def test_cli_with_mode(self, mock_post: MagicMock,
mock_identity_token: MagicMock):
apply_mock_behaviour(mock_post=mock_post,
mock_identity_token=mock_identity_token)
main_from_args(['analysis-runner', *self.ANALYSIS_RUNNER_ARGS])
mock_post.assert_called()
mock_identity_token.assert_called()
def test_regular_cli(self, mock_post: MagicMock,
mock_identity_token: MagicMock):
apply_mock_behaviour(mock_post=mock_post,
mock_identity_token=mock_identity_token)
main_from_args(self.ANALYSIS_RUNNER_ARGS)
mock_post.assert_called()
mock_identity_token.assert_called()
def test_status_cli(self, mock_print: MagicMock, mock_get: MagicMock,
mock_id_token):
apply_mock_behaviour(mock_identity_token=mock_id_token)
cm = {
'id': '<mocked-id>',
'start': '2021-07-09T09:47:00.000Z',
'end': '2021-07-09T09:48:00.000Z',
'calls': {
'wf.print': [{
'name': 'print',
'executionStatus': 'succeeded',
'start': '2021-07-09T09:47:00.000Z',
'end': '2021-07-09T09:48:00.000Z',
}]
},
}
mock_get.return_value = MockResponse(json=lambda: cm)
args = ['cromwell', 'status', '<mocked-id>', '--monochrome']
status_str = """
----------- ------------------------
Workflow ID <mocked-id>
Name
Status preparing
Start 2021-07-09T09:47:00.000Z
End 2021-07-09T09:48:00.000Z
Duration 1m:0s
----------- ------------------------
Jobs:
[#] print (1m:0s)
"""
main_from_args(args)
mock_get.assert_called()
mock_print.assert_called_with(status_str)
def test_submit_cli(self, mock_post: MagicMock,
mock_identity_token: MagicMock):
apply_mock_behaviour(mock_post=mock_post,
mock_identity_token=mock_identity_token)
args = [
'cromwell',
'submit',
'--dataset',
'fewgenomes',
'--access-level',
'test',
'--description',
'mock-test',
'--output-dir',
'hello-world-test',
'workflow.wdl',
]
main_from_args(args)
mock_post.assert_called()
mock_identity_token.assert_called()
def test_help_full(self, mock_print: MagicMock):
main_from_args(['--help'])
mock_print.assert_called()
def test_help_short(self, mock_print: MagicMock):
main_from_args(['-h'])
mock_print.assert_called()
def test_version_full(self, mock_print: MagicMock):
main_from_args(['--version'])
mock_print.assert_called_with(VERSION_STR)