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metadata 
title: OpenEnv Pathway Analysis Environment
emoji: 🧬
colorFrom: blue
colorTo: green
sdk: docker
app_port: 8000
tags:
  - openenv
  - bioinformatics
  - ai-agents

OpenEnv Pathway Analysis Environment

This repository packages pathway_analysis_env for Hugging Face Hub publication.

Contents

  • envs/pathway_analysis_env/ environment code
  • reproducible GEO benchmark inputs for 3 tasks
  • task expansion scripts:
    • create_geo_task.py
    • append_task_to_manifest.py

Run locally 

uv sync --all-extras
PYTHONPATH=src:envs uv run python envs/pathway_analysis_env/scripts/run_agent_eval_suite.py   --manifest envs/pathway_analysis_env/data/eval_manifest_geo3.json

Note on Spaces

Publishing as a Docker Space from a free user namespace may require Hugging Face PRO. This repo is ready for maintainers to deploy under an entitled namespace.