exo/test/external/mlperf_unet3d/dice.py

# https://github.com/mlcommons/training/blob/master/image_segmentation/pytorch/model/losses.py

import torch
import torch.nn as nn
import torch.nn.functional as F


class Dice:
  def __init__(self,
               to_onehot_y: bool = True,
               to_onehot_x: bool = False,
               use_softmax: bool = True,
               use_argmax: bool = False,
               include_background: bool = False,
               layout: str = "NCDHW"):
    self.include_background = include_background
    self.to_onehot_y = to_onehot_y
    self.to_onehot_x = to_onehot_x
    self.use_softmax = use_softmax
    self.use_argmax = use_argmax
    self.smooth_nr = 1e-6
    self.smooth_dr = 1e-6
    self.layout = layout

  def __call__(self, prediction, target):
    if self.layout == "NCDHW":
      channel_axis = 1
      reduce_axis = list(range(2, len(prediction.shape)))
    else:
      channel_axis = -1
      reduce_axis = list(range(1, len(prediction.shape) - 1))
    num_pred_ch = prediction.shape[channel_axis]

    if self.use_softmax:
      prediction = torch.softmax(prediction, dim=channel_axis)
    elif self.use_argmax:
      prediction = torch.argmax(prediction, dim=channel_axis)

    if self.to_onehot_y:
      target = to_one_hot(target, self.layout, channel_axis)

    if self.to_onehot_x:
      prediction = to_one_hot(prediction, self.layout, channel_axis)

    if not self.include_background:
      assert num_pred_ch > 1, \
          f"To exclude background the prediction needs more than one channel. Got {num_pred_ch}."
      if self.layout == "NCDHW":
          target = target[:, 1:]
          prediction = prediction[:, 1:]
      else:
          target = target[..., 1:]
          prediction = prediction[..., 1:]

    assert (target.shape == prediction.shape), \
        f"Target and prediction shape do not match. Target: ({target.shape}), prediction: ({prediction.shape})."

    intersection = torch.sum(target * prediction, dim=reduce_axis)
    target_sum = torch.sum(target, dim=reduce_axis)
    prediction_sum = torch.sum(prediction, dim=reduce_axis)

    return (2.0 * intersection + self.smooth_nr) / (target_sum + prediction_sum + self.smooth_dr)


def to_one_hot(array, layout, channel_axis):
  if len(array.shape) >= 5:
    array = torch.squeeze(array, dim=channel_axis)
  array = F.one_hot(array.long(), num_classes=3)
  if layout == "NCDHW":
    array = array.permute(0, 4, 1, 2, 3).float()
  return array


class DiceCELoss(nn.Module):
  def __init__(self, to_onehot_y, use_softmax, layout, include_background):
    super(DiceCELoss, self).__init__()
    self.dice = Dice(to_onehot_y=to_onehot_y, use_softmax=use_softmax, layout=layout,
                      include_background=include_background)
    self.cross_entropy = nn.CrossEntropyLoss()

  def forward(self, y_pred, y_true):
    cross_entropy = self.cross_entropy(y_pred, torch.squeeze(y_true, dim=1).long())
    dice = torch.mean(1.0 - self.dice(y_pred, y_true))
    return (dice + cross_entropy) / 2


class DiceScore:
  def __init__(self, to_onehot_y: bool = True, use_argmax: bool = True, layout: str = "NCDHW",
               include_background: bool = False):
    self.dice = Dice(to_onehot_y=to_onehot_y, to_onehot_x=True, use_softmax=False,
                     use_argmax=use_argmax, layout=layout, include_background=include_background)

  def __call__(self, y_pred, y_true):
    return torch.mean(self.dice(y_pred, y_true), dim=0)