Build #2840

	name: Build

	on:
	push:
	pull_request:
	schedule:
	# Run at the end of every day
	- cron: "0 0 * * *"

	jobs:
	build:
	# Scheduled runs only on the origin org
	if: (github.event_name == 'schedule' && github.repository_owner == 'pystatgen') \|\| (github.event_name != 'schedule')
	runs-on: ubuntu-latest
	strategy:
	matrix:
	python-version: ["3.8", "3.9", "3.10", "3.11"]

	steps:
	- uses: actions/checkout@v2
	- name: Set up Python ${{ matrix.python-version }}
	uses: actions/setup-python@v2
	with:
	python-version: ${{ matrix.python-version }}
	- name: Install dependencies
	run: \|
	sudo apt update -y
	sudo apt install graphviz # Needed for documentation
	python -m pip install --upgrade pip
	pip install -r requirements.txt -r requirements-dev.txt -r requirements-doc.txt
	- name: Run pre-commit
	uses: pre-commit/[email protected]
	- name: Check for Sphinx doc warnings
	run: \|
	cd docs
	make html SPHINXOPTS="-W --keep-going -n"
	- uses: actions/upload-artifact@v2
	if: failure()
	with:
	name: gwas_tutorial
	path: /home/runner/work/sgkit/sgkit/docs/_build/html/reports/examples/gwas_tutorial.err.log
	- uses: actions/upload-artifact@v2
	if: failure()
	with:
	name: relatedness_tutorial
	path: /home/runner/work/sgkit/sgkit/docs/_build/html/reports/examples/relatedness_tutorial.err.log
	- name: Test with pytest
	run: \|
	pytest -v
	- name: Test with pytest and coverage (numba jit disabled)
	env:
	NUMBA_DISABLE_JIT: 1
	run: \|
	pytest -v --cov=sgkit --cov-report=term-missing
	- name: Upload coverage to Codecov
	uses: codecov/codecov-action@v3
	with:
	token: ${{ secrets.CODECOV_TOKEN }}

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