def reset(self):
self.total_square_error = 0.0
self.average_error = 0.0
self.last_true_label = None
self.last_prediction = None
self.total_square_error_correction = FastBuffer(self.window_size)
self.average_error_correction = FastBuffer(self.window_size)
def __init__(self,
n_max_components: int = 10,
chunk_size: int = 500,
window_size: int = 100,
logging=True):
super().__init__()
self._num_of_max_classifiers = n_max_components
self._chunk_size = chunk_size
self._Logging = logging
self._num_of_current_classifiers = 0
self._num_of_processed_instances = 0
self._classifiers = np.empty((self._num_of_max_classifiers),
dtype=object)
self._weights = np.zeros((self._num_of_max_classifiers, ))
# What to save from current Data Chunk --> will be used for
# adjusting weights, pruning purposes and so on.
# Individual predictions of components, overall prediction of ensemble,
# and ground truth info.
self._chunk_comp_preds = FastBuffer(max_size=chunk_size)
self._chunk_ensm_preds = FastBuffer(max_size=chunk_size)
# chunk_data has instances in the chunk and their ground truth.
# To be initialized after receiving n_features, n_targets
self._chunk_data = None
# self._chunk_truths = FastBuffer(max_size=chunk_size)
# some external stuff that is about the data we are dealing with
# but useful for recording predictions
self._num_classes = None
self._target_values = None # Required to correctly train HTs
self._record = False # Boolean for keeping records to files
def __init__(self, window_size=200):
super().__init__()
self.total_square_error = 0.0
self.average_error = 0.0
self.last_true_label = None
self.last_prediction = None
self.total_square_error_correction = FastBuffer(window_size)
self.average_error_correction = FastBuffer(window_size)
self.window_size = window_size
def reset(self):
if self.targets is not None:
self.n_targets = len(self.targets)
else:
self.n_targets = 0
self.majority_classifier = 0
self.correct_no_change = 0
self.confusion_matrix.restart(self.n_targets)
self.majority_classifier_correction = FastBuffer(self.window_size)
self.correct_no_change_correction = FastBuffer(self.window_size)
def __configure(self, missing_value, strategy, window_size, new_value=1):
if hasattr(missing_value, 'append'):
self.missing_value = missing_value
else:
self.missing_value = [missing_value]
self.strategy = strategy
self.window_size = window_size
self.new_value = new_value
if strategy in ['mean', 'median', 'mode']:
self.window = FastBuffer(max_size=window_size)
def reset(self):
if self.targets is not None:
self.n_targets = len(self.targets)
else:
self.n_targets = 0
self.true_labels = FastBuffer(self.window_size)
self.predictions = FastBuffer(self.window_size)
self.temp = 0
self.last_prediction = None
self.last_true_label = None
self.last_sample = None
self.majority_classifier = 0
self.correct_no_change = 0
self.confusion_matrix.restart(self.n_targets)
self.majority_classifier_correction = FastBuffer(self.window_size)
self.correct_no_change_correction = FastBuffer(self.window_size)
def __init__(self, targets=None, dtype=np.int64, window_size=200):
super().__init__()
if targets is not None:
self.n_targets = len(targets)
else:
self.n_targets = 0
self.confusion_matrix = ConfusionMatrix(self.n_targets, dtype)
self.last_class = None
self.targets = targets
self.window_size = window_size
self.true_labels = FastBuffer(window_size)
self.predictions = FastBuffer(window_size)
self.temp = 0
self.last_prediction = None
self.last_true_label = None
self.last_sample = None
self.majority_classifier = 0
self.correct_no_change = 0
self.majority_classifier_correction = FastBuffer(window_size)
self.correct_no_change_correction = FastBuffer(window_size)
def __configure(self):
if self.strategy in ['mean', 'median', 'mode']:
self.window = FastBuffer(max_size=self.window_size)
class MissingValuesCleaner(StreamTransform):
""" This is a transform object. It provides a simple way to replace missing
values in samples with another value, which can be chosen from a set of
replacing strategies.
Parameters
----------
missing_value: int, float or list (Default: numpy.nan)
Missing value to replace
strategy: string (Default: 'zero')
The strategy adopted to find the missing value replacement. It can
be one of the following: 'zero', 'mean', 'median', 'mode', 'custom'.
window_size: int (Default: 200)
Defines the window size for the 'mean', 'median' and 'mode' strategies.
new_value: int (Default: 1)
This is the replacement value in case the chosen strategy is 'custom'.
Examples
--------
>>> # Imports
>>> import numpy as np
>>> from skmultiflow.data.file_stream import FileStream
>>> from skmultiflow.transform.missing_values_cleaner import MissingValuesCleaner
>>> # Setting up a stream
>>> stream = FileStream('skmultiflow/data/datasets/covtype.csv', -1, 1)
>>> stream.prepare_for_use()
>>> # Setting up the filter to substitute values -47 by the median of the
>>> # last 10 samples
>>> cleaner = MissingValuesCleaner(-47, 'median', 10)
>>> X, y = stream.next_sample(10)
>>> X[9, 0] = -47
>>> # We will use this list to keep track of values
>>> data = []
>>> # Iterate over the first 9 samples, to build a sample window
>>> for i in range(9):
>>> X_transf = cleaner.partial_fit_transform([X[i].tolist()])
>>> data.append(X_transf[0][0])
>>>
>>> # Transform last sample. The first feature should be replaced by the list's
>>> # median value
>>> X_transf = cleaner.partial_fit_transform([X[9].tolist()])
>>> np.median(data)
Notes
-----
A missing value in a sample can be coded in many different ways, but the
most common one is to use numpy's NaN, that's why that is the default
missing value parameter.
The user should choose the correct substitution strategy for his use
case, as each strategy has its pros and cons. The strategy can be chosen
from a set of predefined strategies, which are: 'zero', 'mean', 'median',
'mode', 'custom'.
Notice that `MissingValuesCleaner` can actually be used to replace arbitrary
values.
"""
def __init__(self,
missing_value=np.nan,
strategy='zero',
window_size=200,
new_value=1):
super().__init__()
if isinstance(missing_value, list):
self.missing_value = missing_value
else:
self.missing_value = [missing_value]
self.strategy = strategy
self.window_size = window_size
self.window = None
self.new_value = new_value
self.__configure()
def __configure(self):
if self.strategy in ['mean', 'median', 'mode']:
self.window = FastBuffer(max_size=self.window_size)
def transform(self, X):
""" transform
Does the transformation process in the samples in X.
Parameters
----------
X: numpy.ndarray of shape (n_samples, n_features)
The sample or set of samples that should be transformed.
"""
r, c = get_dimensions(X)
for i in range(r):
if self.strategy in ['mean', 'median', 'mode']:
self.window.add_element([X[i][:]])
for j in range(c):
if X[i][j] in self.missing_value or np.isnan(X[i][j]):
X[i][j] = self._get_substitute(j)
return X
def _get_substitute(self, column_index):
""" _get_substitute
Computes the replacement for a missing value.
Parameters
----------
column_index: int
The index from the column where the missing value was found.
Returns
-------
int or float
The replacement.
"""
if self.strategy == 'zero':
return 0
elif self.strategy == 'mean':
if not self.window.is_empty():
return np.nanmean(
np.array(self.window.get_queue())[:, column_index])
else:
return self.new_value
elif self.strategy == 'median':
if not self.window.is_empty():
return np.nanmedian(
np.array(self.window.get_queue())[:, column_index])
else:
return self.new_value
elif self.strategy == 'mode':
if not self.window.is_empty():
return stats.mode(np.array(
self.window.get_queue())[:, column_index],
nan_policy='omit')[0]
else:
return self.new_value
elif self.strategy == 'custom':
return self.new_value
def partial_fit_transform(self, X, y=None):
""" partial_fit_transform
Partially fits the model and then apply the transform to the data.
Parameters
----------
X: numpy.ndarray of shape (n_samples, n_features)
The sample or set of samples that should be transformed.
y: Array-like
The true labels.
Returns
-------
numpy.ndarray of shape (n_samples, n_features)
The transformed data.
"""
X = self.transform(X)
return X
def partial_fit(self, X, y=None):
""" partial_fit
Partial fits the model.
Parameters
----------
X: numpy.ndarray of shape (n_samples, n_features)
The sample or set of samples that should be transformed.
y: Array-like
The true labels.
Returns
-------
MissingValuesCleaner
self
"""
X = np.asarray(X)
if self.strategy in ['mean', 'median', 'mode']:
self.window.add_element(X)
return self
def get_info(self):
info = '{}:'.format(type(self).__name__)
info += ' - strategy: {}'.format(self.strategy)
info += ' - window_size: {}'.format(self.window_size)
info += ' - new_value: {}'.format(self.new_value)
return info
class WindowRegressionMeasurements(BaseObject):
""" This class is used to keep updated statistics over a regression
learner in a regression problem context inside a fixed sized window.
It uses FastBuffer objects to simulate the fixed sized windows.
It will keep track of partial metrics, that can be provided at
any moment. The relevant metrics kept by an instance of this class
are: MSE (mean square error) and MAE (mean absolute error).
"""
def __init__(self, window_size=200):
super().__init__()
self.total_square_error = 0.0
self.average_error = 0.0
self.last_true_label = None
self.last_prediction = None
self.total_square_error_correction = FastBuffer(window_size)
self.average_error_correction = FastBuffer(window_size)
self.window_size = window_size
def reset(self):
self.total_square_error = 0.0
self.average_error = 0.0
self.last_true_label = None
self.last_prediction = None
self.total_square_error_correction = FastBuffer(self.window_size)
self.average_error_correction = FastBuffer(self.window_size)
def add_result(self, y_true, y_pred):
""" Use the true value and the prediction to update the statistics.
Parameters
----------
y_true: float
The true value.
y_pred: float
The predicted value.
"""
self.last_true_label = y_true
self.last_prediction = y_pred
self.total_square_error += (y_true - y_pred) * (y_true - y_pred)
self.average_error += np.absolute(y_true - y_pred)
old_square = self.total_square_error_correction.add_element(
np.array([-1 * ((y_true - y_pred) * (y_true - y_pred))]))
old_average = self.average_error_correction.add_element(
np.array([-1 * (np.absolute(y_true - y_pred))]))
if (old_square is not None) and (old_average is not None):
self.total_square_error += old_square[0]
self.average_error += old_average[0]
def get_mean_square_error(self):
""" Computes the window/current mean square error.
Returns
-------
float
The window/current mean square error.
"""
if self.sample_count == 0:
return 0.0
else:
return self.total_square_error / self.sample_count
def get_average_error(self):
""" Computes the window/current average error.
Returns
-------
float
The window/current average error.
"""
if self.sample_count == 0:
return 0.0
else:
return self.average_error / self.sample_count
def get_last(self):
return self.last_true_label, self.last_prediction
@property
def sample_count(self):
return self.total_square_error_correction.get_current_size()
def get_class_type(self):
return 'measurement'
def get_info(self):
return '{}:'.format(type(self).__name__) + \
' - sample_count: {}'.format(self.sample_count) + \
' - mean_square_error: {:.6f}'.format(self.get_mean_square_error()) + \
' - mean_absolute_error: {:.6f}'.format(self.get_average_error())
class WindowClassificationMeasurements(BaseObject):
""" This class will maintain a fixed sized window of the newest information
about one classifier. It can provide, as requested, any of the relevant
current metrics about the classifier, measured inside the window.
To keep track of statistics inside a window, the class will use a
ConfusionMatrix object, alongside FastBuffers, to simulate fixed sized
windows of the important classifier's attributes.
Its functionality is somewhat similar to those of the
ClassificationMeasurements class. The difference is that the statistics
kept by this class are local, or partial, while the statistics kept by
the ClassificationMeasurements class are global.
At any given moment, it can compute the following statistics: accuracy,
kappa, kappa_t, kappa_m, majority_class and error rate.
Parameters
----------
targets: list
A list containing the possible labels.
dtype: data type (Default: numpy.int64)
The data type of the existing labels.
window_size: int (Default: 200)
The width of the window. Determines how many samples the object
can see.
Examples
--------
"""
def __init__(self, targets=None, dtype=np.int64, window_size=200):
super().__init__()
if targets is not None:
self.n_targets = len(targets)
else:
self.n_targets = 0
self.confusion_matrix = ConfusionMatrix(self.n_targets, dtype)
self.last_class = None
self.targets = targets
self.window_size = window_size
self.true_labels = FastBuffer(window_size)
self.predictions = FastBuffer(window_size)
self.temp = 0
self.last_prediction = None
self.last_true_label = None
self.last_sample = None
self.majority_classifier = 0
self.correct_no_change = 0
self.majority_classifier_correction = FastBuffer(window_size)
self.correct_no_change_correction = FastBuffer(window_size)
def reset(self):
if self.targets is not None:
self.n_targets = len(self.targets)
else:
self.n_targets = 0
self.true_labels = FastBuffer(self.window_size)
self.predictions = FastBuffer(self.window_size)
self.temp = 0
self.last_prediction = None
self.last_true_label = None
self.last_sample = None
self.majority_classifier = 0
self.correct_no_change = 0
self.confusion_matrix.restart(self.n_targets)
self.majority_classifier_correction = FastBuffer(self.window_size)
self.correct_no_change_correction = FastBuffer(self.window_size)
def add_result(self, y_true, y_pred):
""" Updates its statistics with the results of a prediction.
If needed it will remove samples from the observation window.
Parameters
----------
y_true: int
The true label.
y_pred: int
The classifier's prediction
"""
true_y = self._get_target_index(y_true, True)
pred = self._get_target_index(y_pred, True)
old_true = self.true_labels.add_element(np.array([y_true]))
old_predict = self.predictions.add_element(np.array([y_pred]))
# Verify if it's needed to decrease the count of any label
# pair in the confusion matrix
if (old_true is not None) and (old_predict is not None):
self.temp += 1
self.confusion_matrix.remove(
self._get_target_index(old_true[0]),
self._get_target_index(old_predict[0]))
self.correct_no_change += self.correct_no_change_correction.peek()
self.majority_classifier += self.majority_classifier_correction.peek(
)
# Verify if it's needed to decrease the majority_classifier count
if (self.get_majority_class()
== y_true) and (self.get_majority_class() is not None):
self.majority_classifier += 1
self.majority_classifier_correction.add_element([-1])
else:
self.majority_classifier_correction.add_element([0])
# Verify if it's needed to decrease the correct_no_change
if (self.last_true_label == y_true) and (self.last_true_label
is not None):
self.correct_no_change += 1
self.correct_no_change_correction.add_element([-1])
else:
self.correct_no_change_correction.add_element([0])
self.confusion_matrix.update(true_y, pred)
self.last_true_label = y_true
self.last_prediction = y_pred
def get_last(self):
return self.last_true_label, self.last_prediction
def get_majority_class(self):
""" Computes the window/current true majority class.
Returns
-------
int
The true window/current majority class.
"""
if (self.n_targets is None) or (self.n_targets == 0):
return None
majority_class = 0
max_prob = 0.0
for i in range(self.n_targets):
sum_value = 0.0
for j in range(self.n_targets):
sum_value += self.confusion_matrix.value_at(i, j)
sum_value = sum_value / self.true_labels.get_current_size()
if sum_value > max_prob:
max_prob = sum_value
majority_class = i
return majority_class
def get_accuracy(self):
""" Computes the window/current accuracy.
Returns
-------
float
The window/current accuracy.
"""
sum_value = 0.0
n, _ = self.confusion_matrix.shape()
for i in range(n):
sum_value += self.confusion_matrix.value_at(i, i)
try:
return sum_value / self.true_labels.get_current_size()
except ZeroDivisionError:
return 0.0
def get_incorrectly_classified_ratio(self):
return 1.0 - self.get_accuracy()
def _get_target_index(self, target, add=False):
""" Computes the index of an element in the self.targets list.
Also reshapes the ConfusionMatrix and adds new found targets
if add is True.
Parameters
----------
target: int
A class label.
add: bool
Either to add new found labels to the targets list or not.
Returns
-------
int
The target index in the self.targets list.
"""
if (self.targets is None) and add:
self.targets = []
self.targets.append(target)
self.n_targets = len(self.targets)
self.confusion_matrix.reshape(len(self.targets), len(self.targets))
elif (self.targets is None) and (not add):
return None
if target not in self.targets and add:
self.targets.append(target)
self.n_targets = len(self.targets)
self.confusion_matrix.reshape(len(self.targets), len(self.targets))
for i in range(len(self.targets)):
if self.targets[i] == target:
return i
return None
def get_kappa(self):
""" Computes the window/current Cohen's kappa coefficient.
Returns
-------
float
The window/current Cohen's kappa coefficient.
"""
p0 = self.get_accuracy()
pc = 0.0
n_rows, n_cols = self.confusion_matrix.shape()
for i in range(n_rows):
row = self.confusion_matrix.row(i)
column = self.confusion_matrix.column(i)
sum_row = np.sum(row) / self.true_labels.get_current_size()
sum_column = np.sum(column) / self.true_labels.get_current_size()
pc += sum_row * sum_column
if pc == 1:
return 1
return (p0 - pc) / (1.0 - pc)
def get_kappa_t(self):
""" Computes the window/current Cohen's kappa T coefficient. This measures
the temporal correlation between samples.
Returns
-------
float
The window/current Cohen's kappa T coefficient.
"""
p0 = self.get_accuracy()
if self.sample_count != 0:
pc = self.correct_no_change / self.sample_count
else:
pc = 0
if pc == 1:
return 1
return (p0 - pc) / (1.0 - pc)
def get_kappa_m(self):
""" Computes the window/current Cohen's kappa M coefficient.
Returns
-------
float
The window/current Cohen's kappa M coefficient.
"""
p0 = self.get_accuracy()
if self.sample_count != 0:
pc = self.majority_classifier / self.sample_count
else:
pc = 0
if pc == 1:
return 1
return (p0 - pc) / (1.0 - pc)
@property
def _matrix(self):
return self.confusion_matrix.matrix
@property
def sample_count(self):
return self.true_labels.get_current_size()
def get_class_type(self):
return 'measurement'
def get_info(self):
return '{}:'.format(type(self).__name__) + \
' - sample_count: {}'.format(self.sample_count) + \
' - window_size: {}'.format(self.window_size) + \
' - accuracy: {:.6f}'.format(self.get_accuracy()) + \
' - kappa: {:.6f}'.format(self.get_kappa()) + \
' - kappa_t: {:.6f}'.format(self.get_kappa_t()) + \
' - kappa_m: {:.6f}'.format(self.get_kappa_m()) + \
' - majority_class: {}'.format(self.get_majority_class())
class WindowMultiTargetRegressionMeasurements(BaseObject):
""" This class is used to keep updated statistics over a multi-target regression
learner in a multi-target regression problem context inside a fixed sized
window. It uses FastBuffer objects to simulate the fixed sized windows.
It will keep track of partial metrics, that can be provided at
any moment. The relevant metrics kept by an instance of this class
are: AMSE (average mean square error) and AMAE (average mean absolute error).
"""
def __init__(self, window_size=200):
super().__init__()
self.n_targets = 0
self.total_square_error = 0.0
self.average_error = 0.0
self.last_true_label = None
self.last_prediction = None
self.total_square_error_correction = FastBuffer(window_size)
self.average_error_correction = FastBuffer(window_size)
self.window_size = window_size
def reset(self):
self.total_square_error = 0.0
self.average_error = 0.0
self.last_true_label = None
self.last_prediction = None
self.total_square_error_correction = FastBuffer(self.window_size)
self.average_error_correction = FastBuffer(self.window_size)
def add_result(self, y, prediction):
""" Use the true value and the prediction to update the statistics.
Parameters
----------
y: float or list or np.ndarray
The true value(s).
prediction: float or list or np.ndarray
The predicted value(s).
"""
self.last_true_label = y
self.last_prediction = prediction
m = 0
if hasattr(y, 'size'):
m = y.size
elif hasattr(y, 'append'):
m = len(y)
self.n_targets = m
self.total_square_error += (y - prediction)**2
self.average_error += np.absolute(y - prediction)
old_square = self.total_square_error_correction.add_element(
np.array([-1 * ((y - prediction)**2)]))
old_average = self.average_error_correction.add_element(
np.array([-1 * (np.absolute(y - prediction))]))
if (old_square is not None) and (old_average is not None):
self.total_square_error += old_square[0]
self.average_error += old_average[0]
def get_average_mean_square_error(self):
""" Computes the window/current average mean square error.
Returns
-------
float
The window/current average mean square error.
"""
if self._sample_count == 0:
return 0.0
else:
return np.sum(self.total_square_error / self._sample_count) \
/ self.n_targets
def get_average_absolute_error(self):
""" Computes the window/current average mean absolute error.
Returns
-------
float
The window/current average mean absolute error.
"""
if self._sample_count == 0:
return 0.0
else:
return np.sum(self.average_error / self._sample_count) \
/ self.n_targets
def get_average_root_mean_square_error(self):
""" Computes the mean square error.
Returns
-------
float
The average mean square error.
"""
if self._sample_count == 0:
return 0.0
else:
return np.sum(np.sqrt(self.total_square_error /
self._sample_count)) \
/ self.n_targets
def get_last(self):
return self.last_true_label, self.last_prediction
@property
def _sample_count(self):
return self.total_square_error_correction.get_current_size()
def get_class_type(self):
return 'measurement'
def get_info(self):
return 'MultiTargetRegressionMeasurements: sample_count: ' + \
str(self._sample_count) + ' - average_mean_square_error: ' + \
str(self.get_average_mean_square_error()) + ' - average_mean_absolute_error: ' + \
str(self.get_average_absolute_error()) + ' - average_root_mean_square_error: ' + \
str(self.get_average_root_mean_square_error())
class Goowe(StreamModel):
#class Goowe(BaseEstimator):
""" GOOWE (Geometrically Optimum Online Weighted Ensemble), as it is
described in Bonab and Can (2017). Common notation in the code is
as follows:
K for maximum number of classifiers in the ensemble.
N for data instances.
A, d as they are, in the aforementioned paper.
Parameters
----------
n_max_components: int
Ensemble size limit. Maximum number of component classifiers.
chunk_size: int
The amount of instances necessary for ensemble to learn concepts from.
At each chunk_size many instances, some training is done.
window_size: int
Size of sliding window, which keeps record of the last k instances
that are encountered in the data stream.
"""
def __init__(self,
n_max_components: int = 10,
chunk_size: int = 500,
window_size: int = 100,
logging=True):
super().__init__()
self._num_of_max_classifiers = n_max_components
self._chunk_size = chunk_size
self._Logging = logging
self._num_of_current_classifiers = 0
self._num_of_processed_instances = 0
self._classifiers = np.empty((self._num_of_max_classifiers),
dtype=object)
self._weights = np.zeros((self._num_of_max_classifiers, ))
# What to save from current Data Chunk --> will be used for
# adjusting weights, pruning purposes and so on.
# Individual predictions of components, overall prediction of ensemble,
# and ground truth info.
self._chunk_comp_preds = FastBuffer(max_size=chunk_size)
self._chunk_ensm_preds = FastBuffer(max_size=chunk_size)
# chunk_data has instances in the chunk and their ground truth.
# To be initialized after receiving n_features, n_targets
self._chunk_data = None
# self._chunk_truths = FastBuffer(max_size=chunk_size)
# some external stuff that is about the data we are dealing with
# but useful for recording predictions
self._num_classes = None
self._target_values = None # Required to correctly train HTs
self._record = False # Boolean for keeping records to files
# TODO: Implement Sliding Window Continuous Evaluator.
# What to save at Sliding Window (last n instances) --> will be
# used for continuous evaluation.
# self._sliding_window_ensemble_preds =FastBuffer(max_size=window_size)
# self._sliding_window_truths = FastBuffer(max_size=window_size)
def prepare_post_analysis_req(self,
num_features,
num_targets,
num_classes,
target_values,
record=False):
# Need to get the dataset information but we do not want to
# take it as an argument to the classifier itself, nor we do want to
# ask it at each data instance. Hence we take dataset info from user
# explicitly to create _chunk_data entries.
#chunk_size = self._chunk_size
self._chunk_data = InstanceWindow(n_features=num_features,
n_targets=num_targets,
max_size=self._chunk_size)
#self._chunk_data = chunk_data
# num_targets shows how many columns you want to predict in the data.
# num classes is eqv to possible number of values that that column
# can have.
self._num_classes = num_classes
self._target_values = target_values
self._record = record
if (self._record):
# Create files that keeps record of:
# - weights at each chunk
# - individual component results for every instance
# - ground truths for every instance.
self._f_comp_preds = open("component_predictions.csv", "w+")
self._f_truths = open("ground_truths.csv", "w+")
self._f_weights = open("weights.csv", "w+")
self._f_comp_preds.write(str(self._chunk_size) + '\n')
self._f_comp_preds.close()
self._f_truths.close()
self._f_weights.close()
return
def _get_components_predictions_for_instance(self, inst):
""" For a given data instance, takes predictions of
individual components from the ensemble as a matrix.
Parameters
----------
inst: data instance for which votes of components are delivered.
Returns
----------
numpy.array
A 2-d numpy array where each row corresponds to predictions of
each classifier.
"""
preds = np.zeros((self._num_of_current_classifiers, self._num_classes))
# print(np.shape(preds))
for k in range(len(preds)):
kth_comp_pred = self._classifiers[k].predict_proba(inst)
# print(kth_comp_pred[0])
# print(preds)
# print("Component {}'s Prediction: {}".format(k, kth_comp_pred))
preds[k, :] = kth_comp_pred[0]
if (self._Logging):
print('Component Predictions:')
print(preds)
return preds
def _adjust_weights(self):
""" Weight adustment by solving linear least squares, as it is
described in Bonab and Can (2017).
"""
# Prepare variables for Weight Adjustment
# print('number of current classifiers: {}'.format(self._num_of_current_classifiers))
A = np.zeros(shape=(self._num_of_current_classifiers,
self._num_of_current_classifiers))
d = np.zeros(shape=(self._num_of_current_classifiers, ))
# Go over all the data chunk, calculate values of (S_i x S_j) for A.
# (S_i x O) for d.
y_all = self._chunk_data.get_targets_matrix().astype(int)
# print(y_all)
for i in range(len(y_all)):
class_index = y_all[i]
comp_preds = self._chunk_comp_preds.get_next_element()
#print("{} components predictions:".format(i))
#print(comp_preds)
A = A + comp_preds.dot(comp_preds.T)
d = d + comp_preds[0][class_index]
# A and d are filled. Now, the linear system Aw=d to be solved
# to get our desired weights. w is of size K.
# print("Solving Aw=d")
# print(A)
# print(d)
w = np.linalg.lstsq(A, d, rcond=None)[0]
# _weights has maximum size but what we found can be
# smaller. Therefore, need to put the values of w to global weights
if (self._num_of_current_classifiers < self._num_of_max_classifiers):
for i in range(len(w)):
self._weights[i] = w[i]
else: # If full size, there is no problem.
self._weights = w
# print("After solving Aw=d weights:")
# print(self._weights)
return
def _normalize_weights(self):
""" Normalizes the weights of the ensemble to (0, 1) range.
Performs (x_i - min(x)) / (max(x) - min(x)) on the nonzero elements
of the weight vector.
"""
min = np.amin(self._weights[:self._num_of_current_classifiers])
max = np.amax(self._weights[:self._num_of_current_classifiers])
if (min == max): # all weights are the same
for i in range(self._num_of_current_classifiers):
self._weights[i] = 1. / self._num_of_current_classifiers
else:
for i in range(self._num_of_current_classifiers):
self._weights[i] = (self._weights[i] - min) / (max - min)
return
def _normalize_weights_softmax(self):
""" Normalizes the weights of the ensemble to (0, 1) range.
Performs (x_i - min(x)) / (max(x) - min(x)) on the nonzero elements
of the weight vector.
"""
cur_weights = self._weights[:self._num_of_current_classifiers]
self._weights[:self._num_of_current_classifiers] = np.exp(
cur_weights) / sum(np.exp(cur_weights))
return
def _process_chunk(self):
""" A subroutine that runs at the end of each chunk, allowing
the components to be trained and ensemble weights to be adjusted.
Until the first _process_chunk call, the ensemble is not yet ready.
At first call, the first component is learned.
At the rest of the calls, new components are formed, and the older ones
are trained by the given chunk.
If the ensemble size is reached, then the lowest weighted component is
removed from the ensemble.
"""
new_clf = HoeffdingTree() # with default parameters for now
new_clf.reset()
# Save records of previous chunk
if (self._record and self._num_of_current_classifiers > 0):
self._record_truths_this_chunk()
self._record_comp_preds_this_chunk()
self._record_weights_this_chunk()
# Case 1: No classifier in the ensemble yet, first chunk:
if (self._num_of_current_classifiers == 0):
self._classifiers[0] = new_clf
self._weights[0] = 1.0 # weight is 1 for the first clf
self._num_of_current_classifiers += 1
else:
# First, adjust the weights of the old component classifiers
# according to what happened in this chunk.
self._adjust_weights()
# Case 2: There are classifiers in the ensemble but
# the ensemble size is still not capped.
if (self._num_of_current_classifiers <
self._num_of_max_classifiers):
# Put the new classifier to ensemble with the weight of 1
self._classifiers[self._num_of_current_classifiers] = new_clf
self._weights[self._num_of_current_classifiers] = float(1.0)
self._num_of_current_classifiers += 1
# Case 3: Ensemble size is capped. Need to replace the component
# with lowest weight.
else:
assert (self._num_of_current_classifiers ==
self._num_of_max_classifiers), "Ensemble not full."
index_of_lowest_weight = np.argmin(self._weights)
self._classifiers[index_of_lowest_weight] = new_clf
self._weights[index_of_lowest_weight] = 1.0
# Normalizing weigths to simplify numbers
self._normalize_weights_softmax() # maybe useful. we'll see.
if (self._Logging):
print("After normalization weights: ")
print(self._weights)
# Ensemble maintenance is done. Now train all classifiers
# in the ensemble from the current chunk.
# Can be parallelized.
data_features = self._chunk_data.get_attributes_matrix()
data_truths = self._chunk_data.get_targets_matrix()
data_truths = data_truths.astype(int).flatten()
if (self._Logging):
print("Starting training the components with the current chunk...")
for k in range(self._num_of_current_classifiers):
print("Training classifier {}".format(k))
self._classifiers[k].partial_fit(data_features,
data_truths,
classes=self._target_values)
print(
"Training the components with the current chunk completed...")
else:
for k in range(self._num_of_current_classifiers):
self._classifiers[k].partial_fit(data_features,
data_truths,
classes=self._target_values)
return
def _record_truths_this_chunk(self):
f = open("ground_truths.csv", "ab")
data_truths = self._chunk_data.get_targets_matrix()
data_truths = data_truths.astype(int).flatten()
# Default behaviour is to store list of lists for savetxt.
# Hence, to prevent newline after each element of list, we surround
# the truth array with one more set of bracketts.
np.savetxt(f, [data_truths], delimiter=",", fmt='%d')
f.close()
return
def _record_comp_preds_this_chunk(self):
f = open("component_predictions.csv", "a+")
np.savetxt(f, [self._num_of_current_classifiers], fmt='%d')
comp_preds = np.array(self._chunk_comp_preds.get_queue())
for i in range(len(comp_preds)):
np.savetxt(f, comp_preds[i], delimiter=',', fmt='%1.5f')
f.close()
return
def _record_weights_this_chunk(self):
f = open("weights.csv", "a+")
np.savetxt(f, [self._num_of_current_classifiers], fmt='%d')
weights = self._weights
np.savetxt(f, [weights], delimiter=',', fmt='%1.5f')
f.close()
return
# --------------------------------------------------
# Overridden methods from the parent (StreamModel)
# --------------------------------------------------
def fit(self, X, y, classes=None, weight=None):
raise NotImplementedError("For now, only the stream version "
"is implemented. Use partial_fit()")
def partial_fit(self, X, y, classes=None, weight=None):
# This method should work with individual instances, as well as bunch
# of instances, since there can be pre-training for warm start.
# If an individual instance is inputted, then just save X and y to
# train from them later.
if (len(X) == 1):
# Save X and y to train classifiers later
# y is required to be 1x1, and hence the square bracketts.
y_i = np.array([y])
# print(type(X))
# print(type(y_i))
# print(X)
# print(y_i)
self._chunk_data.add_element(X, y_i)
# If still filling the chunk, then just add the instance to the
# current data chunk, wait for it to be filled.
self._num_of_processed_instances += 1
# If at the end of a chunk, start training components
# and adjusting weights using information in this chunk.
if (self._num_of_processed_instances % self._chunk_size == 0):
print("Instance {}".format(self._num_of_processed_instances))
self._process_chunk()
elif (len(X) > 1):
# Input is a chunk. Add them individually.
for i in range(len(X)):
X_i = np.array([X[i]])
y_i = np.array([[y[i]]])
# print(X_i)
# print(y_i)
self._chunk_data.add_element(X_i, y_i)
self._num_of_processed_instances += 1
# If at the end of a chunk, start training components
# and adjusting weights using information in this chunk.
if (self._num_of_processed_instances % self._chunk_size == 0):
print("Instance {}".format(
self._num_of_processed_instances))
self._process_chunk()
else:
print("Something wrong with the data...")
print("len(X) is: {}".format(len(X)))
return
def predict(self, X):
""" For a given data instance, yields the prediction values.
Parameters
----------
X: numpy.ndarray of shape (n_samples, n_features)
Samples for which we want to predict the labels.
Returns
-------
numpy.array
Predicted labels for all instances in X.
"""
predictions = []
if (len(X) == 1):
predictions.append(np.argmax(self.predict_proba(X)))
elif (len(X) > 1):
# Add many predictions
for i in range(len(X)):
relevance_scores = self.predict_proba(X[i])
predictions.append(np.argmax(relevance_scores))
# print(np.argmax(relevance_scores))
if (self._Logging):
print('Ensemble Prediction:')
print(np.array(predictions))
return np.array(predictions) #, one_hot
def predict_proba(self, X):
""" For a given data instance, takes WEIGHTED combination
of components to get relevance scores for each class.
Parameters
----------
X: data instance for which weighted combination is delivered.
Returns
----------
numpy.array
A vector with number_of_classes elements where each element
represents class score of corresponding class for this instance.
"""
weights = np.array(self._weights)
# get only the useful weights
weights = weights[:self._num_of_current_classifiers]
components_preds = self._get_components_predictions_for_instance(X)
#print('*****************************')
#print(components_preds)
#print('*****************************')
# Save individual component predictions and ensemble prediction
# for later analysis.
self._chunk_comp_preds.add_element([components_preds])
#print(weights)
#print(components_preds)
#print(self.get_classifiers())
weighted_ensemble_vote = np.dot(weights, components_preds)
# print("Weighted Ensemble vote: {}".format(weighted_ensemble_vote))
self._chunk_ensm_preds.add_element(weighted_ensemble_vote)
return weighted_ensemble_vote
def reset(self):
pass
def score(self, X, y):
pass
def get_info(self):
return 'The Ensemble GOOWE (Bonab and Can, 2017) with' + \
' - n_max_components: ' + str(self._num_of_max_classifiers) + \
' - num_of_current_components: ' + str(self._num_of_current_classifiers) + \
' - chunk_size: ' + str(self._chunk_size) + \
' - num_dimensions_in_label_space(num_classes): ' + str(self._num_classes) + \
' - recording: ' + str(self._record)
def get_class_type(self):
pass
# Some getters and setters..
def get_number_of_current_classifiers(self):
return self._num_of_current_classifiers
def get_number_of_max_classifiers(self):
return self._num_of_max_classifiers
# Helper methods for GooweMS
def get_classifiers(self):
return self._classifiers
def set_classifiers(self, classifiers):
self._classifiers = classifiers
def get_weights(self):
return self._weights
