CI/CD

Enable linter snakemke in snakemkae CI - enforece snakemake qulaity #223

	# This pipeline checks whether the package
	# installs properly, passes unit tests and whether
	# the code formatting is right.
	name: CI/CD

	on:
	push:
	branches: [ main ]
	pull_request:
	branches: [ main ]

	jobs:
	build:
	runs-on: ubuntu-latest
	strategy:
	fail-fast: true
	matrix:
	python-version: ["3.11.2"]
	poetry-version: ["1.8.3"]

	steps:
	- uses: actions/checkout@v3
	- name: Run black formatting check
	uses: psf/black@stable
	- name: Set up Python ${{ matrix.python-version }}
	uses: actions/setup-python@v4
	with:
	python-version: ${{ matrix.python-version }}
	cache: "pip"
	- name: Install Poetry
	uses: snok/install-poetry@v1
	with:
	virtualenvs-create: true
	virtualenvs-in-project: true
	version: ${{ matrix.poetry-version }}
	- name: Cache dependencies
	id: cache-deps
	uses: actions/cache@v2
	with:
	path: .venv
	key: pydeps-${{ hashFiles('**/poetry.lock') }}
	- name: Install the dependencies
	run: poetry install --no-interaction --no-root --with dev
	if: steps.cache-deps.outputs.cache-hit != 'true'
	- name: Install the module
	run: poetry install --with dev --no-interaction
	- name: Run unit tests
	run: poetry run pytest
	- name: Run Ruff
	run: poetry run ruff check .
	- name: Run interrogate
	run: poetry run interrogate src
	- name: Run Pyright (type checking)
	run: poetry run pyright

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