[FIX] unexpected columns in FS report with --no-english #65

	name: Tests

	on:
	push:
	#pull_request:

	concurrency:
	group: ${{ github.workflow }}-${{ github.ref }}
	cancel-in-progress: ${{ github.ref != 'refs/heads/main' }}

	jobs:
	runtime_tests:
	strategy:
	max-parallel: 5
	fail-fast: false
	matrix:
	os: [ubuntu-latest] #, macos-latest]
	python-version: ["3.10"] #, "3.9"]

	runs-on: ${{ matrix.os }}

	defaults:
	run:
	# NOTE login shell: to force loading conda profile
	shell: bash -l {0}

	steps:
	- name: Checkout repository
	uses: actions/checkout@v3
	with:
	lfs: false
	# NOTE to save on bandwidth costs, GitHub Action will not use GitHub's own LFS

	- name: Fetch test-data
	# NOTE to save on bandwidth costs, pull data from BSSE's GitLab LFS instead
	run: \|
	git config --file .lfsconfig lfs.url "https://git.bsse.ethz.ch/cbg/viruses/smallgenomeutilities.git/info/lfs"
	git lfs install
	git lfs pull
	git lfs checkout

	- uses: conda-incubator/setup-miniconda@v2
	with:
	miniforge-version: latest
	miniforge-variant: Mambaforge
	python-version: ${{ matrix.python-version }}
	mamba-version: "*"
	channels: conda-forge,bioconda #,defaults # see: https://github.com/conda-forge/status/issues/144
	channel-priority: strict
	activate-environment: testsmgu
	auto-update-conda: false
	environment-file: tests/conda_testsgmu_env.yaml

	- name: Build package
	run: \|
	pip install --no-deps .

	- name: dummy run
	run: \|
	frameshift_deletions_checks --version

	- name: Test package
	run: \|
	pytest -v

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