Feature/sq lite database #44

	name: CI

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

	jobs:

	tests:
	runs-on: ubuntu-latest
	defaults:
	run:
	shell: bash -el {0}
	# For the slurm action to work, you have to supply a mysql service as defined below.
	services:
	mysql:
	image: mysql:8.0
	env:
	MYSQL_ROOT_PASSWORD: root
	ports:
	- "8888:3306"
	options: --health-cmd="mysqladmin ping" --health-interval=10s --health-timeout=5s --health-retries=3
	steps:
	- name: Set up SLURM
	uses: koesterlab/setup-slurm-action@v1
	- name: Setup Mambaforge
	uses: conda-incubator/setup-miniconda@v2
	with:
	miniforge-variant: Mambaforge
	miniforge-version: latest
	use-mamba: true
	activate-environment: slurm_sweeps
	- name: Check out repo
	uses: actions/checkout@v3
	- name: Get Date for Conda cache
	id: get-date
	run: echo "today=$(/bin/date -u '+%Y%m%d')" >> $GITHUB_OUTPUT
	shell: bash
	- name: Cache Conda env
	uses: actions/cache@v3
	env:
	CACHE_NUMBER: 0
	with:
	path: ${{ env.CONDA }}/envs
	key:
	conda-${{
	runner.os }}-${{
	steps.get-date.outputs.today }}-${{
	hashFiles('environment.yml') }}-${{
	env.CACHE_NUMBER }}
	id: cache
	- name: Update environment
	run: mamba env update -n slurm_sweeps -f environment.yml
	if: steps.cache.outputs.cache-hit != 'true'
	- name: Running tests
	run: pytest --cov=slurm_sweeps
	- name: Upload coverage reports to Codecov
	uses: codecov/codecov-action@v3
	env:
	CODECOV_TOKEN: ${{ secrets.CODECOV_TOKEN }}

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