Makefile

.PHONY: help install install-dev test lint format clean build docs

help:
	@echo "Available commands:"
	@echo "  install      Install the package"
	@echo "  install-dev  Install with development dependencies"
	@echo "  test         Run tests"
	@echo "  lint         Run linting"
	@echo "  format       Format code with black"
	@echo "  clean        Clean build artifacts"
	@echo "  build        Build distribution packages"
	@echo "  docs         Build documentation"

install:
	pip install -e .

install-dev:
	pip install -e ".[dev]"

test:
	pytest tests -v --cov=llmomics --cov-report=term-missing

lint:
	flake8 src tests
	mypy src

format:
	black src tests

clean:
	rm -rf build dist *.egg-info
	rm -rf .pytest_cache .coverage htmlcov
	find . -type d -name __pycache__ -exec rm -rf {} +
	find . -type f -name "*.pyc" -delete

build: clean
	python -m build

docs:
	cd docs && make html