def fit(self,
X,
y,
task=MULTICLASS_CLASSIFICATION,
metric=None,
feat_type=None,
dataset_name=None):
if not self._shared_mode:
self._backend.context.delete_directories()
else:
# If this fails, it's likely that this is the first call to get
# the data manager
try:
D = self._backend.load_datamanager()
dataset_name = D.name
except IOError:
pass
self._backend.context.create_directories()
if dataset_name is None:
dataset_name = hash_array_or_matrix(X)
self._backend.save_start_time(self._seed)
self._stopwatch = StopWatch()
self._dataset_name = dataset_name
self._stopwatch.start_task(self._dataset_name)
self._logger = self._get_logger(dataset_name)
if metric is None:
raise ValueError('No metric given.')
if not isinstance(metric, Scorer):
raise ValueError('Metric must be instance of '
'autosklearn.metrics.Scorer.')
if feat_type is not None and len(feat_type) != X.shape[1]:
raise ValueError('Array feat_type does not have same number of '
'variables as X has features. %d vs %d.' %
(len(feat_type), X.shape[1]))
if feat_type is not None and not all(
[isinstance(f, str) for f in feat_type]):
raise ValueError('Array feat_type must only contain strings.')
if feat_type is not None:
for ft in feat_type:
if ft.lower() not in ['categorical', 'numerical']:
raise ValueError('Only `Categorical` and `Numerical` are '
'valid feature types, you passed `%s`' %
ft)
self._data_memory_limit = None
#pdb.set_trace()
loaded_data_manager = XYDataManager(X,
y,
task=task,
feat_type=feat_type,
dataset_name=dataset_name)
#pdb.set_trace()
return self._fit(loaded_data_manager, metric)
def fit(self,
X,
y,
task=MULTICLASS_CLASSIFICATION,
metric='acc_metric',
feat_type=None,
dataset_name=None):
if not self._shared_mode:
self._backend.context.delete_directories()
else:
# If this fails, it's likely that this is the first call to get
# the data manager
try:
D = self._backend.load_datamanager()
dataset_name = D.name
except IOError:
pass
self._backend.context.create_directories()
if dataset_name is None:
dataset_name = hash_numpy_array(X)
self._backend.save_start_time(self._seed)
self._stopwatch = StopWatch()
self._dataset_name = dataset_name
self._stopwatch.start_task(self._dataset_name)
self._logger = self._get_logger(dataset_name)
if isinstance(metric, str):
metric = STRING_TO_METRIC[metric]
if feat_type is not None and len(feat_type) != X.shape[1]:
raise ValueError('Array feat_type does not have same number of '
'variables as X has features. %d vs %d.' %
(len(feat_type), X.shape[1]))
if feat_type is not None and not all(
[isinstance(f, str) for f in feat_type]):
raise ValueError('Array feat_type must only contain strings.')
if feat_type is not None:
for ft in feat_type:
if ft.lower() not in ['categorical', 'numerical']:
raise ValueError('Only `Categorical` and `Numerical` are '
'valid feature types, you passed `%s`' %
ft)
self._data_memory_limit = None
loaded_data_manager = XYDataManager(X,
y,
task=task,
metric=metric,
feat_type=feat_type,
dataset_name=dataset_name,
encode_labels=False)
return self._fit(loaded_data_manager)
def test_smbo_metalearning_configurations(backend, context, dask_client):
# Get the inputs to the optimizer
X_train, Y_train, X_test, Y_test = putil.get_dataset('iris')
config_space = AutoML(backend=backend,
metric=autosklearn.metrics.accuracy,
time_left_for_this_task=20,
per_run_time_limit=5).fit(
X_train,
Y_train,
task=BINARY_CLASSIFICATION,
only_return_configuration_space=True)
watcher = StopWatch()
# Create an optimizer
smbo = AutoMLSMBO(
config_space=config_space,
dataset_name='iris',
backend=backend,
total_walltime_limit=10,
func_eval_time_limit=5,
memory_limit=4096,
metric=autosklearn.metrics.accuracy,
watcher=watcher,
n_jobs=1,
dask_client=dask_client,
port=logging.handlers.DEFAULT_TCP_LOGGING_PORT,
start_num_run=1,
data_memory_limit=None,
num_metalearning_cfgs=25,
pynisher_context=context,
)
assert smbo.pynisher_context == context
# Create the inputs to metalearning
datamanager = XYDataManager(
X_train,
Y_train,
X_test,
Y_test,
task=BINARY_CLASSIFICATION,
dataset_name='iris',
feat_type={i: 'numerical'
for i in range(X_train.shape[1])},
)
backend.save_datamanager(datamanager)
smbo.task = BINARY_CLASSIFICATION
smbo.reset_data_manager()
metalearning_configurations = smbo.get_metalearning_suggestions()
# We should have 25 metalearning configurations
assert len(metalearning_configurations) == 25
assert [
isinstance(config, Configuration)
for config in metalearning_configurations
]
def test_do_dummy_prediction(backend, dask_client, datasets):
name, task = datasets
X_train, Y_train, X_test, Y_test = putil.get_dataset(name)
datamanager = XYDataManager(
X_train, Y_train,
X_test, Y_test,
task=task,
dataset_name=name,
feat_type=None,
)
auto = autosklearn.automl.AutoML(
backend, 20, 5,
initial_configurations_via_metalearning=25,
metric=accuracy,
dask_client=dask_client,
)
# Make a dummy logger
auto._logger_port = 9020
auto._logger = unittest.mock.Mock()
auto._logger.info.return_value = None
auto._backend.save_datamanager(datamanager)
D = backend.load_datamanager()
# Check if data manager is correcly loaded
assert D.info['task'] == datamanager.info['task']
auto._do_dummy_prediction(D, 1)
# Ensure that the dummy predictions are not in the current working
# directory, but in the temporary directory.
assert not os.path.exists(os.path.join(os.getcwd(), '.auto-sklearn'))
assert os.path.exists(os.path.join(
backend.temporary_directory, '.auto-sklearn', 'runs', '1_1_0.0',
'predictions_ensemble_1_1_0.0.npy')
)
model_path = os.path.join(backend.temporary_directory, '.auto-sklearn',
'runs', '1_1_0.0',
'1.1.0.0.model')
# Make sure the dummy model complies with scikit learn
# get/set params
assert os.path.exists(model_path)
with open(model_path, 'rb') as model_handler:
clone(pickle.load(model_handler))
auto._clean_logger()
del auto
def test_do_dummy_prediction(self):
datasets = {
'breast_cancer': BINARY_CLASSIFICATION,
'wine': MULTICLASS_CLASSIFICATION,
'diabetes': REGRESSION,
}
for name, task in datasets.items():
backend_api = self._create_backend('test_do_dummy_prediction')
X_train, Y_train, X_test, Y_test = putil.get_dataset(name)
datamanager = XYDataManager(
X_train,
Y_train,
X_test,
Y_test,
task=task,
dataset_name=name,
feat_type=None,
)
auto = autosklearn.automl.AutoML(
backend_api,
20,
5,
initial_configurations_via_metalearning=25,
metric=accuracy,
)
setup_logger()
auto._logger = get_logger('test_do_dummy_predictions')
auto._backend.save_datamanager(datamanager)
D = backend_api.load_datamanager()
# Check if data manager is correcly loaded
self.assertEqual(D.info['task'], datamanager.info['task'])
auto._do_dummy_prediction(D, 1)
# Ensure that the dummy predictions are not in the current working
# directory, but in the temporary directory.
self.assertFalse(
os.path.exists(os.path.join(os.getcwd(), '.auto-sklearn')))
self.assertTrue(
os.path.exists(
os.path.join(backend_api.temporary_directory,
'.auto-sklearn', 'predictions_ensemble',
'predictions_ensemble_1_1_0.0.npy')))
del auto
self._tearDown(backend_api.temporary_directory)
self._tearDown(backend_api.output_directory)
def test_do_dummy_prediction(dask_client, datasets):
name, task = datasets
X_train, Y_train, X_test, Y_test = putil.get_dataset(name)
datamanager = XYDataManager(
X_train,
Y_train,
X_test,
Y_test,
task=task,
dataset_name=name,
feat_type={i: 'numerical'
for i in range(X_train.shape[1])},
)
auto = autosklearn.automl.AutoML(
20,
5,
initial_configurations_via_metalearning=25,
metric=accuracy,
dask_client=dask_client,
delete_tmp_folder_after_terminate=False,
)
auto._backend = auto._create_backend()
# Make a dummy logger
auto._logger_port = 9020
auto._logger = unittest.mock.Mock()
auto._logger.info.return_value = None
auto._backend.save_datamanager(datamanager)
D = auto._backend.load_datamanager()
# Check if data manager is correcly loaded
assert D.info['task'] == datamanager.info['task']
auto._do_dummy_prediction(D, 1)
# Ensure that the dummy predictions are not in the current working
# directory, but in the temporary directory.
assert not os.path.exists(os.path.join(os.getcwd(), '.auto-sklearn'))
assert os.path.exists(
os.path.join(auto._backend.temporary_directory, '.auto-sklearn',
'runs', '1_1_0.0', 'predictions_ensemble_1_1_0.0.npy'))
auto._clean_logger()
del auto
def get_abalone_datamanager():
# https://www.openml.org/d/183
dataset_name = 'abalone'
data = sklearn.datasets.fetch_openml(data_id=183, as_frame=True)
feat_type = [
'Categorical' if x.name == 'category' else 'Numerical'
for x in data['data'].dtypes
]
X, y = sklearn.datasets.fetch_openml(data_id=183, return_X_y=True)
y = preprocessing.LabelEncoder().fit_transform(y)
X_train, X_test, y_train, y_test = sklearn.model_selection.train_test_split(
X, y, random_state=1)
D = XYDataManager(X_train, y_train, X_test, y_test,
MULTICLASS_CLASSIFICATION, feat_type, dataset_name)
return D
def fit(self,
X,
y,
task=MULTICLASS_CLASSIFICATION,
metric='acc_metric',
feat_type=None,
dataset_name=None):
if dataset_name is None:
m = hashlib.md5()
m.update(X.data)
dataset_name = m.hexdigest()
self._backend.save_start_time(self._seed)
self._stopwatch = StopWatch()
self._dataset_name = dataset_name
self._stopwatch.start_task(self._dataset_name)
self._logger = self._get_logger(dataset_name)
if isinstance(metric, str):
metric = STRING_TO_METRIC[metric]
if feat_type is not None and len(feat_type) != X.shape[1]:
raise ValueError('Array feat_type does not have same number of '
'variables as X has features. %d vs %d.' %
(len(feat_type), X.shape[1]))
if feat_type is not None and not all(
[isinstance(f, str) for f in feat_type]):
raise ValueError('Array feat_type must only contain strings.')
if feat_type is not None:
for ft in feat_type:
if ft.lower() not in ['categorical', 'numerical']:
raise ValueError('Only `Categorical` and `Numerical` are '
'valid feature types, you passed `%s`' %
ft)
self._data_memory_limit = None
loaded_data_manager = XYDataManager(X,
y,
task=task,
metric=metric,
feat_type=feat_type,
dataset_name=dataset_name,
encode_labels=False)
return self._fit(loaded_data_manager)
def get_meta_learning_configs(X,
y,
task_type,
dataset_name='default',
metric='accuracy',
num_cfgs=5):
if X is None or y is None:
X, y, _ = load_data(dataset_name)
backend = create(temporary_directory=None,
output_directory=None,
delete_tmp_folder_after_terminate=False,
delete_output_folder_after_terminate=False,
shared_mode=True)
dm = XYDataManager(X, y, None, None, task_type, None, dataset_name)
configuration_space = pipeline.get_configuration_space(
dm.info,
include_estimators=None,
exclude_estimators=None,
include_preprocessors=None,
exclude_preprocessors=None)
watcher = StopWatch()
name = os.path.basename(dm.name)
watcher.start_task(name)
def reset_data_manager(max_mem=None):
pass
automlsmbo = AutoMLSMBO(
config_space=configuration_space,
dataset_name=dataset_name,
backend=backend,
total_walltime_limit=1e5,
func_eval_time_limit=1e5,
memory_limit=1e5,
metric=metric,
watcher=watcher,
metadata_directory='components/meta_learning/meta_resource',
num_metalearning_cfgs=num_cfgs)
automlsmbo.reset_data_manager = reset_data_manager
automlsmbo.task = task_type
automlsmbo.datamanager = dm
configs = automlsmbo.get_metalearning_suggestions()
return configs
def fit(self,
X,
y,
task=MULTICLASS_CLASSIFICATION,
metric='acc_metric',
feat_type=None,
dataset_name=None):
if dataset_name is None:
m = hashlib.md5()
m.update(X.data)
dataset_name = m.hexdigest()
self._backend.save_start_time(self._seed)
self._stopwatch = StopWatch()
self._dataset_name = dataset_name
self._stopwatch.start_task(self._dataset_name)
logger_name = 'AutoML(%d):%s' % (self._seed, dataset_name)
setup_logger(os.path.join(self._tmp_dir, '%s.log' % str(logger_name)))
self._logger = get_logger(logger_name)
if isinstance(metric, str):
metric = STRING_TO_METRIC[metric]
if feat_type is not None and len(feat_type) != X.shape[1]:
raise ValueError('Array feat_type does not have same number of '
'variables as X has features. %d vs %d.' %
(len(feat_type), X.shape[1]))
if feat_type is not None and not all(
[isinstance(f, bool) for f in feat_type]):
raise ValueError('Array feat_type must only contain bools.')
loaded_data_manager = XYDataManager(X,
y,
task=task,
metric=metric,
feat_type=feat_type,
dataset_name=dataset_name,
encode_labels=False)
return self._fit(loaded_data_manager)
def test_do_dummy_prediction(backend, dask_client, datasets):
name, task = datasets
X_train, Y_train, X_test, Y_test = putil.get_dataset(name)
datamanager = XYDataManager(
X_train,
Y_train,
X_test,
Y_test,
task=task,
dataset_name=name,
feat_type=None,
)
auto = autosklearn.automl.AutoML(
backend,
20,
5,
initial_configurations_via_metalearning=25,
metric=accuracy,
dask_client=dask_client,
)
setup_logger(backend.temporary_directory)
auto._logger = get_logger('test_do_dummy_predictions')
auto._backend.save_datamanager(datamanager)
D = backend.load_datamanager()
# Check if data manager is correcly loaded
assert D.info['task'] == datamanager.info['task']
auto._do_dummy_prediction(D, 1)
# Ensure that the dummy predictions are not in the current working
# directory, but in the temporary directory.
assert not os.path.exists(os.path.join(os.getcwd(), '.auto-sklearn'))
assert os.path.exists(
os.path.join(backend.temporary_directory, '.auto-sklearn', 'runs',
'1_1_0.0', 'predictions_ensemble_1_1_0.0.npy'))
del auto
def set_dataset(self, X, y, X_test=None, y_test=None, feat_type=None):
"""
Stores the obtained dataset parameters in the XYDataManager of auto-sklearn
and caclulates the metafeatures of the dataset
"""
utils = MetaFeatures()
X, y = utils.perform_input_checks(X, y)
if X_test is not None:
X_test, y_test = utils.perform_input_checks(X_test, y_test)
if len(y.shape) != len(y_test.shape):
raise ValueError('Target value shapes do not match: %s vs %s' %
(y.shape, y_test.shape))
if feat_type is not None and len(feat_type) != X.shape[1]:
raise ValueError('Array feat_type does not have same number of '
'variables as X has features. %d vs %d.' %
(len(feat_type), X.shape[1]))
if feat_type is not None and not all(
[isinstance(f, str) for f in feat_type]):
raise ValueError('Array feat_type must only contain strings.')
if feat_type is not None:
for ft in feat_type:
if ft.lower() not in ['categorical', 'numerical']:
raise ValueError('Only `Categorical` and `Numerical` are '
'valid feature types, you passed `%s`' %
ft)
self.target_type = type_of_target(y)
task = self._task_mapping.get(self.target_type)
if task == None:
task = ask_const.REGRESSION
self.dataset_name = FMLHash().hashValAndReturnString(str(X))
self.data_manager = XYDataManager(X, y, X_test, y_test, task,
feat_type, self.dataset_name)
self.meta_features = utils.calculate_metafeatures(
self.data_manager, self.dataset_name)
def test_fail_if_dummy_prediction_fails(self, ta_run_mock):
backend_api = self._create_backend('test_fail_if_dummy_prediction_fails')
X_train, Y_train, X_test, Y_test = putil.get_dataset('iris')
datamanager = XYDataManager(
X_train, Y_train,
X_test, Y_test,
task=2,
feat_type=['Numerical' for i in range(X_train.shape[1])],
dataset_name='iris',
)
time_for_this_task = 30
per_run_time = 10
auto = autosklearn.automl.AutoML(backend_api,
time_for_this_task,
per_run_time,
initial_configurations_via_metalearning=25,
metric=accuracy,
)
setup_logger()
auto._logger = get_logger('test_fail_if_dummy_prediction_fails')
auto._backend._make_internals_directory()
auto._backend.save_datamanager(datamanager)
# First of all, check that ta.run() is actually called.
ta_run_mock.return_value = StatusType.SUCCESS, None, None, "test"
auto._do_dummy_prediction(datamanager, 1)
ta_run_mock.assert_called_once_with(1, cutoff=time_for_this_task)
# Case 1. Check that function raises no error when statustype == success.
# ta.run() returns status, cost, runtime, and additional info.
ta_run_mock.return_value = StatusType.SUCCESS, None, None, "test"
raised = False
try:
auto._do_dummy_prediction(datamanager, 1)
except ValueError:
raised = True
self.assertFalse(raised, 'Exception raised')
# Case 2. Check that if statustype returned by ta.run() != success,
# the function raises error.
ta_run_mock.return_value = StatusType.CRASHED, None, None, "test"
self.assertRaisesRegex(ValueError,
'Dummy prediction failed with run state StatusType.CRASHED '
'and additional output: test.',
auto._do_dummy_prediction,
datamanager, 1,
)
ta_run_mock.return_value = StatusType.ABORT, None, None, "test"
self.assertRaisesRegex(ValueError,
'Dummy prediction failed with run state StatusType.ABORT '
'and additional output: test.',
auto._do_dummy_prediction,
datamanager, 1,
)
ta_run_mock.return_value = StatusType.TIMEOUT, None, None, "test"
self.assertRaisesRegex(ValueError,
'Dummy prediction failed with run state StatusType.TIMEOUT '
'and additional output: test.',
auto._do_dummy_prediction,
datamanager, 1,
)
ta_run_mock.return_value = StatusType.MEMOUT, None, None, "test"
self.assertRaisesRegex(ValueError,
'Dummy prediction failed with run state StatusType.MEMOUT '
'and additional output: test.',
auto._do_dummy_prediction,
datamanager, 1,
)
ta_run_mock.return_value = StatusType.CAPPED, None, None, "test"
self.assertRaisesRegex(ValueError,
'Dummy prediction failed with run state StatusType.CAPPED '
'and additional output: test.',
auto._do_dummy_prediction,
datamanager, 1,
)
self._tearDown(backend_api.temporary_directory)
self._tearDown(backend_api.output_directory)
def fit(
self,
X: np.ndarray,
y: np.ndarray,
task: int,
metric: Scorer,
X_test: Optional[np.ndarray] = None,
y_test: Optional[np.ndarray] = None,
feat_type: Optional[List[bool]] = None,
dataset_name: Optional[str] = None,
only_return_configuration_space: Optional[bool] = False,
load_models: bool = True,
incremental_learning: bool = False,
):
if self._shared_mode:
# If this fails, it's likely that this is the first call to get
# the data manager
try:
D = self._backend.load_datamanager()
dataset_name = D.name
except IOError:
pass
if dataset_name is None:
dataset_name = hash_array_or_matrix(X)
self._backend.save_start_time(self._seed)
self._stopwatch = StopWatch()
self._dataset_name = dataset_name
self._stopwatch.start_task(self._dataset_name)
self._logger = self._get_logger(dataset_name)
if metric is None:
raise ValueError('No metric given.')
if not isinstance(metric, Scorer):
raise ValueError('Metric must be instance of '
'autosklearn.metrics.Scorer.')
if feat_type is not None and len(feat_type) != X.shape[1]:
raise ValueError('Array feat_type does not have same number of '
'variables as X has features. %d vs %d.' %
(len(feat_type), X.shape[1]))
if feat_type is not None and not all(
[isinstance(f, str) for f in feat_type]):
raise ValueError('Array feat_type must only contain strings.')
if feat_type is not None:
for ft in feat_type:
if ft.lower() not in ['categorical', 'numerical']:
raise ValueError('Only `Categorical` and `Numerical` are '
'valid feature types, you passed `%s`' %
ft)
self._data_memory_limit = None
loaded_data_manager = XYDataManager(
X,
y,
X_test=X_test,
y_test=y_test,
task=task,
feat_type=feat_type,
dataset_name=dataset_name,
)
return self._fit(
datamanager=loaded_data_manager,
metric=metric,
load_models=load_models,
only_return_configuration_space=only_return_configuration_space,
incremental_learning=incremental_learning)
def test_fail_if_dummy_prediction_fails(ta_run_mock, backend, dask_client):
X_train, Y_train, X_test, Y_test = putil.get_dataset('iris')
datamanager = XYDataManager(
X_train, Y_train,
X_test, Y_test,
task=2,
feat_type=['Numerical' for i in range(X_train.shape[1])],
dataset_name='iris',
)
time_for_this_task = 30
per_run_time = 10
auto = autosklearn.automl.AutoML(backend,
time_for_this_task,
per_run_time,
initial_configurations_via_metalearning=25,
metric=accuracy,
dask_client=dask_client,
)
auto._backend._make_internals_directory()
auto._backend.save_datamanager(datamanager)
# Make a dummy logger
auto._logger_port = 9020
auto._logger = unittest.mock.Mock()
auto._logger.info.return_value = None
# First of all, check that ta.run() is actually called.
ta_run_mock.return_value = StatusType.SUCCESS, None, None, {}
auto._do_dummy_prediction(datamanager, 1)
ta_run_mock.assert_called_once_with(1, cutoff=time_for_this_task)
# Case 1. Check that function raises no error when statustype == success.
# ta.run() returns status, cost, runtime, and additional info.
ta_run_mock.return_value = StatusType.SUCCESS, None, None, {}
raised = False
try:
auto._do_dummy_prediction(datamanager, 1)
except ValueError:
raised = True
assert not raised, 'Exception raised'
# Case 2. Check that if statustype returned by ta.run() != success,
# the function raises error.
ta_run_mock.return_value = StatusType.CRASHED, None, None, {}
with pytest.raises(
ValueError,
match='Dummy prediction failed with run state StatusType.CRASHED and additional output: {}.' # noqa
):
auto._do_dummy_prediction(datamanager, 1)
ta_run_mock.return_value = StatusType.ABORT, None, None, {}
with pytest.raises(
ValueError,
match='Dummy prediction failed with run state StatusType.ABORT '
'and additional output: {}.',
):
auto._do_dummy_prediction(datamanager, 1)
ta_run_mock.return_value = StatusType.TIMEOUT, None, None, {}
with pytest.raises(
ValueError,
match='Dummy prediction failed with run state StatusType.TIMEOUT '
'and additional output: {}.'
):
auto._do_dummy_prediction(datamanager, 1)
ta_run_mock.return_value = StatusType.MEMOUT, None, None, {}
with pytest.raises(
ValueError,
match='Dummy prediction failed with run state StatusType.MEMOUT '
'and additional output: {}.',
):
auto._do_dummy_prediction(datamanager, 1)
ta_run_mock.return_value = StatusType.CAPPED, None, None, {}
with pytest.raises(
ValueError,
match='Dummy prediction failed with run state StatusType.CAPPED '
'and additional output: {}.'
):
auto._do_dummy_prediction(datamanager, 1)
ta_run_mock.return_value = StatusType.CRASHED, None, None, {'exitcode': -6}
with pytest.raises(
ValueError,
match='The error suggests that the provided memory limits were too tight.',
):
auto._do_dummy_prediction(datamanager, 1)
def fit(
self,
X: np.ndarray,
y: np.ndarray,
task: int,
X_test: Optional[np.ndarray] = None,
y_test: Optional[np.ndarray] = None,
feat_type: Optional[List[str]] = None,
dataset_name: Optional[str] = None,
only_return_configuration_space: Optional[bool] = False,
load_models: bool = True,
):
# Reset learnt stuff
self.models_ = None
self.cv_models_ = None
self.ensemble_ = None
# The metric must exist as of this point
# It can be provided in the constructor, or automatically
# defined in the estimator fit call
if self._metric is None:
raise ValueError('No metric given.')
if not isinstance(self._metric, Scorer):
raise ValueError('Metric must be instance of '
'autosklearn.metrics.Scorer.')
if self._shared_mode:
# If this fails, it's likely that this is the first call to get
# the data manager
try:
D = self._backend.load_datamanager()
dataset_name = D.name
except IOError:
pass
if dataset_name is None:
dataset_name = hash_array_or_matrix(X)
self._backend.save_start_time(self._seed)
self._stopwatch = StopWatch()
self._dataset_name = dataset_name
self._stopwatch.start_task(self._dataset_name)
self._logger = self._get_logger(dataset_name)
if feat_type is not None and len(feat_type) != X.shape[1]:
raise ValueError('Array feat_type does not have same number of '
'variables as X has features. %d vs %d.' %
(len(feat_type), X.shape[1]))
if feat_type is not None and not all(
[isinstance(f, str) for f in feat_type]):
raise ValueError('Array feat_type must only contain strings.')
if feat_type is not None:
for ft in feat_type:
if ft.lower() not in ['categorical', 'numerical']:
raise ValueError('Only `Categorical` and `Numerical` are '
'valid feature types, you passed `%s`' %
ft)
datamanager = XYDataManager(
X,
y,
X_test=X_test,
y_test=y_test,
task=task,
feat_type=feat_type,
dataset_name=dataset_name,
)
self._backend._make_internals_directory()
try:
os.makedirs(self._backend.get_model_dir())
except (OSError, FileExistsError):
if not self._shared_mode:
raise
try:
os.makedirs(self._backend.get_cv_model_dir())
except (OSError, FileExistsError):
if not self._shared_mode:
raise
self._task = datamanager.info['task']
self._label_num = datamanager.info['label_num']
# == Pickle the data manager to speed up loading
self._backend.save_datamanager(datamanager)
time_for_load_data = self._stopwatch.wall_elapsed(self._dataset_name)
if self._debug_mode:
self._print_load_time(self._dataset_name, self._time_for_task,
time_for_load_data, self._logger)
# == Perform dummy predictions
num_run = 1
# if self._resampling_strategy in ['holdout', 'holdout-iterative-fit']:
num_run = self._do_dummy_prediction(datamanager, num_run)
# = Create a searchspace
# Do this before One Hot Encoding to make sure that it creates a
# search space for a dense classifier even if one hot encoding would
# make it sparse (tradeoff; if one hot encoding would make it sparse,
# densifier and truncatedSVD would probably lead to a MemoryError,
# like this we can't use some of the preprocessing methods in case
# the data became sparse)
self.configuration_space, configspace_path = self._create_search_space(
self._backend.temporary_directory,
self._backend,
datamanager,
include_estimators=self._include_estimators,
exclude_estimators=self._exclude_estimators,
include_preprocessors=self._include_preprocessors,
exclude_preprocessors=self._exclude_preprocessors)
if only_return_configuration_space:
return self.configuration_space
# == RUN ensemble builder
# Do this before calculating the meta-features to make sure that the
# dummy predictions are actually included in the ensemble even if
# calculating the meta-features takes very long
ensemble_task_name = 'runEnsemble'
self._stopwatch.start_task(ensemble_task_name)
elapsed_time = self._stopwatch.wall_elapsed(self._dataset_name)
time_left_for_ensembles = max(0, self._time_for_task - elapsed_time)
if time_left_for_ensembles <= 0:
self._proc_ensemble = None
# Fit only raises error when ensemble_size is not zero but
# time_left_for_ensembles is zero.
if self._ensemble_size > 0:
raise ValueError("Not starting ensemble builder because there "
"is no time left. Try increasing the value "
"of time_left_for_this_task.")
elif self._ensemble_size <= 0:
self._proc_ensemble = None
self._logger.info('Not starting ensemble builder because '
'ensemble size is <= 0.')
else:
self._logger.info('Start Ensemble with %5.2fsec time left' %
time_left_for_ensembles)
self._proc_ensemble = self._get_ensemble_process(
time_left_for_ensembles)
self._proc_ensemble.start()
self._stopwatch.stop_task(ensemble_task_name)
# kill the datamanager as it will be re-loaded anyways from sub processes
try:
del self._datamanager
except Exception:
pass
# => RUN SMAC
smac_task_name = 'runSMAC'
self._stopwatch.start_task(smac_task_name)
elapsed_time = self._stopwatch.wall_elapsed(self._dataset_name)
time_left_for_smac = max(0, self._time_for_task - elapsed_time)
if self._logger:
self._logger.info('Start SMAC with %5.2fsec time left' %
time_left_for_smac)
if time_left_for_smac <= 0:
self._logger.warning("Not starting SMAC because there is no time "
"left.")
_proc_smac = None
self._budget_type = None
else:
if self._per_run_time_limit is None or \
self._per_run_time_limit > time_left_for_smac:
self._logger.warning(
'Time limit for a single run is higher than total time '
'limit. Capping the limit for a single run to the total '
'time given to SMAC (%f)' % time_left_for_smac)
per_run_time_limit = time_left_for_smac
else:
per_run_time_limit = self._per_run_time_limit
# Make sure that at least 2 models are created for the ensemble process
num_models = time_left_for_smac // per_run_time_limit
if num_models < 2:
per_run_time_limit = time_left_for_smac // 2
self._logger.warning(
"Capping the per_run_time_limit to {} to have "
"time for a least 2 models in each process.".format(
per_run_time_limit))
_proc_smac = AutoMLSMBO(
config_space=self.configuration_space,
dataset_name=self._dataset_name,
backend=self._backend,
total_walltime_limit=time_left_for_smac,
func_eval_time_limit=per_run_time_limit,
memory_limit=self._ml_memory_limit,
data_memory_limit=self._data_memory_limit,
watcher=self._stopwatch,
start_num_run=num_run,
num_metalearning_cfgs=self.
_initial_configurations_via_metalearning,
config_file=configspace_path,
seed=self._seed,
metadata_directory=self._metadata_directory,
metric=self._metric,
resampling_strategy=self._resampling_strategy,
resampling_strategy_args=self._resampling_strategy_arguments,
shared_mode=self._shared_mode,
include_estimators=self._include_estimators,
exclude_estimators=self._exclude_estimators,
include_preprocessors=self._include_preprocessors,
exclude_preprocessors=self._exclude_preprocessors,
disable_file_output=self._disable_evaluator_output,
get_smac_object_callback=self._get_smac_object_callback,
smac_scenario_args=self._smac_scenario_args,
)
try:
self.runhistory_, self.trajectory_, self._budget_type = \
_proc_smac.run_smbo()
trajectory_filename = os.path.join(
self._backend.get_smac_output_directory_for_run(
self._seed), 'trajectory.json')
saveable_trajectory = \
[list(entry[:2]) + [entry[2].get_dictionary()] + list(entry[3:])
for entry in self.trajectory_]
with open(trajectory_filename, 'w') as fh:
json.dump(saveable_trajectory, fh)
except Exception as e:
self._logger.exception(e)
raise
# Wait until the ensemble process is finished to avoid shutting down
# while the ensemble builder tries to access the data
if self._proc_ensemble is not None and self._ensemble_size > 0:
self._proc_ensemble.join()
self._proc_ensemble = None
if load_models:
self._load_models()
return self
