[python] Less-in-core ingest from H5AD [main]

[johnkerl]

Context: Shortcut story 24294 and #641

See also #627 which is for the main-old branch.

[codecov-commenter]

Codecov Report

Base: 66.85% // Head: 66.77% // Decreases project coverage by -0.07% ⚠️

Coverage data is based on head (6b59b71) compared to base (9384934).
Patch coverage: 75.00% of modified lines in pull request are covered.

Additional details and impacted files

@@            Coverage Diff             @@
##             main     #640      +/-   ##
==========================================
- Coverage   66.85%   66.77%   -0.08%     
==========================================
  Files          64       64              
  Lines        3382     3362      -20     
==========================================
- Hits         2261     2245      -16     
+ Misses       1121     1117       -4     

Flag	Coverage Δ
python	74.76% <75.00%> (-0.06%)	⬇️
r	57.02% <ø> (ø)

Flags with carried forward coverage won't be shown. Click here to find out more.

Impacted Files	Coverage Δ
apis/python/src/tiledbsoma/io.py	65.51% <75.00%> (ø)
apis/python/src/tiledbsoma/util_ann.py	10.77% <75.00%> (-7.41%)	⬇️

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[johnkerl]

Since we got anndata = ad.read_h5ad(h5ad_file_name, "r") with the "r" this entire data structure is no longer reconstructible (below). So we split out the decategoricalizations to where they're needed.

[aaronwolen]

🚀