Test

Add functionality to save mokapot models #481

	name: Test

	on:
	push:
	branches:
	- main
	pull_request:
	workflow_dispatch:

	jobs:
	test-python-package:
	runs-on: ubuntu-latest
	strategy:
	matrix:
	python-version: ["3.9", "3.10", "3.11"]
	steps:
	- uses: actions/checkout@v4

	- name: Set up Python ${{ matrix.python-version }}
	uses: actions/setup-python@v4
	with:
	python-version: ${{ matrix.python-version }}

	- name: Install dependencies
	run: \|
	python -m pip install --upgrade pip
	pip install ruff

	- name: Run Ruff
	run: ruff check --output-format=github .

	- name: Build and install ms2rescore package
	run: \|
	pip install --only-binary :all: .[dev]

	- name: Test with pytest
	run: \|
	pytest

	- name: Test installation
	run: \|
	ms2rescore --help

	test-windows-installer:
	# Only run on push to main (e.g., after PR merge)
	if: ${{ github.ref == 'refs/heads/main' }}
	runs-on: windows-latest
	steps:
	- uses: actions/checkout@v2

	- uses: actions/setup-python@v2
	with:
	python-version: "3.11"

	- name: Install package and dependencies
	run: \|
	python -m pip install --upgrade pip
	pip install --only-binary :all: .[ionmob] pyinstaller

	- name: Install Inno Setup
	uses: crazy-max/ghaction-chocolatey@v1
	with:
	args: install innosetup -y --allow-unofficial --force

	- name: Run pyinstaller
	run: pyinstaller ./ms2rescore.spec --clean --noconfirm

	- name: Test built exe
	run: dist/ms2rescore/ms2rescore.exe

	- name: Run Inno Setup
	run: ISCC.exe ./ms2rescore_innosetup.iss /DAppVersion=${{ github.ref_name }}

	- name: Upload artifact
	uses: actions/upload-artifact@v3
	with:
	name: dist
	path: dist/*.exe

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