# Rust
/target/
**/*.rs.bk
Cargo.lock

# Python
__pycache__/
*.py[cod]
*$py.class
*.so
.Python
build/
develop-eggs/
dist/
downloads/
eggs/
.eggs/
lib/
lib64/
parts/
sdist/
var/
wheels/
*.egg-info/
.installed.cfg
*.egg

# Virtual environments
.env
.venv
env/
venv/
ENV/

# IDEs
.idea/
.vscode/
*.swp
*.swo
*~

# OS
.DS_Store
Thumbs.db

# Benchmark data (large files - regenerate with download scripts)
benches/datasets/*.bed
benches/datasets/*.genome
benches/real_data/*.bed
benches/real_data/*.genome

# Benchmark data and results (generated by bench.sh)
benchmarks/data/
benchmarks/results/
benchmarks/diffs/
benchmarks/manual/
benchmarks/real/
benchmarks/real_data/
benchmarks/truth/
tested_data/

# Coverage
*.profraw
*.profdata
tarpaulin-report.html
cobertura.xml

# Documentation
/doc/

# Editor backup files
*.bak

# Claude instructions (local only)
claude.md
CLAUDE.md

# Test files
test.bed
tests/validation/results/

# Homebrew tap (separate repo)
homebrew-grit/