docs.codecov.io/docs/carryforward-flags?utm_medium=referral&utm_source=github&utm_content=comment&utm_campaign=pr+comments&utm_term=chanzuckerberg#carryforward-flags-in-the-pull-request-comment) to find out more.

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