Update README.md #578

	name: chewbbaca

	on:
	push:
	branches: [ master ]
	pull_request:
	branches: [ master ]

	jobs:
	build:

	runs-on: ubuntu-latest
	strategy:
	matrix:
	python-version: ['3.8', '3.9', '3.10', '3.11']

	steps:
	- uses: actions/checkout@v3
	- name: Set up Python ${{ matrix.python-version }}
	uses: actions/setup-python@v3
	with:
	python-version: ${{ matrix.python-version }}

	- name: install dependencies
	run: \|
	python -m pip install --upgrade pip
	pip install pytest
	pip install py

	- name: install blast
	run: \|
	mkdir $GITHUB_WORKSPACE/blast
	pushd $GITHUB_WORKSPACE/blast
	wget ftp://ftp.ncbi.nlm.nih.gov/blast/executables/blast+/2.9.0/ncbi-blast-2.9.0+-x64-linux.tar.gz \
	&& tar -xzvf ncbi-blast-2.9.0+-x64-linux.tar.gz && rm ncbi-blast-2.9.0+-x64-linux.tar.gz
	echo "$GITHUB_WORKSPACE/blast/ncbi-blast-2.9.0+/bin" >> $GITHUB_PATH
	popd

	- name: check blast
	run: \|
	which blastp
	blastp -version

	- name: install mafft
	run: \|
	mkdir $GITHUB_WORKSPACE/mafft
	pushd $GITHUB_WORKSPACE/mafft
	wget https://mafft.cbrc.jp/alignment/software/mafft_7.475-1_amd64.deb
	sudo dpkg -i mafft_7.475-1_amd64.deb
	popd

	- name: check mafft
	run: \|
	which mafft
	mafft --version

	- name: checkout chewbbaca
	uses: actions/checkout@v3
	with:
	repository: B-UMMI/chewBBACA
	path: chewbbaca

	- name: install chewbbaca
	run: \|
	pushd $GITHUB_WORKSPACE/chewbbaca
	python setup.py install

	- name: check chewbbaca
	run: \|
	which chewBBACA.py

	- name: run pytest
	run: \|
	pushd CHEWBBACA/tests
	pytest
	popd

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