Merge pull request #85 from gbouras13/mmseqs #314

	name: CI

	on: [push,pull_request]

	jobs:
	tests:
	name: "Python ${{ matrix.python-version }}"
	runs-on: ${{ matrix.os }}

	defaults:
	run:
	shell: bash -el {0}

	strategy:
	matrix:
	os: [macos-12, ubuntu-latest]
	python-version: ["3.9"]

	steps:
	- uses: "actions/checkout@v3"
	with:
	fetch-depth: 0

	# Setup env
	- uses: conda-incubator/setup-miniconda@v3
	with:
	activate-environment: dnaapler
	environment-file: build/environment.yaml
	python-version: ${{ matrix.python-version }}
	auto-activate-base: false
	channels: conda-forge,bioconda,defaults
	channel-priority: strict
	auto-update-conda: true
	- name: Install project
	shell: bash -l {0}
	run: \|
	conda install python=${{ matrix.python-version }}
	python -m pip install --upgrade pip
	pip install -e .
	pip install black
	pip install isort
	pip install pytest
	pip install pytest-cov
	- name: Check formatting
	shell: bash -l {0}
	run: just check-fmt
	- name: Test and generate coverage report with pytest
	shell: bash -l {0}
	run: just test-ci
	- name: Upload coverage reports to Codecov
	uses: codecov/codecov-action@v4

Provide feedback