Merge pull request #97 from kmayerb/rhesus #5

	# This workflow will install Python dependencies, run tests and lint with a single version of Python
	# For more information see: https://docs.github.com/en/actions/automating-builds-and-tests/building-and-testing-python

	name: Python application

	on:
	push:
	branches: [ "master" ]
	pull_request:
	branches: [ "master" ]

	permissions:
	contents: read

	jobs:
	build:

	runs-on: ubuntu-latest
	if: "!contains(github.event.head_commit.message, 'skip ci')"

	steps:
	- uses: actions/checkout@v3
	- name: Set up Python 3.11
	uses: actions/setup-python@v3
	with:
	python-version: "3.11"
	- name: Install dependencies
	run: \|
	python -m pip install --upgrade pip
	if [ -f requirements.txt ]; then pip install -r requirements.txt; fi
	pip install pytest-cov
	pip install coveralls

	- name: Test with pytest and coverage
	env:
	COVERALLS_REPO_TOKEN: ${{ secrets.COVERALLS_REPO_TOKEN }}
	GITHUB_TOKEN: ${{ secrets.GITHUB_TOKEN }}
	run: \|
	python -c "from tcrdist.setup_tests import *; download_and_extract_zip_file('bulk.csv.zip')"
	python -c "from tcrdist.setup_tests import *; download_and_extract_zip_file('dash.zip')"
	python -c "from tcrdist.setup_tests import *; download_and_extract_zip_file('sant.csv.zip')"
	pytest --cov=tcrdist/

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