2.1.5p5 #33

	name: CI [pull request]

	on:
	pull_request:
	branches: [ master ]

	jobs:
	build:

	runs-on: ubuntu-latest

	steps:
	- uses: actions/checkout@v2
	- name: Set up Python 3.6
	uses: actions/setup-python@v1
	with:
	python-version: 3.6

	- name: Install dependencies & package
	run: \|
	python -m pip install --upgrade pip
	pip install -r requirements.txt -r requirements-dev.txt
	python setup.py install

	- name: Lint
	run: \|
	flake8 fusion_report/
	mypy fusion_report/

	- name: Test
	run: fusion_report download --cosmic_usr "${{ secrets.USERNAME }}" --cosmic_passwd "${{ secrets.PASSWORD }}" ./db

	- name: Run application
	run: \|
	fusion_report run "example-sample" ./example ./db/ \
	--arriba tests/test_data/arriba.tsv \
	--dragen tests/test_data/dragen.tsv \
	--ericscript tests/test_data/ericscript.tsv \
	--fusioncatcher tests/test_data/fusioncatcher.txt \
	--pizzly tests/test_data/pizzly.tsv \
	--squid tests/test_data/squid.txt \
	--starfusion tests/test_data/starfusion.tsv \
	--export csv

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