Merge remote-tracking branch 'origin/rc400' into noncareful_assembly_… #23

	name: Tests

	on: [push]


	env:
	CONDA_PREFIX: /home/runner/work/microSALT/microSALT/tests
	COVERALLS_REPO_TOKEN: ${{ secrets.COVERALLS_REPO_TOKEN }}

	jobs:
	build-linux:
	runs-on: ubuntu-20.04
	strategy:
	max-parallel: 5

	steps:
	- uses: actions/checkout@v4
	- name: Set up Python 3.6
	uses: actions/setup-python@v3
	with:
	python-version: '3.6.15'
	- name: Create conda/mamba environment using micromamba
	uses: mamba-org/setup-micromamba@v1
	with:
	environment-file: environment.yml
	cache-downloads: true
	- name: Install microSALT
	run: \|
	mkdir ~/.microSALT && cp configExample.json ~/.microSALT/config.json
	GITHUB_BRANCH=${GITHUB_REF##*/}
	pip install -r requirements.txt -r requirements-dev.txt
	pip install -U .
	- name: Lint with flake8
	run: \|
	# stop the build if there are Python syntax errors or undefined names
	flake8 . --count --select=E9,F63,F7,F82 --show-source --statistics
	# exit-zero treats all errors as warnings. The GitHub editor is 127 chars wide
	flake8 . --count --exit-zero --max-complexity=10 --max-line-length=127 --statistics
	- name: Test with pytest
	run: \|
	pytest --cov=microSALT tests
	- name: Run Coveralls
	run: \|
	coveralls

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