added links #33

	name: RareLink CLI

	on:
	push:
	branches:
	- develop
	- main
	pull_request:
	branches:
	- develop
	- main

	jobs:
	test-cli:
	runs-on: ubuntu-latest

	steps:
	# Step 1: Check out the repository
	- name: Checkout Repository
	uses: actions/checkout@v3

	# Step 2: Set up Python environment
	- name: Set up Python
	uses: actions/setup-python@v4
	with:
	python-version: "3.11"

	# Step 3: Install dependencies
	- name: Install Dependencies
	run: \|
	python -m pip install --upgrade pip
	python -m pip install --editable .[test]

	# Step 4: Run pytest for CLI tests
	- name: Run CLI Tests
	run: \|
	mkdir -p rarelink/tests/cli # Ensure the directory exists
	if pytest rarelink/tests/cli; then
	echo '{"schemaVersion": 1, "label": "RareLink CLI", "message": "passing", "color": "blue"}' > rarelink/tests/cli/status.json
	else
	echo '{"schemaVersion": 1, "label": "RareLink CLI", "message": "failing", "color": "red"}' > rarelink/tests/cli/status.json
	fi

	# Step 5: Upload status.json as an artifact (optional for debugging)
	- name: Upload status.json
	uses: actions/upload-artifact@v3
	with:
	name: cli-status
	path: rarelink/tests/cli/status.json


	env:
	BIOPORTAL_API_TOKEN: ${{ secrets.BIOPORTAL_API_TOKEN }}

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