File size: 26,086 Bytes
264b4c4 |
1 2 3 4 5 6 7 8 9 10 11 12 13 14 15 16 17 18 19 20 21 22 23 24 25 26 27 28 29 30 31 32 33 34 35 36 37 38 39 40 41 42 43 44 45 46 47 48 49 50 51 52 53 54 55 56 57 58 59 60 61 62 63 64 65 66 67 68 69 70 71 72 73 74 75 76 77 78 79 80 81 82 83 84 85 86 87 88 89 90 91 92 93 94 95 96 97 98 99 100 101 102 103 104 105 106 107 108 109 110 111 112 113 114 115 116 117 118 119 120 121 122 123 124 125 126 127 128 129 130 131 132 133 134 135 136 137 138 139 140 141 142 143 144 145 146 147 148 149 150 151 152 153 154 155 156 157 158 159 160 161 162 163 164 165 166 167 168 169 170 171 172 173 174 175 176 177 178 179 180 181 182 183 184 185 186 187 188 189 190 191 192 193 194 195 196 197 198 199 200 201 202 203 204 205 206 207 208 209 210 211 212 213 214 215 216 217 218 219 220 221 222 223 224 225 226 227 228 229 230 231 232 233 234 235 236 237 238 239 240 241 242 243 244 245 246 247 248 249 250 251 252 253 254 255 256 257 258 259 260 261 262 263 264 265 266 267 268 269 270 271 272 273 274 275 276 277 278 279 280 281 282 283 284 285 286 287 288 289 290 291 292 293 294 295 296 297 298 299 300 301 302 303 304 305 306 307 308 309 310 311 312 313 314 315 316 317 318 319 320 321 322 323 324 325 326 327 328 329 330 331 332 333 334 335 336 337 338 339 340 341 342 343 344 345 346 347 348 349 350 351 352 353 354 355 356 357 358 359 360 361 362 363 364 365 366 367 368 369 370 371 372 373 374 375 376 377 378 379 380 381 382 383 384 385 386 387 388 389 390 391 392 393 394 395 396 397 398 399 400 401 402 403 404 405 406 407 408 409 410 411 412 413 414 415 416 417 418 419 420 421 422 423 424 425 426 427 428 429 430 431 432 433 434 435 436 437 438 439 440 441 442 443 444 445 446 447 448 449 450 451 452 453 454 455 456 457 458 459 460 461 462 463 464 465 466 467 468 469 470 471 472 473 474 475 476 477 478 479 480 481 482 483 484 485 486 487 488 489 490 491 492 493 494 495 496 497 498 499 500 501 502 503 504 505 506 507 508 509 510 511 512 513 |
from fastai.data.core import *
from fastai.learner import *
from fastai.callback.schedule import *
from fastai.torch_core import *
from fastai.callback.tracker import SaveModelCallback
# from fastai.callback.gradient import GradientClipping
from pathlib import Path
from functools import partial
import math
# from fastai.callback import GradientClipping
import torch
from fastai.tabular.core import range_of
import numpy as np
import matplotlib
import matplotlib.pyplot as plt
from fastai.callback.core import Callback
from fastai.data.core import DataLoaders
import torch.nn.functional as F
# from fastai.metrics import add_metrics
import torch.nn as nn
from fastcore.utils import ifnone
import pandas as pd
from models.base_model import ClassificationModel
from models.basicconv1d import weight_init, fcn_wang, fcn, schirrmeister, sen, basic1d
from models.inception1d import inception1d
from models.resnet1d import resnet1d18, resnet1d34, resnet1d50, resnet1d101, resnet1d152, resnet1d_wang, \
wrn1d_22
from models.rnn1d import RNN1d
from utilities.timeseries_utils import TimeseriesDatasetCrops, ToTensor, aggregate_predictions
from models.xresnet1d import xresnet1d18_deeper, xresnet1d34_deeper, xresnet1d50_deeper, xresnet1d18_deep, \
xresnet1d34_deep, xresnet1d50_deep, xresnet1d18, xresnet1d34, xresnet1d101, xresnet1d50, xresnet1d152
from utilities.utils import evaluate_experiment
def add_metrics(last_metrics, new_metric):
"""
Adds a new metric to the list of last metrics.
Args:
last_metrics (list): List of previous metrics.
new_metric (float or list): New metric(s) to add.
Returns:
list: Updated list of metrics.
"""
if isinstance(new_metric, list):
return last_metrics + new_metric
else:
return last_metrics + [new_metric]
class MetricFunc(Callback):
"""Obtains score using user-supplied function func (potentially ignoring targets with ignore_idx)"""
def __init__(self, func, name="MetricFunc", ignore_idx=None, one_hot_encode_target=True, argmax_pred=False,
softmax_pred=True, flatten_target=True, sigmoid_pred=False, metric_component=None):
super().__init__()
self.metric_complete = self.func(self.y_true, self.y_pred)
self.y_true = None
self.y_pred = None
self.func = func
self.ignore_idx = ignore_idx
self.one_hot_encode_target = one_hot_encode_target
self.argmax_pred = argmax_pred
self.softmax_pred = softmax_pred
self.flatten_target = flatten_target
self.sigmoid_pred = sigmoid_pred
self.metric_component = metric_component
self.name = name
def on_epoch_begin(self, **kwargs):
pass
def on_batch_end(self, last_output, last_target, **kwargs):
# flatten everything (to make it also work for annotation tasks)
y_pred_flat = last_output.view((-1, last_output.size()[-1]))
if self.flatten_target:
last_target.view(-1)
y_true_flat = last_target
# optionally take argmax of predictions
if self.argmax_pred is True:
y_pred_flat = y_pred_flat.argmax(dim=1)
elif self.softmax_pred is True:
y_pred_flat = F.softmax(y_pred_flat, dim=1)
elif self.sigmoid_pred is True:
y_pred_flat = torch.sigmoid(y_pred_flat)
# potentially remove ignore_idx entries
if self.ignore_idx is not None:
selected_indices = (y_true_flat != self.ignore_idx).nonzero().squeeze()
y_pred_flat = y_pred_flat[selected_indices]
y_true_flat = y_true_flat[selected_indices]
y_pred_flat = to_np(y_pred_flat)
y_true_flat = to_np(y_true_flat)
if self.one_hot_encode_target is True:
y_true_flat = np.one_hot_np(y_true_flat, last_output.size()[-1])
if self.y_pred is None:
self.y_pred = y_pred_flat
self.y_true = y_true_flat
else:
self.y_pred = np.concatenate([self.y_pred, y_pred_flat], axis=0)
self.y_true = np.concatenate([self.y_true, y_true_flat], axis=0)
def on_epoch_end(self, last_metrics, **kwargs):
# access full metric (possibly multiple components) via self.metric_complete
if self.metric_component is not None:
return add_metrics(last_metrics, self.metric_complete[self.metric_component])
else:
return add_metrics(last_metrics, self.metric_complete)
def fmax_metric(targs, preds):
return evaluate_experiment(targs, preds)["Fmax"]
def auc_metric(targs, preds):
return evaluate_experiment(targs, preds)["macro_auc"]
def mse_flat(preds, targs):
return torch.mean(torch.pow(preds.view(-1) - targs.view(-1), 2))
def nll_regression(preds, targs):
# preds: bs, 2
# targs: bs, 1
preds_mean = preds[:, 0]
# warning: output goes through exponential map to ensure positivity
preds_var = torch.clamp(torch.exp(preds[:, 1]), 1e-4, 1e10)
# print(to_np(preds_mean)[0],to_np(targs)[0,0],to_np(torch.sqrt(preds_var))[0])
return torch.mean(torch.log(2 * math.pi * preds_var) / 2) + torch.mean(
torch.pow(preds_mean - targs[:, 0], 2) / 2 / preds_var)
def nll_regression_init(m):
assert (isinstance(m, nn.Linear))
nn.init.normal_(m.weight, 0., 0.001)
nn.init.constant_(m.bias, 4)
def lr_find_plot(learner, path, filename="lr_find", n_skip=10, n_skip_end=2):
"""
saves lr_find plot as file (normally only jupyter output)
on the x-axis is lrs[-1]
"""
learner.lr_find()
backend_old = matplotlib.get_backend()
plt.switch_backend('agg')
plt.ylabel("loss")
plt.xlabel("learning rate (log scale)")
losses = [to_np(x) for x in learner.recorder.losses[n_skip:-(n_skip_end + 1)]]
# print(learner.recorder.val_losses)
# val_losses = [ to_np(x) for x in learner.recorder.val_losses[n_skip:-(n_skip_end+1)]]
plt.plot(learner.recorder.lrs[n_skip:-(n_skip_end + 1)], losses)
# plt.plot(learner.recorder.lrs[n_skip:-(n_skip_end+1)],val_losses )
plt.xscale('log')
plt.savefig(str(path / (filename + '.png')))
plt.switch_backend(backend_old)
def losses_plot(learner, path, filename="losses", last: int = None):
"""
saves lr_find plot as file (normally only jupyter output)
on the x-axis is lrs[-1]
"""
backend_old = matplotlib.get_backend()
plt.switch_backend('agg')
plt.ylabel("loss")
plt.xlabel("Batches processed")
last = ifnone(last, len(learner.recorder.nb_batches))
l_b = np.sum(learner.recorder.nb_batches[-last:])
iterations = range_of(learner.recorder.losses)[-l_b:]
plt.plot(iterations, learner.recorder.losses[-l_b:], label='Train')
val_iter = learner.recorder.nb_batches[-last:]
val_iter = np.cumsum(val_iter) + np.sum(learner.recorder.nb_batches[:-last])
plt.plot(val_iter, learner.recorder.val_losses[-last:], label='Validation')
plt.legend()
plt.savefig(str(path / (filename + '.png')))
plt.switch_backend(backend_old)
class FastaiModel(ClassificationModel):
def __init__(self, name, n_classes, freq, output_folder, input_shape, pretrained=False, input_size=2.5,
input_channels=12, chunkify_train=False, chunkify_valid=True, bs=128, ps_head=0.5, lin_ftrs_head=None,
wd=1e-2, epochs=50, lr=1e-2, kernel_size=5, loss="binary_cross_entropy", pretrained_folder=None,
n_classes_pretrained=None, gradual_unfreezing=True, discriminative_lrs=True, epochs_finetuning=30,
early_stopping=None, aggregate_fn="max", concat_train_val=False):
super().__init__()
if lin_ftrs_head is None:
lin_ftrs_head = [128]
self.name = name
self.num_classes = n_classes if loss != "nll_regression" else 2
self.target_fs = freq
self.output_folder = Path(output_folder)
self.input_size = int(input_size * self.target_fs)
self.input_channels = input_channels
self.chunkify_train = chunkify_train
self.chunkify_valid = chunkify_valid
self.chunk_length_train = 2 * self.input_size # target_fs*6
self.chunk_length_valid = self.input_size
self.min_chunk_length = self.input_size # chunk_length
self.stride_length_train = self.input_size # chunk_length_train//8
self.stride_length_valid = self.input_size // 2 # chunk_length_valid
self.copies_valid = 0 # >0 should only be used with chunkify_valid=False
self.bs = bs
self.ps_head = ps_head
self.lin_ftrs_head = lin_ftrs_head
self.wd = wd
self.epochs = epochs
self.lr = lr
self.kernel_size = kernel_size
self.loss = loss
self.input_shape = input_shape
if pretrained:
if pretrained_folder is None:
pretrained_folder = Path('../output/exp0/models/' + name.split("_pretrained")[0] + '/')
# pretrained_folder = Path('/output/exp0/models/'+name.split("_pretrained")[0]+'/')
if n_classes_pretrained is None:
n_classes_pretrained = 71
self.pretrained_folder = None if pretrained_folder is None else Path(pretrained_folder)
self.n_classes_pretrained = n_classes_pretrained
self.discriminative_lrs = discriminative_lrs
self.gradual_unfreezing = gradual_unfreezing
self.epochs_finetuning = epochs_finetuning
self.early_stopping = early_stopping
self.aggregate_fn = aggregate_fn
self.concat_train_val = concat_train_val
def fit(self, X_train, y_train, X_val, y_val):
# convert everything to float32
X_train = [l.astype(np.float32) for l in X_train]
X_val = [l.astype(np.float32) for l in X_val]
y_train = [l.astype(np.float32) for l in y_train]
y_val = [l.astype(np.float32) for l in y_val]
if self.concat_train_val:
X_train += X_val
y_train += y_val
if self.pretrained_folder is None: # from scratch
print("Training from scratch...")
learn = self._get_learner(X_train, y_train, X_val, y_val)
# if(self.discriminative_lrs):
# layer_groups=learn.model.get_layer_groups()
# learn.split(layer_groups)
learn.model.apply(weight_init)
# initialization for regression output
if self.loss == "nll_regression" or self.loss == "mse":
output_layer_new = learn.model.get_output_layer()
output_layer_new.apply(nll_regression_init)
learn.model.set_output_layer(output_layer_new)
lr_find_plot(learn, self.output_folder)
learn.fit_one_cycle(self.epochs, self.lr) # slice(self.lr) if self.discriminative_lrs else self.lr)
losses_plot(learn, self.output_folder)
else: # finetuning
print("Finetuning...")
# create learner
learn = self._get_learner(X_train, y_train, X_val, y_val, self.n_classes_pretrained)
# load pretrained model
learn.path = self.pretrained_folder
learn.load(self.pretrained_folder.stem)
learn.path = self.output_folder
# exchange top layer
output_layer = learn.model.get_output_layer()
output_layer_new = nn.Linear(output_layer.in_features, self.num_classes).cuda()
apply_init(output_layer_new, nn.init.kaiming_normal_)
learn.model.set_output_layer(output_layer_new)
# layer groups
if self.discriminative_lrs:
layer_groups = learn.model.get_layer_groups()
learn.split(layer_groups)
learn.train_bn = True # make sure if bn mode is train
# train
lr = self.lr
if self.gradual_unfreezing:
assert (self.discriminative_lrs is True)
learn.freeze()
lr_find_plot(learn, self.output_folder, "lr_find0")
learn.fit_one_cycle(self.epochs_finetuning, lr)
losses_plot(learn, self.output_folder, "losses0")
# for n in [0]:#range(len(layer_groups)): learn.freeze_to(-n-1) lr_find_plot(learn,
# self.output_folder,"lr_find"+str(n)) learn.fit_one_cycle(self.epochs_gradual_unfreezing,slice(lr))
# losses_plot(learn, self.output_folder,"losses"+str(n)) if(n==0):#reduce lr after first step lr/=10.
# if(n>0 and (self.name.startswith("fastai_lstm") or self.name.startswith("fastai_gru"))):#reduce lr
# further for RNNs lr/=10
learn.unfreeze()
lr_find_plot(learn, self.output_folder, "lr_find" + str(len(layer_groups)))
learn.fit_one_cycle(self.epochs_finetuning, slice(lr / 1000, lr / 10))
losses_plot(learn, self.output_folder, "losses" + str(len(layer_groups)))
learn.save(self.name) # even for early stopping the best model will have been loaded again
def predict(self, X):
X = [l.astype(np.float32) for l in X]
y_dummy = [np.ones(self.num_classes, dtype=np.float32) for _ in range(len(X))]
learn = self._get_learner(X, y_dummy, X, y_dummy)
learn.load(self.name)
preds, targs = learn.get_preds()
preds = to_np(preds)
idmap = learn.data.valid_ds.get_id_mapping()
return aggregate_predictions(preds, idmap=idmap,
aggregate_fn=np.mean if self.aggregate_fn == "mean" else np.amax)
def _get_learner(self, X_train, y_train, X_val, y_val, num_classes=None):
df_train = pd.DataFrame({"data": range(len(X_train)), "label": y_train})
df_valid = pd.DataFrame({"data": range(len(X_val)), "label": y_val})
tfms_ptb_xl = [ToTensor()]
ds_train = TimeseriesDatasetCrops(df_train, self.input_size, num_classes=self.num_classes,
chunk_length=self.chunk_length_train if self.chunkify_train else 0,
min_chunk_length=self.min_chunk_length,
stride=self.stride_length_train, transforms=tfms_ptb_xl,
annotation=False, col_lbl="label", npy_data=X_train)
ds_valid = TimeseriesDatasetCrops(df_valid, self.input_size, num_classes=self.num_classes,
chunk_length=self.chunk_length_valid if self.chunkify_valid else 0,
min_chunk_length=self.min_chunk_length,
stride=self.stride_length_valid, transforms=tfms_ptb_xl,
annotation=False, col_lbl="label", npy_data=X_val)
db = DataLoaders(ds_train, ds_valid)
if self.loss == "binary_cross_entropy":
loss = F.binary_cross_entropy_with_logits
elif self.loss == "cross_entropy":
loss = F.cross_entropy
elif self.loss == "mse":
loss = mse_flat
elif self.loss == "nll_regression":
loss = nll_regression
else:
print("loss not found")
assert (True)
self.input_channels = self.input_shape[-1]
metrics = []
print("model:", self.name)
# note: all models of a particular kind share the same prefix but potentially a different
# postfix such as _input256
num_classes = self.num_classes if num_classes is None else num_classes
# resnet resnet1d18,resnet1d34,resnet1d50,resnet1d101,resnet1d152,resnet1d_wang,resnet1d,wrn1d_22
if self.name.startswith("fastai_resnet1d18"):
model = resnet1d18(num_classes=num_classes, input_channels=self.input_channels, inplanes=128,
kernel_size=self.kernel_size, ps_head=self.ps_head,
lin_ftrs_head=self.lin_ftrs_head)
elif self.name.startswith("fastai_resnet1d34"):
model = resnet1d34(num_classes=num_classes, input_channels=self.input_channels, inplanes=128,
kernel_size=self.kernel_size, ps_head=self.ps_head,
lin_ftrs_head=self.lin_ftrs_head)
elif self.name.startswith("fastai_resnet1d50"):
model = resnet1d50(num_classes=num_classes, input_channels=self.input_channels, inplanes=128,
kernel_size=self.kernel_size, ps_head=self.ps_head,
lin_ftrs_head=self.lin_ftrs_head)
elif self.name.startswith("fastai_resnet1d101"):
model = resnet1d101(num_classes=num_classes, input_channels=self.input_channels, inplanes=128,
kernel_size=self.kernel_size, ps_head=self.ps_head,
lin_ftrs_head=self.lin_ftrs_head)
elif self.name.startswith("fastai_resnet1d152"):
model = resnet1d152(num_classes=num_classes, input_channels=self.input_channels, inplanes=128,
kernel_size=self.kernel_size, ps_head=self.ps_head,
lin_ftrs_head=self.lin_ftrs_head)
elif self.name.startswith("fastai_resnet1d_wang"):
model = resnet1d_wang(num_classes=num_classes, input_channels=self.input_channels,
kernel_size=self.kernel_size, ps_head=self.ps_head,
lin_ftrs_head=self.lin_ftrs_head)
elif self.name.startswith("fastai_wrn1d_22"):
model = wrn1d_22(num_classes=num_classes, input_channels=self.input_channels,
kernel_size=self.kernel_size, ps_head=self.ps_head,
lin_ftrs_head=self.lin_ftrs_head)
# xresnet ... (order important for string capture)
elif self.name.startswith("fastai_xresnet1d18_deeper"):
model = xresnet1d18_deeper(num_classes=num_classes, input_channels=self.input_channels,
kernel_size=self.kernel_size, ps_head=self.ps_head,
lin_ftrs_head=self.lin_ftrs_head)
elif self.name.startswith("fastai_xresnet1d34_deeper"):
model = xresnet1d34_deeper(num_classes=num_classes, input_channels=self.input_channels,
kernel_size=self.kernel_size, ps_head=self.ps_head,
lin_ftrs_head=self.lin_ftrs_head)
elif self.name.startswith("fastai_xresnet1d50_deeper"):
model = xresnet1d50_deeper(num_classes=num_classes, input_channels=self.input_channels,
kernel_size=self.kernel_size, ps_head=self.ps_head,
lin_ftrs_head=self.lin_ftrs_head)
elif self.name.startswith("fastai_xresnet1d18_deep"):
model = xresnet1d18_deep(num_classes=num_classes, input_channels=self.input_channels,
kernel_size=self.kernel_size, ps_head=self.ps_head,
lin_ftrs_head=self.lin_ftrs_head)
elif self.name.startswith("fastai_xresnet1d34_deep"):
model = xresnet1d34_deep(num_classes=num_classes, input_channels=self.input_channels,
kernel_size=self.kernel_size, ps_head=self.ps_head,
lin_ftrs_head=self.lin_ftrs_head)
elif self.name.startswith("fastai_xresnet1d50_deep"):
model = xresnet1d50_deep(num_classes=num_classes, input_channels=self.input_channels,
kernel_size=self.kernel_size, ps_head=self.ps_head,
lin_ftrs_head=self.lin_ftrs_head)
elif self.name.startswith("fastai_xresnet1d18"):
model = xresnet1d18(num_classes=num_classes, input_channels=self.input_channels,
kernel_size=self.kernel_size, ps_head=self.ps_head, lin_ftrs_head=self.lin_ftrs_head)
elif self.name.startswith("fastai_xresnet1d34"):
model = xresnet1d34(num_classes=num_classes, input_channels=self.input_channels,
kernel_size=self.kernel_size, ps_head=self.ps_head, lin_ftrs_head=self.lin_ftrs_head)
elif self.name.startswith("fastai_xresnet1d50"):
model = xresnet1d50(num_classes=num_classes, input_channels=self.input_channels,
kernel_size=self.kernel_size, ps_head=self.ps_head, lin_ftrs_head=self.lin_ftrs_head)
elif self.name.startswith("fastai_xresnet1d101"):
model = xresnet1d101(num_classes=num_classes, input_channels=self.input_channels,
kernel_size=self.kernel_size, ps_head=self.ps_head, lin_ftrs_head=self.lin_ftrs_head)
elif self.name.startswith("fastai_xresnet1d152"):
model = xresnet1d152(num_classes=num_classes, input_channels=self.input_channels,
kernel_size=self.kernel_size, ps_head=self.ps_head, lin_ftrs_head=self.lin_ftrs_head)
# inception passing the default kernel size of 5 leads to a max kernel size of 40-1 in the inception model as
# proposed in the original paper
elif self.name == "fastai_inception1d_no_residual": # note: order important for string capture
model = inception1d(num_classes=num_classes, input_channels=self.input_channels,
use_residual=False, ps_head=self.ps_head, lin_ftrs_head=self.lin_ftrs_head,
kernel_size=8 * self.kernel_size)
elif self.name.startswith("fastai_inception1d"):
model = inception1d(num_classes=num_classes, input_channels=self.input_channels,
use_residual=True, ps_head=self.ps_head, lin_ftrs_head=self.lin_ftrs_head,
kernel_size=8 * self.kernel_size)
# BasicConv1d fcn,fcn_wang,schirrmeister,sen,basic1d
elif self.name.startswith("fastai_fcn_wang"): # note: order important for string capture
model = fcn_wang(num_classes=num_classes, input_channels=self.input_channels,
ps_head=self.ps_head, lin_ftrs_head=self.lin_ftrs_head)
elif self.name.startswith("fastai_fcn"):
model = fcn(num_classes=num_classes, input_channels=self.input_channels)
elif self.name.startswith("fastai_schirrmeister"):
model = schirrmeister(num_classes=num_classes, input_channels=self.input_channels,
ps_head=self.ps_head, lin_ftrs_head=self.lin_ftrs_head)
elif self.name.startswith("fastai_sen"):
model = sen(num_classes=num_classes, input_channels=self.input_channels, ps_head=self.ps_head,
lin_ftrs_head=self.lin_ftrs_head)
elif self.name.startswith("fastai_basic1d"):
model = basic1d(num_classes=num_classes, input_channels=self.input_channels,
kernel_size=self.kernel_size, ps_head=self.ps_head,
lin_ftrs_head=self.lin_ftrs_head)
# RNN
elif self.name.startswith("fastai_lstm_bidir"):
model = RNN1d(input_channels=self.input_channels, num_classes=num_classes, lstm=True,
bidirectional=True, ps_head=self.ps_head, lin_ftrs_head=self.lin_ftrs_head)
elif self.name.startswith("fastai_gru_bidir"):
model = RNN1d(input_channels=self.input_channels, num_classes=num_classes, lstm=False,
bidirectional=True, ps_head=self.ps_head, lin_ftrs_head=self.lin_ftrs_head)
elif self.name.startswith("fastai_lstm"):
model = RNN1d(input_channels=self.input_channels, num_classes=num_classes, lstm=True,
bidirectional=False, ps_head=self.ps_head, lin_ftrs_head=self.lin_ftrs_head)
elif self.name.startswith("fastai_gru"):
model = RNN1d(input_channels=self.input_channels, num_classes=num_classes, lstm=False,
bidirectional=False, ps_head=self.ps_head, lin_ftrs_head=self.lin_ftrs_head)
else:
print("Model not found.")
assert True
learn = Learner(db, model, loss_func=loss, metrics=metrics, wd=self.wd, path=self.output_folder)
if self.name.startswith("fastai_lstm") or self.name.startswith("fastai_gru"):
learn.callback_fns.append(partial(GradientClipping, clip=0.25))
if self.early_stopping is not None:
# supported options: valid_loss, macro_auc, fmax
if self.early_stopping == "macro_auc" and self.loss != "mse" and self.loss != "nll_regression":
metric = MetricFunc(auc_metric, self.early_stopping,
one_hot_encode_target=False, argmax_pred=False, softmax_pred=False,
sigmoid_pred=True, flatten_target=False)
learn.metrics.append(metric)
learn.callback_fns.append(
partial(SaveModelCallback, monitor=self.early_stopping, every='improvement', name=self.name))
elif self.early_stopping == "fmax" and self.loss != "mse" and self.loss != "nll_regression":
metric = MetricFunc(fmax_metric, self.early_stopping,
one_hot_encode_target=False, argmax_pred=False, softmax_pred=False,
sigmoid_pred=True, flatten_target=False)
learn.metrics.append(metric)
learn.callback_fns.append(partial(SaveModelCallback, monitor=self.early_stopping, every='improvement', name=self.name))
elif self.early_stopping == "valid_loss":
learn.callback_fns.append(partial(SaveModelCallback, monitor=self.early_stopping, every='improvement', name=self.name))
return learn |