DEV: Can now double-handle --profile #19

	# This workflow will install Python dependencies, run tests and lint with a single version of Python
	# For more information see: https://docs.github.com/en/actions/automating-builds-and-tests/building-and-testing-python

	name: CI

	on:
	push:
	branches: [ "main" ]
	paths:
	- '.github/**'
	- 'build/**'
	- 'tests/**'
	- '{{cookiecutter.project_slug}}/**'
	pull_request:
	branches: [ "main" ]
	paths:
	- '.github/**'
	- 'build/**'
	- 'tests/**'
	- '{{cookiecutter.project_slug}}/**'

	permissions:
	contents: read

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

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

	strategy:
	matrix:
	os: [macos-12, ubuntu-latest]
	python-version: ["3.9", "3.10", "3.11"]

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

	# Setup env
	- uses: conda-incubator/setup-miniconda@v2
	with:
	activate-environment: snaketool
	environment-file: build/environment.yaml
	python-version: ${{ matrix.python-version }}
	auto-activate-base: false

	- name: "Setup Snaketool on ${{ matrix.os }} for Python ${{ matrix.python-version }}"
	run: \|
	cookiecutter --no-input ./
	cd my_snaketool/
	python -m pip install --upgrade pip
	pip install .

	- name: "Generate coverage report on ${{ matrix.os }} for Python ${{ matrix.python-version }}"
	run: \|
	pip install pytest pytest-cov
	pytest --cov=./ --cov-report=xml --cov-append

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