def test_create_action_missing_arguments(instrument, capsys):
assert len(actions.get_actions()) == 0
with pytest.raises(SystemExit) as exc_info:
scripts.main([scripts.__file__, 'create_action', str(instrument.id)])
assert exc_info.value != 0
assert 'Usage' in capsys.readouterr()[0]
assert len(actions.get_actions()) == 0
def test_create_independent_action():
assert len(actions.get_actions()) == 0
action = actions.create_action(sampledb.models.ActionType.SAMPLE_CREATION,
name="Example Action",
description="",
schema=SCHEMA)
assert action.name == "Example Action"
assert action.description == ""
assert action.schema == SCHEMA
assert len(actions.get_actions()) == 1
assert action == actions.get_action(action_id=action.id)
def test_create_action_missing_instrument(capsys):
action_type = 'sample'
name = 'Example Action'
description = 'Example Action Description'
schema_file_name = os.path.abspath(os.path.join(os.path.dirname(__file__), '..', '..', 'sampledb', 'schemas', 'minimal.json'))
assert len(actions.get_actions()) == 0
with pytest.raises(SystemExit) as exc_info:
scripts.main([scripts.__file__, 'create_action', '1', action_type, name, description, schema_file_name])
assert exc_info.value != 0
assert 'Error: no instrument with this id exists' in capsys.readouterr()[1]
assert len(actions.get_actions()) == 0
def test_create_action_invalid_type(instrument, capsys):
action_type = 'sample_creation'
name = 'Example Action'
description = 'Example Action Description'
schema_file_name = os.path.abspath(os.path.join(os.path.dirname(__file__), '..', '..', 'sampledb', 'schemas', 'minimal.json'))
assert len(actions.get_actions()) == 0
with pytest.raises(SystemExit) as exc_info:
scripts.main([scripts.__file__, 'create_action', str(instrument.id), action_type, name, description, schema_file_name])
assert exc_info.value != 0
assert 'Error: action type must be "sample" or "measurement"' in capsys.readouterr()[1]
assert len(actions.get_actions()) == 0
def test_set_up_demo_twice(capsys, tmpdir):
config.FILE_STORAGE_PATH = tmpdir
scripts.main([scripts.__file__, 'set_up_demo'])
assert 'Success' in capsys.readouterr()[0]
assert actions.get_actions()
num_actions = len(actions.get_actions())
with pytest.raises(SystemExit) as exc_info:
scripts.main([scripts.__file__, 'set_up_demo'])
assert exc_info.value != 0
assert 'Error' in capsys.readouterr()[1]
assert len(actions.get_actions()) == num_actions
def test_create_instrument_action():
instrument = instruments.create_instrument(
"Example Instrument", "Example Instrument Description")
assert len(actions.get_actions()) == 0
action = actions.create_action(sampledb.models.ActionType.SAMPLE_CREATION,
name="Example Action",
description="",
schema=SCHEMA,
instrument_id=instrument.id)
assert action.name == "Example Action"
assert action.description == ""
assert action.schema == SCHEMA
assert len(actions.get_actions()) == 1
assert action == actions.get_action(action_id=action.id)
assert action.instrument == instrument
def test_update_action(action, schema_file_name, capsys):
name = 'Example Action'
description = 'Example Action Description'
assert len(actions.get_actions()) == 1
scripts.main([
scripts.__file__, 'update_action',
str(action.id), name, '', schema_file_name
])
assert 'Success' in capsys.readouterr()[0]
assert len(actions.get_actions()) == 1
action = actions.get_actions()[0]
assert action.name == name
assert action.description == ''
assert action.type == actions.ActionType.SAMPLE_CREATION
def test_set_up_demo_one_user_exists(capsys, tmpdir):
config.FILE_STORAGE_PATH = tmpdir
users.create_user("username", "*****@*****.**", users.UserType.PERSON)
scripts.main([scripts.__file__, 'set_up_demo'])
assert 'Success' in capsys.readouterr()[0]
assert actions.get_actions()
def test_create_measurement_action(instrument, capsys):
action_type = 'measurement'
name = 'Example Action'
description = 'Example Action Description'
schema_file_name = os.path.abspath(os.path.join(os.path.dirname(__file__), '..', '..', 'sampledb', 'schemas', 'minimal.json'))
assert len(actions.get_actions()) == 0
scripts.main([scripts.__file__, 'create_action', str(instrument.id), action_type, name, description, schema_file_name])
assert 'Success' in capsys.readouterr()[0]
assert len(actions.get_actions()) == 1
action = actions.get_actions()[0]
assert action.name == name
assert action.description == description
assert action.instrument_id == instrument.id
assert action.type == actions.ActionType.MEASUREMENT
def test_update_action_missing_arguments(action, capsys):
name = 'Example Action'
description = 'Example Action Description'
assert len(actions.get_actions()) == 1
with pytest.raises(SystemExit) as exc_info:
scripts.main(
[scripts.__file__, 'update_action',
str(action.id), name, ''])
assert exc_info.value != 0
assert 'Usage' in capsys.readouterr()[0]
assert len(actions.get_actions()) == 1
action = actions.get_actions()[0]
assert action.name == name
assert action.description == description
assert action.type == actions.ActionType.SAMPLE_CREATION
def test_update_action_invalid_action_id(action, schema_file_name, capsys):
name = 'Example Action'
description = 'Example Action Description'
assert len(actions.get_actions()) == 1
with pytest.raises(SystemExit) as exc_info:
scripts.main([
scripts.__file__, 'update_action', name, name, '', schema_file_name
])
assert exc_info.value != 0
assert 'Error: action_id must be an integer' in capsys.readouterr()[1]
assert len(actions.get_actions()) == 1
action = actions.get_actions()[0]
assert action.name == name
assert action.description == description
assert action.type == actions.ActionType.SAMPLE_CREATION
def test_create_action_invalid_instrument_id(instrument, capsys):
action_type = 'sample'
name = 'Example Action'
description = 'Example Action Description'
schema_file_name = os.path.abspath(
os.path.join(os.path.dirname(__file__), '..', 'test_data', 'schemas',
'minimal.json'))
assert len(actions.get_actions()) == 0
with pytest.raises(SystemExit) as exc_info:
scripts.main([
scripts.__file__, 'create_action', instrument.name, action_type,
name, description, schema_file_name
])
assert exc_info.value != 0
assert 'Error: instrument_id must be an integer' in capsys.readouterr()[1]
assert len(actions.get_actions()) == 0
def test_get_missing_action():
assert len(actions.get_actions()) == 0
action = actions.create_action(sampledb.models.ActionType.SAMPLE_CREATION,
name="Example Action",
description="",
schema=SCHEMA)
with pytest.raises(errors.ActionDoesNotExistError):
actions.get_action(action.id + 1)
def test_get_actions():
measurement_action = actions.create_action(
sampledb.models.ActionType.MEASUREMENT,
name="Example Action",
description="",
schema=SCHEMA)
sample_action = actions.create_action(
sampledb.models.ActionType.SAMPLE_CREATION,
name="Example Action",
description="",
schema=SCHEMA)
assert actions.get_actions() == [
measurement_action, sample_action
] or actions.get_actions() == [sample_action, measurement_action]
assert actions.get_actions(
sampledb.models.ActionType.SAMPLE_CREATION) == [sample_action]
assert actions.get_actions(
sampledb.models.ActionType.MEASUREMENT) == [measurement_action]
def test_create_action_invalid_schema(instrument, capsys):
action_type = 'sample'
name = 'Example Action'
description = 'Example Action Description'
schema_file_name = os.path.abspath(
os.path.join(os.path.dirname(sampledb.__file__), 'schemas',
'action.json'))
assert len(actions.get_actions()) == 0
with pytest.raises(SystemExit) as exc_info:
scripts.main([
scripts.__file__, 'create_action',
str(instrument.id), action_type, name, description,
schema_file_name
])
assert exc_info.value != 0
assert 'Error: invalid schema:' in capsys.readouterr()[1]
assert len(actions.get_actions()) == 0
def test_update_action_missing_action(action, schema_file_name, capsys):
name = 'Example Action'
description = 'Example Action Description'
assert len(actions.get_actions()) == 1
with pytest.raises(SystemExit) as exc_info:
scripts.main([
scripts.__file__, 'update_action',
str(action.id + 1), name, '', schema_file_name
])
assert exc_info.value != 0
assert 'Error: no action with this id exists' in capsys.readouterr()[1]
assert len(actions.get_actions()) == 1
action = actions.get_actions()[0]
assert action.name == name
assert action.description == description
assert action.type == actions.ActionType.SAMPLE_CREATION
def test_create_user_action():
user = users.User(name="Testuser",
email="*****@*****.**",
type=sampledb.models.UserType.PERSON)
sampledb.db.session.add(user)
sampledb.db.session.commit()
assert len(actions.get_actions()) == 0
action = actions.create_action(sampledb.models.ActionType.SAMPLE_CREATION,
name="Example Action",
description="",
schema=SCHEMA,
user_id=user.id)
assert action.name == "Example Action"
assert action.description == ""
assert action.schema == SCHEMA
assert action.user_id == user.id
assert len(actions.get_actions()) == 1
assert action == actions.get_action(action_id=action.id)
def test_create_action_invalid_type(instrument, capsys):
action_type = 'sample_creation'
name = 'Example Action'
description = 'Example Action Description'
schema_file_name = os.path.abspath(
os.path.join(os.path.dirname(__file__), '..', 'test_data', 'schemas',
'minimal.json'))
assert len(actions.get_actions()) == 0
with pytest.raises(SystemExit) as exc_info:
scripts.main([
scripts.__file__, 'create_action',
str(instrument.id), action_type, name, description,
schema_file_name
])
assert exc_info.value != 0
assert 'Error: action type must be one of the following:\n- "sample" (for Sample Creation)\n- "measurement" (for Measurement)\n- "simulation" (for Simulation)\n- "-99" (for Sample Creation)\n- "-98" (for Measurement)\n- "-97" (for Simulation)\n' in capsys.readouterr(
)[1]
assert len(actions.get_actions()) == 0
def test_create_missing_instrument_action():
instrument = instruments.create_instrument(
"Example Instrument", "Example Instrument Description")
assert len(actions.get_actions()) == 0
with pytest.raises(errors.InstrumentDoesNotExistError):
actions.create_action(sampledb.models.ActionType.SAMPLE_CREATION,
name="Example Action",
description="",
schema=SCHEMA,
instrument_id=instrument.id + 1)
def test_set_up_demo_two_users_exist(capsys, tmpdir):
config.FILE_STORAGE_PATH = tmpdir
users.create_user("username", "*****@*****.**", users.UserType.PERSON)
users.create_user("username", "*****@*****.**",
users.UserType.PERSON)
with pytest.raises(SystemExit) as exc_info:
scripts.main([scripts.__file__, 'set_up_demo'])
assert exc_info.value != 0
assert 'Error' in capsys.readouterr()[1]
assert not actions.get_actions()
def test_update_action_invalid_schema(action, capsys):
name = 'Example Action'
description = 'Example Action Description'
schema_file_name = os.path.abspath(
os.path.join(os.path.dirname(__file__), '..', '..', 'sampledb',
'schemas', 'action.json'))
assert len(actions.get_actions()) == 1
with pytest.raises(SystemExit) as exc_info:
scripts.main([
scripts.__file__, 'update_action',
str(action.id), name, '', schema_file_name
])
assert exc_info.value != 0
assert 'Error: invalid schema:' in capsys.readouterr()[1]
assert len(actions.get_actions()) == 1
action = actions.get_actions()[0]
assert action.name == name
assert action.description == description
assert action.type == actions.ActionType.SAMPLE_CREATION
def test_set_up_demo(capsys, tmpdir):
config.FILE_STORAGE_PATH = tmpdir
scripts.main([scripts.__file__, 'set_up_demo'])
assert 'Success' in capsys.readouterr()[0]
assert actions.get_actions()