def test_send_request_timout(): """This test will trigge a timout error.""" # GIVEN a request and a request that timouts url = "http://www.badurl.com" responses.add( responses.GET, url, body=requests.exceptions.Timeout(), ) # WHEN requesting with pytest.raises(requests.exceptions.Timeout): # THEN assert that the a Timeout is raised scout_requests.get_request(url)
def test_get_request(): """Test functions that accepts an url and returns decoded data from it""" # test function with url that exists url = "http://www.github.com" decoded_resp = get_request(url) assert "<!DOCTYPE html>" in decoded_resp
def load_panel_app(adapter, panel_id=None, institute="cust000"): """Load PanelApp panels into scout database If no panel_id load all PanelApp panels Args: adapter(scout.adapter.MongoAdapter) panel_id(str): The panel app panel id """ base_url = "https://panelapp.genomicsengland.co.uk/WebServices/{0}/" hgnc_map = adapter.genes_by_alias() if panel_id: panel_ids = [panel_id] if not panel_id: LOG.info("Fetching all panel app panels") data = get_request(base_url.format("list_panels")) json_lines = json.loads(data) panel_ids = [panel_info["Panel_Id"] for panel_info in json_lines["result"]] for panel_id in panel_ids: panel_data = get_request(base_url.format("get_panel") + panel_id) parsed_panel = parse_panel_app_panel( panel_info=json.loads(panel_data)["result"], hgnc_map=hgnc_map, institute=institute, ) parsed_panel["panel_id"] = panel_id if len(parsed_panel["genes"]) == 0: LOG.warning( "Panel {} is missing genes. Skipping.".format( parsed_panel["display_name"] ) ) continue try: adapter.load_panel(parsed_panel=parsed_panel) except Exception as err: raise err
def test_get_request_bad_url(): """Test functions that accepts an url and returns decoded data from it""" # test function with a url that is not valid url = "fakeyurl" with pytest.raises(ValueError) as err: # function should raise error assert get_request(url)
def test_get_request_bad_url(): """Test function that accepts an url and returns decoded data from it""" # test function with a url that is not valid url = "fakeyurl" with pytest.raises(requests.exceptions.MissingSchema): # function should raise error assert scout_requests.get_request(url)
def test_get_request(): """Test functions that accepts an url and returns decoded data from it""" # GIVEN an URL url = "http://www.github.com" responses.add( responses.GET, url, status=200, ) # WHEN requesting response = scout_requests.get_request(url) # THEN assert that the reponse is correct assert response.status_code == 200
def test_get_request_bad_request(): """Test functions that accepts an url and returns decoded data from it""" # GIVEN an URL url = "http://www.badurl.com" responses.add( responses.GET, url, status=404, ) # WHEN requesting with pytest.raises(requests.exceptions.HTTPError): response = scout_requests.get_request(url) # THEN assert that the a httperror is raised assert response.status_code == 404