Source code for poutyne.framework.model

"""
Copyright (c) 2022 Poutyne and all respective contributors.

Each contributor holds copyright over their respective contributions. The project versioning (Git)
records all such contribution source information.

This file is part of Poutyne.

Poutyne is free software: you can redistribute it and/or modify it under the terms of the GNU Lesser General Public
License as published by the Free Software Foundation, either version 3 of the License, or (at your option) any later
version.

Poutyne is distributed in the hope that it will be useful, but WITHOUT ANY WARRANTY; without even the implied warranty
of MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the GNU Lesser General Public License for more details.

You should have received a copy of the GNU Lesser General Public License along with Poutyne. If not, see
<https://www.gnu.org/licenses/>.
"""

# pylint: disable=too-many-lines,too-many-public-methods
import contextlib
import timeit
import warnings
from collections import defaultdict
from typing import Iterable, Mapping, List, Union, Any, Tuple

import numpy as np
import torch
import torch.nn as nn
import torch.optim as optim
from torch.nn.utils.rnn import PackedSequence
from torch.utils.data import DataLoader

from poutyne import torch_to_numpy, numpy_to_torch, torch_to
from .callbacks import CallbackList, ProgressionCallback, Callback
from .iterators import EpochIterator, _get_step_iterator, StepIterator
from .metrics import get_metric
from .metrics import get_callables_and_names, rename_doubles, flatten_metric_names
from .metrics.decomposable import convert_decomposable_metric_to_object
from .optimizers import get_optimizer
from ..utils import TensorDataset, _concat, get_batch_size


[docs]class Model: """ The Model class encapsulates a PyTorch network, a PyTorch optimizer, a loss function and metric functions. It allows the user to train a neural network without hand-coding the epoch/step logic. Args: network (torch.nn.Module): A PyTorch network. optimizer (Union[torch.optim.Optimizer, str, dict]): If torch.optim.Optimier, an initialized PyTorch. If str, should be the name of the optimizer in Pytorch (i.e. 'Adam' for torch.optim.Adam). If dict, should contain a key ``'optim'`` with the value be the name of the optimizer; other entries are passed to the optimizer as keyword arguments. (Default value = None) loss_function(Union[Callable, str]) It can be any PyTorch loss layer or custom loss function. It can also be a string with the same name as a PyTorch loss function (either the functional or object name). The loss function must have the signature ``loss_function(input, target)`` where ``input`` is the prediction of the network and ``target`` is the ground truth. (Default value = None) batch_metrics (list): List of functions with the same signature as a loss function or objects with the same signature as either :class:`~poutyne.Metric` or :class:`torchmetrics.Metric <torchmetrics.Metric>`. It can also be a string with the same name as a PyTorch loss function (either the functional or object name). Some metrics, such as 'accuracy' (or just 'acc'), are also available as strings. See :ref:`metrics` and the `TorchMetrics documentation <https://torchmetrics.readthedocs.io/en/latest/references/modules.html>`__ for available metrics. Batch metric are computed on computed for each batch. (Default value = None) .. warning:: When using this argument, the metrics are computed for each batch. This can significantly slow down the compuations depending on the metrics used. This mostly happens on non-decomposable metrics such as :class:`torchmetrics.AUROC <torchmetrics.AUROC>` where an ordering of the elements is necessary to compute the metric. In such case, we advise to use them as epoch metrics instead. epoch_metrics (list): List of functions with the same signature as a loss function or objects with the same signature as either :class:`~poutyne.Metric` or :class:`torchmetrics.Metric <torchmetrics.Metric>`. It can also be a string with the same name as a PyTorch loss function (either the functional or object name). Some metrics, such as 'accuracy' (or just 'acc'), are also available as strings. See :ref:`metrics` and the `TorchMetrics documentation <https://torchmetrics.readthedocs.io/en/latest/references/modules.html>`__ for available metrics. Epoch metrics are computed only at the end of the epoch. (Default value = None) device (Union[torch.torch.device, List[torch.torch.device]]): The device to which the network is sent or the list of device to which the network is sent. See :func:`~Model.to()` for details. Note: The name of each batch and epoch metric can be change by passing a tuple ``(name, metric)`` instead of simply the metric function or object, where ``name`` is the alternative name of the metric. Batch and epoch metrics can return multiple metrics (e.g. an epoch metric could return an F1-score with the associated precision and recall). See :ref:`multiple metrics at once` for more details. Attributes: network (torch.nn.Module): The associated PyTorch network. optimizer (torch.optim.Optimizer): The associated PyTorch optimizer. loss_function: The associated loss function. batch_metrics (list): The associated metric functions for every batch. epoch_metrics (list): The associated metric functions for every epoch. Examples: Using Numpy arrays (or tensors) dataset:: from poutyne import Model import torch import numpy as np import torchmetrics num_features = 20 num_classes = 5 # Our training dataset with 800 samples. num_train_samples = 800 train_x = np.random.randn(num_train_samples, num_features).astype('float32') train_y = np.random.randint(num_classes, size=num_train_samples).astype('int64') # Our validation dataset with 200 samples. num_valid_samples = 200 valid_x = np.random.randn(num_valid_samples, num_features).astype('float32') valid_y = np.random.randint(num_classes, size=num_valid_samples).astype('int64') pytorch_network = torch.nn.Linear(num_features, num_classes) # Our network # We create and optimize our model model = Model(pytorch_network, 'sgd', 'cross_entropy', batch_metrics=['accuracy'], epoch_metrics=[torchmetrics.AUROC(num_classes=num_classes)]) model.fit(train_x, train_y, validation_data=(valid_x, valid_y), epochs=5, batch_size=32) .. code-block:: none Epoch: 1/5 Train steps: 25 Val steps: 7 0.51s loss: 1.757784 acc: 20.750000 auroc: 0.494891 val_loss: 1.756639 val_acc: 18.500000 val_auroc: 0.499404 Epoch: 2/5 Train steps: 25 Val steps: 7 0.03s loss: 1.749623 acc: 20.375000 auroc: 0.496878 val_loss: 1.748795 val_acc: 19.000000 val_auroc: 0.499723 Epoch: 3/5 Train steps: 25 Val steps: 7 0.03s loss: 1.742070 acc: 20.250000 auroc: 0.499461 val_loss: 1.741379 val_acc: 19.000000 val_auroc: 0.498577 ... Using PyTorch DataLoader:: import torch from torch.utils.data import DataLoader, TensorDataset from poutyne import Model import torchmetrics num_features = 20 num_classes = 5 # Our training dataset with 800 samples. num_train_samples = 800 train_x = torch.rand(num_train_samples, num_features) train_y = torch.randint(num_classes, (num_train_samples,), dtype=torch.long) train_dataset = TensorDataset(train_x, train_y) train_generator = DataLoader(train_dataset, batch_size=32) # Our validation dataset with 200 samples. num_valid_samples = 200 valid_x = torch.rand(num_valid_samples, num_features) valid_y = torch.randint(num_classes, (num_valid_samples,), dtype=torch.long) valid_dataset = TensorDataset(valid_x, valid_y) valid_generator = DataLoader(valid_dataset, batch_size=32) pytorch_network = torch.nn.Linear(num_features, num_classes) model = Model(pytorch_network, 'sgd', 'cross_entropy', batch_metrics=['accuracy'], epoch_metrics=[torchmetrics.AUROC(num_classes=num_classes)]) model.fit_generator(train_generator, valid_generator, epochs=5) .. code-block:: none Epoch: 1/5 Train steps: 25 Val steps: 7 0.07s loss: 1.614473 acc: 20.500000 auroc: 0.516850 val_loss: 1.617141 val_acc: 21.500000 val_auroc: 0.522068 Epoch: 2/5 Train steps: 25 Val steps: 7 0.03s loss: 1.614454 acc: 20.125000 auroc: 0.517618 val_loss: 1.615585 val_acc: 22.000000 val_auroc: 0.521051 Epoch: 3/5 Train steps: 25 Val steps: 7 0.03s loss: 1.613709 acc: 20.125000 auroc: 0.518307 val_loss: 1.614440 val_acc: 22.000000 val_auroc: 0.520762 ... """ def __init__( self, network, optimizer, loss_function, *, batch_metrics=None, epoch_metrics=None, torch_metrics=None, device=None, ): if not isinstance(network, nn.Module): raise ValueError(f"network should be of type derived from nn.Module, received {type(network)}.") if optimizer is not None and not isinstance(optimizer, (optim.Optimizer, str, dict)): raise ValueError(f"optimizer should be of type derived from optim.Optimizer, received {type(optimizer)}.") batch_metrics = [] if batch_metrics is None else batch_metrics epoch_metrics = [] if epoch_metrics is None else epoch_metrics if torch_metrics is not None: batch_metrics += torch_metrics warnings.warn( "The torch_metrics keyword is deprecated as of v.1.11. Use batch_metrics instead. " "It will be remove in the next version." ) self.network = network self.optimizer = get_optimizer(optimizer, self.network) self.loss_function = get_metric(loss_function) if isinstance(self.loss_function, tuple): self.loss_function = self.loss_function[1] self.loss_function = convert_decomposable_metric_to_object(self.loss_function, 'loss') self._check_network_optimizer_parameters_match() self._set_metrics_attributes(batch_metrics, epoch_metrics) self.device = None self.other_device = None if device is not None: self.to(device) def _check_network_optimizer_parameters_match(self): if self.optimizer is not None: param_set = set(self.network.parameters()) for param_group in self.optimizer.param_groups: for param in param_group['params']: if param not in param_set: raise ValueError( "All parameters in the optimizer should be part of the network. " "This is so to insure that weights checkpointing and the likes " "actually consider all parameters." ) def _set_metrics_attributes(self, batch_metrics, epoch_metrics): batch_metrics = list(map(get_metric, batch_metrics)) batch_metrics, batch_metrics_names = get_callables_and_names(batch_metrics) self.batch_metrics = [ convert_decomposable_metric_to_object(metric, names) for metric, names in zip(batch_metrics, batch_metrics_names) ] epoch_metrics = list(map(get_metric, epoch_metrics)) epoch_metrics, epoch_metrics_names = get_callables_and_names(epoch_metrics) self.epoch_metrics = [ convert_decomposable_metric_to_object(metric, names, is_epoch_metric=True) for metric, names in zip(epoch_metrics, epoch_metrics_names) ] self.original_batch_metrics_names, self.original_epoch_metrics_names = ( batch_metrics_names, epoch_metrics_names, ) batch_metrics_names, epoch_metrics_names = rename_doubles(batch_metrics_names, epoch_metrics_names) self.unflatten_batch_metrics_names = batch_metrics_names self.unflatten_epoch_metrics_names = epoch_metrics_names self.batch_metrics_names = flatten_metric_names(batch_metrics_names) self.epoch_metrics_names = flatten_metric_names(epoch_metrics_names) self.metrics_names = self.batch_metrics_names + self.epoch_metrics_names @contextlib.contextmanager def _set_training_mode(self, training): old_training = self.network.training self.network.train(training) with torch.set_grad_enabled(training): yield self.network.train(old_training)
[docs] def fit( self, x, y, validation_data=None, *, batch_size=32, epochs=1000, steps_per_epoch=None, validation_steps=None, batches_per_step=1, initial_epoch=1, verbose=True, progress_options: Union[dict, None] = None, callbacks=None, dataloader_kwargs=None, ): # pylint: disable=line-too-long,too-many-locals """ Trains the network on a dataset. This method creates generators and calls the :func:`~Model.fit_generator()` method. Args: x (Union[~torch.Tensor, ~numpy.ndarray] or Union[tuple, list] of Union[~torch.Tensor, ~numpy.ndarray]): Training dataset. Union[Tensor, ndarray] if the model has a single input. Union[tuple, list] of Union[Tensor, ndarray] if the model has multiple inputs. y (Union[~torch.Tensor, ~numpy.ndarray] or Union[tuple, list] of Union[~torch.Tensor, ~numpy.ndarray]): Target. Union[Tensor, ndarray] if the model has a single output. Union[tuple, list] of Union[Tensor, ndarray] if the model has multiple outputs. validation_data (Tuple[``x_val``, ``y_val``]): Same format as ``x`` and ``y`` previously described. Validation dataset on which to evaluate the loss and any model metrics at the end of each epoch. The model will not be trained on this data. (Default value = None) batch_size (int): Number of samples given to the network at one time. (Default value = 32) epochs (int): Number of times the entire training dataset is seen. (Default value = 1000) steps_per_epoch (int, optional): Number of batch used during one epoch. Obviously, using this argument may cause one epoch not to see the entire training dataset or see it multiple times. (Defaults the number of steps needed to see the entire training dataset) validation_steps (int, optional): Same as for ``steps_per_epoch`` but for the validation dataset. (Defaults to the number of steps needed to see the entire validation dataset) batches_per_step (int): Number of batches on which to compute the running loss before backpropagating it through the network. Note that the total loss used for backpropagation is the mean of the `batches_per_step` batch losses. (Default value = 1) initial_epoch (int, optional): Epoch at which to start training (useful for resuming a previous training run). (Default value = 1) verbose (bool): Whether to display the progress of the training. (Default value = True) progress_options (dict, optional): Keyword arguments to pass to the default progression callback used in Poutyne (See :class:`~poutyne.ProgressionCallback` for the available arguments). (Default value = None) callbacks (List[~poutyne.Callback]): List of callbacks that will be called during training. (Default value = None) dataloader_kwargs (dict, optional): Keyword arguments to pass to the PyTorch dataloaders created internally. By default, ``shuffle=True`` is passed for the training dataloader but this can be overridden by using this argument. Returns: List of dict containing the history of each epoch. Example: .. code-block:: python model = Model(pytorch_network, optimizer, loss_function) history = model.fit(train_x, train_y, validation_data=(valid_x, valid_y) epochs=num_epochs, batch_size=batch_size, verbose=False) print(*history, sep="\\n") .. code-block:: python {'epoch': 1, 'loss': 1.7198852968215943, 'time': 0.019999928001197986, 'acc': 19.375, 'val_loss': 1.6674459838867188, 'val_acc': 22.0} {'epoch': 2, 'loss': 1.7054892110824584, 'time': 0.015421080999658443, 'acc': 19.75, 'val_loss': 1.660806336402893, 'val_acc': 22.0} {'epoch': 3, 'loss': 1.6923445892333984, 'time': 0.01363091799794347, 'acc': 19.625, 'val_loss': 1.6550078630447387, 'val_acc': 22.5} ... """ train_dataset = self._dataset_from_data((x, y)) valid_dataset = None if validation_data is not None: valid_dataset = self._dataset_from_data(validation_data) return self.fit_dataset( train_dataset, valid_dataset=valid_dataset, epochs=epochs, batch_size=batch_size, steps_per_epoch=steps_per_epoch, validation_steps=validation_steps, batches_per_step=batches_per_step, initial_epoch=initial_epoch, verbose=verbose, progress_options=progress_options, callbacks=callbacks, dataloader_kwargs=dataloader_kwargs, )
def _dataset_from_data(self, args): args = numpy_to_torch(args) return TensorDataset(*args) if len(args) > 1 else args[0]
[docs] def fit_dataset( self, train_dataset, valid_dataset=None, *, batch_size=32, epochs=1000, steps_per_epoch=None, validation_steps=None, batches_per_step=1, initial_epoch=1, verbose=True, progress_options=None, callbacks=None, num_workers=0, collate_fn=None, dataloader_kwargs=None, ): # pylint: disable=line-too-long,too-many-locals """ Trains the network on a dataset. This method creates dataloaders and calls the :func:`~Model.fit_generator()` method. Args: train_dataset (~torch.utils.data.Dataset): Training dataset. valid_dataset (~torch.utils.data.Dataset): Validation dataset. batch_size (int): Number of samples given to the network at one time. (Default value = 32) epochs (int): Number of times the entire training dataset is seen. (Default value = 1000) steps_per_epoch (int, optional): Number of batch used during one epoch. Obviously, using this argument may cause one epoch not to see the entire training dataset or see it multiple times. (Defaults the number of steps needed to see the entire training dataset) validation_steps (int, optional): Same as for ``steps_per_epoch`` but for the validation dataset. (Defaults to the number of steps needed to see the entire validation dataset) batches_per_step (int): Number of batches on which to compute the running loss before backpropagating it through the network. Note that the total loss used for backpropagation is the mean of the `batches_per_step` batch losses. (Default value = 1) initial_epoch (int, optional): Epoch at which to start training (useful for resuming a previous training run). (Default value = 1) verbose (bool): Whether to display the progress of the training. (Default value = True) progress_options (dict, optional): Keyword arguments to pass to the default progression callback used in Poutyne (See :class:`~poutyne.ProgressionCallback` for the available arguments). (Default value = None) callbacks (List[~poutyne.Callback]): List of callbacks that will be called during training. (Default value = None) dataloader_kwargs (dict, optional): Keyword arguments to pass to the PyTorch dataloaders created internally. By default, ``shuffle=True`` is passed for the training dataloader but this can be overridden by using this argument. num_workers (int, optional): how many subprocesses to use for data loading. ``0`` means that the data will be loaded in the main process. (Default value = 0) collate_fn (Callable, optional): merges a list of samples to form a mini-batch of Tensor(s). Used when using batched loading from a map-style dataset. Returns: List of dict containing the history of each epoch. See :class:`~torch.utils.data.DataLoader` for details on ``batch_size``, ``num_workers`` and ``collate_fn``. Example: .. code-block:: python model = Model(pytorch_network, optimizer, loss_function) history = model.fit(train_dataset, valid_dataset, epochs=num_epochs, batch_size=batch_size, verbose=False) print(*history, sep="\\n") .. code-block:: python {'epoch': 1, 'loss': 1.7198852968215943, 'time': 0.019999928001197986, 'acc': 19.375, 'val_loss': 1.6674459838867188, 'val_acc': 22.0} {'epoch': 2, 'loss': 1.7054892110824584, 'time': 0.015421080999658443, 'acc': 19.75, 'val_loss': 1.660806336402893, 'val_acc': 22.0} {'epoch': 3, 'loss': 1.6923445892333984, 'time': 0.01363091799794347, 'acc': 19.625, 'val_loss': 1.6550078630447387, 'val_acc': 22.5} ... """ if dataloader_kwargs is None: dataloader_kwargs = {} dataloader_kwargs = { 'batch_size': batch_size, 'num_workers': num_workers, 'collate_fn': collate_fn, **dataloader_kwargs, } train_generator = DataLoader(train_dataset, **{'shuffle': True, **dataloader_kwargs}) valid_generator = None if valid_dataset is not None: valid_generator = DataLoader(valid_dataset, **dataloader_kwargs) return self.fit_generator( train_generator, valid_generator=valid_generator, epochs=epochs, steps_per_epoch=steps_per_epoch, validation_steps=validation_steps, batches_per_step=batches_per_step, initial_epoch=initial_epoch, verbose=verbose, progress_options=progress_options, callbacks=callbacks, )
[docs] def fit_generator( self, train_generator, valid_generator=None, *, epochs=1000, steps_per_epoch=None, validation_steps=None, batches_per_step=1, initial_epoch=1, verbose=True, progress_options: Union[dict, None] = None, callbacks=None, ): # pylint: disable=line-too-long """ Trains the network on a dataset using a generator. Args: train_generator: Generator-like object for the training dataset. The generator must yield a batch in the form of a tuple (x, y) where ``x`` is the input and ``y`` is the target. The batch size is inferred from ``x`` and ``y``. See :func:`get_batch_size()` for details on the inferring algorithm. The loss and the metrics are averaged using this batch size. If the batch size cannot be inferred then a warning is raised and the "batch size" defaults to 1. If the generator does not have a method ``__len__()``, either the ``steps_per_epoch`` argument must be provided, or the iterator returned raises a StopIteration exception at the end of the training dataset. PyTorch DataLoaders object do provide a ``__len__()`` method. Before each epoch, the method ``__iter__()`` on the generator is called and the method ``__next__()`` is called for each step on resulting object returned by ``__iter__()``. Notice that a call to ``__iter__()`` on a generator made using the python keyword ``yield`` returns the generator itself. valid_generator (optional): Generator-like object for the validation dataset. This generator is optional. The generator is used the same way as the generator ``train_generator``. If the generator does not have a method ``__len__()``, either the ``validation_steps`` or the ``steps_per_epoch`` argument must be provided or the iterator returned raises a StopIteration exception at the end of the validation dataset. (Default value = None) epochs (int): Number of times the entire training dataset is seen. (Default value = 1000) steps_per_epoch (int, optional): Number of batch used during one epoch. Obviously, using this argument may cause one epoch not to see the entire training dataset or see it multiple times. See argument ``train_generator`` and ``valid_generator`` for more details of how ``steps_per_epoch`` is used. validation_steps (int, optional): Same as for ``steps_per_epoch`` but for the validation dataset. See argument ``valid_generator`` for more details of how ``validation_steps`` is used. batches_per_step (int): Number of batches on which to compute the running loss before backpropagating it through the network. Note that the total loss used for backpropagation is the mean of the `batches_per_step` batch losses. (Default value = 1) initial_epoch (int, optional): Epoch at which to start training (useful for resuming a previous training run). (Default value = 1) verbose (bool): Whether to display the progress of the training. (Default value = True) progress_options (dict, optional): Keyword arguments to pass to the default progression callback used in Poutyne (See :class:`~poutyne.ProgressionCallback` for the available arguments). (Default value = None, meaning default color setting and progress bar) callbacks (List[~poutyne.Callback]): List of callbacks that will be called during training. (Default value = None) Returns: List of dict containing the history of each epoch. Example: .. code-block:: python model = Model(pytorch_network, optimizer, loss_function) history = model.fit_generator(train_generator, valid_generator, epochs=num_epochs, verbose=False) print(*history, sep="\\n") .. code-block:: python {'epoch': 1, 'loss': 1.7198852968215943, 'time': 0.019999928001197986, 'acc': 19.375, 'val_loss': 1.6674459838867188, 'val_acc': 22.0} {'epoch': 2, 'loss': 1.7054892110824584, 'time': 0.015421080999658443, 'acc': 19.75, 'val_loss': 1.660806336402893, 'val_acc': 22.0} {'epoch': 3, 'loss': 1.6923445892333984, 'time': 0.01363091799794347, 'acc': 19.625, 'val_loss': 1.6550078630447387, 'val_acc': 22.5} ... """ if self.optimizer is None: raise ValueError("Impossible to fit when optimizer is None.") self._transfer_optimizer_state_to_right_device() callbacks = [] if callbacks is None else callbacks if verbose: progress_options = {} if progress_options is None else progress_options callbacks = [ProgressionCallback(**progress_options)] + callbacks callback_list = CallbackList(callbacks) callback_list.set_model(self) self.stop_training = False epoch_iterator = EpochIterator( self, train_generator, valid_generator, epochs=epochs, steps_per_epoch=steps_per_epoch, validation_steps=validation_steps, initial_epoch=initial_epoch, callback=callback_list, batch_metrics_names=self.batch_metrics_names, epoch_metrics_names=self.epoch_metrics_names, ) if batches_per_step > 1: self._fit_generator_n_batches_per_step(epoch_iterator, callback_list, batches_per_step) else: self._fit_generator_one_batch_per_step(epoch_iterator, callback_list) return epoch_iterator.epoch_logs
def _fit_generator_n_batches_per_step(self, epoch_iterator, callback_list, batches_per_step): for train_step_iterator, valid_step_iterator in epoch_iterator: examples_in_step = 0 with self._set_training_mode(True): for step, (x, y) in train_step_iterator: step.size = get_batch_size(x, y) examples_in_step += step.size (step.loss, step.batch_metrics, did_backprop, _,) = self._fit_batch_n_batches_per_step( x, y, batches_per_step, examples_in_step, callback=callback_list, step=step ) if did_backprop: examples_in_step = 0 if not did_backprop: # Did not step after last batch self._adjust_step_size(examples_in_step) self.optimizer.step() train_step_iterator.loss = self._get_loss() train_step_iterator.batch_metrics = self._get_batch_metrics() train_step_iterator.epoch_metrics = self._get_epoch_metrics() self._run_validation(valid_step_iterator, callback_list) def _fit_batch_n_batches_per_step( self, x, y, batches_per_step, examples_in_step, *, callback=Callback(), step=None, return_pred=False, convert_to_numpy=True, ): # pylint: disable=too-many-locals zero_all_gradients = (step.number - 1) % batches_per_step == 0 do_backprop = step.number % batches_per_step == 0 if zero_all_gradients: self.optimizer.zero_grad() loss_tensor, batch_metrics, pred_y = self._compute_loss_and_metrics( x, y, return_loss_tensor=True, return_pred=return_pred, convert_to_numpy=convert_to_numpy ) adjusted_loss_tensor = loss_tensor * step.size adjusted_loss_tensor.backward() callback.on_backward_end(step) if do_backprop: self._adjust_step_size(examples_in_step) self.optimizer.step() loss = float(loss_tensor) return loss, batch_metrics, do_backprop, pred_y def _fit_generator_one_batch_per_step(self, epoch_iterator, callback_list): for train_step_iterator, valid_step_iterator in epoch_iterator: with self._set_training_mode(True): for step, (x, y) in train_step_iterator: step.loss, step.batch_metrics, _ = self._fit_batch(x, y, callback=callback_list, step=step.number) step.size = get_batch_size(x, y) train_step_iterator.loss = self._get_loss() train_step_iterator.batch_metrics = self._get_batch_metrics() train_step_iterator.epoch_metrics = self._get_epoch_metrics() self._run_validation(valid_step_iterator, callback_list) def _fit_batch(self, x, y, *, callback=Callback(), step=None, return_pred=False, convert_to_numpy=True): self.optimizer.zero_grad() loss_tensor, batch_metrics, pred_y = self._compute_loss_and_metrics( x, y, return_loss_tensor=True, return_pred=return_pred, convert_to_numpy=convert_to_numpy ) loss_tensor.backward() callback.on_backward_end(step) self.optimizer.step() loss = float(loss_tensor) return loss, batch_metrics, pred_y def _run_validation(self, valid_step_iterator, callback_list): if valid_step_iterator is not None: valid_begin_time = timeit.default_timer() callback_list.on_valid_begin({}) self._validate(valid_step_iterator) valid_step_iterator.loss = self._get_loss() valid_step_iterator.batch_metrics = self._get_batch_metrics() valid_step_iterator.epoch_metrics = self._get_epoch_metrics() valid_total_time = timeit.default_timer() - valid_begin_time valid_metrics_log = {'time': valid_total_time} valid_metrics_log.update(valid_step_iterator.metrics_logs) callback_list.on_valid_end(valid_metrics_log) def _adjust_step_size(self, examples_in_step): for param in self.network.parameters(): if param.grad is not None: param.grad /= examples_in_step def _process_input(self, *args): args = numpy_to_torch(args) if self.device is not None: args = torch_to(args, self.device) return args[0] if len(args) == 1 else args def preprocess_input(self, x, y=None): if y is not None: x, y = self._process_input(x, y) else: x = self._process_input(x) x = x if isinstance(x, (tuple, list)) else (x,) # We return PackedSequence in a tuple since it is a namedtuple, thus an iterator object and # would break later when we call self.network(*x) since it will iterate over the PackedSequence named attribute. x = (x,) if isinstance(x, PackedSequence) else x return (x, y) if y is not None else x
[docs] def train_on_batch(self, x, y, *, return_pred=False, return_dict_format=False, convert_to_numpy=True): """ Trains the network for the batch ``(x, y)`` and computes the loss and the metrics, and optionally returns the predictions. Args: x: Input data as a batch. y: Target data as a batch. return_pred (bool, optional): Whether to return the predictions. (Default value = False) return_dict_format (bool, optional): Whether to return the loss and metrics in a dict format or not. (Default value = False) convert_to_numpy (bool, optional): Whether to convert the predictions into Numpy Arrays when ``return_pred`` is true. (Default value = True) Returns: Float ``loss`` if no metrics were specified and ``return_pred`` is false. Otherwise, tuple ``(loss, metrics)`` if ``return_pred`` is false. ``metrics`` is a Numpy array of size ``n``, where ``n`` is the number of metrics if ``n > 1``. If ``n == 1``, then ``metrics`` is a float. If ``n == 0``, the ``metrics`` is omitted. Tuple ``(loss, metrics, pred_y)`` if ``return_pred`` is true where ``pred_y`` is the predictions with tensors converted into Numpy arrays. If ``return_dict_format`` is True, then ``loss, metrics`` are replaced by a dictionary. """ if self.optimizer is None: raise ValueError("Impossible to fit when optimizer is None.") with self._set_training_mode(True): self._transfer_optimizer_state_to_right_device() loss, batch_metrics, pred_y = self._fit_batch( x, y, return_pred=return_pred, convert_to_numpy=convert_to_numpy ) if return_dict_format: logs = dict(loss=loss) logs.update(zip(self.batch_metrics_names, batch_metrics)) return self._format_truth_pred_return((logs,), pred_y, return_pred) return self._format_loss_metrics_return(loss, batch_metrics, pred_y, return_pred)
def _format_loss_metrics_return(self, loss, metrics, pred_y, return_pred, true_y=None, return_ground_truth=False): # pylint: disable=too-many-arguments ret = (loss,) ret += tuple(metrics.tolist()) if len(metrics) <= 1 else (metrics,) return self._format_truth_pred_return(ret, pred_y, return_pred, true_y, return_ground_truth) def _format_truth_pred_return(self, init, pred_y, return_pred, true_y=None, return_ground_truth=False): # pylint: disable=too-many-arguments if return_pred: init += (pred_y,) if return_ground_truth: init += (true_y,) return init[0] if len(init) == 1 else init
[docs] def predict( self, x, *, batch_size=32, convert_to_numpy=True, verbose=True, progress_options: Union[dict, None] = None, callbacks=None, dataloader_kwargs=None, ) -> Any: """ Returns the predictions of the network given a dataset ``x``, where the tensors are converted into Numpy arrays. Args: x (Union[~torch.Tensor, ~numpy.ndarray] or Union[tuple, list] of Union[~torch.Tensor, ~numpy.ndarray]): Input to the model. Union[Tensor, ndarray] if the model has a single input. Union[tuple, list] of Union[Tensor, ndarray] if the model has multiple inputs. batch_size (int): Number of samples given to the network at one time. (Default value = 32) concatenate_returns (bool, optional): Whether to concatenate the predictions when returning them. (Default value = True) verbose (bool): Whether to display the progress of the evaluation. (Default value = True) progress_options (dict, optional): Keyword arguments to pass to the default progression callback used in Poutyne (See :class:`~poutyne.ProgressionCallback` for the available arguments). (Default value = None, meaning default color setting and progress bar) callbacks (List[~poutyne.Callback]): List of callbacks that will be called during testing. (Default value = None) dataloader_kwargs (dict, optional): Keyword arguments to pass to the PyTorch dataloaders created internally. Returns: Return the predictions in the format outputted by the model. """ x = x if isinstance(x, (tuple, list)) else (x,) dataset = self._dataset_from_data(x) return self.predict_dataset( dataset, batch_size=batch_size, concatenate_returns=True, convert_to_numpy=convert_to_numpy, dataloader_kwargs=dataloader_kwargs, verbose=verbose, progress_options=progress_options, callbacks=callbacks, )
[docs] def predict_dataset( self, dataset, *, batch_size=32, steps=None, has_ground_truth=False, return_ground_truth=False, concatenate_returns=True, convert_to_numpy=True, num_workers=0, collate_fn=None, verbose=True, progress_options: Union[dict, None] = None, callbacks=None, dataloader_kwargs=None, ) -> Any: """ Returns the predictions of the network given a dataset ``x``, where the tensors are converted into Numpy arrays. Args: dataset (~torch.utils.data.Dataset): Dataset. Must not return ``y``, just ``x``, unless `has_ground_truth` is true. batch_size (int): Number of samples given to the network at one time. (Default value = 32) steps (int, optional): Number of iterations done on ``generator``. (Defaults the number of steps needed to see the entire dataset) has_ground_truth (bool, optional): Whether the generator yields the target ``y``. Automatically set to true if `return_ground_truth` is true. (Default value = False) return_ground_truth (bool, optional): Whether to return the ground truths. If true, automatically set `has_ground_truth` to true. (Default value = False) concatenate_returns (bool, optional): Whether to concatenate the predictions or the ground truths when returning them. See :func:`predict_generator()` for details. (Default value = True) concatenate_returns (bool, optional): Whether to concatenate the predictions or the ground truths when returning them. (Default value = True) num_workers (int, optional): how many subprocesses to use for data loading. ``0`` means that the data will be loaded in the main process. (Default value = 0) collate_fn (Callable, optional): merges a list of samples to form a mini-batch of Tensor(s). Used when using batched loading from a map-style dataset. verbose (bool): Whether to display the progress of the evaluation. (Default value = True) progress_options (dict, optional): Keyword arguments to pass to the default progression callback used in Poutyne (See :class:`~poutyne.ProgressionCallback` for the available arguments). (Default value = None, meaning default color setting and progress bar) callbacks (List[~poutyne.Callback]): List of callbacks that will be called during testing. (Default value = None) dataloader_kwargs (dict, optional): Keyword arguments to pass to the PyTorch dataloaders created internally. Returns: Depends on the value of ``concatenate_returns``. By default, (``concatenate_returns`` is true), the data structures (tensor, tuple, list, dict) returned as predictions for the batches are merged together. In the merge, the tensors are converted into Numpy arrays and are then concatenated together. If ``concatenate_returns`` is false, then a list of the predictions for the batches is returned with tensors converted into Numpy arrays. See: :class:`~torch.utils.data.DataLoader` for details on ``batch_size``, ``num_workers`` and ``collate_fn``. """ if dataloader_kwargs is None: dataloader_kwargs = {} dataloader_kwargs = { 'batch_size': batch_size, 'num_workers': num_workers, 'collate_fn': collate_fn, **dataloader_kwargs, } generator = DataLoader(dataset, **dataloader_kwargs) return self.predict_generator( generator, steps=steps, has_ground_truth=has_ground_truth, return_ground_truth=return_ground_truth, concatenate_returns=concatenate_returns, convert_to_numpy=convert_to_numpy, verbose=verbose, progress_options=progress_options, callbacks=callbacks, )
[docs] def predict_generator( self, generator, *, steps=None, has_ground_truth=False, return_ground_truth=False, concatenate_returns=True, convert_to_numpy=True, verbose=True, progress_options: Union[dict, None] = None, callbacks=None, ) -> Any: """ Returns the predictions of the network given batches of samples ``x``, where the tensors are converted into Numpy arrays. Args: generator: Generator-like object for the dataset. The generator must yield a batch of samples. See the :func:`fit_generator()` method for details on the types of generators supported. This should only yield input data ``x`` and NOT the target ``y``, unless `has_ground_truth` is true. steps (int, optional): Number of iterations done on ``generator``. (Defaults the number of steps needed to see the entire dataset) has_ground_truth (bool, optional): Whether the generator yields the target ``y``. Automatically set to true if `return_ground_truth` is true. (Default value = False) return_ground_truth (bool, optional): Whether to return the ground truths. If true, automatically set `has_ground_truth` to true. (Default value = False) concatenate_returns (bool, optional): Whether to concatenate the predictions or the ground truths when returning them. (Default value = True) convert_to_numpy (bool, optional): Whether to convert the predictions or ground truths into Numpy Arrays. (Default value = True) verbose (bool): Whether to display the progress of the evaluation. (Default value = True) progress_options (dict, optional): Keyword arguments to pass to the default progression callback used in Poutyne (See :class:`~poutyne.ProgressionCallback` for the available arguments). (Default value = None, meaning default color setting and progress bar) callbacks (List[~poutyne.Callback]): List of callbacks that will be called during testing. (Default value = None) Returns: Depends on the value of ``concatenate_returns``. By default, (``concatenate_returns`` is true), the data structures (tensor, tuple, list, dict) returned as predictions for the batches are merged together. In the merge, the tensors are converted into Numpy arrays and are then concatenated together. If ``concatenate_returns`` is false, then a list of the predictions for the batches is returned with tensors converted into Numpy arrays. """ # pylint: disable=too-many-locals has_ground_truth = has_ground_truth or return_ground_truth if steps is None and hasattr(generator, '__len__'): steps = len(generator) pred_y = [] if return_ground_truth: true_y = [] callbacks = [] if callbacks is None else callbacks if verbose: progress_options = {} if progress_options is None else progress_options callbacks = [ProgressionCallback(**progress_options)] + callbacks callback_list = CallbackList(callbacks) callback_list.set_model(self) callback_list.set_params({'steps': steps}) predict_begin_time = timeit.default_timer() with self._set_training_mode(False): callback_list.on_predict_begin({}) time_since_last_batch = timeit.default_timer() for step, batch in _get_step_iterator(steps, generator): callback_list.on_predict_batch_begin(step, {}) if has_ground_truth: x, y = self.preprocess_input(*batch) else: x = self.preprocess_input(batch) batch_pred = self.network(*x) pred_y.append(torch_to_numpy(batch_pred) if convert_to_numpy else batch_pred) if return_ground_truth: true_y.append(torch_to_numpy(y) if convert_to_numpy else y) batch_end_time = timeit.default_timer() batch_total_time = batch_end_time - time_since_last_batch time_since_last_batch = batch_end_time callback_list.on_predict_batch_end(step, {'batch': step, 'time': batch_total_time}) if concatenate_returns: pred_y = _concat(pred_y) if return_ground_truth: true_y = _concat(true_y) callback_list.on_predict_end({'time': timeit.default_timer() - predict_begin_time}) if return_ground_truth: return pred_y, true_y return pred_y
[docs] def predict_on_batch(self, x, *, convert_to_numpy=True) -> Any: """ Returns the predictions of the network given a batch ``x``, where the tensors are converted into Numpy arrays. Args: x: Input data as a batch. convert_to_numpy (bool, optional): Whether to convert the predictions into Numpy Arrays. (Default value = True) Returns: Return the predictions in the format outputted by the model. """ with self._set_training_mode(False): x = self.preprocess_input(x) y_pred = self.network(*x) return torch_to_numpy(y_pred) if convert_to_numpy else y_pred
[docs] def evaluate( self, x, y, *, batch_size=32, return_pred=False, return_dict_format=False, convert_to_numpy=True, callbacks=None, verbose=True, progress_options: Union[dict, None] = None, dataloader_kwargs=None, ) -> Tuple: """ Computes the loss and the metrics of the network on batches of samples and optionally returns the predictions. Args: x (Union[~torch.Tensor, ~numpy.ndarray] or Union[tuple, list] of Union[~torch.Tensor, ~numpy.ndarray]): Input to the model. Union[Tensor, ndarray] if the model has a single input. Union[tuple, list] of Union[Tensor, ndarray] if the model has multiple inputs. y (Union[~torch.Tensor, ~numpy.ndarray] or Union[tuple, list] of Union[~torch.Tensor, ~numpy.ndarray]): Target, corresponding ground truth. Union[Tensor, ndarray] if the model has a single output. Union[tuple, list] of Union[Tensor, ndarray] if the model has multiple outputs. batch_size (int): Number of samples given to the network at one time. (Default value = 32) return_pred (bool, optional): Whether to return the predictions. (Default value = False) return_dict_format (bool, optional): Whether to return the loss and metrics in a dict format or not. (Default value = False) convert_to_numpy (bool, optional): Whether to convert the predictions into Numpy Arrays when ``return_pred`` is true. (Default value = True) callbacks (List[~poutyne.Callback]): List of callbacks that will be called during testing. (Default value = None) verbose (bool): Whether to display the progress of the evaluation. (Default value = True) progress_options (dict, optional): Keyword arguments to pass to the default progression callback used in Poutyne (See :class:`~poutyne.ProgressionCallback` for the available arguments). (Default value = None, meaning default color setting and progress bar) dataloader_kwargs (dict, optional): Keyword arguments to pass to the PyTorch dataloaders created internally. Returns: Tuple ``(loss, metrics, pred_y)`` where specific elements are omitted if not applicable. If only loss is applicable, then it is returned as a float. ``metrics`` is a Numpy array of size ``n``, where ``n`` is the number of batch metrics plus the number of epoch metrics if ``n > 1``. If ``n == 1``, then ``metrics`` is a float. If ``n == 0``, the ``metrics`` is omitted. The first elements of ``metrics`` are the batch metrics and are followed by the epoch metrics. See the :func:`~Model.fit_generator()` method for examples with batch metrics and epoch metrics. If ``return_pred`` is True, ``pred_y`` is the list of the predictions of each batch with tensors converted into Numpy arrays. It is otherwise omitted. If ``return_dict_format`` is True, then ``loss, metrics`` are replaced by a dictionary as passed to :func:`~poutyne.Callback.on_test_end()`. """ dataset = self._dataset_from_data((x, y)) return self.evaluate_dataset( dataset, batch_size=batch_size, return_pred=return_pred, return_dict_format=return_dict_format, concatenate_returns=True, convert_to_numpy=convert_to_numpy, callbacks=callbacks, verbose=verbose, progress_options=progress_options, dataloader_kwargs=dataloader_kwargs, )
[docs] def evaluate_dataset( self, dataset, *, batch_size=32, steps=None, return_pred=False, return_ground_truth=False, return_dict_format=False, concatenate_returns=True, convert_to_numpy=True, callbacks=None, num_workers=0, collate_fn=None, dataloader_kwargs=None, verbose=True, progress_options: Union[dict, None] = None, ) -> Tuple: # pylint: disable=too-many-locals """ Computes the loss and the metrics of the network on batches of samples and optionally returns the predictions. Args: dataset (~torch.utils.data.Dataset): Dataset. batch_size (int): Number of samples given to the network at one time. (Default value = 32) steps (int, optional): Number of batches used for evaluation. (Defaults the number of steps needed to see the entire dataset) return_pred (bool, optional): Whether to return the predictions. (Default value = False) return_ground_truth (bool, optional): Whether to return the ground truths. (Default value = False) return_dict_format (bool, optional): Whether to return the loss and metrics in a dict format or not. (Default value = False) concatenate_returns (bool, optional): Whether to concatenate the predictions or the ground truths when returning them. (Default value = True) convert_to_numpy (bool, optional): Whether to convert the predictions or ground truths into Numpy Arrays when ``return_pred`` or ``return_ground_truth`` are true. (Default value = True) callbacks (List[~poutyne.Callback]): List of callbacks that will be called during testing. (Default value = None) num_workers (int, optional): how many subprocesses to use for data loading. ``0`` means that the data will be loaded in the main process. (Default value = 0) collate_fn (Callable, optional): merges a list of samples to form a mini-batch of Tensor(s). Used when using batched loading from a map-style dataset. dataloader_kwargs (dict, optional): Keyword arguments to pass to the PyTorch dataloaders created internally. verbose (bool): Whether to display the progress of the evaluation. (Default value = True) progress_options (dict, optional): Keyword arguments to pass to the default progression callback used in Poutyne (See :class:`~poutyne.ProgressionCallback` for the available arguments). (Default value = None, meaning default color setting and progress bar) Returns: Tuple ``(loss, metrics, pred_y)`` where specific elements are omitted if not applicable. If only loss is applicable, then it is returned as a float. ``metrics`` is a Numpy array of size ``n``, where ``n`` is the number of batch metrics plus the number of epoch metrics if ``n > 1``. If ``n == 1``, then ``metrics`` is a float. If ``n == 0``, the ``metrics`` is omitted. The first elements of ``metrics`` are the batch metrics and are followed by the epoch metrics. See the :func:`~Model.fit_generator()` method for examples with batch metrics and epoch metrics. If ``return_pred`` is True, ``pred_y`` is the list of the predictions of each batch with tensors converted into Numpy arrays. It is otherwise omitted. If ``return_dict_format`` is True, then ``loss, metrics`` are replaced by a dictionary as passed to :func:`~poutyne.Callback.on_test_end()`. See: :class:`~torch.utils.data.DataLoader` for details on ``batch_size``, ``num_workers`` and ``collate_fn``. """ if dataloader_kwargs is None: dataloader_kwargs = {} dataloader_kwargs = { 'batch_size': batch_size, 'num_workers': num_workers, 'collate_fn': collate_fn, **dataloader_kwargs, } generator = DataLoader(dataset, **dataloader_kwargs) return self.evaluate_generator( generator, steps=steps, return_pred=return_pred, return_ground_truth=return_ground_truth, return_dict_format=return_dict_format, concatenate_returns=concatenate_returns, convert_to_numpy=convert_to_numpy, callbacks=callbacks, verbose=verbose, progress_options=progress_options, )
[docs] def evaluate_generator( self, generator, *, steps=None, return_pred=False, return_ground_truth=False, return_dict_format=False, concatenate_returns=True, convert_to_numpy=True, verbose=True, progress_options: Union[dict, None] = None, callbacks=None, ) -> Tuple: # pylint: disable=too-many-locals """ Computes the loss and the metrics of the network on batches of samples and optionally returns the predictions. Args: generator: Generator-like object for the dataset. See the :func:`~Model.fit_generator()` method for details on the types of generators supported. steps (int, optional): Number of iterations done on ``generator``. (Defaults the number of steps needed to see the entire dataset) return_pred (bool, optional): Whether to return the predictions. (Default value = False) return_ground_truth (bool, optional): Whether to return the ground truths. (Default value = False) return_dict_format (bool, optional): Whether to return the loss and metrics in a dict format or not. (Default value = False) convert_to_numpy (bool, optional): Whether to convert the predictions or ground truths into Numpy Arrays when ``return_pred`` or ``return_ground_truth`` are true. (Default value = True) concatenate_returns (bool, optional): Whether to concatenate the predictions or the ground truths when returning them. (Default value = True) verbose (bool): Whether to display the progress of the evaluation. (Default value = True) progress_options (dict, optional): Keyword arguments to pass to the default progression callback used in Poutyne (See :class:`~poutyne.ProgressionCallback` for the available arguments). (Default value = None, meaning default color setting and progress bar) callbacks (List[~poutyne.Callback]): List of callbacks that will be called during testing. (Default value = None) Returns: Tuple ``(loss, metrics, pred_y, true_y)`` where specific elements are omitted if not applicable. If only loss is applicable, then it is returned as a float. ``metrics`` is a Numpy array of size ``n``, where ``n`` is the number of batch metrics plus the number of epoch metrics if ``n > 1``. If ``n == 1``, then ``metrics`` is a float. If ``n == 0``, the ``metrics`` is omitted. The first elements of ``metrics`` are the batch metrics and are followed by the epoch metrics. If ``return_pred`` is True, ``pred_y`` is the predictions returned as in the :func:`predict_generator()` method. It is otherwise ommited. If ``return_ground_truth`` is True, ``true_y`` is the ground truths returned as in the :func:`predict_generator()` method. It is otherwise omitted. If ``return_dict_format`` is True, then ``loss, metrics`` are replaced by a dictionary as passed to :func:`~poutyne.Callback.on_test_end()`. Example: With no metrics: .. code-block:: python model = Model(pytorch_network, optimizer, loss_function, batch_metrics=None) loss = model.evaluate_generator(test_generator) With only one batch metric: .. code-block:: python model = Model(pytorch_network, optimizer, loss_function, batch_metrics=[my_metric_fn]) loss, my_metric = model.evaluate_generator(test_generator) With several batch metrics: .. code-block:: python model = Model(pytorch_network, optimizer, loss_function, batch_metrics=[my_metric1_fn, my_metric2_fn]) loss, (my_metric1, my_metric2) = model.evaluate_generator(test_generator) With one batch metric and one epoch metric: .. code-block:: python model = Model(pytorch_network, optimizer, loss_function, batch_metrics=[my_metric_fn], epoch_metrics=[MyEpochMetricClass()]) loss, (my_batch_metric, my__epoch_metric) = model.evaluate_generator(test_generator) With batch metrics and ``return_pred`` flag: .. code-block:: python model = Model(pytorch_network, optimizer, loss_function, batch_metrics=[my_metric1_fn, my_metric2_fn]) loss, (my_metric1, my_metric2), pred_y = model.evaluate_generator( test_generator, return_pred=True ) With batch metrics, ``return_pred`` and ``return_ground_truth`` flags: .. code-block:: python model = Model(pytorch_network, optimizer, loss_function, batch_metrics=[my_metric1_fn, my_metric2_fn]) loss, (my_metric1, my_metric2), pred_y, true_y = model.evaluate_generator( test_generator, return_pred=True, return_ground_truth=True ) With ``return_dict_format``: .. code-block:: python model = Model(pytorch_network, optimizer, loss_function, batch_metrics=[my_metric_fn]) logs = model.evaluate_generator(test_generator, return_dict_format=True) """ callbacks = [] if callbacks is None else callbacks if verbose: progress_options = {} if progress_options is None else progress_options callbacks = [ProgressionCallback(**progress_options)] + callbacks if steps is None and hasattr(generator, '__len__'): steps = len(generator) callback_list = CallbackList(callbacks) callback_list.set_model(self) callback_list.set_params({'steps': steps}) callback_list.on_test_begin({}) step_iterator = StepIterator( generator, steps, self.batch_metrics_names, self.epoch_metrics_names, callback_list, mode="test" ) test_begin_time = timeit.default_timer() pred_y, true_y = self._validate( step_iterator, return_pred=return_pred, return_ground_truth=return_ground_truth, convert_to_numpy=convert_to_numpy, ) step_iterator.loss = self._get_loss() step_iterator.batch_metrics = self._get_batch_metrics() step_iterator.epoch_metrics = self._get_epoch_metrics() test_total_time = timeit.default_timer() - test_begin_time if return_pred and concatenate_returns: pred_y = _concat(pred_y) if return_ground_truth and concatenate_returns: true_y = _concat(true_y) test_metrics_log = {'time': test_total_time} test_metrics_log.update(step_iterator.metrics_logs) callback_list.on_test_end(test_metrics_log) if return_dict_format: return self._format_truth_pred_return((test_metrics_log,), pred_y, return_pred, true_y, return_ground_truth) metrics = np.concatenate((step_iterator.batch_metrics, step_iterator.epoch_metrics)) return self._format_loss_metrics_return( step_iterator.loss, metrics, pred_y, return_pred, true_y, return_ground_truth )
[docs] def evaluate_on_batch(self, x, y, *, return_pred=False, return_dict_format=False, convert_to_numpy=True) -> Tuple: """ Computes the loss and the metrics of the network on a single batch of samples and optionally returns the predictions. Args: x: Input data as a batch. y: Target data as a batch. return_pred (bool, optional): Whether to return the predictions for ``batch``. (Default value = False) return_dict_format (bool, optional): Whether to return the loss and metrics in a dict format or not. (Default value = False) convert_to_numpy (bool, optional): Whether to convert the predictions into Numpy Arrays when ``return_pred`` is true. (Default value = True) Returns: Tuple ``(loss, metrics, pred_y)`` where specific elements are omitted if not applicable. If only loss is applicable, then it is returned as a float. `metrics`` is a Numpy array of size ``n``, where ``n`` is the number of metrics if ``n > 1``. If ``n == 1``, then ``metrics`` is a float. If ``n == 0``, the ``metrics`` is omitted. If ``return_pred`` is True, ``pred_y`` is the list of the predictions of each batch with tensors converted into Numpy arrays. It is otherwise omitted. If ``return_dict_format`` is True, then ``loss, metrics`` are replaced by a dictionary. """ with self._set_training_mode(False): loss, batch_metrics, pred_y = self._compute_loss_and_metrics( x, y, return_pred=return_pred, convert_to_numpy=convert_to_numpy ) if return_dict_format: logs = dict(loss=loss) logs.update(zip(self.batch_metrics_names, batch_metrics)) return self._format_truth_pred_return((logs,), pred_y, return_pred) return self._format_loss_metrics_return(loss, batch_metrics, pred_y, return_pred)
def _validate(self, step_iterator, return_pred=False, return_ground_truth=False, convert_to_numpy=True): pred_list = None true_list = None if return_pred: pred_list = [] if return_ground_truth: true_list = [] with self._set_training_mode(False): for step, (x, y) in step_iterator: step.loss, step.batch_metrics, pred_y = self._compute_loss_and_metrics( x, y, return_pred=return_pred, convert_to_numpy=convert_to_numpy ) if return_pred: pred_list.append(pred_y) if return_ground_truth: true_list.append(torch_to_numpy(y) if convert_to_numpy else y) step.size = get_batch_size(x, y) return pred_list, true_list def _compute_loss_and_metrics(self, x, y, *, return_loss_tensor=False, return_pred=False, convert_to_numpy=True): x, y = self.preprocess_input(x, y) if self.other_device is not None: pred_y = torch.nn.parallel.data_parallel(self.network, x, [self.device] + self.other_device) else: pred_y = self.network(*x) loss = self.loss_function(pred_y, y) if not return_loss_tensor: loss = float(loss) with torch.no_grad(): batch_metrics = self._compute_batch_metrics(pred_y, y) for epoch_metric in self.epoch_metrics: epoch_metric.update(pred_y, y) if return_pred: pred_y = torch_to_numpy(pred_y) if convert_to_numpy else pred_y else: pred_y = None return loss, batch_metrics, pred_y def _compute_batch_metrics(self, pred_y, y): batch_metrics = [metric(pred_y, y) for metric in self.batch_metrics] return self._compute_metric_array(batch_metrics, self.original_batch_metrics_names) def _get_loss(self): loss = self.loss_function.compute().item() self.loss_function.reset() return loss def _get_batch_metrics(self): metrics = [batch_metric.compute() for batch_metric in self.batch_metrics] for batch_metric in self.batch_metrics: batch_metric.reset() return self._compute_metric_array(metrics, self.original_batch_metrics_names) def _get_epoch_metrics(self): metrics = [epoch_metric.compute() for epoch_metric in self.epoch_metrics] for epoch_metric in self.epoch_metrics: epoch_metric.reset() return self._compute_metric_array(metrics, self.original_epoch_metrics_names) def _compute_metric_array(self, metrics_list, names_list): def _get_metric(names, metrics): names = [names] if isinstance(names, str) else names values = None if (torch.is_tensor(metrics) or isinstance(metrics, np.ndarray)) and len(metrics.shape) == 0: values = [float(metrics)] elif isinstance(metrics, Mapping): values = [float(metrics[name]) for name in names] elif isinstance(metrics, Iterable): values = [float(metric) for metric in metrics] else: values = [float(metrics)] return values return np.array( [metric for names, metrics in zip(names_list, metrics_list) for metric in _get_metric(names, metrics)] )
[docs] def load_weights(self, f, strict=True): """ Loads the weights saved using the :func:`torch.save()` method or the :func:`save_weights()` method of this class. Contrary to :func:`torch.load()`, the weights are not transferred to the device from which they were saved from. In other words, the PyTorch module will stay on the same device it already is on. Args: f: File-like object (has to implement fileno that returns a file descriptor) or string containing a file name. Returns: ``NamedTuple`` with ``missing_keys`` and ``unexpected_keys`` fields: * **missing_keys** is a list of str containing the missing keys * **unexpected_keys** is a list of str containing the unexpected keys """ return self.set_weights(torch.load(f, map_location='cpu'), strict=strict)
[docs] def save_weights(self, f): """ Saves the weights of the current network. Args: f: File-like object (has to implement fileno that returns a file descriptor) or string containing a file name. """ torch.save(self.network.state_dict(), f)
[docs] def load_optimizer_state(self, f): """ Loads the optimizer state saved using the :func:`torch.save()` method or the :func:`save_optimizer_state()` method of this class. Args: f: File-like object (has to implement fileno that returns a file descriptor) or string containing a file name. """ self.optimizer.load_state_dict(torch.load(f, map_location='cpu'))
[docs] def save_optimizer_state(self, f): """ Saves the state of the current optimizer. Args: f: File-like object (has to implement fileno that returns a file descriptor) or string containing a file name. """ torch.save(self.optimizer.state_dict(), f)
def _transfer_optimizer_state_to_right_device(self): if self.optimizer is None: return # Since the optimizer state is loaded on CPU, it will crash when the optimizer will receive # gradient for parameters not on CPU. Thus, for each parameter, we transfer its state in the # optimizer on the same device as the parameter itself just before starting the # optimization. for group in self.optimizer.param_groups: for p in group['params']: if p in self.optimizer.state: for _, v in self.optimizer.state[p].items(): if torch.is_tensor(v) and p.device != v.device: v.data = v.data.to(p.device) def _get_named_optimizer_attrs(self): param_to_name = {param: name for name, param in self.network.named_parameters()} param_name_groups = [] for group in self.optimizer.param_groups: param_name_groups.append([param_to_name[param] for param in group['params']]) named_state = {param_to_name[param]: state for param, state in self.optimizer.state.items()} return param_name_groups, named_state def _set_named_optimizer_attrs(self, param_name_groups, named_state): name_to_param = dict(self.network.named_parameters()) for param_name_group, optim_group in zip(param_name_groups, self.optimizer.param_groups): optim_group['params'] = [ name_to_param[param_name] if optim_param is not name_to_param[param_name] else optim_param for param_name, optim_param in zip(param_name_group, optim_group['params']) ] self.optimizer.state = defaultdict(dict, {name_to_param[name]: state for name, state in named_state.items()}) @contextlib.contextmanager def _update_optim_device(self): if self.optimizer is None: yield return param_name_groups, named_state = self._get_named_optimizer_attrs() try: yield finally: self._set_named_optimizer_attrs(param_name_groups, named_state)
[docs] def get_weights(self): """ Returns a dictionary containing the parameters of the network. The tensors are just references to the parameters. To get copies of the weights, see the :func:`get_weight_copies()` method. """ return self.network.state_dict()
[docs] def get_weight_copies(self): """ Returns a dictionary containing copies of the parameters of the network. """ weights = self.get_weights() for k in weights.keys(): weights[k] = weights[k].cpu().clone() return weights
[docs] def set_weights(self, weights, strict=True): """ Modifies the weights of the network with the given weights. Args: weights (dict): Weights returned by either :func:`get_weights()` or :func:`get_weight_copies()`. Returns: ``NamedTuple`` with ``missing_keys`` and ``unexpected_keys`` fields: * **missing_keys** is a list of str containing the missing keys * **unexpected_keys** is a list of str containing the unexpected keys """ return self.network.load_state_dict(weights, strict=strict)
[docs] def cuda(self, *args, **kwargs): """ Transfers the network on the GPU. The arguments are passed to the :meth:`torch.nn.Module.cuda()` method. Notice that the device is saved so that the batches can send to the right device before passing it to the network. Note: PyTorch optimizers assume that the parameters have been transferred to the right device before their creations. Furthermore, future versions of PyTorch will no longer modify the parameters of a PyTorch module in-place when transferring them to another device. See this `issue <https://github.com/pytorch/pytorch/issues/7844>`_ and this `pull request <https://github.com/pytorch/pytorch/pull/21613>`_ for details. Since Poutyne supposes that the optimizer has been initialized before the Poutyne Model, necessarily the parameters are not guaranteed to be in sync with those contained in the optimizer once the PyTorch module is transferred to another device. Thus, this method takes care of this inconsistency by updating the parameters inside the optimizer. Returns: `self`. """ with self._update_optim_device(): self.network.cuda(*args, **kwargs) # Assuming the PyTorch module has at least one parameter. self.device = next(self.network.parameters()).device self.other_device = None self._transfer_loss_and_metrics_modules_to_right_device() return self
[docs] def cpu(self, *args, **kwargs): """ Transfers the network on the CPU. The arguments are passed to the :meth:`torch.nn.Module.cpu()` method. Notice that the device is saved so that the batches can send to the right device before passing it to the network. Note: PyTorch optimizers assume that the parameters have been transferred to the right device before their creations. Furthermore, future versions of PyTorch will no longer modify the parameters of a PyTorch module in-place when transferring them to another device. See this `issue <https://github.com/pytorch/pytorch/issues/7844>`_ and this `pull request <https://github.com/pytorch/pytorch/pull/21613>`_ for details. Since Poutyne supposes that the optimizer has been initialized before the Poutyne Model, necessarily the parameters are not guaranteed to be in sync with those contained in the optimizer once the PyTorch module is transferred to another device. Thus, this method takes care of this inconsistency by updating the parameters inside the optimizer. Returns: `self`. """ with self._update_optim_device(): self.network.cpu(*args, **kwargs) # Assuming the PyTorch module has at least one parameter. self.device = next(self.network.parameters()).device self.other_device = None self._transfer_loss_and_metrics_modules_to_right_device() return self
[docs] def to(self, device): """ Transfer the network on the specified device. The device is saved so that the batches can send to the right device before passing it to the network. One could also use multi GPUs by using either a list of devices or "all" to take all the available devices. In both cases, the training loop will use the `~torch.nn.parallel.data_parallel()` function for single node multi GPUs parallel process and the main device is the first device. Note: PyTorch optimizers assume that the parameters have been transferred to the right device before their creations. Furthermore, future versions of PyTorch will no longer modify the parameters of a PyTorch module in-place when transferring them to another device. See this `issue <https://github.com/pytorch/pytorch/issues/7844>`_ and this `pull request <https://github.com/pytorch/pytorch/pull/21613>`_ for details. Since Poutyne supposes that the optimizer has been initialized before the Poutyne Model, necessarily the parameters are not guaranteed to be in sync with those contained in the optimizer once the PyTorch module is transferred to another device. Thus, this method takes care of this inconsistency by updating the parameters inside the optimizer. Args: device (Union[torch.torch.device, List[torch.torch.device]]): The device to which the network is sent or the list of device to which the network is sent. Returns: `self`. """ self.other_device = None if isinstance(device, List) or device == "all": if device == "all": device = [f"cuda:{device}" for device in range(torch.cuda.device_count())] self.device = device[0] if len(device) > 1: # case where we use all when having only one GPU or using a list of one device self.other_device = device[1:] else: self.device = device with self._update_optim_device(): self.network.to(self.device) self._transfer_loss_and_metrics_modules_to_right_device() return self
def _transfer_loss_and_metrics_modules_to_right_device(self): if isinstance(self.loss_function, torch.nn.Module): self.loss_function.to(self.device) for metric in self.batch_metrics + self.epoch_metrics: if isinstance(metric, torch.nn.Module): metric.to(self.device) return self