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bioreason-demo: PRISM-BioReason KEGG demo (SFT, GRPO, eval, notebook) - #4

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balajiadarsha merged 8 commits into

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prism-bioreason-demo

Oct 14, 2026

Merged

bioreason-demo: PRISM-BioReason KEGG demo (SFT, GRPO, eval, notebook)#4
balajiadarsha merged 8 commits into
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prism-bioreason-demo

Commits on Oct 13, 2026
- bioreason: port BioReason demo edits from BaseMM_PRISM (baseline, unselected)
  
  Adarsha Balaji
  and
  claude
  committed
  e3c7051
- bioreason: KEGG-only via datasets_config.json; drop bioreason_kegg_only.yaml
  
  Adarsha Balaji
  and
  claude
  committed
  66bcc87
- datasets_config: use ${PRISM_DATA_ROOT} for variant-effect local_path
  
  Adarsha Balaji
  and
  claude
  committed
  7101adf
- bioreason_projector.yaml: set demo hyperparameters
  
  Adarsha Balaji
  and
  claude
  committed
  a44346b
- bioreason: site-neutral launchers/notebook, config-driven hyperparameters, split PRISM and Jupyter setup
  
  Adarsha Balaji
  and
  claude
  committed
  b4ba312
- bioreason-demo: use torchtune-aurora fork (torchtune.dev GRPO loss) and single data worker for GRPO
  
  Adarsha Balaji
  and
  claude
  committed
  224f9be
- CI: fix lint, mypy, site-path allowlist and tests for the bioreason-demo changes
  
  Adarsha Balaji
  and
  claude
  committed
  8d47dd7
- tests: sample 32 items in the requested-modality contract test
  
  Adarsha Balaji
  and
  claude
  committed
  c9e4b08