def test_flowcells(hiseqx, hiseq, miseq, all):
""" Run unittests with the default config file: tests/config.yaml. To change it, edit tests/test_<fc-type>.py file"""
# load_yaml_config(config_file)
if not config.get('trello', ''):
logging.error("Config file missing required entries: 'trello'")
raise RuntimeError("Config file missing required entries: 'trello'")
if not config.get('data_folders', ''):
logging.error("Config file missing required entries: 'data_folders'")
raise RuntimeError(
"Config file missing required entries: 'data_folders'")
data_folders = []
for data_folder in config.get('data_folders'):
if not data_folder.startswith('/'):
script_path = os.path.realpath(__file__)
dirname = os.path.dirname(script_path)
abs_path = os.path.join(dirname, data_folder)
data_folders.append(abs_path)
config.update({'data_folders': data_folders})
if all or not any([hiseqx, hiseq, miseq]): # if no flags or flag=all
for Test in [TestMiseq, TestHiseq, TestHiseqX]:
suite = unittest.TestLoader().loadTestsFromTestCase(Test)
unittest.TextTestRunner(verbosity=2).run(suite)
else:
if hiseqx:
suite = unittest.TestLoader().loadTestsFromTestCase(TestHiseqX)
unittest.TextTestRunner(verbosity=2).run(suite)
if hiseq:
suite = unittest.TestLoader().loadTestsFromTestCase(TestHiseq)
unittest.TextTestRunner(verbosity=2).run(suite)
if miseq:
suite = unittest.TestLoader().loadTestsFromTestCase(TestMiseq)
unittest.TextTestRunner(verbosity=2).run(suite)
def test_transferring(self):
fc = BaseFlowcell.init_flowcell(self.original_flowcell)
self.assertIsNotNone(fc.transfering_started)
# to make sure it's a datetime and nothing else
transfering = {
'hiseqx': {
'url': 'localhost',
'username': '******',
'path': os.path.join(os.path.abspath('tests/test_data/hiseqx')) #)'/Users/ekaterinastepanova/work/hugin/tests/test_data/hiseqx'
}
}
config.update({'transfering': transfering})
self.assertGreater(datetime.datetime.now(), fc.transfering_started)
def test_transferring(self):
fc = BaseFlowcell.init_flowcell(self.original_flowcell)
self.assertIsNotNone(fc.transfering_started)
# to make sure it's a datetime and nothing else
transfering = {
'hiseqx': {
'url': 'localhost',
'username': '******',
'path': os.path.join(
os.path.abspath('tests/test_data/hiseqx')
) #)'/Users/ekaterinastepanova/work/hugin/tests/test_data/hiseqx'
}
}
config.update({'transfering': transfering})
self.assertGreater(datetime.datetime.now(), fc.transfering_started)
