feat: Support multiallelic sites #18

	name: Code checks

	on: [push]

	env:
	POETRY_VERSION: 1.8.2

	jobs:
	Tests:
	runs-on: ubuntu-24.04
	strategy:
	matrix:
	PYTHON_VERSION: ["3.8", "3.9", "3.10", "3.11"]
	steps:
	- uses: actions/checkout@v4

	- name: Set up Python ${{ matrix.PYTHON_VERSION }}
	uses: actions/setup-python@v5
	with:
	python-version: ${{ matrix.PYTHON_VERSION }}

	- name: Set up miniconda and install samtools
	uses: conda-incubator/setup-miniconda@v3
	with:
	miniforge-version: latest
	channels: conda-forge,bioconda
	activate-environment: pixy-dev
	auto-activate-base: false
	environment-file: environment.yaml
	channel-priority: flexible
	auto-update-conda: true
	python-version: ${{ matrix.PYTHON_VERSION }}

	- name: Get full Python version
	id: full-python-version
	shell: bash
	run: echo "version=$(python -c "import sys; print('-'.join(str(v) for v in sys.version_info))")" >> $GITHUB_OUTPUT

	- name: Install poetry
	run: \|
	python -m pip install --upgrade pipx
	pipx install poetry==${{env.POETRY_VERSION}}

	- name: Set up cache
	uses: actions/cache@v4
	id: cache
	with:
	path: .venv
	key: venv-${{ runner.os }}-${{ steps.full-python-version.outputs.version }}-${{ hashFiles('**/poetry.lock') }}

	- name: Ensure cache is healthy
	if: steps.cache.outputs.cache-hit == 'true'
	shell: bash
	run: poetry run pip --version >/dev/null 2>&1 \|\| rm -rf .venv

	- name: Install the library
	shell: bash -el {0}
	run: \|
	poetry install -v

	- name: Test the library
	shell: bash -el {0}
	run: \|
	poetry run ruff format --check --diff
	poetry run ruff check
	poetry run mypy
	poetry run pytest

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