""" Author: Mélanie Gaillochet Date: 2021-05-31 """ import random import re import time import numpy as np import torch import torch.nn as nn from sklearn.metrics import precision_score, recall_score, f1_score, accuracy_score, \ classification_report from Utils.utils import add_dic_values, default0, emptylist, add_dic_values, to_onehot, \ find_best_target_slice, \ find_worst_slice, emptylist, round_dic_values, convert_time, defaultinf, \ logits_to_onehot, default0, normalize def sigmoid_rampup(current, rampup_length): """ Exponential rampup from https://arxiv.org/abs/1610.02242 Code from # Copyright (c) 2018, Curious AI Ltd. All rights reserved. # # This work is licensed under the Creative Commons Attribution-NonCommercial # 4.0 International License. To view a copy of this license, visit # http://creativecommons.org/licenses/by-nc/4.0/ or send a letter to # Creative Commons, PO Box 1866, Mountain View, CA 94042, USA. The sigmoid rampup is a Gaussian weighting function that slowly increases from close to 0 to 1 :param current (int): current training step or epoch (int) :param rampup_length (int): rampup length defining the maximum step or epoch after which the function yields 1 """ if rampup_length == 0: return 1.0 else: current = np.clip(current, 0.0, rampup_length) phase = 1.0 - current / rampup_length return float(np.exp(-5.0 * phase * phase)) def softmax_with_temp(input, dim=1, t=1.0): """ Softmax function with temperature """ ex = torch.exp(input/t) print('ex {}'.format(ex.shape)) sum_ex = torch.sum(ex, dim=dim) print('sum_ex {}'.format(sum_ex.shape)) return ex / sum_ex def compute_metrics(output, onehot_target, metric_dic, model_norm_fct, out_channels): """ We create a dictionary with the metrics given in metric_enums :param output: :param onehot_target: :return: """ acc_dic = {} for metric_name, cur_metric in metric_dic.items(): # We convert the output logits to binary predictions for each channel onehot_pred = logits_to_onehot(output, model_norm_fct, out_channels) metric_value = cur_metric(onehot_pred, onehot_target) # If the metric value is a dictionary (ie: dice value for each channel), # then the accuracy dictionary will take in each entry separately if isinstance(metric_value, dict): for key, value in metric_value.items(): acc_dic[key] = value.detach().cpu().numpy() # Otherwise, we will just add the current metric to the dictionary else: try: acc_dic[metric_name] = metric_value.detach().cpu().numpy() except AttributeError: acc_dic[metric_name] = metric_value return acc_dic def compute_class_metrics(pred, target): """ We create a dictionary with precision, recall, f1 score and accuracy metrics :param pred: :param target: :return: """ metrics_dic = { 'precision': precision_score(target, pred, average='macro', zero_division=0), 'recall': recall_score(target, pred, average='macro', zero_division=0), 'f1': f1_score(target, pred, average='macro', zero_division=0), 'accuracy': accuracy_score(target, pred) } return metrics_dic def compute_mean_value(input, num_items): """ We compute the mean value of a float or a dictionary :return: """ if isinstance(input, float): mean_input = input / num_items elif isinstance(input, dict): mean_input = {} for key in input: mean_input[key] = input[key] / num_items return mean_input def print_epoch_update(epoch, train_loss_dic, val_loss_dic, model_train_acc_dic, model_val_acc_dic, epoch_start_time, lr_dic, best_losses_dic='', best_model_val_acc=''): """ We print the train and validation losses/metrics """ # We round up all the values nice_train_loss_dic = round_dic_values(train_loss_dic, 4) nice_model_train_acc_dic = round_dic_values(model_train_acc_dic, 4) nice_val_loss_dic = round_dic_values(val_loss_dic, 4) nice_model_val_acc_dic = round_dic_values(model_val_acc_dic, 4) epoch_end_time = time.time() minutes, sec = convert_time(epoch_end_time - epoch_start_time) if best_losses_dic != '' and best_model_val_acc != '': print('Epoch {} - LR: {} - Train losses: {}, Train acc: {} \n' 'Val loss: {} (model best: {:.4f}), Val acc: {} (best: {:.4f}) \n - ' 'Time taken: {}min, {}sec'.format(epoch, lr_dic, nice_train_loss_dic, nice_model_train_acc_dic, nice_val_loss_dic, best_losses_dic['model'], nice_model_val_acc_dic, best_model_val_acc, minutes, sec)) else: print('Epoch {} - LR: {} - Train losses: {}, Train acc: {} \n' 'Val loss: {}, Val acc: {} \n - ' 'Time taken: {}min, {}sec'.format(epoch, lr_dic, nice_train_loss_dic, nice_model_train_acc_dic, nice_val_loss_dic, nice_model_val_acc_dic, minutes, sec)) def apply_dropout(module): """ This function activates dropout modules. Dropout module should have been defined as nn.Dropout Args: m ([type]): [description] """ if type(module) == nn.Dropout: module.train()