Merge pull request #21 from cmelab/pre-commit-ci-update-config #54

	name: pytest

	on:
	push:
	branches: [ master ]
	paths:
	- 'gixstapose/*.py'
	- 'gixstapose/tests/*'
	pull_request:
	branches: [ master ]
	paths:
	- 'gixstapose/*.py'
	- 'gixstapose/tests/*'
	# Allows workflow to be manually triggered
	workflow_dispatch:

	jobs:
	pytest:
	runs-on: ubuntu-latest

	steps:
	- name: Check out repository
	uses: actions/checkout@v2

	- name: Build environment
	uses: conda-incubator/setup-miniconda@v2
	with:
	environment-file: environment.yml
	miniforge-variant: Mambaforge
	miniforge-version: 4.9.2-4
	use-mamba: true

	- name: Install package
	shell: bash -l {0}
	run: pip install .

	- name: Run pytest with coverage report
	shell: bash -l {0}
	run: python -m pytest --cov=./ --cov-report=xml -v

	- name: Upload coverage to Codecov
	uses: codecov/codecov-action@v1
	with:
	token: ${{ secrets.CODECOV_TOKEN }}
	file: ./coverage.xml

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