# Makefile for EMCAD

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

help:
	@echo "Available commands:"
	@echo "  install       Install the package"
	@echo "  install-dev   Install the package with development dependencies"
	@echo "  test          Run tests"
	@echo "  lint          Run linting"
	@echo "  format        Format code"
	@echo "  clean         Clean temporary files"
	@echo "  train         Train the model"
	@echo "  test-model    Test the model"
	@echo "  docs          Generate documentation"

install:
	pip install -e .

install-dev:
	pip install -e ".[dev,docs]"
	pre-commit install

test:
	pytest tests/ -v --cov=src --cov-report=html

lint:
	flake8 src/ tests/
	mypy src/

format:
	black src/ tests/
	isort src/ tests/

clean:
	find . -type f -name "*.pyc" -delete
	find . -type d -name "__pycache__" -delete
	rm -rf .coverage htmlcov build dist
	rm -rf .pytest_cache
	rm -rf .mypy_cache

train:
	python train_synapse.py --root_path ./data/Synapse/train_npz --volume_path ./data/Synapse/test_vol_h5 --encoder pvt_v2_b2 --batch_size 2 --max_epochs 50 --max_iterations 2000

test-model:
	python test_synapse.py --volume_path ./data/synapse/test_vol_h5 --encoder pvt_v2_b2

docs:
	cd docs && make html