def test_get_settings_loads_config_file_for_caas_correctly(self, monkeypatch):
with monkeypatch.context() as ctx:
ctx.setenv(
'caas_key', 'encrypted_key_content_string_to_communicate_with_caas'
)
loaded_settings = settings.get_settings(
'{0}{1}'.format(self.data_dir, self.caas_config)
)
assert loaded_settings[
'cromwell_url'
] == self.expected_settings_dic_caas.get('cromwell_url')
assert loaded_settings['use_caas'] == self.expected_settings_dic_caas.get(
'use_caas'
)
assert (
loaded_settings['caas_key']
== 'encrypted_key_content_string_to_communicate_with_caas'
)
assert loaded_settings[
'collection_name'
] == self.expected_settings_dic_caas.get('collection_name')
assert loaded_settings['queue_update_interval'] == int(
self.expected_settings_dic_caas.get('queue_update_interval')
)
assert loaded_settings['workflow_start_interval'] == int(
self.expected_settings_dic_caas.get('workflow_start_interval')
)
def __init__(self, config_path):
self.workflow_queue = self.create_empty_queue(
-1) # use infinite for the size of the queue for now
self.thread = None
self.settings = settings.get_settings(config_path)
self.cromwell_auth = settings.get_cromwell_auth(self.settings)
self.queue_update_interval = self.settings.get("queue_update_interval")
self.cromwell_query_dict = self.settings.get("cromwell_query_dict")
def __init__(self, config_path):
"""Concrete Igniter class for igniting/starting workflows in Cromwell.
Args:
config_path (str): Path to the config.json file.
"""
self.thread = None
self.settings = settings.get_settings(config_path)
self.cromwell_auth = settings.get_cromwell_auth(self.settings)
self.workflow_start_interval = self.settings.get(
'workflow_start_interval')
def test_get_settings_loads_config_file_for_caas_for_capital_env_variable_correctly(
self, monkeypatch
):
with monkeypatch.context() as ctx:
ctx.setenv(
'CAAS_KEY', 'encrypted_key_content_string_to_communicate_with_caas'
)
loaded_settings = settings.get_settings(
'{0}{1}'.format(self.data_dir, self.caas_config)
)
assert (
loaded_settings['caas_key']
== 'encrypted_key_content_string_to_communicate_with_caas'
)
def test_get_settings_loads_config_file_for_cromwell_instance_correctly(self):
loaded_settings = settings.get_settings(
'{0}{1}'.format(self.data_dir, self.cromwell_config)
)
assert loaded_settings[
'cromwell_url'
] == self.expected_settings_dic_cromwell_instance.get('cromwell_url')
assert loaded_settings[
'use_caas'
] == self.expected_settings_dic_cromwell_instance.get('use_caas')
assert loaded_settings[
'cromwell_user'
] == self.expected_settings_dic_cromwell_instance.get('cromwell_user')
assert loaded_settings[
'cromwell_password'
] == self.expected_settings_dic_cromwell_instance.get('cromwell_password')
assert loaded_settings['queue_update_interval'] == int(
self.expected_settings_dic_cromwell_instance.get('queue_update_interval')
)
assert loaded_settings['workflow_start_interval'] == int(
self.expected_settings_dic_cromwell_instance.get('workflow_start_interval')
)
def test_get_settings_loads_config_file_for_caas_throw_exceptions_without_caas_key(
self
):
with pytest.raises(ValueError):
settings.get_settings('{0}{1}'.format(self.data_dir, self.caas_config))
def test_get_settings_cromwell_query_dict_includes_on_hold_status(self):
loaded_settings = settings.get_settings(
'{0}{1}'.format(self.data_dir, self.cromwell_config)
)
assert loaded_settings['cromwell_query_dict']['status'] == 'On Hold'
def test_get_settings_loads_config_file_for_cromwell_instance_without_exceptions(
self
):
settings.get_settings('{0}{1}'.format(self.data_dir, self.cromwell_config))