def setUp(self):
self.username = '******'
self.password = '******'
self.json_handler_OBJ = JSON_methods()
self.json_handler_OBJ.session = requests.Session()
self.json_handler_OBJ.session.auth = (self.username, self.password)
self.write_OBJ = Write(None)
def setUp(self):
self.username = '******'
self.password = '******'
self.json_handler_OBJ = JSON_methods()
self.json_handler_OBJ.session = requests.Session()
self.json_handler_OBJ.session.auth = (self.username, self.password)
self.search_OBJ = Search(None)
settings_dict = {'display_title':'True',
'display_description':'True'
'display_model_name':'True'
'display_model':'True'
'display_title':'True'
'display_download_link':'True'
}
self.search_OBJ.settings_dict = settings_dict
def setUp(self):
self.username = '******'
self.password = '******'
self.json_handler_OBJ = JSON_methods()
self.json_handler_OBJ.session = requests.Session()
self.json_handler_OBJ.session.auth = (self.username, self.password)
self.json_no_policy = {}
self.json_no_policy['data'] = {}
self.json_no_policy['data']['type'] = 'investigations'
self.json_no_policy['data']['attributes'] = {}
self.json_no_policy['data']['attributes']['title'] = 'title'
self.json_no_policy['data']['attributes']['description'] = 'desc'
self.json_person = {}
self.json_person['attributes'] = {}
self.json_person['attributes']['title'] = 'name'
self.json = {}
self.json['id'] = '1'
self.json['jsonapi'] = {}
self.json['jsonapi']['version'] = '1.0'
self.json['data'] = {}
self.json['data']['type'] = 'investigations'
self.json['data']['attributes'] = {}
self.json['data']['attributes']['title'] = 'title'
self.json['data']['attributes']['description'] = 'desc'
self.json['data']['attributes']['policy'] = {}
self.json['data']['attributes']['policy']['access'] = 'view'
self.json['data']['attributes']['assay_class'] = 'class'
self.json['data']['attributes']['assay_type'] = {}
self.json['data']['attributes']['assay_type']['uri'] = 'uri'
self.json['data']['attributes']['technology_type'] = {}
self.json['data']['attributes']['technology_type']['uri'] = 'uri'
self.json['data']['attributes']['members'] = {}
self.json['data']['relationships'] = {}
self.json['data']['relationships']['creators'] = {}
self.json['data']['relationships']['creators']['data'] = {
id: "136",
type: "people"
}
self.json['data']['relationships']['submitter'] = {}
self.json['data']['relationships']['submitter']['data'] = {
id: "136",
type: "people"
}
self.json['data']['relationships']['people'] = {}
self.json['data']['relationships']['people']['data'] = {
id: "136",
type: "people"
}
self.json['data']['relationships']['projects'] = {}
self.json['data']['relationships']['projects']['data'] = {
id: "136",
type: "people"
}
self.json['data']['relationships']['investigations'] = {}
self.json['data']['relationships']['investigations']['data'] = {
id: "136",
type: "people"
}
self.json['data']['relationships']['studies'] = {}
self.json['data']['relationships']['studies']['data'] = {
id: "136",
type: "people"
}
self.json['data']['relationships']['assays'] = {}
self.json['data']['relationships']['assays']['data'] = {
id: "136",
type: "people"
}
self.json['data']['relationships']['data_files'] = {}
self.json['data']['relationships']['data_files']['data'] = {
id: "136",
type: "people"
}
self.json['data']['relationships']['project_administrators'] = {}
self.json['data']['relationships']['project_administrators'][
'data'] = {
id: "136",
type: "people"
}
self.json['data']['relationships']['asset_housekeepers'] = {}
self.json['data']['relationships']['asset_housekeepers']['data'] = {
id: "136",
type: "people"
}
self.json['data']['relationships']['asset_gatekeepers'] = {}
self.json['data']['relationships']['asset_gatekeepers']['data'] = {
id: "136",
type: "people"
}
self.json['data']['relationships']['organisms'] = {}
self.json['data']['relationships']['organisms']['data'] = {
id: "136",
type: "people"
}
self.json['data']['relationships']['institutions'] = {}
self.json['data']['relationships']['institutions']['data'] = {
id: "136",
type: "people"
}
self.json['data']['relationships']['programmes'] = {}
self.json['data']['relationships']['programmes']['data'] = {
id: "136",
type: "people"
}
class TestJSONhandler(unittest.TestCase):
#
# def setUpClass(cls):
# pass
#
# def tearDownClass(cls):
# pass
def setUp(self):
self.username = '******'
self.password = '******'
self.json_handler_OBJ = JSON_methods()
self.json_handler_OBJ.session = requests.Session()
self.json_handler_OBJ.session.auth = (self.username, self.password)
self.json_no_policy = {}
self.json_no_policy['data'] = {}
self.json_no_policy['data']['type'] = 'investigations'
self.json_no_policy['data']['attributes'] = {}
self.json_no_policy['data']['attributes']['title'] = 'title'
self.json_no_policy['data']['attributes']['description'] = 'desc'
self.json_person = {}
self.json_person['attributes'] = {}
self.json_person['attributes']['title'] = 'name'
self.json = {}
self.json['id'] = '1'
self.json['jsonapi'] = {}
self.json['jsonapi']['version'] = '1.0'
self.json['data'] = {}
self.json['data']['type'] = 'investigations'
self.json['data']['attributes'] = {}
self.json['data']['attributes']['title'] = 'title'
self.json['data']['attributes']['description'] = 'desc'
self.json['data']['attributes']['policy'] = {}
self.json['data']['attributes']['policy']['access'] = 'view'
self.json['data']['attributes']['assay_class'] = 'class'
self.json['data']['attributes']['assay_type'] = {}
self.json['data']['attributes']['assay_type']['uri'] = 'uri'
self.json['data']['attributes']['technology_type'] = {}
self.json['data']['attributes']['technology_type']['uri'] = 'uri'
self.json['data']['attributes']['members'] = {}
self.json['data']['relationships'] = {}
self.json['data']['relationships']['creators'] = {}
self.json['data']['relationships']['creators']['data'] = {
id: "136",
type: "people"
}
self.json['data']['relationships']['submitter'] = {}
self.json['data']['relationships']['submitter']['data'] = {
id: "136",
type: "people"
}
self.json['data']['relationships']['people'] = {}
self.json['data']['relationships']['people']['data'] = {
id: "136",
type: "people"
}
self.json['data']['relationships']['projects'] = {}
self.json['data']['relationships']['projects']['data'] = {
id: "136",
type: "people"
}
self.json['data']['relationships']['investigations'] = {}
self.json['data']['relationships']['investigations']['data'] = {
id: "136",
type: "people"
}
self.json['data']['relationships']['studies'] = {}
self.json['data']['relationships']['studies']['data'] = {
id: "136",
type: "people"
}
self.json['data']['relationships']['assays'] = {}
self.json['data']['relationships']['assays']['data'] = {
id: "136",
type: "people"
}
self.json['data']['relationships']['data_files'] = {}
self.json['data']['relationships']['data_files']['data'] = {
id: "136",
type: "people"
}
self.json['data']['relationships']['project_administrators'] = {}
self.json['data']['relationships']['project_administrators'][
'data'] = {
id: "136",
type: "people"
}
self.json['data']['relationships']['asset_housekeepers'] = {}
self.json['data']['relationships']['asset_housekeepers']['data'] = {
id: "136",
type: "people"
}
self.json['data']['relationships']['asset_gatekeepers'] = {}
self.json['data']['relationships']['asset_gatekeepers']['data'] = {
id: "136",
type: "people"
}
self.json['data']['relationships']['organisms'] = {}
self.json['data']['relationships']['organisms']['data'] = {
id: "136",
type: "people"
}
self.json['data']['relationships']['institutions'] = {}
self.json['data']['relationships']['institutions']['data'] = {
id: "136",
type: "people"
}
self.json['data']['relationships']['programmes'] = {}
self.json['data']['relationships']['programmes']['data'] = {
id: "136",
type: "people"
}
def tearDown(self):
pass
def test_set_json_handler_Method(self):
json_handler = None
search = Search(json_handler)
search.set_json_handler(self.json_handler_OBJ)
self.assertIsInstance(search.json_handler, JSON_methods)
# @patch('SEEK._get_input', return_value=
# PROT_DEFAULT_AUTHENTICATION_STRING)
# @patch('getpass.getpass', return_value=PROT_DEFAULT_AUTHENTICATION_STRING)
def test_auth_request_Method(self):
self.assertEqual(self.json_handler_OBJ.session.auth,
(self.username, self.password))
def test_new_session_Method(self):
self.assertIsInstance(self.json_handler_OBJ.new_session(),
requests.Session)
def test_change_url_Method(self):
self.json_handler_OBJ.change_url('1')
self.assertEqual(self.json_handler_OBJ.chosen_url,
'https://www.fairdomhub.org')
def test_check_webpage_status_Method(self):
with patch('json_methods.requests.Session') as mocked_get:
mocked_get.status_code = 403
self.assertEqual(
self.json_handler_OBJ.check_webpage_status(mocked_get), False)
mocked_get.status_code = 401
self.assertEqual(
self.json_handler_OBJ.check_webpage_status(mocked_get), False)
mocked_get.status_code = 422
self.assertEqual(
self.json_handler_OBJ.check_webpage_status(mocked_get), False)
mocked_get.status_code = 406
self.assertEqual(
self.json_handler_OBJ.check_webpage_status(mocked_get), False)
mocked_get.status_code = 404
self.assertEqual(
self.json_handler_OBJ.check_webpage_status(mocked_get), False)
mocked_get.status_code = 200
self.assertEqual(
self.json_handler_OBJ.check_webpage_status(mocked_get), True)
def test_get_list_of_user_ids_Method(self):
self.json_handler_OBJ.list_of_user_ids = ['1', '2', '3']
list = ['1', '2', '3']
self.assertEqual(self.json_handler_OBJ.list_of_user_ids, list)
def test_get_list_of_user_names_Method(self):
self.json_handler_OBJ.list_of_user_ids = ['a', 'b', 'c']
list = ['a', 'b', 'c']
self.assertEqual(self.json_handler_OBJ.list_of_user_ids, list)
def test_get_data_Method(self):
self.assertIsInstance(self.json_handler_OBJ.get_data(self.json), dict)
def test_get_type_Method(self):
self.assertIsInstance(self.json_handler_OBJ.get_type(self.json), str)
def test_get_title_Method(self):
self.assertIsInstance(self.json_handler_OBJ.get_title(self.json), str)
def test_get_description_Method(self):
self.assertIsInstance(self.json_handler_OBJ.get_description(self.json),
str)
def test_get_assay_class_Method(self):
self.assertIsInstance(self.json_handler_OBJ.get_assay_class(self.json),
str)
def test_get_assay_type_Method(self):
self.assertIsInstance(self.json_handler_OBJ.get_assay_type(self.json),
dict)
def test_get_assay_type_uri_Method(self):
self.assertIsInstance(
self.json_handler_OBJ.get_assay_type_uri(self.json), str)
def test_get_assay_tech_type_Method(self):
self.assertIsInstance(
self.json_handler_OBJ.get_assay_tech_type(self.json), dict)
def test_get_assay_tech_type_uri_Method(self):
self.assertIsInstance(
self.json_handler_OBJ.get_assay_tech_type_uri(self.json), str)
def test_get_relationship_creators_Method(self):
self.assertIsInstance(
self.json_handler_OBJ.get_relationship_creators(self.json), dict)
def test_get_relationship_submitters_Method(self):
self.assertIsInstance(
self.json_handler_OBJ.get_relationship_submitters(self.json), dict)
def test_get_relationship_people_Method(self):
self.assertIsInstance(
self.json_handler_OBJ.get_relationship_people(self.json), dict)
def test_get_relationship_projects_Method(self):
self.assertIsInstance(
self.json_handler_OBJ.get_relationship_projects(self.json), dict)
def test_get_relationship_investigations_Method(self):
self.assertIsInstance(
self.json_handler_OBJ.get_relationship_investigations(self.json),
dict)
def test_get_relationship_studies_Method(self):
self.assertIsInstance(
self.json_handler_OBJ.get_relationship_studies(self.json), dict)
def test_get_relationship_assays_Method(self):
self.assertIsInstance(
self.json_handler_OBJ.get_relationship_assays(self.json), dict)
def test_get_relationship_data_files_Method(self):
self.assertIsInstance(
self.json_handler_OBJ.get_relationship_data_files(self.json), dict)
def test_get_project_members_Method(self):
self.assertIsInstance(
self.json_handler_OBJ.get_project_members(self.json), dict)
def test_get_project_admins_Method(self):
self.assertIsInstance(
self.json_handler_OBJ.get_project_admins(self.json), dict)
def test_get_asset_HK_Method(self):
self.assertIsInstance(self.json_handler_OBJ.get_asset_HK(self.json),
dict)
def test_get_asset_GK_Method(self):
self.assertIsInstance(self.json_handler_OBJ.get_asset_GK(self.json),
dict)
def test_get_organisms_Method(self):
self.assertIsInstance(self.json_handler_OBJ.get_organisms(self.json),
dict)
def test_get_project_institutions_Method(self):
self.assertIsInstance(
self.json_handler_OBJ.get_project_institutions(self.json), dict)
def test_get_project_programmes_Method(self):
self.assertIsInstance(
self.json_handler_OBJ.get_project_programmes(self.json), dict)
def test_check_relationship_exists_Method(self):
self.assertEqual(
self.json_handler_OBJ.check_relationship_exists(
self.json, 'assays'), True)
self.assertEqual(
self.json_handler_OBJ.check_relationship_exists(self.json, 'rnd'),
False)
def test_check_policy_exists_Method(self):
self.assertEqual(self.json_handler_OBJ.check_policy_exists(self.json),
True)
self.assertEqual(
self.json_handler_OBJ.check_policy_exists(self.json_no_policy),
False)
def test_get_ID_from_people_JSON_Method(self):
self.assertIsInstance(
self.json_handler_OBJ.get_ID_from_people_JSON(self.json), str)
def test_get_name_from_people_JSON_Method(self):
self.assertIsInstance(
self.json_handler_OBJ.get_name_from_people_JSON(self.json_person),
str)
def test_get_person_name_Method(self):
self.assertIsInstance(self.json_handler_OBJ.get_person_name(self.json),
str)
def test_get_version_Method(self):
self.assertIsInstance(self.json_handler_OBJ.get_version(self.json),
str)
def test_get_public_access_Method(self):
self.assertIsInstance(
self.json_handler_OBJ.get_public_access(self.json), str)
def __init__(self):
self.json_handler = JSON_methods()
self.SEEK_query = None
self.SEEK_search = None
self.SEEK_write = None
class SEEK():
'''
Container of all classes
All functions are called from this class
FUNCTIONS :
query : select ID and type for searching
post : post a json
search : search a file based on query
query : set login details
change_url : FOR DEMO PURPOSE ONLY
Change url to sandbox website
'''
def __init__(self):
self.json_handler = JSON_methods()
self.SEEK_query = None
self.SEEK_search = None
self.SEEK_write = None
def query(self):
self.SEEK_query = Query(self.json_handler)
self.SEEK_query.query()
def post(self):
if self.SEEK_write == None:
self.SEEK_write = Write(self.json_handler)
self.SEEK_write.post_choice()
def search(self):
self.SEEK_search = Search(self.json_handler)
valid = True
list_of_names = self.SEEK_query.get_list_of_user_names()
list_of_ids = self.SEEK_query.get_list_of_user_ids()
topic = self.SEEK_query.get_topic()
if topic == 'Document query' or topic == 'Person query':
settings_dict = self.SEEK_query.get_setting_options_dict()
settings_dict = dict(settings_dict)
id = self.SEEK_query.get_id_to_search()
if id == '':
print('ID is needed')
valid = False
type = self.SEEK_query.get_type_to_search()
if valid == True:
self.SEEK_search.search_parameters(topic, id, type,
settings_dict,
list_of_names, list_of_ids)
self.SEEK_search.search()
else:
print('Select Document/Person query tab to search')
def change_url(self):
print('1: https://www.fairdomhub.org')
print('2: https://sandbox3.fairdomhub.org')
choice = input("Please choose url 1 or 2:\n")
print('You entered {0}'.format(choice))
self.json_handler.change_url(choice)
if self.SEEK_query != None:
self.SEEK_query.set_json_handler(self.json_handler)
if self.SEEK_search != None:
self.SEEK_search.set_json_handler(self.json_handler)
def auth(self):
self.json_handler.auth_request()
# self.SEEK_query.set_json_handler(self.json_handler)
if self.SEEK_query != None:
self.SEEK_query.set_json_handler(self.json_handler)
if self.SEEK_search != None:
self.SEEK_search.set_json_handler(self.json_handler)
if self.SEEK_write != None:
self.SEEK_write.set_json_handler(self.json_handler)