Fix taxonomy to accept several databases (regression) #635

	name: Tests

	on:
	push:
	branches:
	- main
	- dev
	pull_request:
	branches-ignore: []
	schedule:
	- cron: '0 0 13 * *'

	jobs:
	build-linux:
	runs-on: ubuntu-latest
	strategy:
	max-parallel: 5
	matrix:
	python: [3.8, 3.9, '3.10']
	fail-fast: false


	steps:
	- name: checkout git repo
	uses: actions/checkout@v2

	- name: conda/mamba
	uses: mamba-org/provision-with-micromamba@main
	with:
	cache-downloads: true
	environment-file: false
	environment-name: installation
	channels:
	conda-forge,bioconda,defaults
	extra-specs: \|
	python=${{ matrix.python }}
	kraken2
	shustring
	samtools
	snpeff
	bwa
	shustring
	cd-hit

	- name: install package itself
	shell: bash -l {0}
	run: \|
	pip install .[testing]
	pip install kaleido # required by plotly but sowehow not installed

	- name: testing
	shell: bash -l {0}
	run: \|
	pytest --cov-report term-missing --cov=sequana

	- name: coveralls
	shell: bash -l {0}
	run: \|
	pip install coveralls
	coveralls --service=github
	env:
	GITHUB_TOKEN: ${{ github.token }}

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