BioMCP

""" Unit tests for OpenFDA device events integration. """ from unittest.mock import patch import pytest from biomcp.openfda.device_events import get_device_event, search_device_events @pytest.mark.asyncio async def test_search_device_events_by_device(): """Test searching device events by device name.""" mock_response = { "meta": {"results": {"total": 3}}, "results": [ { "event_type": "M", "date_received": "2024-01-15", "device": [ { "brand_name": "FoundationOne CDx", "manufacturer_d_name": "Foundation Medicine", "model_number": "F1CDX", "device_problem_text": ["False negative result"], "openfda": { "device_class": "2", "medical_specialty_description": ["Pathology"], "product_code": "PQP", }, } ], "event_description": "Device failed to detect known mutation", "mdr_report_key": "MDR123456", } ], } with patch( "biomcp.openfda.device_events.make_openfda_request" ) as mock_request: mock_request.return_value = (mock_response, None) result = await search_device_events(device="FoundationOne", limit=10) # Verify request mock_request.assert_called_once() call_args = mock_request.call_args assert "FoundationOne" in call_args[0][1]["search"] # When searching for a specific device, genomic filter is not needed # The device search itself is sufficient # Check output assert "FDA Device Adverse Event Reports" in result assert "FoundationOne CDx" in result assert "Foundation Medicine" in result assert "False negative result" in result assert "Malfunction" in result assert "MDR123456" in result @pytest.mark.asyncio async def test_search_device_events_genomics_filter(): """Test that genomics filter is applied by default.""" mock_response = {"meta": {"results": {"total": 5}}, "results": []} with patch( "biomcp.openfda.device_events.make_openfda_request" ) as mock_request: mock_request.return_value = (mock_response, None) await search_device_events(manufacturer="Illumina", genomics_only=True) # Verify genomic device codes are in search call_args = mock_request.call_args search_query = call_args[0][1]["search"] # Should contain at least one genomic product code assert any( code in search_query for code in ["OOI", "PQP", "OYD", "NYE"] ) @pytest.mark.asyncio async def test_search_device_events_no_genomics_filter(): """Test searching without genomics filter.""" mock_response = {"meta": {"results": {"total": 10}}, "results": []} with patch( "biomcp.openfda.device_events.make_openfda_request" ) as mock_request: mock_request.return_value = (mock_response, None) await search_device_events(device="pacemaker", genomics_only=False) # Verify no genomic product codes in search call_args = mock_request.call_args search_query = call_args[0][1]["search"] # Should not contain genomic product codes assert not any(code in search_query for code in ["OOI", "PQP", "OYD"]) @pytest.mark.asyncio async def test_search_device_events_by_problem(): """Test searching device events by problem description.""" mock_response = { "meta": {"results": {"total": 8}}, "results": [ { "event_type": "IN", "device": [ { "brand_name": "Test Device", "device_problem_text": [ "Software malfunction", "Data loss", ], } ], "mdr_report_key": "MDR789", } ], } with patch( "biomcp.openfda.device_events.make_openfda_request" ) as mock_request: mock_request.return_value = (mock_response, None) result = await search_device_events(problem="software malfunction") # Verify request call_args = mock_request.call_args assert "software malfunction" in call_args[0][1]["search"].lower() # Check output assert "Software malfunction" in result assert "Data loss" in result assert "Injury" in result # IN = Injury @pytest.mark.asyncio async def test_search_device_events_no_params(): """Test that searching without parameters returns helpful message.""" result = await search_device_events() assert "Please specify" in result assert "device name, manufacturer, or problem" in result assert "Examples:" in result @pytest.mark.asyncio async def test_get_device_event_detail(): """Test getting detailed device event report.""" mock_response = { "results": [ { "mdr_report_key": "MDR999888", "event_type": "D", "date_received": "2024-02-01", "date_of_event": "2024-01-20", "source_type": "M", "device": [ { "brand_name": "Genomic Sequencer X", "manufacturer_d_name": "GenTech Corp", "model_number": "GSX-2000", "catalog_number": "CAT123", "lot_number": "LOT456", "expiration_date_of_device": "2025-12-31", "device_problem_text": [ "Critical failure", "Sample contamination", ], "device_evaluated_by_manufacturer": "Y", "openfda": { "device_class": "3", "medical_specialty_description": [ "Clinical Chemistry" ], "product_code": "OOI", }, } ], "event_description": "Device failure led to incorrect cancer diagnosis", "manufacturer_narrative": "Investigation revealed component failure", "patient": [ { "patient_age": "65", "patient_sex": "F", "date_of_death": "2024-01-25", "life_threatening": "Y", } ], "remedial_action": "Device recall initiated", } ] } with patch( "biomcp.openfda.device_events.make_openfda_request" ) as mock_request: mock_request.return_value = (mock_response, None) result = await get_device_event("MDR999888") # Verify request mock_request.assert_called_once() call_args = mock_request.call_args assert "MDR999888" in call_args[0][1]["search"] # Check detailed output assert "MDR999888" in result assert "Death" in result assert "Genomic Sequencer X" in result assert "GenTech Corp" in result assert "GSX-2000" in result assert "Critical failure" in result assert "Sample contamination" in result assert "Class III" in result assert "65 years" in result assert "Female" in result assert "2024-01-25" in result assert "Life-threatening" in result assert "Device recall initiated" in result assert "Investigation revealed component failure" in result @pytest.mark.asyncio async def test_get_device_event_not_found(): """Test handling when device event report is not found.""" with patch( "biomcp.openfda.device_events.make_openfda_request" ) as mock_request: mock_request.return_value = ({"results": []}, None) result = await get_device_event("NOTFOUND789") assert "NOTFOUND789" in result assert "not found" in result @pytest.mark.asyncio async def test_search_device_events_error(): """Test error handling in device event search.""" with patch( "biomcp.openfda.device_events.make_openfda_request" ) as mock_request: mock_request.return_value = (None, "Network timeout") result = await search_device_events(device="test") assert "Error searching device events" in result assert "Network timeout" in result