Merge pull request #553 from metagenome-atlas/screen #188

	name: Python Package using Conda

	on: [push]

	jobs:
	build-linux:
	runs-on: ubuntu-latest
	strategy:
	max-parallel: 5
	defaults:
	run:
	shell: bash -el {0} # use default shell

	steps:

	- name: Checkout
	uses: actions/[email protected]

	- name: Setup_conda_and_cache
	uses: actions/cache@v2
	env:
	# Increase this value to reset cache if etc/example-environment.yml has not changed
	CACHE_NUMBER: 0
	with:
	path: ~/conda_pkgs_dir
	key:
	${{ runner.os }}-conda-${{ env.CACHE_NUMBER }}-${{
	hashFiles('atlasenv.yml') }}
	- uses: conda-incubator/setup-miniconda@v2
	with:
	activate-environment: atlasenv
	use-mamba: true
	python-version: 3.11
	mamba-version: "*"
	channels: conda-forge,bioconda,defaults
	environment-file: atlasenv.yml
	use-only-tar-bz2: true # IMPORTANT: This needs to be set for caching to work properly!


	- name: Install atlas
	run: \|
	echo "You are using env '$CONDA_PREFIX'"
	python -m pip install . --no-deps -vv
	- name: Test atlas
	run: \|
	atlas --help
	atlas --version
	- name: Import atlas
	run: \|
	python -c "from atlas import utils"

	- name: Dryrun
	run: \|
	test/dryrun.sh

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