Add github action for testing notebooks #65

	name: Run tests

	on:
	pull_request:

	jobs:
	run_notebooks:
	runs-on: ubuntu-20.04
	steps:
	- uses: actions/checkout@v4.1.7

	- name: Get changed files
	id: changed-files
	uses: tj-actions/changed-files@v45
	# To compare changes between the current commit and the last pushed remote commit set `since_last_remote_commit: true`. e.g
	# with:
	# since_last_remote_commit: true
	with:
	files: \|
	**.ipynb

	- name: Start docker and test container
	if: steps.changed-files.outputs.any_changed == 'true'
	env:
	ALL_CHANGED_FILES: ${{ steps.changed-files.outputs.all_changed_files }}
	run: \|
	chmod +x ./tests/launch-test-environment.sh
	./tests/launch-test-environment.sh
	shell: bash

	- name: Test all changed files
	if: steps.changed-files.outputs.any_changed == 'true'
	env:
	ALL_CHANGED_FILES: ${{ steps.changed-files.outputs.all_changed_files }}
	run: \|
	for file in ${ALL_CHANGED_FILES}; do
	echo "$file"
	docker exec jupyter papermill ../$file /dev/null --execution-timeout=1200 --log-level ERROR
	done

	- name: Stop docker and test container
	if: steps.changed-files.outputs.any_changed == 'true'
	env:
	ALL_CHANGED_FILES: ${{ steps.changed-files.outputs.all_changed_files }}
	run: \|
	docker compose --profile all-services down -v
	shell: bash

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