Merge pull request #78 from Clinical-Genomics/pass_through_unannotated #52

	name: Lint files - no fixing

	# This will check linting in local PRs
	on: ["push", "pull_request"]

	jobs:
	build:

	name: Lint-only
	runs-on: ubuntu-latest
	strategy:
	matrix:
	python-version: [3.12]

	steps:

	# Check out code
	- name: Check out git repository
	uses: actions/checkout@v4

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

	- name: Install Python Dependencies
	run: \|
	pip install black flake8 isort

	- name: Run linters
	uses: wearerequired/lint-action@v2
	# Let linters fix problems if they can
	with:
	github_token: ${{ secrets.github_token }}
	auto_fix: false
	# Enable linters
	black: true
	black_args: "--check -l 100"
	# stop the build if there are Python syntax errors or undefined names
	flake8: true
	flake8_args: "stranger/ --count --select=E9,F63,F7,F82 --show-source --statistics"

	- name: Run isort
	uses: jamescurtin/isort-action@master
	with:
	configuration: "--check-only --diff -m 3 --tc --fgw 0 --up -n -l 100"

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