Mongodb upsert wrapper #142

	name: linkml-store QC

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

	jobs:
	build:
	runs-on: ubuntu-latest
	strategy:
	matrix:
	python-version: [ "3.9", "3.11" ]
	mongodb-version: ['7.0']

	steps:
	- uses: actions/[email protected]

	- name: Set up Python ${{ matrix.python-version }}
	uses: actions/setup-python@v3
	with:
	python-version: ${{ matrix.python-version }}

	- name: Install Poetry
	uses: snok/[email protected]

	- name: Install dependencies
	run: poetry install --no-interaction --all-extras

	- name: Check common spelling errors
	run: poetry run tox -e codespell

	#- name: Check code quality with flake8
	# run: poetry run tox -e lint

	- name: Start MongoDB
	uses: supercharge/[email protected]
	with:
	mongodb-version: ${{ matrix.mongodb-version }}

	- name: Wait for MongoDB to be Ready
	run: \|
	for i in {1..10}; do
	if mongosh --eval "db.runCommand({ ping: 1 })"; then
	echo "MongoDB is ready!"
	exit 0
	fi
	echo "Waiting for MongoDB to start..."
	sleep 5
	done
	echo "MongoDB failed to start"
	exit 1

	- name: Test with pytest and generate coverage file
	run: poetry run pytest -m "not integration and not neo4j" --ignore=src/linkml_store/inference/implementations/rag_inference_engine.py tests

Provide feedback