Merge pull request #146 from TRON-Bioinformatics/develop #614

	name: Unit tests
	on: [push]
	jobs:
	run:
	runs-on: ubuntu-20.04
	env:
	OS: ubuntu-20.04
	PYTHON: '3.8'

	# Service containers to run with `container-job`
	services:
	# Label used to access the service container
	postgres:
	image: postgres:10.8
	env:
	POSTGRES_USER: postgres
	POSTGRES_PASSWORD: postgres
	POSTGRES_DB: postgres
	ports:
	- 5432:5432
	# needed because the postgres container does not provide a healthcheck
	options: --health-cmd pg_isready --health-interval 10s --health-timeout 5s --health-retries 5

	steps:
	- uses: actions/checkout@v3
	with:
	submodules: recursive
	- uses: actions/setup-python@v4
	with:
	python-version: '3.8'
	- name: Install dependencies
	run: \|
	python -m pip install --upgrade pip
	pip install setuptools wheel coverage

	- name: Generate Report
	env:
	# The hostname used to communicate with the PostgreSQL service container
	POSTGRES_HOST: localhost
	POSTGRES_PORT: ${{ job.services.postgres.ports[5432] }}
	# The default PostgreSQL port
	COVIGATOR_DB_NAME: postgres
	COVIGATOR_DB_USER: postgres
	COVIGATOR_DB_PASSWORD: postgres
	COVIGATOR_DB_PORT: ${{ job.services.postgres.ports[5432] }}
	COVIGATOR_DB_HOST: localhost
	run: \|
	python setup.py bdist_wheel
	pip install numpy==1.21.0
	pip install dist/covigator*.whl
	coverage run -m unittest discover covigator.tests.unit_tests

	- name: Upload Coverage to Codecov
	uses: codecov/codecov-action@v3

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