use mocking for C. blochmannia kraken tests #10

	name: build-on-push-to-master

	on:
	push:
	branches: master
	# To be able to trigger a manual build
	workflow_dispatch:

	jobs:
	build:
	runs-on: macos-latest
	env:
	GITHUB_PAT: ${{ secrets.GITHUB_TOKEN }}
	steps:
	- name: Checkout Repo
	uses: actions/checkout@v4

	- name: Install Python
	uses: actions/setup-python@v5
	with:
	python-version: "3.11"

	- name: Install Miniconda
	uses: conda-incubator/setup-miniconda@v3
	with:
	auto-update-conda: true
	python-version: "3.11"
	activate-environment: pyani-github
	channels: defaults,bioconda,conda-forge
	channel-priority: flexible

	- name: Install pip
	run: python -m pip install --upgrade pip

	- name: Install Development Requirements
	run: conda install --file requirements-dev.txt -y

	- name: Install Requirements
	run: conda install --file requirements.txt -y

	- name: Install third-party tools
	run: conda install --file requirements-thirdparty.txt -y

	- name: Install FastANI
	run: conda install --file requirements-fastani.txt -y

	- name: Install PyQT
	run: conda install --file requirements-pyqt-conda.txt -y

	- name: Install pip requirements
	run: pip install -r requirements-pip.txt

	- name: Install pyani
	run: pip install -e .

	- name: Run Tests with pytest
	run: python -m pytest -v -m "not slow" --cov=pyani --cov-report=xml:.coverage_fast.xml

	- name: Upload coverage Results
	uses: actions/upload-artifact@v4
	with:
	name: pytest-results-3.11
	path: .coverage_fast.xml
	retention-days: 1
	if: ${{ always() }}

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