chore: rm bagging operation

Author: dmitryglhf

docs/source/introduction/fedot_features/automation_features.rst

@@ -70,12 +70,13 @@ FEDOT supports bunch of dimensionality preprocessing operations that can be be a
    `label_encoding`,Label Encoder, Feature encoding
    `resample`,Imbalanced binary class transformation in classification, Data transformation
    `topological_features`,Calculation of topological features,Time series transformation
+   `dummy`,Simple forwarding operator in pipeline, Data forwarding
 
 
 .. csv-table:: Feature transformation operations implementations
    :header: "API name","Model used","Presets"
 
-   `rfe_lin_reg`,`sklearn.feature_selection.RFE`, 
+   `rfe_lin_reg`,`sklearn.feature_selection.RFE`,
    `rfe_non_lin_reg`,`sklearn.feature_selection.RFE`,
    `rfe_lin_class`,`sklearn.feature_selection.RFE`,
    `rfe_non_lin_class`,`sklearn.feature_selection.RFE`,
@@ -107,13 +108,14 @@ FEDOT supports bunch of dimensionality preprocessing operations that can be be a
    `resample`,`FEDOT model using sklearn.utils.resample`,
    `topological_features`,FEDOT model,`ts`,
    `fast_topological_features`,FEDOT model,`ts`
+   `dummy`,FEDOT model,`fast_train` `*tree`
 
 
 Models used
 ^^^^^^^^^^^
 
 Using the parameter ``preset`` of the :doc:`main API </api/api>` you can specify
-what models are available during the learning process. 
+what models are available during the learning process.
 
 It influences:
 
@@ -135,6 +137,7 @@ Apart from that there are other options whose names speak for themselves: ``'sta
    :header: "API name","Definition","Problem"
 
    `adareg`,AdaBoost regressor,Regression
+   `blendreg`, Weighted Average Blending,Regression
    `catboostreg`,Catboost regressor,Regression
    `dtreg`,Decision Tree regressor,Regression
    `gbr`,Gradient Boosting regressor,Regression
@@ -149,6 +152,7 @@ Apart from that there are other options whose names speak for themselves: ``'sta
    `treg`,Extra Trees regressor,Regression
    `xgboostreg`,Extreme Gradient Boosting regressor,Regression
    `bernb`,Naive Bayes classifier (multivariate Bernoulli),Classification
+   `blending`, Weighted Average Blending,Classification
    `catboost`,Catboost classifier,Classification
    `cnn`,Convolutional Neural Network,Classification
    `dt`,Decision Tree classifier,Classification
@@ -179,6 +183,7 @@ Apart from that there are other options whose names speak for themselves: ``'sta
    :header: "API name","Model used","Presets"
 
    `adareg`,`sklearn.ensemble.AdaBoostRegressor`,`fast_train` `ts` `*tree`
+   `blendreg`, `FEDOT model`, `*tree`
    `catboostreg`,`catboost.CatBoostRegressor`,`*tree`
    `dtreg`,`sklearn.tree.DecisionTreeRegressor`,`fast_train` `ts` `*tree`
    `gbr`,`sklearn.ensemble.GradientBoostingRegressor`,`*tree`
@@ -193,6 +198,7 @@ Apart from that there are other options whose names speak for themselves: ``'sta
    `treg`,`sklearn.ensemble.ExtraTreesRegressor`,`*tree`
    `xgboostreg`,`xgboost.XGBRegressor`,`*tree`
    `bernb`,`sklearn.naive_bayes.BernoulliNB`,`fast_train`
+   `blending`, `FEDOT model`, `*tree`
    `catboost`,`catboost.CatBoostClassifier`,`*tree`
    `cnn`,`FEDOT model`,
    `dt`,`sklearn.tree.DecisionTreeClassifier`,`fast_train` `*tree`

fedot/api/builder.py

@@ -274,10 +274,13 @@ def setup_pipeline_structure(
                     - ``arima`` -> ARIMA
                     - ``cgru`` -> Convolutional Gated Recurrent Unit
                     - ``bernb`` -> Naive Bayes Classifier (multivariate Bernoulli)
+                    - ``blending`` -> Weighted Average Blending Classifier
+                    - ``blendreg`` -> Weighted Average Blending Regressor
                     - ``catboost`` -> Catboost Classifier
                     - ``catboostreg`` -> Catboost Regressor
                     - ``dt`` -> Decision Tree Classifier
                     - ``dtreg`` -> Decision Tree Regressor
+                    - ``dummy`` -> Data Forwarding Operator in Pipeline
                     - ``gbr`` -> Gradient Boosting Regressor
                     - ``kmeans`` -> K-Means clustering
                     - ``knn`` -> K-nearest neighbors Classifier
@@ -305,7 +308,7 @@ def setup_pipeline_structure(
                     - ``svr`` -> Linear Support Vector Regressor
                     - ``treg`` -> Extra Trees Regressor
                     - ``xgboost`` -> Extreme Gradient Boosting Classifier
-                    - ``xgbreg`` -> Extreme Gradient Boosting Regressor
+                    - ``xgboostreg`` -> Extreme Gradient Boosting Regressor
                     - ``cnn`` -> Convolutional Neural Network
                     - ``scaling`` -> Scaling
                     - ``normalization`` -> Normalization

fedot/core/operations/evaluation/boostings.py

@@ -69,6 +69,8 @@ def predict(self, trained_operation, predict_data: InputData) -> OutputData:
             is_multi_output_target = is_multi_output_task(predict_data)
 
             prediction = trained_operation.predict_proba(predict_data)
+            if isinstance(prediction, OutputData):
+                prediction = prediction.predict
             is_prediction_correct = self._check_prediction_correctness(prediction)
 
             if n_classes < 2:

fedot/core/operations/evaluation/common_preprocessing.py

@@ -11,6 +11,8 @@
 from fedot.core.operations.evaluation.operation_implementations. \
     data_operations.topological.fast_topological_extractor import \
     TopologicalFeaturesImplementation
+from fedot.core.operations.evaluation.operation_implementations.data_operations.data_forward import \
+    DummyOperationImplementation
 from fedot.core.operations.operation_parameters import OperationParameters
 from fedot.utilities.random import ImplementationRandomStateHandler
 
@@ -34,6 +36,7 @@ class FedotPreprocessingStrategy(EvaluationStrategy):
                 - ``one_hot_encoding``-> OneHotEncodingImplementation,
                 - ``label_encoding``-> LabelEncodingImplementation,
                 - ``fast_ica``-> FastICAImplementation
+                - ``dummy`` -> DummyOperationImplementation
 
         params: hyperparameters to fit the operation with
 
@@ -50,7 +53,8 @@ class FedotPreprocessingStrategy(EvaluationStrategy):
         'one_hot_encoding': OneHotEncodingImplementation,
         'label_encoding': LabelEncodingImplementation,
         'fast_ica': FastICAImplementation,
-        'topological_features': TopologicalFeaturesImplementation
+        'topological_features': TopologicalFeaturesImplementation,
+        'dummy': DummyOperationImplementation
     }
 
     def __init__(self, operation_type: str, params: Optional[OperationParameters] = None):

fedot/core/operations/evaluation/ensemble.py

@@ -0,0 +1,89 @@
+import numpy as np
+from typing import Optional
+from abc import abstractmethod
+
+from fedot.core.data.data import InputData, OutputData
+from fedot.core.operations.evaluation.operation_implementations.models.blending import (
+    BlendingClassifier, BlendingRegressor
+)
+from fedot.core.operations.evaluation.evaluation_interfaces import EvaluationStrategy
+from fedot.core.operations.operation_parameters import OperationParameters
+from fedot.core.operations.evaluation.evaluation_interfaces import is_multi_output_task
+from fedot.utilities.custom_errors import AbstractMethodNotImplementError
+from fedot.utilities.random import ImplementationRandomStateHandler
+
+
+class EnsembleStrategy(EvaluationStrategy):
+    """This class defines the certain operation implementation for the ensemble methods
+
+    Args:
+        operation_type: ``str`` of the operation defined in operation or
+            data operation repositories
+
+            .. details:: possible operations:
+
+                - ``blending`` -> BlendingClassifier
+                - ``blendreg`` -> BlendingRegressor
+
+        params: hyperparameters to fit the operation with
+    """
+    _operations_by_types = {
+        'blending': BlendingClassifier,
+        'blendreg': BlendingRegressor
+    }
+
+    def __init__(self, operation_type: str, params: Optional[OperationParameters] = None):
+        self.operation_impl = self._convert_to_operation(operation_type)
+        super().__init__(operation_type, params)
+
+    def fit(self, train_data: InputData):
+        if is_multi_output_task(train_data):
+            raise ValueError('Ensemble methods temporary do not support multi-output tasks.')
+
+        operation_implementation = self.operation_impl(self.params_for_fit)
+
+        with ImplementationRandomStateHandler(implementation=operation_implementation):
+            operation_implementation.fit(train_data)
+
+        return operation_implementation
+
+    @abstractmethod
+    def predict(self, trained_operation, predict_data: InputData) -> OutputData:
+        """This method used for prediction of the target data
+
+        Args:
+            trained_operation: operation object
+            predict_data: data to predict
+
+        Returns:
+            passed data with new predicted target
+        """
+        raise AbstractMethodNotImplementError
+
+
+class EnsembleClassificationStrategy(EnsembleStrategy):
+    def __init__(self, operation_type: str, params: Optional[OperationParameters] = None):
+        super().__init__(operation_type, params)
+
+    def predict(self, trained_operation, predict_data: InputData) -> OutputData:
+        if self.output_mode == 'labels':
+            prediction = trained_operation.predict(predict_data)
+        elif self.output_mode in ['probs', 'full_probs', 'default']:
+            n_classes = len(trained_operation.classes_)
+            prediction = trained_operation.predict_proba(predict_data).predict
+            # Full probs for binary classification
+            if self.output_mode == 'full_probs' and n_classes == 2 and prediction.shape[1] == 1:
+                prediction = np.hstack([1 - prediction, prediction])
+        else:
+            raise ValueError(f'Output mode {self.output_mode} is not supported')
+
+        return self._convert_to_output(prediction, predict_data)
+
+
+class EnsembleRegressionStrategy(EnsembleStrategy):
+    def __init__(self, operation_type: str, params: Optional[OperationParameters] = None):
+        super().__init__(operation_type, params)
+
+    def predict(self, trained_operation, predict_data: InputData, **kwargs) -> OutputData:
+        prediction = trained_operation.predict(predict_data, **kwargs)
+        return self._convert_to_output(prediction, predict_data)

fedot/core/operations/evaluation/operation_implementations/data_operations/dummy.py

@@ -0,0 +1,30 @@
+from typing import Optional
+
+from fedot.core.data.data import InputData, OutputData
+from fedot.core.operations.evaluation.operation_implementations. \
+    implementation_interfaces import DataOperationImplementation
+from fedot.core.operations.operation_parameters import OperationParameters
+
+
+class DummyOperationImplementation(DataOperationImplementation):
+    """ Dummy class for data forwarding """
+
+    def __init__(self, params: Optional[OperationParameters]):
+        super().__init__(params)
+
+    def fit(self, input_data: InputData):
+        """
+        Dummy operation doesn't support fit method
+        """
+        pass
+
+    def transform(self, input_data: InputData) -> OutputData:
+        """
+        Method for forwarding input_data's features
+        :param input_data: data with features, target and ids
+
+        :return input_data: data with the same features
+        """
+        features = input_data.features
+        output_data = self._convert_to_output(input_data, features)
+        return output_data

fedot/core/operations/evaluation/operation_implementations/data_operations/topological/fast_topological_extractor.py

@@ -1,3 +1,4 @@
+import os
 import logging
 from itertools import chain
 from typing import Optional
@@ -7,9 +8,12 @@
 try:
     from gph import ripser_parallel as ripser
 except ModuleNotFoundError:
-    logging.log(100,
-                "Topological features operation requires extra dependencies for time series forecasting, which are not"
-                " installed. It can infuence the performance. Please install it by 'pip install fedot[extra]'")
+    if not os.environ.get('FEDOT_RIPSER_WARNING_SHOWN'):
+        logging.log(100,
+                    "Topological features operation requires extra dependencies for time series forecasting, "
+                    "which are not installed. It can influence the performance. "
+                    "Please install it by 'pip install fedot[extra]'")
+        os.environ['FEDOT_RIPSER_WARNING_SHOWN'] = '1'
 
 from joblib import Parallel, delayed