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| from __future__ import annotations |
|
|
| import torch |
| from torch import Tensor, nn |
|
|
| from monai.inferers import SlidingWindowInferer |
|
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|
| def ensure_dict_value_to_list_(head_outputs: dict[str, list[Tensor]], keys: list[str] | None = None) -> None: |
| """ |
| An in-place function. We expect ``head_outputs`` to be Dict[str, List[Tensor]]. |
| Yet if it is Dict[str, Tensor], this func converts it to Dict[str, List[Tensor]]. |
| It will be modified in-place. |
| |
| Args: |
| head_outputs: a Dict[str, List[Tensor]] or Dict[str, Tensor], will be modifier in-place |
| keys: the keys in head_output that need to have value type List[Tensor]. If not provided, will use head_outputs.keys(). |
| """ |
| if keys is None: |
| keys = list(head_outputs.keys()) |
|
|
| for k in keys: |
| value_k = head_outputs[k] |
| |
| if isinstance(value_k, Tensor): |
| head_outputs[k] = [value_k] |
| elif isinstance(value_k[0], Tensor): |
| head_outputs[k] = list(value_k) |
| else: |
| raise ValueError("The output of network should be Dict[str, List[Tensor]] or Dict[str, Tensor].") |
|
|
|
|
| def check_dict_values_same_length(head_outputs: dict[str, list[Tensor]], keys: list[str] | None = None) -> None: |
| """ |
| We expect the values in ``head_outputs``: Dict[str, List[Tensor]] to have the same length. |
| Will raise ValueError if not. |
| |
| Args: |
| head_outputs: a Dict[str, List[Tensor]] or Dict[str, Tensor] |
| keys: the keys in head_output that need to have values (List) with same length. |
| If not provided, will use head_outputs.keys(). |
| """ |
| if keys is None: |
| keys = list(head_outputs.keys()) |
|
|
| num_output_levels_list: list[int] = [len(head_outputs[k]) for k in keys] |
| num_output_levels = torch.unique(torch.tensor(num_output_levels_list)) |
| if len(num_output_levels) != 1: |
| raise ValueError(f"The values in the input dict should have the same length, Got {num_output_levels_list}.") |
|
|
|
|
| def _network_sequence_output(images: Tensor, network: nn.Module, keys: list[str] | None = None) -> list[Tensor]: |
| """ |
| Decompose the output of network (a dict) into a list. |
| |
| Args: |
| images: input of the network |
| keys: the keys in the network output whose values will be output in this func. |
| If not provided, will use all keys. |
| |
| Return: |
| network output values concat to a single List[Tensor] |
| """ |
| head_outputs = network(images) |
|
|
| |
| if isinstance(head_outputs, (tuple, list)): |
| return list(head_outputs) |
|
|
| |
| ensure_dict_value_to_list_(head_outputs, keys) |
| if keys is None: |
| keys = list(head_outputs.keys()) |
| check_dict_values_same_length(head_outputs, keys) |
| head_outputs_sequence = [] |
| for k in keys: |
| head_outputs_sequence += list(head_outputs[k]) |
| return head_outputs_sequence |
|
|
|
|
| def predict_with_inferer( |
| images: Tensor, network: nn.Module, keys: list[str], inferer: SlidingWindowInferer | None = None |
| ) -> dict[str, list[Tensor]]: |
| """ |
| Predict network dict output with an inferer. Compared with directly output network(images), |
| it enables a sliding window inferer that can be used to handle large inputs. |
| |
| Args: |
| images: input of the network, Tensor sized (B, C, H, W) or (B, C, H, W, D) |
| network: a network that takes an image Tensor sized (B, C, H, W) or (B, C, H, W, D) as input |
| and outputs a dictionary Dict[str, List[Tensor]] or Dict[str, Tensor]. |
| keys: the keys in the output dict, should be network output keys or a subset of them. |
| inferer: a SlidingWindowInferer to handle large inputs. |
| |
| Return: |
| The predicted head_output from network, a Dict[str, List[Tensor]] |
| |
| Example: |
| .. code-block:: python |
| |
| # define a naive network |
| import torch |
| import monai |
| class NaiveNet(torch.nn.Module): |
| def __init__(self, ): |
| super().__init__() |
| |
| def forward(self, images: torch.Tensor): |
| return {"cls": torch.randn(images.shape), "box_reg": [torch.randn(images.shape)]} |
| |
| # create a predictor |
| network = NaiveNet() |
| inferer = monai.inferers.SlidingWindowInferer( |
| roi_size = (128, 128, 128), |
| overlap = 0.25, |
| cache_roi_weight_map = True, |
| ) |
| network_output_keys=["cls", "box_reg"] |
| images = torch.randn((2, 3, 512, 512, 512)) # a large input |
| head_outputs = predict_with_inferer(images, network, network_output_keys, inferer) |
| |
| """ |
| if inferer is None: |
| raise ValueError("Please set inferer as a monai.inferers.inferer.SlidingWindowInferer(*)") |
| head_outputs_sequence = inferer(images, _network_sequence_output, network, keys=keys) |
| num_output_levels: int = len(head_outputs_sequence) // len(keys) |
| head_outputs = {} |
| for i, k in enumerate(keys): |
| head_outputs[k] = list(head_outputs_sequence[num_output_levels * i : num_output_levels * (i + 1)]) |
| return head_outputs |
|
|