Fix tests #24

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


	name: Build and run tests

	on:
	push:
	branches: [ main, development ]
	pull_request:

	jobs:
	pre-commit:
	name: Run all pre-commit hooks
	runs-on: ubuntu-latest
	steps:
	- uses: actions/checkout@v4
	- uses: actions/setup-python@v5
	- uses: pre-commit/action@v3.0.1
	build-and-test:
	runs-on: ubuntu-latest
	strategy:
	fail-fast: false
	matrix:
	python-version: ["3.8", "3.9", "3.10"]
	steps:
	- uses: actions/checkout@v4
	- name: Set up Python ${{ matrix.python-version }}
	uses: actions/setup-python@v5
	with:
	python-version: ${{ matrix.python-version }}
	- name: Pip installation
	run: \|
	python -m pip install --upgrade pip
	pip install .
	- name: Install additional dependencies for tests
	run: \|
	pip install nbmake pytest
	pip install -r docs/requirements_docs.txt
	pip install typing_extensions
	pip install coverage
	- name: Print pip freeze
	run: \|
	pip freeze
	- name: Run notebooks
	run: \|
	python3 -m ipykernel install --user
	# TODO add the excluded notebook
	TEST_NBS=$(find ./nbs -name "*.ipynb" \| grep -v "ramus_2016.ipynb")
	python -m pytest --nbmake $(echo $TEST_NBS)
	- name: Run tests (exluding slow)
	run: \|
	SKIP_SLOW_TESTS=1 coverage run -m unittest
	- name: Run tests (including slow)
	run: \|
	coverage run -m unittest
	- name: Upload Coverage to Codecov
	uses: codecov/codecov-action@v4

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