.venv/
__pycache__/
.pytest_cache/
*.py[cod]
*.egg-info/
build/
dist/
.DS_Store
**/.DS_Store

EVAL_PLAN.md
PAPER_READINESS.md
v2_shortlist.md
benchmark/runs/
benchmark/workspaces/
benchmark/__pycache__/
benchmark/.env
MANUAL_*.md
BIOINFORMATICS_*.md
/.claude
/galaxy_cli/.claude/
/benchmark
/manuscript/
/tmp_*/
uv.lock
to-do.md
