oodeel 0.4.0__py3-none-any.whl

oodeel/datasets/data_handler.py

@@ -0,0 +1,334 @@
+# -*- coding: utf-8 -*-
+# Copyright IRT Antoine de Saint Exupéry et Université Paul Sabatier Toulouse III - All
+# rights reserved. DEEL is a research program operated by IVADO, IRT Saint Exupéry,
+# CRIAQ and ANITI - https://www.deel.ai/
+#
+# Permission is hereby granted, free of charge, to any person obtaining a copy
+# of this software and associated documentation files (the "Software"), to deal
+# in the Software without restriction, including without limitation the rights
+# to use, copy, modify, merge, publish, distribute, sublicense, and/or sell
+# copies of the Software, and to permit persons to whom the Software is
+# furnished to do so, subject to the following conditions:
+#
+# The above copyright notice and this permission notice shall be included in all
+# copies or substantial portions of the Software.
+#
+# THE SOFTWARE IS PROVIDED "AS IS", WITHOUT WARRANTY OF ANY KIND, EXPRESS OR
+# IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES OF MERCHANTABILITY,
+# FITNESS FOR A PARTICULAR PURPOSE AND NONINFRINGEMENT. IN NO EVENT SHALL THE
+# AUTHORS OR COPYRIGHT HOLDERS BE LIABLE FOR ANY CLAIM, DAMAGES OR OTHER
+# LIABILITY, WHETHER IN AN ACTION OF CONTRACT, TORT OR OTHERWISE, ARISING FROM,
+# OUT OF OR IN CONNECTION WITH THE SOFTWARE OR THE USE OR OTHER DEALINGS IN THE
+# SOFTWARE.
+import importlib.util
+from abc import ABC
+from abc import abstractmethod
+
+import numpy as np
+
+from ..types import Callable
+from ..types import DatasetType
+from ..types import ItemType
+from ..types import Optional
+from ..types import TensorType
+from ..types import Tuple
+from ..types import Union
+
+
+def get_backend():
+    """Detects whether TensorFlow or PyTorch is available and returns
+    the preferred backend."""
+    available_backends = []
+    if importlib.util.find_spec("tensorflow"):
+        available_backends.append("tensorflow")
+    if importlib.util.find_spec("torch"):
+        available_backends.append("torch")
+
+    if len(available_backends) == 1:
+        return available_backends[0]
+    elif len(available_backends) == 0:
+        raise ImportError("Neither TensorFlow nor PyTorch is installed.")
+    else:
+        raise ImportError(
+            "Both TensorFlow and PyTorch are installed. Please specify the backend."
+        )
+
+
+def load_data_handler(backend: str = None):
+    if backend is None:
+        backend = get_backend()
+
+    if backend == "tensorflow":
+        from .tf_data_handler import TFDataHandler
+
+        return TFDataHandler()
+
+    elif backend == "torch":
+        from .torch_data_handler import TorchDataHandler
+
+        return TorchDataHandler()
+
+
+class DataHandler(ABC):
+    """
+    Class to manage Datasets. The aim is to provide a simple interface
+    for working with datasets (torch, tensorflow or other...) and manage them without
+    having to use library-specific syntax.
+    """
+
+    def __init__(self):
+        self.backend = None
+        self.channel_order = None
+
+    def split_by_class(
+        self,
+        dataset: DatasetType,
+        in_labels: Optional[Union[np.ndarray, list]] = None,
+        out_labels: Optional[Union[np.ndarray, list]] = None,
+    ) -> Optional[Tuple[DatasetType]]:
+        """Filter the dataset by assigning ood labels depending on labels
+        value (typically, class id).
+
+        Args:
+            in_labels (Optional[Union[np.ndarray, list]], optional): set of labels
+                to be considered as in-distribution. Defaults to None.
+            out_labels (Optional[Union[np.ndarray, list]], optional): set of labels
+                to be considered as out-of-distribution. Defaults to None.
+
+        Returns:
+            Optional[Tuple[OODDataset]]: Tuple of in-distribution and
+                out-of-distribution OODDatasets
+        """
+        # Make sure the dataset has labels
+        assert (in_labels is not None) or (
+            out_labels is not None
+        ), "specify labels to filter with"
+        assert self.get_item_length(dataset) >= 2, "the dataset has no labels"
+
+        # Filter the dataset depending on in_labels and out_labels given
+        if (out_labels is not None) and (in_labels is not None):
+            in_data = self.filter_by_value(dataset, "label", in_labels)
+            out_data = self.filter_by_value(dataset, "label", out_labels)
+
+        if out_labels is None:
+            in_data = self.filter_by_value(dataset, "label", in_labels)
+            out_data = self.filter_by_value(dataset, "label", in_labels, excluded=True)
+
+        elif in_labels is None:
+            in_data = self.filter_by_value(dataset, "label", out_labels, excluded=True)
+            out_data = self.filter_by_value(dataset, "label", out_labels)
+
+        # Return the filtered OODDatasets
+        return in_data, out_data
+
+    @classmethod
+    @abstractmethod
+    def prepare(
+        cls,
+        dataset: DatasetType,
+        batch_size: int,
+        preprocess_fn: Optional[Callable] = None,
+        augment_fn: Optional[Callable] = None,
+        columns: Optional[list] = None,
+        shuffle: bool = False,
+        dict_based_fns: bool = True,
+        return_tuple: bool = True,
+        **kwargs_prepare,
+    ) -> DatasetType:
+        """Prepare dataset for scoring or training
+
+        Args:
+            batch_size (int): Batch size
+            preprocess_fn (Callable, optional): Preprocessing function to apply to
+                the dataset. Defaults to None.
+            augment_fn (Callable, optional): Augment function to be used (when the
+                returned dataset is to be used for training). Defaults to None.
+            columns (list, optional): List of columns
+                that will be returned. Keep all columns if None. Defaults to None.
+            shuffle (bool, optional): To shuffle the returned dataset or not.
+                Defaults to False.
+            dict_based_fns (bool): Whether to use preprocess and DA functions as dict
+                based (if True) or as tuple based (if False). Defaults to True.
+            return_tuple (bool, optional): Whether to return each dataset item
+                as a tuple. Defaults to True.
+            kwargs_prepare (dict): Additional parameters to be passed to the
+                data_handler for backend specific preparation.
+
+
+        Returns:
+            DatasetType: prepared dataset
+        """
+        raise NotImplementedError()
+
+    @staticmethod
+    @abstractmethod
+    def load_dataset_from_arrays(
+        dataset_id: ItemType, columns: Optional[list] = None
+    ) -> DatasetType:
+        """Load a DatasetType from a np.ndarray / Tensor
+
+        Args:
+            dataset_id (ItemType): numpy array(s) to load.
+            columns (list, optional): Column names to assign. If None,
+                assigned as "input_i" for i-th column. Defaults to None.
+
+        Returns:
+            DatasetType
+        """
+        raise NotImplementedError()
+
+    @staticmethod
+    @abstractmethod
+    def load_custom_dataset(
+        dataset_id: DatasetType, columns: Optional[list] = None
+    ) -> DatasetType:
+        """Load a custom dataset by ensuring it is properly formatted.
+
+        Args:
+            dataset_id (DatasetType): dataset
+            columns (list, optional): Column names to use for elements if dataset_id is
+                tuple based. If None, assigned as "input_i"
+                for i-th column. Defaults to None.
+
+        Returns:
+            A properly formatted dataset.
+        """
+        raise NotImplementedError()
+
+    @staticmethod
+    @abstractmethod
+    def load_from_huggingface(
+        dataset_id: str,
+        load_kwargs: dict = {},
+    ) -> DatasetType:
+        """Load a Dataset from the Hugging Face datasets catalog
+
+        Args:
+            dataset_id (str): Identifier of the dataset
+            load_kwargs (dict): Loading kwargs to add to the initialization
+                of the dataset.
+
+        Returns:
+            DatasetType: dataset
+        """
+        raise NotImplementedError()
+
+    @staticmethod
+    @abstractmethod
+    def map_ds(dataset: DatasetType, map_fn: Callable) -> DatasetType:
+        """Map a function to a Dataset
+
+        Args:
+            dataset (DatasetType): Dataset to map the function to
+            map_fn (Callable): Function to map
+
+        Returns:
+            DatasetType: Mapped dataset
+        """
+        raise NotImplementedError()
+
+    @staticmethod
+    @abstractmethod
+    def filter_by_value(
+        dataset: DatasetType,
+        column_name: str,
+        values: list,
+        excluded: bool = False,
+    ) -> DatasetType:
+        """Filter the dataset by checking the value of a column is in `values`
+
+        Args:
+            dataset (Dataset): Dataset to filter
+            column_name (str): Column to filter the dataset with
+            values (list): Column values to keep (if excluded is False)
+                or to exclude
+            excluded (bool, optional): To keep (False) or exclude (True) the samples
+                with column value included in Values. Defaults to False.
+
+        Returns:
+            DatasetType: Filtered dataset
+        """
+        raise NotImplementedError()
+
+    @staticmethod
+    @abstractmethod
+    def get_item_length(dataset: DatasetType) -> int:
+        """Number of elements in a dataset item
+
+        Args:
+            dataset (DatasetType): Dataset
+
+        Returns:
+            int: Item length
+        """
+        raise NotImplementedError()
+
+    @staticmethod
+    @abstractmethod
+    def get_dataset_length(dataset: DatasetType) -> int:
+        """Number of items in a dataset
+
+        Args:
+            dataset (DatasetType): Dataset
+
+        Returns:
+            int: Dataset length
+        """
+        raise NotImplementedError()
+
+    @staticmethod
+    @abstractmethod
+    def get_column_elements_shape(
+        dataset: DatasetType, column_name: Union[str, int]
+    ) -> tuple:
+        """Get the shape of the elements of a column of dataset identified by
+        column_name
+
+        Args:
+            dataset (Dataset): a Dataset
+            column_name (Union[str, int]): The column name to get
+                the element shape from.
+
+        Returns:
+            tuple: the shape of an element from column_name
+        """
+        raise NotImplementedError()
+
+    @staticmethod
+    def get_columns_shapes(dataset: DatasetType) -> dict:
+        """Get the shapes of the elements of all columns of a dataset
+
+        Args:
+            dataset (Dataset): a Dataset
+
+        Returns:
+            dict: dictionary of column names and their corresponding shape
+        """
+        raise NotImplementedError()
+
+    @staticmethod
+    @abstractmethod
+    def get_input_from_dataset_item(elem: ItemType) -> TensorType:
+        """Get the tensor that is to be feed as input to a model from a dataset element.
+
+        Args:
+            elem (ItemType): dataset element to extract input from
+
+        Returns:
+            TensorType: Input tensor
+        """
+        raise NotImplementedError()
+
+    @staticmethod
+    @abstractmethod
+    def get_label_from_dataset_item(item: ItemType):
+        """Retrieve label tensor from item as a tuple/list. Label must be at index 1
+        in the item tuple. If one-hot encoded, labels are converted to single value.
+
+        Args:
+            elem (ItemType): dataset element to extract label from
+
+        Returns:
+            Any: Label tensor
+        """
+        raise NotImplementedError()

oodeel/datasets/deprecated/DEPRECATED_data_handler.py

@@ -0,0 +1,236 @@
+# -*- coding: utf-8 -*-
+# Copyright IRT Antoine de Saint Exupéry et Université Paul Sabatier Toulouse III - All
+# rights reserved. DEEL is a research program operated by IVADO, IRT Saint Exupéry,
+# CRIAQ and ANITI - https://www.deel.ai/
+#
+# Permission is hereby granted, free of charge, to any person obtaining a copy
+# of this software and associated documentation files (the "Software"), to deal
+# in the Software without restriction, including without limitation the rights
+# to use, copy, modify, merge, publish, distribute, sublicense, and/or sell
+# copies of the Software, and to permit persons to whom the Software is
+# furnished to do so, subject to the following conditions:
+#
+# The above copyright notice and this permission notice shall be included in all
+# copies or substantial portions of the Software.
+#
+# THE SOFTWARE IS PROVIDED "AS IS", WITHOUT WARRANTY OF ANY KIND, EXPRESS OR
+# IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES OF MERCHANTABILITY,
+# FITNESS FOR A PARTICULAR PURPOSE AND NONINFRINGEMENT. IN NO EVENT SHALL THE
+# AUTHORS OR COPYRIGHT HOLDERS BE LIABLE FOR ANY CLAIM, DAMAGES OR OTHER
+# LIABILITY, WHETHER IN AN ACTION OF CONTRACT, TORT OR OTHERWISE, ARISING FROM,
+# OUT OF OR IN CONNECTION WITH THE SOFTWARE OR THE USE OR OTHER DEALINGS IN THE
+# SOFTWARE.
+from abc import ABC
+from abc import abstractmethod
+
+import numpy as np
+
+from ...types import Callable
+from ...types import DatasetType
+from ...types import ItemType
+from ...types import Optional
+from ...types import Tuple
+from ...types import Union
+
+
+class DataHandler(ABC):
+    """
+    Class to manage Datasets. The aim is to provide a simple interface
+    for working with datasets (torch, tensorflow or other...) and manage them without
+    having to use library-specific syntax.
+    """
+
+    @classmethod
+    @abstractmethod
+    def load_dataset(
+        cls,
+        dataset_id: Union[ItemType, DatasetType, str],
+        keys: Optional[list] = None,
+        load_kwargs: dict = {},
+    ) -> DatasetType:
+        """Load dataset from different manners
+
+        Args:
+            dataset_id (Union[ItemType, DatasetType, str]): dataset identification
+            keys (list, optional): Features keys. If None, assigned as "input_i"
+                for i-th feature. Defaults to None.
+            load_kwargs (dict, optional): Additional loading kwargs. Defaults to {}.
+
+        Returns:
+            DatasetType: dataset
+        """
+        raise NotImplementedError()
+
+    @staticmethod
+    @abstractmethod
+    def assign_feature_value(
+        dataset: DatasetType, feature_key: str, value: int
+    ) -> DatasetType:
+        """Assign a value to a feature for every sample in a Dataset
+
+        Args:
+            dataset (DatasetType): Dataset to assign the value to
+            feature_key (str): Feature to assign the value to
+            value (int): Value to assign
+
+        Returns:
+            DatasetType: updated dataset
+        """
+        raise NotImplementedError()
+
+    @staticmethod
+    @abstractmethod
+    def get_feature_from_ds(dataset: DatasetType, feature_key: str) -> np.ndarray:
+        """Get a feature from a Dataset
+
+        Args:
+            dataset (DatasetType): Dataset to get the feature from
+            feature_key (str): Feature value to get
+
+        Returns:
+            np.ndarray: Feature values for dataset
+        """
+        raise NotImplementedError()
+
+    @staticmethod
+    @abstractmethod
+    def get_ds_feature_keys(dataset: DatasetType) -> list:
+        """Get the feature keys of a Dataset
+
+        Args:
+            dataset (Dataset): Dataset to get the feature keys from
+
+        Returns:
+            list: List of feature keys
+        """
+        raise NotImplementedError()
+
+    @staticmethod
+    @abstractmethod
+    def has_feature_key(dataset: DatasetType, key: str) -> bool:
+        """Check if a Dataset has a feature denoted by key
+
+        Args:
+            dataset (DatasetType): Dataset to check
+            key (str): Key to check
+
+        Returns:
+            bool: If the dataset has a feature denoted by key
+        """
+        raise NotImplementedError()
+
+    @staticmethod
+    @abstractmethod
+    def map_ds(dataset: DatasetType, map_fn: Callable) -> DatasetType:
+        """Map a function to a Dataset
+
+        Args:
+            dataset (DatasetType): Dataset to map the function to
+            map_fn (Callable): Function to map
+
+        Returns:
+            DatasetType: Mapped dataset
+        """
+        raise NotImplementedError()
+
+    @staticmethod
+    @abstractmethod
+    def filter_by_feature_value(
+        dataset: DatasetType,
+        feature_key: str,
+        values: list,
+        excluded: bool = False,
+    ) -> DatasetType:
+        """Filter the dataset by checking the value of a feature is in `values`
+
+        Args:
+            dataset (Dataset): Dataset to filter
+            feature_key (str): Feature name to check the value
+            values (list): Feature_key values to keep (if excluded is False)
+                or to exclude
+            excluded (bool, optional): To keep (False) or exclude (True) the samples
+                with Feature_key value included in Values. Defaults to False.
+
+        Returns:
+            DatasetType: Filtered dataset
+        """
+        raise NotImplementedError()
+
+    @staticmethod
+    @abstractmethod
+    def merge(
+        id_dataset: DatasetType,
+        ood_dataset: DatasetType,
+        resize: Optional[bool] = False,
+        shape: Optional[Tuple[int]] = None,
+    ) -> DatasetType:
+        """Merge two datasets
+
+        Args:
+            id_dataset (Dataset): dataset of in-distribution data
+            ood_dataset (DictDataset): dataset of out-of-distribution data
+            resize (Optional[bool], optional): toggles if input tensors of the
+                datasets have to be resized to have the same shape. Defaults to True.
+            shape (Optional[Tuple[int]], optional): shape to use for resizing input
+                tensors. If None, the tensors are resized with the shape of the
+                id_dataset input tensors. Defaults to None.
+
+        Returns:
+            DatasetType: merged dataset
+        """
+        raise NotImplementedError()
+
+    @classmethod
+    @abstractmethod
+    def prepare_for_training(
+        cls,
+        dataset: DatasetType,
+        batch_size: int,
+        shuffle: bool = False,
+        preprocess_fn: Optional[Callable] = None,
+        augment_fn: Optional[Callable] = None,
+        output_keys: list = ["input", "label"],
+    ) -> DatasetType:
+        """Prepare a dataset for training
+
+        Args:
+            dataset (DictDataset): Dataset to prepare
+            batch_size (int): Batch size
+            shuffle (bool): Wether to shuffle the dataloader or not
+            preprocess_fn (Callable, optional): Preprocessing function to apply to
+                the dataset. Defaults to None.
+            augment_fn (Callable, optional): Augment function to be used (when the
+                returned dataset is to be used for training). Defaults to None.
+            output_keys (list): List of keys corresponding to the features that will be
+                returned. Keep all features if None. Defaults to None.
+
+        Returns:
+            DatasetType: prepared dataset / dataloader
+        """
+        raise NotImplementedError()
+
+    @staticmethod
+    @abstractmethod
+    def get_item_length(dataset: DatasetType) -> int:
+        """Number of elements in a dataset item
+
+        Args:
+            dataset (DatasetType): Dataset
+
+        Returns:
+            int: Item length
+        """
+        raise NotImplementedError()
+
+    @staticmethod
+    @abstractmethod
+    def get_dataset_length(dataset: DatasetType) -> int:
+        """Number of items in a dataset
+
+        Args:
+            dataset (DatasetType): Dataset
+
+        Returns:
+            int: Dataset length
+        """
+        raise NotImplementedError()