# === Raw data & intermediate files ===
data/cache/
data/gnomad/
data/annotation/
data/expression/
data/localization/
data/animal_models/
data/scoring/

# DuckDB database (large, regeneratable)
*.duckdb
*.duckdb.wal

# Provenance JSON (regenerated on each run)
*.provenance.json
*.provenance.provenance.json

# === Keep report results ===
# data/report/ is NOT ignored — candidates.tsv, parquet, plots are tracked

# === Python ===
__pycache__/
*.pyc
*.pyo
*.pyd
.Python
*.so
*.egg
*.egg-info/
dist/
build/
.eggs/

# === Testing ===
.pytest_cache/
.coverage
htmlcov/
.tox/

# === IDE ===
.vscode/
.idea/
*.swp
*.swo
*~

# === Virtual environment ===
.venv/
venv/
env/

# === OS ===
.DS_Store
Thumbs.db

# === Planning (internal) ===
.planning/