using pipeline guide and links to installation (#66) #60

	name: ci
	on:
	push:
	branches:
	- main

	jobs:
	test:
	runs-on: ubuntu-latest
	steps:
	- uses: 'actions/checkout@v3'
	- name: Setup ncbi-blast+
	run: \|
	sudo apt update
	sudo apt install ncbi-blast+ -y
	- name: Setup Python
	uses: actions/setup-python@master
	with:
	python-version: 3.9
	- name: Generate coverage report
	run: \|
	pip install --upgrade pip
	pip install '.[test]'
	coverage run -m pytest test/unit
	coverage xml -o coverage.xml
	env:
	DATA_DIR: ${{ env.DATA_DIR }}
	FILE_SYSTEM: ${{ env.FILE_SYSTEM }}
	EMAIL: ${{ secrets.EMAIL }}
	API_KEY: ${{ secrets.API_KEY }}
	- name: Upload coverage reports to Codecov
	uses: codecov/codecov-action@v3
	with:
	token: ${{ secrets.CODECOV_TOKEN }}
	directory: .
	env_vars: OS,PYTHON
	fail_ci_if_error: true
	files: coverage.xml
	flags: unittests
	name: codecov-umbrella
	verbose: true

	docs:
	runs-on: ubuntu-latest
	steps:
	- uses: actions/checkout@v4
	- uses: actions/setup-python@v5
	with:
	python-version: 3.x
	- run: pip install mkdocs-material mkdocstrings[python]
	#- run: mkdocs build
	- run: mkdocs gh-deploy --force

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