ensure files sorted in test #9

	name: pytest
	on: [push, pull_request]

	jobs:
	build:
	runs-on: ubuntu-latest
	steps:
	- uses: actions/checkout@v2
	- name: Set up Python 3.8
	uses: actions/setup-python@v1
	with:
	python-version: 3.8
	- name: Install dependencies
	run: \|
	python -m pip install --upgrade pip
	pip install pipenv codecov pytest pytest-cov pytest-metadata pytest-mock pytest-subtests six
	pip install --no-index --no-deps resources/home/dnanexus/packages/*
	pipenv install --dev
	- name: Build bcftools
	run: \|
	wget https://github.com/samtools/bcftools/releases/download/1.18/bcftools-1.18.tar.bz2
	tar xf bcftools-1.18.tar.bz2
	cd bcftools-1.18
	./configure --prefix=/usr/local/
	sudo make
	sudo make install
	- name: Build htslib
	run: \|
	wget https://github.com/samtools/htslib/releases/download/1.18/htslib-1.18.tar.bz2
	tar xf htslib-1.18.tar.bz2
	cd htslib-1.18
	./configure --prefix=/usr/local/
	sudo make
	sudo make install
	- name: Test with pytest
	run: \|
	pytest -v --cov resources/home/dnanexus/generate_gcnv_bed/tests/unit/

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