Merge pull request #1664 from veg/develop #125

	name: Test Coverage
	on:
	push:
	branches: [ master ]
	pull_request:
	branches: [ master ]
	jobs:
	coverage:
	name: Coveralls Report
	runs-on: ubuntu-latest
	steps:
	- name: Install python
	uses: actions/setup-python@v1
	with:
	python-version: 3.7
	- name: Install dependencies
	run:
	python -m pip install --upgrade pip;
	python -m pip install --upgrade wheel;
	python -m pip install --upgrade cpp-coveralls;
	- name: Get HyPhy code
	uses: actions/checkout@v2
	- name: Install and activate miniconda
	uses: conda-incubator/setup-miniconda@v2
	with:
	activate-environment: 'hyphy-test-env'
	environment-file: '.coveralls.env.yml'
	condarc-file: '.coveralls.condarc'
	- name: Build HyPhy
	run:
	cmake .;
	make -j HYPHYDEBUG;
	ln -s HYPHYDEBUG hyphy;
	ln -s HYPHYDEBUG HYPHYMP;
	- name: Run unit tests
	run:
	PATH=.:$PATH ./run_unit_tests.sh \|\| true;
	- name: Generate coverage information
	run:
	coveralls --gcov-options '\-lp';
	env:
	COVERALLS_REPO_TOKEN: ${{ secrets.coveralls_token }}

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