first commit #2

	name: Python dev

	on:
	pull_request:
	push:
	branches:
	- main

	jobs:
	testing:
	runs-on: ubuntu-latest
	strategy:
	matrix:
	python: ["3.10", "3.11", "3.12"]
	name: Testing Python ${{ matrix.python }}
	steps:
	- name: Checkout repository
	uses: actions/checkout@v4

	- name: Set up Python
	uses: actions/setup-python@v5
	with:
	python-version: ${{ matrix.python }}

	- name: Install Poetry
	run: \|
	python --version
	pip install poetry==1.8.2

	- name: Install dependencies
	run: \|
	python --version
	poetry install --with testing

	- name: Download data
	run: \|
	mkdir -p /opt/conda
	wget https://repo.anaconda.com/miniconda/Miniconda3-py39_24.5.0-0-Linux-x86_64.sh -O /opt/conda/miniconda.sh
	bash /opt/conda/miniconda.sh -b -p /opt/miniconda
	poetry run fedpydeseq2-download-data --only_luad --raw_data_output_path /home/runner/work/fed-pydeseq2-datasets/fed-pydeseq2-datasets/data/raw --conda_activate_path /opt/miniconda/bin/activate

	- name: Testing
	run: \|
	poetry run pytest -v tests

	linting:
	runs-on: ubuntu-latest
	name: Test Linting
	steps:
	- uses: actions/checkout@v4
	- name: Set up Python
	uses: actions/setup-python@v5
	with:
	python-version: "3.11"
	- name: Install Poetry
	run: pip install poetry==1.8.2

	- name: Install dependencies
	run: \|
	which python
	python --version
	poetry install --with linting

	- name: Pre-commit checks
	run: \|
	poetry run pre-commit run --all-files --show-diff-on-failure

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