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Migration to MkDocs and GitHub Actions #22

	name: CI

	on:
	push:
	branches: [ main, develop ]
	pull_request:
	types: [ opened, synchronize, reopened ]
	workflow_dispatch:

	jobs:
	test:
	runs-on: ubuntu-22.04
	env:
	NXF_VER: "25.04.7"

	steps:
	- name: Checkout repository
	uses: actions/checkout@v4

	- name: Clean up Disk space
	uses: jlumbroso/free-disk-space@54081f138730dfa15788a46383842cd2f914a1be

	- name: Set up Java (OpenJDK 17)
	uses: actions/setup-java@v4
	with:
	distribution: temurin
	java-version: '17'

	- name: Set up Python
	uses: actions/setup-python@v4
	with:
	python-version: "3.9"

	- name: Ensure pip is up-to-date
	run: python -m pip install --upgrade pip

	- name: Set up Nextflow
	uses: nf-core/setup-nextflow@v2
	with:
	version: "${{ env.NXF_VER }}"

	- name: Download and extract test-data
	# If your data is public this will work. If it's private, see notes below.
	run: \|
	wget -O test-data.tar.gz --no-check-certificate 'https://drive.usercontent.google.com/download?export=download&confirm=no_antivirus&id=13zUVw4BZ0_5QAW7zmdCsZ_CZDHbNxyMV'
	tar -xzvf test-data.tar.gz

	- name: Install Python deps (if requirements.txt exists)
	run: \|
	if [ -f requirements.txt ]; then
	pip install -r requirements.txt
	fi

	- name: Run tests
	run: \|
	python3 tests/test_runner.py tests/tests.json