chore: release 0.2.1 #18

	name: Test

	on: [push, pull_request]

	jobs:
	cli_test:
	runs-on: ubuntu-latest
	steps:
	- name: Checkout code
	uses: actions/checkout@v2
	- name: Install Conda environment with Micromamba
	uses: mamba-org/provision-with-micromamba@main
	with:
	cache-downloads: true
	environment-file: env.yaml

	- name: Conda list
	shell: bash -l {0}
	run: conda list

	- name: Run tests
	shell: bash -l {0}
	run: \|
	set -ex

	python -m pip install . --no-deps -vv

	check_exit_code () { exit_code=$?; echo "exit code: $exit_code"; if [ $exit_code -ne 0 ]; then exit 1; fi; }

	itolparser --version
	check_exit_code

	itolparser --continuous nr_amr_genes --outdir tmp_output --input tests/table.tsv
	check_exit_code

	for file in tests/correct_output/normal/*
	do
	NAME=$(basename $file)
	cmp tests/correct_output/normal/$NAME tmp_output/$NAME
	check_exit_code
	done

	itolparser --continuous nr_amr_genes --ignore ST serotype --outdir tmp_output_OrRd --palette OrRd -i tests/table.tsv
	check_exit_code

	for file in tests/correct_output/OrRd_palette/*
	do
	NAME=$(basename $file)
	cmp tests/correct_output/OrRd_palette/$NAME tmp_output_OrRd/$NAME
	check_exit_code
	done

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