def main():
STARTTIME0 = time.strftime('run_%Y_%m_%d_%H_%M_%s')
METRICS = []
for ts_size in [3000, 5000, 5600]:
for iteration in range(10):
_, _, X_train, X_test, y_train, y_test, _ = process_data(
size=ts_size)
experiment = Experiment(api_key=os.environ['COMET_API_KEY'],
project_name='color-ml')
experiment.log_parameters(PARAMETERS_MEDIAN)
with experiment.train():
regressor_median = fit(X_train, y_train)
metrics_dict = get_metrics_dict(regressor_median, X_test, y_test,
experiment)
metrics_dict['iteration'] = iteration
metrics_dict['ts_size'] = ts_size
METRICS.append(metrics_dict)
df = pd.DataFrame(METRICS)
df.to_csv('learningurve_' + STARTTIME0 + '.csv')
experiment.log_asset('learningurve_' + STARTTIME0 + '.csv')
def main(modelpath, xpath, ypath, outname):
experiment = Experiment(api_key=os.environ['COMET_API_KEY'],
project_name='color-ml')
model = joblib.load(modelpath)
X = np.load(xpath)
y = np.load(ypath)
metrics = get_metrics(model, X, y, experiment)
df = pd.DataFrame(metrics)
df.to_csv(outname, index=False)
experiment.log_asset(outname)
def setup_comet_ml(args, rank):
# dummy init of experiment so it can be used without error
# even if comet is disabled
experiment = Experiment(api_key='dummy_key', disabled=True)
if args.comet_api_key:
# initiating comet
if args.existing_exp_key:
if rank == 0:
print("STARTING FROM AND EXISTING EXPERIMENT")
experiment = ExistingExperiment(
api_key=args.comet_api_key, workspace=args.comet_workspace,
project_name=args.project_name, previous_experiment=args.existing_exp_key,
auto_output_logging="simple", auto_metric_logging=False, parse_args=False,
disabled=args.disable_comet or rank != 0)
else:
if rank == 0:
print("STARTING A NEW EXPERIMENT")
experiment = Experiment(
api_key=args.comet_api_key, workspace=args.comet_workspace,
project_name=args.project_name, auto_output_logging="simple", auto_metric_logging=False,
parse_args=False, disabled=args.disable_comet or rank != 0)
experiment.log_asset('config.yaml')
experiment.log_asset('config_prod.yaml')
experiment.log_asset('config_prod_prime.yaml')
return experiment
def log(self, experiment=None):
''' Export all logs in the Comet.ml environment.
See https://www.comet.ml/ for more details
'''
# Initialize Comet.ml experience (naming, tags) for automatic logging
project_name = 'Optimization' if self.comet_optimize else 'Summary'
experiment_name = '{} - {} '.format(self.model_name, str(self.batch_size)) + ('ES+' if self.train_after_es else '')
experiment_tags = [ self.model_name, self.monitor_val ] + (['ES+'] if self.train_after_es else []) + (['Pre-train'] if self.pretraining else [])
if experiment == None:
experiment = Experiment(api_key='cSZq9kuH2I87ezvm2dEWTx6op', project_name=project_name, log_code=False, auto_param_logging=False, auto_metric_logging=False)
experiment.set_name(experiment_name)
experiment.add_tags(experiment_tags)
# Export hyperparameters
experiment.log_parameters(self.dataloader_params)
experiment.log_parameters(self.training_params)
# Export metrics values
experiment.log_metrics({'Average accuracy' : np.mean(self.test_score['accuracy']), 'Std accuracy' : np.std(self.test_score['accuracy'])})
# Export metrics graphs for each pilot (accuracy, loss, confusion matrix)
[ experiment.log_figure(figure_name='Confusion matrix {}'.format(pilot_idx), figure=plot_cm(self.conf_matrices, pilot_idx)) for pilot_idx in range(1,self.n_pilots+1)]
[ experiment.log_figure(figure_name='Loss pilot {}'.format(pilot_idx), figure=plot_loss(self.histories[pilot_idx-1], pilot_idx)) for pilot_idx in range(1,self.n_pilots+1)]
fig, ax = plt.subplots(figsize=(10,6))
plot_full_barchart(self.test_score, n_pilots=self.n_pilots, title=' {} ConvNet model'.format(self.model_name), fig=fig)
experiment.log_figure(figure_name='Accuracy barchart', figure=fig)
if self.train_after_es:
[ experiment.log_figure(figure_name='Loss pilot {} (ES+)'.format(pilot_idx), figure=plot_loss(self.histories_es[pilot_idx-1], pilot_idx)) for pilot_idx in range(1,self.n_pilots+1)]
# Export model weights for each pilot
[ experiment.log_asset('{}{}.h5'.format(self.weights_savename_prefix, pilot_idx)) for pilot_idx in range(1,self.n_pilots+1)]
experiment.end()
print("Train Ensemble")
model.ensemble(experiment=experiment)
#Final score, be absolutely sure you get all the data, feed slowly in batches of 1
final_score = model.ensemble_model.evaluate(model.val_split.unbatch().batch(1))
experiment.log_metric("Ensemble Accuracy", final_score[1])
#Save model and figure
#tf.keras.utils.plot_model(model.ensemble_model, to_file="{}/Ensemble.png".format(save_dir))
#experiment.log_figure("{}/Ensemble.png".format(save_dir))
model.ensemble_model.save("{}/Ensemble.h5".format(save_dir))
#save predictions
predicted_shp = model.predict(model = model.ensemble_model)
predicted_shp.to_file("{}/prediction.shp".format(save_dir))
experiment.log_asset("{}/prediction.shp".format(save_dir))
experiment.log_asset("{}/prediction.dbf".format(save_dir))
experiment.log_asset("{}/prediction.shx".format(save_dir))
experiment.log_asset("{}/prediction.cpg".format(save_dir))
#per species accurracy
predicted_shp["match"] = predicted_shp.apply(lambda x: x.true_taxonID == x.predicted_taxonID, 1)
per_species = predicted_shp.groupby("true_taxonID").apply(lambda x: x["match"].sum()/len(x))
per_species.to_csv("{}/perspecies.csv".format(save_dir))
experiment.log_asset("{}/perspecies.csv".format(save_dir))
per_site = predicted_shp.groupby("siteID").apply(lambda x: x["match"].sum()/len(x))
per_site.to_csv("{}/persite.csv".format(save_dir))
experiment.log_asset("{}/persite.csv".format(save_dir))
#Plots - this function needs to be rewritten because the dataset is now nested: ids, (data, label). probably predict on batch.
# experiment.log_metric("train_loss", np.mean(train_loss), step=epoch)
experiment.log_metric("train_perplexity", train_ppl, step=epoch)
# RUN MODEL ON VALIDATION DATA
val_ppl, val_loss = run_epoch(model, valid_data)
# experiment.log_metric("val_loss", np.mean(val_loss), step=epoch)
experiment.log_metric("val_perplexity", val_ppl, step=epoch)
# SAVE MODEL IF IT'S THE BEST SO FAR
if val_ppl < best_val_so_far:
best_val_so_far = val_ppl
if args.save_best:
print("Saving model parameters to best_params.pt")
best_model_path = os.path.join(args.save_dir, 'best_params.pt')
torch.save(model.state_dict(), best_model_path)
experiment.log_asset(best_model_path, overwrite=True)
# NOTE ==============================================
# You will need to load these parameters into the same model
# for a couple Problems: so that you can compute the gradient
# of the loss w.r.t. hidden state as required in Problem 5.2
# and to sample from the the model as required in Problem 5.3
# We are not asking you to run on the test data, but if you
# want to look at test performance you would load the saved
# model and run on the test data with batch_size=1
# LOC RESULTS
train_ppls.append(train_ppl)
val_ppls.append(val_ppl)
train_losses.extend(train_loss)
val_losses.extend(val_loss)
times.append(time.time() - t0)
def train(opt):
# Set random seed
if torch.cuda.is_available():
torch.cuda.manual_seed(opt.random_seed)
else:
torch.manual_seed(opt.random_seed)
# Instantiate the model
if opt.conv_dim is not None and \
opt.conv_kernel_sizes is not None and \
opt.conv_strides is not None and \
opt.fc_dim is not None:
model = DeepQNetwork(opt.image_size,
opt.image_size,
conv_dim=opt.conv_dim,
conv_kernel_sizes=opt.conv_kernel_sizes,
conv_strides=opt.conv_strides,
fc_dim=opt.fc_dim)
else:
model = DeepQNetwork(opt.image_size, opt.image_size)
if opt.log_comet_ml:
# Create a Comet.ml experiment
experiment = Experiment(api_key=opt.comet_ml_api_key,
project_name=opt.comet_ml_project_name,
workspace=opt.comet_ml_workspace)
experiment.log_other("iters_to_save", opt.iters_to_save)
experiment.log_other("completed", False)
experiment.log_other("random_seed", opt.random_seed)
# Report hyperparameters to Comet.ml
hyper_params = {
"image_size": opt.image_size,
"batch_size": opt.batch_size,
"optimizer": opt.optimizer,
"learning_rate": opt.lr,
"gamma": opt.gamma,
"initial_epsilon": opt.initial_epsilon,
"final_epsilon": opt.final_epsilon,
"num_iters": opt.num_iters,
"replay_memory_size": opt.replay_memory_size,
"random_seed": opt.random_seed,
"conv_dim": opt.conv_dim,
"conv_kernel_sizes": opt.conv_kernel_sizes,
"conv_strides": opt.conv_strides,
"fc_dim": opt.fc_dim
}
experiment.log_parameters(hyper_params)
optimizer = torch.optim.Adam(model.parameters(),
lr=1e-6) # Optimization algorithm
criterion = nn.MSELoss() # Loss function
game_state = FlappyBird() # Instantiate the Flappy Compass game
image, reward, terminal = game_state.next_frame(
0
) # Get the next image, along with its reward and an indication if it's a terminal state
# Image preprocessing step (scaling, color removal and convertion to a PyTorch tensor)
image = pre_processing(
image[:game_state.screen_width, :int(game_state.base_y)],
opt.image_size, opt.image_size)
image = torch.from_numpy(image)
# Move the model and the current image data to the GPU, if available
if torch.cuda.is_available():
model.cuda()
image = image.cuda()
# Prepare the state variable, which will host the last 4 frames
state = torch.cat(tuple(image for _ in range(4)))[None, :, :, :]
# Initialize the replay memory, which saves sets of consecutive game states, the reward and terminal state indicator
# so that the model can learn from them (essentially constitutes the training data, which grows with every new iteration)
replay_memory = []
iter = 0 # Iteration counter
# Main training loop performing the number of iterations specified by num_iters
while iter < opt.num_iters:
prediction = model(state)[0] # Get a prediction from the current state
epsilon = opt.final_epsilon + (
(opt.num_iters - iter) *
(opt.initial_epsilon - opt.final_epsilon) / opt.num_iters
) # Set the decay of the probability of random actions
u = random()
random_action = u <= epsilon
if random_action:
print("Perform a random action")
action = randint(0, 1)
else:
# Use the model's prediction to decide the next action
action = torch.argmax(prediction).item()
# Get a new frame and process it
next_image, reward, terminal = game_state.next_frame(action)
next_image = pre_processing(
next_image[:game_state.screen_width, :int(game_state.base_y)],
opt.image_size, opt.image_size)
next_image = torch.from_numpy(next_image)
# Move the next image data to the GPU, if available
if torch.cuda.is_available():
next_image = next_image.cuda()
next_state = torch.cat(
(state[0, 1:, :, :], next_image)
)[None, :, :, :] # Prepare the next state variable, which will host the last 4 frames
replay_memory.append(
[state, action, reward, next_state, terminal]
) # Save the current state, action, next state and terminal state indicator in the replay memory
if len(replay_memory) > opt.replay_memory_size:
del replay_memory[
0] # Delete the oldest reolay from memory if full capacity has been reached
batch = sample(replay_memory, min(len(replay_memory), opt.batch_size)
) # Retrieve past play sequences from the replay memory
state_batch, action_batch, reward_batch, next_state_batch, terminal_batch = zip(
*batch)
state_batch = torch.cat(tuple(
state for state in state_batch)) # States of the current batch
action_batch = torch.from_numpy(
np.array([[1, 0] if action == 0 else [0, 1]
for action in action_batch],
dtype=np.float32)) # Actions taken in the current batch
reward_batch = torch.from_numpy(
np.array(reward_batch,
dtype=np.float32)[:,
None]) # Rewards in the current batch
next_state_batch = torch.cat(tuple(
state
for state in next_state_batch)) # Next states of the current batch
# Move batch data to the GPU, if available
if torch.cuda.is_available():
state_batch = state_batch.cuda()
action_batch = action_batch.cuda()
reward_batch = reward_batch.cuda()
next_state_batch = next_state_batch.cuda()
current_prediction_batch = model(
state_batch
) # Predictions of the model for the replays of the current batch
next_prediction_batch = model(
next_state_batch
) # Next predictions of the model for the replays of the current batch
# Set ground truth for the rewards for the current batch, considering whether the state is terminal or not
y_batch = torch.cat(
tuple(reward if terminal else reward +
opt.gamma * torch.max(prediction)
for reward, terminal, prediction in zip(
reward_batch, terminal_batch, next_prediction_batch)))
q_value = torch.sum(
current_prediction_batch * action_batch, dim=1
) # Predicted Q values (i.e. estimated return for each action)
optimizer.zero_grad(
) # Reset the gradients to zero before a new optimization step
loss = criterion(q_value, y_batch) # Calculate the loss
loss.backward() # Backpropagation
optimizer.step() # Weights optimization step
state = next_state # Move to the next frame
iter += 1
print(
"Iteration: {}/{}, Action: {}, Loss: {}, Epsilon {}, Reward: {}, Q-value: {}"
.format(iter + 1, opt.num_iters, action, loss, epsilon, reward,
torch.max(prediction)))
if opt.log_comet_ml:
# Log metrics to Comet.ml
experiment.log_metric("train_loss", loss, step=iter)
experiment.log_metric("train_epsilon", epsilon, step=iter)
experiment.log_metric("train_reward", reward, step=iter)
experiment.log_metric("train_Q_value",
torch.max(prediction),
step=iter)
if (iter + 1) % opt.iters_to_save == 0:
# Get the current day and time to attach to the saved model's name
current_datetime = datetime.now().strftime('%d_%m_%Y_%H_%M')
# Set saved model name
model_filename = f'{opt.saved_path}/flappy_compass_{current_datetime}_{iter+1}.pth'
# Save model every iters_to_save iterations
torch.save(model, model_filename)
if opt.log_comet_ml and opt.comet_ml_save_model:
# Upload model to Comet.ml
experiment.log_asset(file_path=model_filename, overwrite=True)
# Get the current day and time to attach to the saved model's name
current_datetime = datetime.now().strftime('%d_%m_%Y_%H_%M')
# Set saved model name
model_filename = f'{opt.saved_path}/flappy_compass_{current_datetime}_{iter+1}.pth'
# Save the model after reaching the final iteration
torch.save(model, model_filename)
if opt.log_comet_ml:
# Only report that the experiment completed successfully if it finished the training without errors
experiment.log_other("completed", True)
if opt.comet_ml_save_model:
# Upload model to Comet.ml
experiment.log_asset(file_path=model_filename, overwrite=True)
"================================================================="
)
if current_epoch % MODEL_SAVE_INTERVAL == 0:
current_save_model_name = save_checkpoint(
{
'model': net.state_dict(),
'optimizer': optimizer.state_dict(),
'e': current_epoch,
'PACNN_PERSPECTIVE_AWARE_MODEL':
PACNN_PERSPECTIVE_AWARE_MODEL
# 'amp': amp.state_dict()
},
False,
MODEL_SAVE_NAME + "_" + str(current_epoch) + "_")
experiment.log_asset(current_save_model_name)
print("saved ", current_save_model_name)
# end 1 epoch
# after epoch evaluate
mae_calculator_d1 = MAECalculator()
mae_calculator_d2 = MAECalculator()
mae_calculator_d3 = MAECalculator()
mae_calculator_final = MAECalculator()
with torch.no_grad():
for val_img, label in val_loader_pacnn:
net.eval()
# load data
d1_label, d2_label, d3_label = label
help="Path to the config file.",
)
parser.add_argument("--output_path",
type=str,
default=".",
help="outputs path")
parser.add_argument("--resume", action="store_true")
parser.add_argument("--trainer", type=str, default="MUNIT", help="MUNIT|UNIT")
parser.add_argument("--git_hash",
type=str,
default="no-git-hash",
help="output of git log --pretty=format:'%h' -n 1")
opts = parser.parse_args()
if comet_exp is not None:
comet_exp.log_asset(file_data=opts.config, file_name="config.yaml")
comet_exp.log_parameter("git_hash", opts.git_hash)
cudnn.benchmark = True
# Load experiment setting
config = get_config(opts.config)
max_iter = config["max_iter"]
display_size = config["display_size"]
config["vgg_model_path"] = opts.output_path
# Setup model and data loader
if opts.trainer == "MUNIT":
trainer = MUNIT_Trainer(config)
elif opts.trainer == "UNIT":
trainer = UNIT_Trainer(config)
else:
def main(cfg: DictConfig):
print('Nishika Second-hand Apartment Price Training')
cur_dir = hydra.utils.get_original_cwd()
os.chdir(cur_dir)
data_dir = './input'
seed_everything(cfg.data.seed)
experiment = Experiment(api_key=cfg.exp.api_key,
project_name=cfg.exp.project_name,
auto_output_logging='simple',
auto_metric_logging=False)
experiment.log_parameters(dict(cfg.data))
# Config ####################################################################################
del_tar_col = ['取引時点']
id_col = 'ID'
tar_col = '取引価格（総額）_log'
g_col = 'year'
criterion = MAE
cv = KFold(n_splits=cfg.data.n_splits,
shuffle=True,
random_state=cfg.data.seed)
# cv = GroupKFold(n_splits=5)
# Load Data ####################################################################################
if cfg.exp.use_pickle:
# pickleから読み込み
df = unpickle('./input/data.pkl')
else:
df = load_data(data_dir,
sampling=cfg.data.sampling,
seed=cfg.data.seed,
id_col=id_col,
target_col=tar_col)
# Preprocessing
print('Preprocessing')
df = preprocessing(df, cfg)
# pickle形式で保存
to_pickle('./input/data.pkl', df)
try:
experiment.log_asset(file_data='./input/data.pkl',
file_name='data.pkl')
except:
pass
features = [c for c in df.columns if c not in del_tar_col]
# Model ####################################################################################
model = None
if cfg.exp.model == 'lgb':
model = LGBMModel(dict(cfg.lgb))
elif cfg.exp.model == 'cat':
model = CatBoostModel(dict(cfg.cat))
# Train & Predict ##############################################################################
trainer = Trainer(model, id_col, tar_col, g_col, features, cv, criterion,
experiment)
trainer.fit(df)
trainer.predict(df)
trainer.get_feature_importance()
def main(cfg: DictConfig):
cur_dir = hydra.utils.get_original_cwd()
os.chdir(cur_dir)
seed_everything(cfg.train.seed)
# Comet.ml
experiment = Experiment(api_key=API_KEY, project_name=PROJECT_NAME)
# Load Data ################################################################
# Chris Dataset
chris_image_size = cfg.data.load_size
data_dir = f'./input/_Chris_Dataset_{chris_image_size}'
train = pd.read_csv(os.path.join(data_dir, 'train.csv'))
test = pd.read_csv(os.path.join(data_dir, 'test.csv'))
img_paths = {
'train': glob.glob(os.path.join(data_dir, 'train', '*.jpg')),
'test': glob.glob(os.path.join(data_dir, 'test', '*.jpg'))
}
# Cross Validation #########################################################
# GroupKFold
cv = GroupKFold(n_splits=5)
train['fold'] = -1
for i, (trn_idx, val_idx) in enumerate(
cv.split(train,
train['target'],
groups=train['patient_id'].tolist())):
train.loc[val_idx, 'fold'] = i
# Preprocessing ############################################################
# Drop Image
drop_image_name = [
'ISIC_4579531', 'ISIC_7918608', 'ISIC_0948240', 'ISIC_4904364',
'ISIC_8780369', 'ISIC_8770180', 'ISIC_7148656', 'ISIC_7408392',
'ISIC_9959813', 'ISIC_1894141', 'ISIC_6633174', 'ISIC_3001941',
'ISIC_4259290', 'ISIC_6833905', 'ISIC_7452152', 'ISIC_2744859',
'ISIC_5464206', 'ISIC_6596403', 'ISIC_0711790', 'ISIC_5644568',
'ISIC_5843094', 'ISIC_8904326', 'ISIC_4963405', 'ISIC_9839042',
'ISIC_1355907', 'ISIC_0694037', 'ISIC_9513918', 'ISIC_0787851',
'ISIC_2932886', 'ISIC_2336763', 'ISIC_4064330', 'ISIC_7358293',
'ISIC_5789052', 'ISIC_7828320', 'ISIC_8277969', 'ISIC_1080647',
'ISIC_3238159', 'ISIC_8480913', 'ISIC_3790692', 'ISIC_0612624',
'ISIC_1242543', 'ISIC_4036915', 'ISIC_8174647', 'ISIC_2956783',
'ISIC_3302289', 'ISIC_6761105', 'ISIC_2152755', 'ISIC_9169000',
'ISIC_6852275', 'ISIC_4432898', 'ISIC_5459207', 'ISIC_7418664',
'ISIC_5136612', 'ISIC_9174738', 'ISIC_3160301', 'ISIC_7140636',
'ISIC_7718384', 'ISIC_9336675', 'ISIC_4282719', 'ISIC_4330005',
'ISIC_9828463', 'ISIC_6511141', 'ISIC_5335139', 'ISIC_5104921',
'ISIC_0695575', 'ISIC_0610141', 'ISIC_5946998', 'ISIC_0464315',
'ISIC_6556513', 'ISIC_3688407', 'ISIC_7730443', 'ISIC_4358550',
'ISIC_6461484', 'ISIC_9690422', 'ISIC_5374076', 'ISIC_1793200',
'ISIC_1389620', 'ISIC_8098274', 'ISIC_6425888', 'ISIC_6321076',
'ISIC_4298309', 'ISIC_2981912', 'ISIC_3650938', 'ISIC_4288522',
'ISIC_9459785', 'ISIC_1938535', 'ISIC_5576241', 'ISIC_6567889',
'ISIC_2768800', 'ISIC_6023795', 'ISIC_9281339', 'ISIC_6712494',
'ISIC_1811256', 'ISIC_5157055', 'ISIC_3943097', 'ISIC_7194471',
'ISIC_0361529', 'ISIC_9797578', 'ISIC_3575926', 'ISIC_6166824',
'ISIC_8828670', 'ISIC_6953126', 'ISIC_4430815', 'ISIC_8146054',
'ISIC_9305209', 'ISIC_4263017', 'ISIC_9314144', 'ISIC_1330763',
'ISIC_4792936', 'ISIC_1823608', 'ISIC_4910683', 'ISIC_9360142',
'ISIC_2863809', 'ISIC_4748668', 'ISIC_5681315', 'ISIC_3202829',
'ISIC_3450978', 'ISIC_9704624', 'ISIC_4350914', 'ISIC_3587744',
'ISIC_8190321', 'ISIC_1766413', 'ISIC_2872769', 'ISIC_3186625',
'ISIC_0170059', 'ISIC_4858099', 'ISIC_0314462', 'ISIC_2811886',
'ISIC_2140099', 'ISIC_9514450', 'ISIC_1195354', 'ISIC_8325872',
'ISIC_0227038', 'ISIC_6342641', 'ISIC_4162828', 'ISIC_7597293',
'ISIC_5278307', 'ISIC_3774190', 'ISIC_2957196', 'ISIC_4443545',
'ISIC_3455136', 'ISIC_0610499', 'ISIC_8483008', 'ISIC_0243683',
'ISIC_9028131', 'ISIC_8507102', 'ISIC_7128535', 'ISIC_4085552',
'ISIC_2940763', 'ISIC_1219894', 'ISIC_1043313', 'ISIC_6587979',
'ISIC_7050773', 'ISIC_3230164', 'ISIC_5159557', 'ISIC_7854457',
'ISIC_2582493', 'ISIC_5161114', 'ISIC_5238910', 'ISIC_6515221',
'ISIC_7771339', 'ISIC_9274260', 'ISIC_8054626', 'ISIC_1178847',
'ISIC_0236778', 'ISIC_6704518', 'ISIC_4214813', 'ISIC_0322818',
'ISIC_0230209', 'ISIC_7682938', 'ISIC_1852500', 'ISIC_3699454',
'ISIC_4693693', 'ISIC_9574591', 'ISIC_3465766', 'ISIC_1826803',
'ISIC_6234881', 'ISIC_2417958', 'ISIC_8142203', 'ISIC_5019268',
'ISIC_3251719', 'ISIC_4654808', 'ISIC_1027856', 'ISIC_3262153',
'ISIC_4681838', 'ISIC_6594555', 'ISIC_8623291', 'ISIC_3167092',
'ISIC_8791163', 'ISIC_1538510', 'ISIC_3962218', 'ISIC_2160145',
'ISIC_7690654', 'ISIC_9464203', 'ISIC_4673844', 'ISIC_9481260',
'ISIC_5407240', 'ISIC_5179742', 'ISIC_8851901', 'ISIC_7433711',
'ISIC_5777548', 'ISIC_2164933', 'ISIC_7194695', 'ISIC_7115605',
'ISIC_7560157', 'ISIC_1323909', 'ISIC_0307958', 'ISIC_8015259',
'ISIC_3089729', 'ISIC_3048886', 'ISIC_0861066', 'ISIC_6110309',
'ISIC_9103289', 'ISIC_2853454', 'ISIC_1436572', 'ISIC_9650546',
'ISIC_8208962', 'ISIC_5218561', 'ISIC_3285862', 'ISIC_5361506',
'ISIC_8196660', 'ISIC_0356238', 'ISIC_1156392', 'ISIC_2761440',
'ISIC_0645462', 'ISIC_4908514', 'ISIC_1374795', 'ISIC_3481768',
'ISIC_2102371', 'ISIC_4548990', 'ISIC_7200676', 'ISIC_8827725',
'ISIC_0667149', 'ISIC_7028320', 'ISIC_5485142', 'ISIC_9698871',
'ISIC_7764481', 'ISIC_8831706', 'ISIC_4478276', 'ISIC_0401250',
'ISIC_6987824', 'ISIC_7789537', 'ISIC_1114860', 'ISIC_7586566',
'ISIC_0343061', 'ISIC_1442157', 'ISIC_9161937', 'ISIC_5904214',
'ISIC_8335489', 'ISIC_9994768', 'ISIC_4384331', 'ISIC_0639415',
'ISIC_0982984', 'ISIC_2195070', 'ISIC_9022865', 'ISIC_0159060',
'ISIC_4933735', 'ISIC_3571989', 'ISIC_8593130', 'ISIC_1585919',
'ISIC_3907656', 'ISIC_9728805', 'ISIC_6029052', 'ISIC_3582787',
'ISIC_2205007', 'ISIC_1447559'
]
train = train[~train['image_name'].isin(drop_image_name)].reset_index(
drop=True)
# Preprocessing metadata
# OneHotEncoder
train, test = preprocessing_meta(train, test)
features_num = len([
f for f in train.columns
if f not in ['image_name', 'patient_id', 'target', 'fold']
])
# Model ####################################################################
net = ENet(model_name=cfg.train.model_name, meta_features_num=features_num)
transform = ImageTransform(img_size=cfg.data.img_size,
input_res=chris_image_size)
# Lightning Module #########################################################
model = MelanomaSystem(net, cfg, img_paths, train, test, transform,
experiment)
checkpoint_callback = ModelCheckpoint(filepath='./checkpoint',
save_top_k=1,
verbose=True,
monitor='avg_val_loss',
mode='min',
prefix=cfg.exp.exp_name + '_')
trainer = Trainer(max_epochs=cfg.train.epoch,
checkpoint_callback=checkpoint_callback,
gpus=[0])
# Train & Test ############################################################
# Train
trainer.fit(model)
experiment.log_metric('best_auc', model.best_auc)
checkpoint_path = glob.glob(f'./checkpoint/{cfg.exp.exp_name}_*.ckpt')[0]
experiment.log_asset(file_data=checkpoint_path)
# Test
for i in range(test_num):
trainer.test(model)
# Submit
sub_list = glob.glob(f'submission_{cfg.exp.exp_name}*.csv')
_ = summarize_submit(sub_list,
experiment,
filename=f'submission_all_{cfg.exp.exp_name}.csv')
# oof
valid_dataset = MelanomaDataset(train,
img_paths['train'],
transform,
phase='test')
valid_dataloader = DataLoader(valid_dataset,
batch_size=cfg.train.batch_size,
pin_memory=False,
shuffle=False,
drop_last=False)
for i in range(10):
trainer.test(model, test_dataloaders=valid_dataloader)
# Submit
sub_list = glob.glob('submission*.csv')
_ = summarize_submit(sub_list,
experiment,
filename=f'submission_oof_{cfg.exp.exp_name}.csv')
# Reset
del model, trainer, net, experiment
# Train the model
if hyper_params["LOAD_MODEL"]:
model = torch.load(f'hyper_params["LOAD_MODEL_NAME"].pt')
else:
train_mnist_vae(train_loader,
model,
criterion=optimizer,
n_epoch=hyper_params["EPOCH"],
experiment=experiment,
beta=hyper_params["BETA"],
loss_type="mse",
flatten=False)
torch.save(model, f'hyper_params["MODEL_NAME"].pt')
model.save_weights(f'./{hyper_params["MODEL_NAME"]}.h5')
experiment.log_asset(file_data=f'./{hyper_params["MODEL_NAME"]}.h5',
file_name='model.h5')
# Compute p-values
pval, _ = compute_empirical_pval(train_data.data, model, test_data.data)
pval_order = numpy.argsort(pval)
# Plot p-values
x_line = numpy.arange(0, test_data.data.shape[0], step=1)
y_line = numpy.linspace(0, 1, test_data.data.shape[0])
y_adj = numpy.arange(0, test_data.data.shape[0],
step=1) / test_data.data.shape[0] * hyper_params["ALPHA"]
zoom = int(0.2 * test_data.data.shape[0]) # nb of points to zoom
index = numpy.concatenate([
numpy.repeat(True, len(id_min_test)),
numpy.repeat(False, len(id_maj_test))
])
def train_cifar10(batch_size: int,
learning_rate: float,
epochs: int,
experiment: Experiment,
model: Sequential = get_model(),
initial_epoch: int = 0,
training_datagen: ImageDataGenerator = ImageDataGenerator(),
scheduler: Callable[[int], float] = None,
early_stopping_th: Optional[int] = 250,
data_portion: float = 1.0,
find_lr: bool = False) -> None:
preprocessing_fnc = training_datagen.preprocessing_function
name = experiment.get_key()
log_path, model_path = get_output_paths(name)
data = get_cifar10_data(data_portion=data_portion)
training_datagen.fit(data.x_train)
log_images(data.x_train, training_datagen, experiment)
log_input_images(data.x_train, data.y_train, training_datagen, experiment)
opt = Adam(lr=learning_rate)
model.compile(loss='categorical_crossentropy',
optimizer=opt,
metrics=['accuracy'])
log_model_plot(experiment, model)
csv_cb = CSVLogger(log_path)
keep_best_cb = KeepBest('val_acc')
callbacks = [csv_cb,
keep_best_cb] # [csv_cb, early_stopping_cb, keep_best_cb]
if early_stopping_th is not None:
early_stopping_cb = EarlyStopping('val_acc',
patience=early_stopping_th,
restore_best_weights=True,
verbose=2)
callbacks.append(early_stopping_cb)
if scheduler is not None:
scheduler.experiment_log(experiment=experiment,
epochs=list(range(epochs)))
callbacks.append(LearningRateScheduler(scheduler))
if find_lr:
lrf = LearningRateFinder(model=model)
lrf.lrMult = (10e-1 / learning_rate)**(
1.0 / (epochs * len(data.x_train) / batch_size))
callbacks = [
LambdaCallback(
on_batch_end=lambda batch, logs: lrf.on_batch_end(batch, logs))
]
model.fit_generator(training_datagen.flow(data.x_train,
data.y_train,
batch_size=batch_size),
steps_per_epoch=len(data.x_train) / batch_size,
epochs=epochs,
validation_data=(preprocessing_fnc(data.x_dev),
data.y_dev),
shuffle=True,
callbacks=callbacks,
verbose=2,
initial_epoch=initial_epoch)
model.save(model_path)
experiment.log_asset(model_path)
experiment.log_asset(log_path)
if find_lr:
experiment.log_figure('lr vs acc', lrf.plot_loss())
log_final_metrics(experiment, model, data, preprocessing_fnc)
class Trainer():
def __init__(self, log_dir, cfg):
self.path = log_dir
self.cfg = cfg
if cfg.TRAIN.FLAG:
self.model_dir = os.path.join(self.path, 'Model')
self.log_dir = os.path.join(self.path, 'Log')
mkdir_p(self.model_dir)
mkdir_p(self.log_dir)
self.writer = SummaryWriter(log_dir=self.log_dir)
self.logfile = os.path.join(self.path, "logfile.log")
sys.stdout = Logger(logfile=self.logfile)
self.data_dir = cfg.DATASET.DATA_DIR
self.max_epochs = cfg.TRAIN.MAX_EPOCHS
self.snapshot_interval = cfg.TRAIN.SNAPSHOT_INTERVAL
s_gpus = cfg.GPU_ID.split(',')
self.gpus = [int(ix) for ix in s_gpus]
self.num_gpus = len(self.gpus)
self.batch_size = cfg.TRAIN.BATCH_SIZE
self.lr = cfg.TRAIN.LEARNING_RATE
torch.cuda.set_device(self.gpus[0])
cudnn.benchmark = True
sample = cfg.SAMPLE
self.dataset = []
self.dataloader = []
self.use_feats = cfg.model.use_feats
eval_split = cfg.EVAL if cfg.EVAL else 'val'
train_split = cfg.DATASET.train_split
if cfg.DATASET.DATASET == 'clevr':
clevr_collate_fn = collate_fn
cogent = cfg.DATASET.COGENT
if cogent:
print(f'Using CoGenT {cogent.upper()}')
if cfg.TRAIN.FLAG:
self.dataset = ClevrDataset(data_dir=self.data_dir,
split=train_split + cogent,
sample=sample,
**cfg.DATASET.params)
self.dataloader = DataLoader(dataset=self.dataset,
batch_size=cfg.TRAIN.BATCH_SIZE,
shuffle=True,
num_workers=cfg.WORKERS,
drop_last=True,
collate_fn=clevr_collate_fn)
self.dataset_val = ClevrDataset(data_dir=self.data_dir,
split=eval_split + cogent,
sample=sample,
**cfg.DATASET.params)
self.dataloader_val = DataLoader(dataset=self.dataset_val,
batch_size=cfg.TEST_BATCH_SIZE,
drop_last=False,
shuffle=False,
num_workers=cfg.WORKERS,
collate_fn=clevr_collate_fn)
elif cfg.DATASET.DATASET == 'gqa':
if self.use_feats == 'spatial':
gqa_collate_fn = collate_fn_gqa
elif self.use_feats == 'objects':
gqa_collate_fn = collate_fn_gqa_objs
if cfg.TRAIN.FLAG:
self.dataset = GQADataset(data_dir=self.data_dir,
split=train_split,
sample=sample,
use_feats=self.use_feats,
**cfg.DATASET.params)
self.dataloader = DataLoader(dataset=self.dataset,
batch_size=cfg.TRAIN.BATCH_SIZE,
shuffle=True,
num_workers=cfg.WORKERS,
drop_last=True,
collate_fn=gqa_collate_fn)
self.dataset_val = GQADataset(data_dir=self.data_dir,
split=eval_split,
sample=sample,
use_feats=self.use_feats,
**cfg.DATASET.params)
self.dataloader_val = DataLoader(dataset=self.dataset_val,
batch_size=cfg.TEST_BATCH_SIZE,
shuffle=False,
num_workers=cfg.WORKERS,
drop_last=False,
collate_fn=gqa_collate_fn)
# load model
self.vocab = load_vocab(cfg)
self.model, self.model_ema = mac.load_MAC(cfg, self.vocab)
self.weight_moving_average(alpha=0)
if cfg.TRAIN.RADAM:
self.optimizer = RAdam(self.model.parameters(), lr=self.lr)
else:
self.optimizer = optim.Adam(self.model.parameters(), lr=self.lr)
self.start_epoch = 0
if cfg.resume_model:
location = 'cuda' if cfg.CUDA else 'cpu'
state = torch.load(cfg.resume_model, map_location=location)
self.model.load_state_dict(state['model'])
self.optimizer.load_state_dict(state['optim'])
self.start_epoch = state['iter'] + 1
state = torch.load(cfg.resume_model_ema, map_location=location)
self.model_ema.load_state_dict(state['model'])
if cfg.start_epoch is not None:
self.start_epoch = cfg.start_epoch
self.previous_best_acc = 0.0
self.previous_best_epoch = 0
self.previous_best_loss = 100
self.previous_best_loss_epoch = 0
self.total_epoch_loss = 0
self.prior_epoch_loss = 10
self.print_info()
self.loss_fn = torch.nn.CrossEntropyLoss().cuda()
self.comet_exp = Experiment(
project_name=cfg.COMET_PROJECT_NAME,
api_key=os.getenv('COMET_API_KEY'),
workspace=os.getenv('COMET_WORKSPACE'),
disabled=cfg.logcomet is False,
)
if cfg.logcomet:
exp_name = cfg_to_exp_name(cfg)
print(exp_name)
self.comet_exp.set_name(exp_name)
self.comet_exp.log_parameters(flatten_json_iterative_solution(cfg))
self.comet_exp.log_asset(self.logfile)
self.comet_exp.log_asset_data(json.dumps(cfg, indent=4),
file_name='cfg.json')
self.comet_exp.set_model_graph(str(self.model))
if cfg.cfg_file:
self.comet_exp.log_asset(cfg.cfg_file)
with open(os.path.join(self.path, 'cfg.json'), 'w') as f:
json.dump(cfg, f, indent=4)
def print_info(self):
print('Using config:')
pprint.pprint(self.cfg)
print("\n")
pprint.pprint("Size of train dataset: {}".format(len(self.dataset)))
# print("\n")
pprint.pprint("Size of val dataset: {}".format(len(self.dataset_val)))
print("\n")
print("Using MAC-Model:")
pprint.pprint(self.model)
print("\n")
def weight_moving_average(self, alpha=0.999):
for param1, param2 in zip(self.model_ema.parameters(),
self.model.parameters()):
param1.data *= alpha
param1.data += (1.0 - alpha) * param2.data
def set_mode(self, mode="train"):
if mode == "train":
self.model.train()
self.model_ema.train()
else:
self.model.eval()
self.model_ema.eval()
def reduce_lr(self):
epoch_loss = self.total_epoch_loss # / float(len(self.dataset) // self.batch_size)
lossDiff = self.prior_epoch_loss - epoch_loss
if ((lossDiff < 0.015 and self.prior_epoch_loss < 0.5 and self.lr > 0.00002) or \
(lossDiff < 0.008 and self.prior_epoch_loss < 0.15 and self.lr > 0.00001) or \
(lossDiff < 0.003 and self.prior_epoch_loss < 0.10 and self.lr > 0.000005)):
self.lr *= 0.5
print("Reduced learning rate to {}".format(self.lr))
for param_group in self.optimizer.param_groups:
param_group['lr'] = self.lr
self.prior_epoch_loss = epoch_loss
self.total_epoch_loss = 0
def save_models(self, iteration):
save_model(self.model,
self.optimizer,
iteration,
self.model_dir,
model_name="model")
save_model(self.model_ema,
None,
iteration,
self.model_dir,
model_name="model_ema")
def train_epoch(self, epoch):
cfg = self.cfg
total_loss = 0.
total_correct = 0
total_samples = 0
self.labeled_data = iter(self.dataloader)
self.set_mode("train")
dataset = tqdm(self.labeled_data, total=len(self.dataloader), ncols=20)
for data in dataset:
######################################################
# (1) Prepare training data
######################################################
image, question, question_len, answer = data['image'], data[
'question'], data['question_length'], data['answer']
answer = answer.long()
question = Variable(question)
answer = Variable(answer)
if cfg.CUDA:
if self.use_feats == 'spatial':
image = image.cuda()
elif self.use_feats == 'objects':
image = [e.cuda() for e in image]
question = question.cuda()
answer = answer.cuda().squeeze()
else:
question = question
image = image
answer = answer.squeeze()
############################
# (2) Train Model
############################
self.optimizer.zero_grad()
scores = self.model(image, question, question_len)
loss = self.loss_fn(scores, answer)
loss.backward()
if self.cfg.TRAIN.CLIP_GRADS:
torch.nn.utils.clip_grad_norm_(self.model.parameters(),
self.cfg.TRAIN.CLIP)
self.optimizer.step()
self.weight_moving_average()
############################
# (3) Log Progress
############################
correct = scores.detach().argmax(1) == answer
total_correct += correct.sum().cpu().item()
total_loss += loss.item() * answer.size(0)
total_samples += answer.size(0)
avg_loss = total_loss / total_samples
train_accuracy = total_correct / total_samples
# accuracy = correct.sum().cpu().numpy() / answer.shape[0]
# if avg_loss == 0:
# avg_loss = loss.item()
# train_accuracy = accuracy
# else:
# avg_loss = 0.99 * avg_loss + 0.01 * loss.item()
# train_accuracy = 0.99 * train_accuracy + 0.01 * accuracy
# self.total_epoch_loss += loss.item() * answer.size(0)
dataset.set_description(
'Epoch: {}; Avg Loss: {:.5f}; Avg Train Acc: {:.5f}'.format(
epoch + 1, avg_loss, train_accuracy))
self.total_epoch_loss = avg_loss
dict = {
"loss": avg_loss,
"accuracy": train_accuracy,
"avg_loss": avg_loss, # For commet
"avg_accuracy": train_accuracy, # For commet
}
return dict
def train(self):
cfg = self.cfg
print("Start Training")
for epoch in range(self.start_epoch, self.max_epochs):
with self.comet_exp.train():
dict = self.train_epoch(epoch)
self.reduce_lr()
dict['epoch'] = epoch + 1
dict['lr'] = self.lr
self.comet_exp.log_metrics(
dict,
epoch=epoch + 1,
)
with self.comet_exp.validate():
dict = self.log_results(epoch, dict)
dict['epoch'] = epoch + 1
dict['lr'] = self.lr
self.comet_exp.log_metrics(
dict,
epoch=epoch + 1,
)
if cfg.TRAIN.EALRY_STOPPING:
if epoch - cfg.TRAIN.PATIENCE == self.previous_best_epoch:
# if epoch - cfg.TRAIN.PATIENCE == self.previous_best_loss_epoch:
print('Early stop')
break
self.comet_exp.log_asset(self.logfile)
self.save_models(self.max_epochs)
self.writer.close()
print("Finished Training")
print(
f"Highest validation accuracy: {self.previous_best_acc} at epoch {self.previous_best_epoch}"
)
def log_results(self, epoch, dict, max_eval_samples=None):
epoch += 1
self.writer.add_scalar("avg_loss", dict["loss"], epoch)
self.writer.add_scalar("train_accuracy", dict["accuracy"], epoch)
metrics = self.calc_accuracy("validation",
max_samples=max_eval_samples)
self.writer.add_scalar("val_accuracy_ema", metrics['acc_ema'], epoch)
self.writer.add_scalar("val_accuracy", metrics['acc'], epoch)
self.writer.add_scalar("val_loss_ema", metrics['loss_ema'], epoch)
self.writer.add_scalar("val_loss", metrics['loss'], epoch)
print(
"Epoch: {epoch}\tVal Acc: {acc},\tVal Acc EMA: {acc_ema},\tAvg Loss: {loss},\tAvg Loss EMA: {loss_ema},\tLR: {lr}"
.format(epoch=epoch, lr=self.lr, **metrics))
if metrics['acc'] > self.previous_best_acc:
self.previous_best_acc = metrics['acc']
self.previous_best_epoch = epoch
if metrics['loss'] < self.previous_best_loss:
self.previous_best_loss = metrics['loss']
self.previous_best_loss_epoch = epoch
if epoch % self.snapshot_interval == 0:
self.save_models(epoch)
return metrics
def calc_accuracy(self, mode="train", max_samples=None):
self.set_mode("validation")
if mode == "train":
loader = self.dataloader
# elif (mode == "validation") or (mode == 'test'):
# loader = self.dataloader_val
else:
loader = self.dataloader_val
total_correct = 0
total_correct_ema = 0
total_samples = 0
total_loss = 0.
total_loss_ema = 0.
pbar = tqdm(loader, total=len(loader), desc=mode.upper(), ncols=20)
for data in pbar:
image, question, question_len, answer = data['image'], data[
'question'], data['question_length'], data['answer']
answer = answer.long()
question = Variable(question)
answer = Variable(answer)
if self.cfg.CUDA:
if self.use_feats == 'spatial':
image = image.cuda()
elif self.use_feats == 'objects':
image = [e.cuda() for e in image]
question = question.cuda()
answer = answer.cuda().squeeze()
with torch.no_grad():
scores = self.model(image, question, question_len)
scores_ema = self.model_ema(image, question, question_len)
loss = self.loss_fn(scores, answer)
loss_ema = self.loss_fn(scores_ema, answer)
correct = scores.detach().argmax(1) == answer
correct_ema = scores_ema.detach().argmax(1) == answer
total_correct += correct.sum().cpu().item()
total_correct_ema += correct_ema.sum().cpu().item()
total_loss += loss.item() * answer.size(0)
total_loss_ema += loss_ema.item() * answer.size(0)
total_samples += answer.size(0)
avg_acc = total_correct / total_samples
avg_acc_ema = total_correct_ema / total_samples
avg_loss = total_loss / total_samples
avg_loss_ema = total_loss_ema / total_samples
pbar.set_postfix({
'Acc': f'{avg_acc:.5f}',
'Acc Ema': f'{avg_acc_ema:.5f}',
'Loss': f'{avg_loss:.5f}',
'Loss Ema': f'{avg_loss_ema:.5f}',
})
return dict(acc=avg_acc,
acc_ema=avg_acc_ema,
loss=avg_loss,
loss_ema=avg_loss_ema)
allexperiments = api.get('wronnyhuang/landscape2d')
for expt in allexperiments:
if exptname != api.get_experiment_other(expt, 'Name')[0]: continue
raw = api.get_experiment_metrics_raw(expt)
for r in raw:
if r['metricName'] == 'xent':
xent[r['step']] = r['metricValue']
elif r['metricName'] == 'acc':
acc[r['step']] = r['metricValue']
for idx, (c1, c2) in enumerate(cfeed):
if np.mod(idx, args.npart) != args.part: continue
if idx in xent and idx in acc:
print('skipping idx ' + str(idx))
continue
perturbedWeights = [
w + c1 * d1 + c2 * d2 for w, d1, d2 in zip(weights, dw1, dw2)
]
evaluator.assign_weights(perturbedWeights)
xent[idx], acc[idx], _ = evaluator.eval()
experiment.log_metric('xent', xent[idx], step=idx)
experiment.log_metric('acc', acc[idx], step=idx)
print('point ', idx + 1, 'of', len(cfeed), '| time:', time())
# save plot data and log the figure
with open(exptname + '.pkl', 'wb') as f:
pickle.dump((xent, acc), f)
experiment.log_asset(exptname + '.pkl')
os.remove(exptname + '.pkl')
results_dir + 'predictions/predictions_result.txt', 'evaluation loss:' +
str(evaluation_loss) + ' evaluation accuracy:' + str(evaluation_accuracy) +
' evaluation dice coef:' + str(evaluation_dice_coef))
make_file_and_write(results_dir + 'description.txt', description)
predicted_masks = model.predict(test_images, 1, verbose=1)
converted_test_images = convert_one_class_images_to_pixel_images_and_save(
results_dir + 'predictions/images/', test_images, shape=input_shape)
converted_test_masks = convert_multiclass_matirx_masks_to_pixel_masks_and_save(
results_dir + 'predictions/masks/', test_masks,
mask_pixel_values_aka_classes)
converted_predicted_masks = convert_multiclass_matirx_masks_to_pixel_masks_and_save(
results_dir + 'predictions/results/', predicted_masks,
mask_pixel_values_aka_classes)
plot_model(model,
to_file=results_dir + 'model_architecture.png',
show_shapes=True,
show_layer_names=True,
rankdir='TB')
experiment.log_image(results_dir + 'model_architecture.png',
name='model_architecture.png')
experiment.log_asset(results_dir + 'unet.hdf5', file_name='unet.hdf5')
for index in range(len(test_images)):
experiment.log_image(converted_test_images[index],
name=str(index) + '_test_image')
experiment.log_image(converted_test_masks[index],
name=str(index) + '_test_mask')
experiment.log_image(converted_predicted_masks[index],
name=str(index) + '_predicted_mask')
label_names = list(labeldf.taxonID.values)
callback_list = callbacks.create(experiment=experiment,
train_data=model.train_split,
validation_data=model.val_split,
train_shp=model.train_shp,
log_dir=save_dir,
label_names=label_names,
submodel=False)
neighbor.fit(model.train_split,
epochs=model.config["train"]["ensemble"]["epochs"],
validation_data=model.val_split,
callbacks=callback_list)
#save
neighbor.save("{}/neighbors.h5".format(save_dir))
predicted_shp = model.predict(model=neighbor)
predicted_shp.to_file("{}/prediction.shp".format(save_dir))
experiment.log_asset("{}/prediction.shp".format(save_dir))
experiment.log_asset("{}/prediction.dbf".format(save_dir))
experiment.log_asset("{}/prediction.shx".format(save_dir))
experiment.log_asset("{}/prediction.cpg".format(save_dir))
estimate_a = neighbor.get_layer("ensemble_add_bias").get_weights()
experiment.log_metric(name="target_versus_context_weight",
value=estimate_a[0][0])
#estimate_lambda = neighbor.get_layer("distance_decay").get_weights()
#experiment.log_metric(name="distance_decay_rate", value=estimate_lambda[0])
opt_file = "prev_experiments/11k_wgan_feature_pixelDA.yml"
opts = load_opts(path=root / opt_file,
default=root / "shared/defaults.yml")
opts = set_mode("test", opts)
opts.data.loaders.batch_size = 1
val_loader = get_loader(opts)
dataset_size = len(val_loader)
print("#testing images = %d" % dataset_size)
comet_exp = Experiment(workspace=opts.comet.workspace,
project_name=opts.comet.project_name)
if comet_exp is not None:
comet_exp.log_asset(file_data=str(root / opt_file),
file_name=root / opt_file)
comet_exp.log_parameters(opts)
checkpoint_directory, image_directory = prepare_sub_folder(
opts.train.output_dir)
opts.comet.exp = comet_exp
model = create_model(opts)
model.setup()
total_steps = 0
for i, data in enumerate(val_loader):
#
with Timer("Elapsed time in update " + str(i) + ": %f"):
if not args.only_training:
print('Incremental processing evaluation started.')
if not args.comet_track:
experiment = None
# outputs using partial, incremental inputs
partial_outputs = Results(test_loader, model, my_device, label_pad_id,
corpus, seq2seq, prophecies=None)
partial_outputs.print_metrics(model_name, experiment)
pickle.dump(partial_outputs,
open('outputs/results_'+model_name, 'wb'))
if args.comet_track:
experiment.log_asset('outputs/results_'+model_name,
'results_partialInputs_'+model_name)
# outputs using GPT2 prophecies
prophecies = pickle.load(open('prophecies/gpt2Prophecies_'+args.task+'_testset-withOutliers', 'rb'))
prophecies_outputs = Results(test_loader, model,
my_device, label_pad_id, corpus,
seq2seq, prophecies)
prophecies_outputs.print_metrics(model_name+'_gpt', experiment)
pickle.dump(prophecies_outputs,
open('outputs/resultsGPT_'+model_name, 'wb'))
if args.comet_track:
experiment.log_asset('outputs/resultsGPT_'+model_name,
"results_prophecies_"+model_name)
print('Finished!')
os.makedirs('pickle', exist_ok=True); pickle.dump(dw1, open(join('pickle', args.ckpt), 'wb'))
along = 'along_eigvec'
else:
dw1 = evaluator.get_random_dir()
along = 'along_random_'+str(args.seed)
# span
cfeed = args.span/2 * np.linspace(-1, 1, 30)
cfeed_enum = list(enumerate(cfeed)); random.shuffle(cfeed_enum) # shuffle order so we see plot shape sooner on comet
# loop over all points along surface direction
name = 'span_' + str(args.span) + '/' + basename(args.ckpt) + '/' + along # name of experiment
xent = np.zeros(len(cfeed))
weights = evaluator.get_weights()
for i, (idx, c) in enumerate(cfeed_enum):
perturbedWeights = [w + c * d1 for w, d1 in zip(weights, dw1)]
evaluator.assign_weights(perturbedWeights)
xent[idx], acc, _ = evaluator.eval()
experiment.log_metric(name, xent[idx], idx)
print('progress:', i + 1, 'of', len(cfeed_enum), '| time:', time())
# save plot data and log the figure
xent = np.reshape(np.array(xent), cfeed.shape)
plt.plot(cfeed, xent)
experiment.log_figure(name)
unique = utils.timenow()
pickle.dump((cfeed, xent), open(unique, 'wb'))
experiment.log_asset(file_path=unique, file_name=name+'.pkl')
def upload_experiment():
experiment = Experiment(**COMET_ML_KEY)
experiment.log_asset_folder('./datasets')
experiment.log_asset_folder('./models')
experiment.log_asset_folder('./knapsack')
experiment.log_asset(RESULT_FILE)
verbose=1)
y_pred = model.predict(
oDataSet.attributes[oData.Testing_indexes]).argmax(axis=1)
y_true = oDataSet.labels[oData.Testing_indexes]
experiment.log_metric("test_accuracy", accuracy_score(y_true, y_pred))
experiment.log_metric("beta", best_b)
experiment.log_metric("neurons", best_p)
experiment.log_confusion_matrix(matrix=confusion_matrix(y_true,
y_pred).tolist(),
labels=oDataSet.labelsNames)
# model.save('model.h5')
# experiment.log_asset("model.h5")
model.save_weights('model.weights')
experiment.log_asset("model.weights")
print(accuracy_score(y_true, y_pred))
print(confusion_matrix(y_true, y_pred))
oData.confusion_matrix = confusion_matrix(y_true, y_pred)
oData.model = model
oData.params = {
"k_fold": K_FOLD,
"GRID_RESULT": grid_result,
"GRID_VALUES_NEURON": GRID_NEURON,
"GRID_VALUES_BETA": GRID_B,
"LEARNING RATE": LEARNING_RATE,
"EPOCHS": epochs
}
experiment.log_other("params", oData.params)
y_pred = model.predict(
def run(args, train, sparse_evidences, claims_dict):
BATCH_SIZE = args.batch_size
LEARNING_RATE = args.learning_rate
DATA_SAMPLING = args.data_sampling
NUM_EPOCHS = args.epochs
MODEL = args.model
RANDOMIZE = args.no_randomize
PRINT = args.print
use_cuda = torch.cuda.is_available()
device = torch.device("cuda:0" if use_cuda else "cpu")
logger = Logger('./logs/{}'.format(time.localtime()))
if MODEL:
print("Loading pretrained model...")
model = torch.load(MODEL)
model.load_state_dict(torch.load(MODEL).state_dict())
else:
model = cdssm.CDSSM()
model = model.cuda()
model = model.to(device)
# model = cdssm.CDSSM()
# model = model.cuda()
# model = model.to(device)
if torch.cuda.device_count() > 0:
print("Let's use", torch.cuda.device_count(), "GPU(s)!")
model = nn.DataParallel(model)
print("Created model with {:,} parameters.".format(
putils.count_parameters(model)))
# if MODEL:
# print("TEMPORARY change to loading!")
# model.load_state_dict(torch.load(MODEL).state_dict())
print("Created dataset...")
# use an 80/20 train/validate split!
train_size = int(len(train) * 0.80)
#test = int(len(train) * 0.5)
train_dataset = pytorch_data_loader.WikiDataset(
train[:train_size],
claims_dict,
data_sampling=DATA_SAMPLING,
sparse_evidences=sparse_evidences,
randomize=RANDOMIZE)
val_dataset = pytorch_data_loader.WikiDataset(
train[train_size:],
claims_dict,
data_sampling=DATA_SAMPLING,
sparse_evidences=sparse_evidences,
randomize=RANDOMIZE)
train_dataloader = DataLoader(train_dataset,
batch_size=BATCH_SIZE,
num_workers=0,
shuffle=True,
collate_fn=pytorch_data_loader.PadCollate())
val_dataloader = DataLoader(val_dataset,
batch_size=BATCH_SIZE,
num_workers=0,
shuffle=True,
collate_fn=pytorch_data_loader.PadCollate())
# Loss and optimizer
criterion = torch.nn.NLLLoss()
# criterion = torch.nn.SoftMarginLoss()
# if torch.cuda.device_count() > 0:
# print("Let's parallelize the backward pass...")
# criterion = DataParallelCriterion(criterion)
optimizer = torch.optim.Adam(model.parameters(),
lr=LEARNING_RATE,
weight_decay=1e-3)
OUTPUT_FREQ = max(int((len(train_dataset) / BATCH_SIZE) * 0.02), 20)
parameters = {
"batch size": BATCH_SIZE,
"epochs": NUM_EPOCHS,
"learning rate": LEARNING_RATE,
"optimizer": optimizer.__class__.__name__,
"loss": criterion.__class__.__name__,
"training size": train_size,
"data sampling rate": DATA_SAMPLING,
"data": args.data,
"sparse_evidences": args.sparse_evidences,
"randomize": RANDOMIZE,
"model": MODEL
}
experiment = Experiment(api_key="YLsW4AvRTYGxzdDqlWRGCOhee",
project_name="clsm",
workspace="moinnadeem")
experiment.add_tag("train")
experiment.log_asset("cdssm.py")
experiment.log_dataset_info(name=args.data)
experiment.log_parameters(parameters)
model_checkpoint_dir = "models/saved_model"
for key, value in parameters.items():
if type(value) == str:
value = value.replace("/", "-")
if key != "model":
model_checkpoint_dir += "_{}-{}".format(key.replace(" ", "_"),
value)
print("Training...")
beginning_time = time.time()
best_loss = torch.tensor(float("inf"),
dtype=torch.float) # begin loss at infinity
for epoch in range(NUM_EPOCHS):
beginning_time = time.time()
mean_train_acc = 0.0
train_running_loss = 0.0
train_running_accuracy = 0.0
model.train()
experiment.log_current_epoch(epoch)
with experiment.train():
for train_batch_num, inputs in enumerate(train_dataloader):
claims_tensors, claims_text, evidences_tensors, evidences_text, labels = inputs
claims_tensors = claims_tensors.cuda()
evidences_tensors = evidences_tensors.cuda()
labels = labels.cuda()
#claims = claims.to(device).float()
#evidences = evidences.to(device).float()
#labels = labels.to(device)
y_pred = model(claims_tensors, evidences_tensors)
y = (labels)
# y = y.unsqueeze(0)
# y = y.unsqueeze(0)
# y_pred = parallel.gather(y_pred, 0)
y_pred = y_pred.squeeze()
# y = y.squeeze()
loss = criterion(y_pred, torch.max(y, 1)[1])
# loss = criterion(y_pred, y)
y = y.float()
binary_y = torch.max(y, 1)[1]
binary_pred = torch.max(y_pred, 1)[1]
accuracy = (binary_y == binary_pred).to("cuda")
accuracy = accuracy.float()
accuracy = accuracy.mean()
train_running_accuracy += accuracy.item()
mean_train_acc += accuracy.item()
train_running_loss += loss.item()
if PRINT:
for idx in range(len(y)):
print(
"Claim: {}, Evidence: {}, Prediction: {}, Label: {}"
.format(claims_text[0], evidences_text[idx],
torch.exp(y_pred[idx]), y[idx]))
if (train_batch_num %
OUTPUT_FREQ) == 0 and train_batch_num > 0:
elapsed_time = time.time() - beginning_time
binary_y = torch.max(y, 1)[1]
binary_pred = torch.max(y_pred, 1)[1]
print(
"[{}:{}:{:3f}s] training loss: {}, training accuracy: {}, training recall: {}"
.format(
epoch, train_batch_num /
(len(train_dataset) / BATCH_SIZE), elapsed_time,
train_running_loss / OUTPUT_FREQ,
train_running_accuracy / OUTPUT_FREQ,
recall_score(binary_y.cpu().detach().numpy(),
binary_pred.cpu().detach().numpy())))
# 1. Log scalar values (scalar summary)
info = {
'train_loss': train_running_loss / OUTPUT_FREQ,
'train_accuracy': train_running_accuracy / OUTPUT_FREQ
}
for tag, value in info.items():
experiment.log_metric(tag,
value,
step=train_batch_num *
(epoch + 1))
logger.scalar_summary(tag, value, train_batch_num + 1)
## 2. Log values and gradients of the parameters (histogram summary)
for tag, value in model.named_parameters():
tag = tag.replace('.', '/')
logger.histo_summary(tag,
value.detach().cpu().numpy(),
train_batch_num + 1)
logger.histo_summary(tag + '/grad',
value.grad.detach().cpu().numpy(),
train_batch_num + 1)
train_running_loss = 0.0
beginning_time = time.time()
train_running_accuracy = 0.0
optimizer.zero_grad()
loss.backward()
optimizer.step()
# del loss
# del accuracy
# del claims_tensors
# del claims_text
# del evidences_tensors
# del evidences_text
# del labels
# del y
# del y_pred
# torch.cuda.empty_cache()
print("Running validation...")
model.eval()
pred = []
true = []
avg_loss = 0.0
val_running_accuracy = 0.0
val_running_loss = 0.0
beginning_time = time.time()
with experiment.validate():
for val_batch_num, val_inputs in enumerate(val_dataloader):
claims_tensors, claims_text, evidences_tensors, evidences_text, labels = val_inputs
claims_tensors = claims_tensors.cuda()
evidences_tensors = evidences_tensors.cuda()
labels = labels.cuda()
y_pred = model(claims_tensors, evidences_tensors)
y = (labels)
# y_pred = parallel.gather(y_pred, 0)
y_pred = y_pred.squeeze()
loss = criterion(y_pred, torch.max(y, 1)[1])
y = y.float()
binary_y = torch.max(y, 1)[1]
binary_pred = torch.max(y_pred, 1)[1]
true.extend(binary_y.tolist())
pred.extend(binary_pred.tolist())
accuracy = (binary_y == binary_pred).to("cuda")
accuracy = accuracy.float().mean()
val_running_accuracy += accuracy.item()
val_running_loss += loss.item()
avg_loss += loss.item()
if (val_batch_num % OUTPUT_FREQ) == 0 and val_batch_num > 0:
elapsed_time = time.time() - beginning_time
print(
"[{}:{}:{:3f}s] validation loss: {}, accuracy: {}, recall: {}"
.format(
epoch,
val_batch_num / (len(val_dataset) / BATCH_SIZE),
elapsed_time, val_running_loss / OUTPUT_FREQ,
val_running_accuracy / OUTPUT_FREQ,
recall_score(binary_y.cpu().detach().numpy(),
binary_pred.cpu().detach().numpy())))
# 1. Log scalar values (scalar summary)
info = {'val_accuracy': val_running_accuracy / OUTPUT_FREQ}
for tag, value in info.items():
experiment.log_metric(tag,
value,
step=val_batch_num * (epoch + 1))
logger.scalar_summary(tag, value, val_batch_num + 1)
## 2. Log values and gradients of the parameters (histogram summary)
for tag, value in model.named_parameters():
tag = tag.replace('.', '/')
logger.histo_summary(tag,
value.detach().cpu().numpy(),
val_batch_num + 1)
logger.histo_summary(tag + '/grad',
value.grad.detach().cpu().numpy(),
val_batch_num + 1)
val_running_accuracy = 0.0
val_running_loss = 0.0
beginning_time = time.time()
# del loss
# del accuracy
# del claims_tensors
# del claims_text
# del evidences_tensors
# del evidences_text
# del labels
# del y
# del y_pred
# torch.cuda.empty_cache()
accuracy = accuracy_score(true, pred)
print("[{}] mean accuracy: {}, mean loss: {}".format(
epoch, accuracy, avg_loss / len(val_dataloader)))
true = np.array(true).astype("int")
pred = np.array(pred).astype("int")
print(classification_report(true, pred))
best_loss = torch.tensor(
min(avg_loss / len(val_dataloader),
best_loss.cpu().numpy()))
is_best = bool((avg_loss / len(val_dataloader)) <= best_loss)
putils.save_checkpoint(
{
"epoch": epoch,
"model": model,
"best_loss": best_loss
},
is_best,
filename="{}_loss_{}".format(model_checkpoint_dir,
best_loss.cpu().numpy()))
class Logger:
"""
Logs/plots results to comet.
Args:
exp_config (dict): experiment configuration hyperparameters
model_config (dict): model configuration hyperparameters
data_config (dict): data configuration hyperparameters
"""
def __init__(self, exp_config, model_config, data_config):
self.exp_config = exp_config
self.experiment = Experiment(**exp_config['comet_config'])
self.experiment.disable_mp()
self._log_hyper_params(exp_config, model_config, data_config)
self._epoch = 0
def _log_hyper_params(self, exp_config, model_config, data_config):
"""
Log the hyper-parameters for the experiment.
Args:
exp_config (dict): experiment configuration hyperparameters
model_config (dict): model configuration hyperparameters
data_config (dict): data configuration hyperparameters
"""
def flatten_arg_dict(arg_dict):
flat_dict = {}
for k, v in arg_dict.items():
if type(v) == dict:
flat_v = flatten_arg_dict(v)
for kk, vv in flat_v.items():
flat_dict[k + '_' + kk] = vv
else:
flat_dict[k] = v
return flat_dict
self.experiment.log_parameters(flatten_arg_dict(exp_config))
self.experiment.log_parameters(flatten_arg_dict(model_config))
self.experiment.log_parameters(flatten_arg_dict(data_config))
def log(self, results, train_val):
"""
Plot the results in comet.
Args:
results (dict): dictionary of metrics to plot
train_val (str): either 'train' or 'val'
"""
objectives, grads, params, images, metrics = results
for metric_name, metric in objectives.items():
self.experiment.log_metric(metric_name + '_' + train_val, metric,
self._epoch)
print(metric_name, ':', metric.item())
if train_val == 'train':
for grad_metric_name, grad_metric in grads.items():
self.experiment.log_metric('grads_' + grad_metric_name,
grad_metric, self._epoch)
for param_name, param in params.items():
self.experiment.log_metric(param_name + '_' + train_val, param,
self._epoch)
for image_name, imgs in images.items():
self.plot_images(imgs, image_name, train_val)
for metric_name, metric in metrics.items():
self.experiment.log_metric(metric_name + '_' + train_val, metric,
self._epoch)
if train_val == 'val':
self._epoch += 1
def plot_images(self, images, title, train_val):
"""
Plot a tensor of images.
Args:
images (torch.Tensor): a tensor of shape [steps, b, c, h, w]
title (str): title for the images, e.g. reconstructions
train_val (str): either 'train' or 'val'
"""
# add a channel dimension if necessary
if len(images.shape) == 4:
s, b, h, w = images.shape
images = images.view(s, b, 1, h, w)
s, b, c, h, w = images.shape
if b > 10:
images = images[:, :10]
# swap the steps and batch dimensions
images = images.transpose(0, 1).contiguous()
images = images.view(-1, c, h, w)
# grid = make_grid(images.clamp(0, 1), nrow=s).numpy()
grid = make_grid(images, nrow=s).numpy()
if c == 1:
grid = grid[0]
cmap = 'gray'
else:
grid = np.transpose(grid, (1, 2, 0))
cmap = None
plt.imshow(grid, cmap=cmap)
plt.axis('off')
self.experiment.log_figure(figure=plt,
figure_name=title + '_' + train_val)
plt.close()
def save(self, model):
"""
Save the model weights in comet.
Args:
model (nn.Module): the model to be saved
"""
if self._epoch % self.exp_config['checkpoint_interval'] == 0:
print('Checkpointing the model...')
state_dict = model.state_dict()
cpu_state_dict = {k: v.cpu() for k, v in state_dict.items()}
# save the state dictionary
ckpt_path = os.path.join('./ckpt_epoch_' + str(self._epoch) +
'.ckpt')
torch.save(cpu_state_dict, ckpt_path)
self.experiment.log_asset(ckpt_path)
os.remove(ckpt_path)
print('Done.')
def load(self, model):
"""
Load the model weights.
"""
assert self.exp_config[
'checkpoint_exp_key'] is not None, 'Checkpoint experiment key must be set.'
print('Loading checkpoint from ' +
self.exp_config['checkpoint_exp_key'] + '...')
comet_api = comet_ml.papi.API(
rest_api_key=self.exp_config['rest_api_key'])
exp = comet_api.get_experiment(
workspace=self.exp_config['comet_config']['workspace'],
project_name=self.exp_config['comet_config']['project_name'],
experiment=self.exp_config['checkpoint_exp_key'])
# asset_list = comet_api.get_experiment_asset_list(self.exp_config['checkpoint_exp_key'])
asset_list = exp.get_asset_list()
# get most recent checkpoint
ckpt_assets = [
asset for asset in asset_list if 'ckpt' in asset['fileName']
]
asset_times = [asset['createdAt'] for asset in ckpt_assets]
asset = asset_list[asset_times.index(max(asset_times))]
print('Checkpoint Name:', asset['fileName'])
ckpt = exp.get_asset(asset['assetId'])
state_dict = torch.load(io.BytesIO(ckpt))
model.load(state_dict)
print('Done.')
history['val_accuracy'].append(np.mean(val_accuracy))
# Save checkpoint if checkpointer metric improves
checkpointer.save_best(float(np.mean(val_loss)),
global_step)
# Check to stop training early
if early_stopping and earlystopper.check_early_stop(
float(np.mean(val_loss))):
break
# Save training history
history_file = os.path.join(output_dir,
experiment_name + "_history.npz")
save_history(history_file, history)
experiment.log_asset(history_file)
end_time = time.time()
print("Training took " + str(('%.3f' % (end_time - start_time))) +
" seconds for " + str(num_epochs) + " epochs")
print("------------------------------------")
print("Saving model...")
checkpointer.save(global_step)
experiment.log_asset_folder(checkpoint_dir)
if testing:
# Test the model
print("------------------------------------")
print("Testing model...")
float(acc_10) / float(total_batches))
experiment.log_metric(
'Acc@20',
float(acc_20) / float(total_batches))
experiment.log_metric(
'Acc@50',
float(acc_50) / float(total_batches))
running_loss = 0.0
acc_1 = 0.0
acc_5 = 0.0
acc_10 = 0.0
acc_20 = 0.0
acc_50 = 0.0
total_batches = 0.0
print("Saving Epoch")
torch.save({'model_state_dict': model.state_dict()},
"./models/" + arch_name.upper() + ".pt")
experiment.log_asset("./models/" + arch_name.upper() + ".pt")
if epoch % 5 == 0:
val_loss_old = val_loss
val_loss = val_model(model, val_loader)
if val_loss - val_loss_old < 1e-3:
scheduler_step.step()
step_count += 1
print("End here")
"--git_hash",
type=str,
default="no-git-hash",
help="output of git log --pretty=format:'%h' -n 1",
)
opts = parser.parse_args()
cudnn.benchmark = True
# Load experiment setting
config = get_config(opts.config)
max_iter = config["max_iter"]
display_size = config["display_size"]
config["vgg_model_path"] = opts.output_path
if comet_exp is not None:
comet_exp.log_asset(file_data=opts.config, file_name=Path(opts.config))
comet_exp.log_parameter("git_hash", opts.git_hash)
comet_exp.log_parameters(flatten_opts(config))
# Setup model and data loader
if opts.trainer == "MUNIT":
trainer = MUNIT_Trainer(config)
elif opts.trainer == "UNIT":
trainer = UNIT_Trainer(config)
else:
sys.exit("Only support MUNIT|UNIT")
trainer.cuda()
train_loader_a, train_loader_b, test_loader_a, test_loader_b = get_all_data_loaders(
config)
test_loader_a_w_mask = get_data_loader_mask_and_im(
def train_model(
xpath,
ypath,
xvalidpath,
yvalidpath,
xtestpath,
ytestpath,
modelpath,
models,
scaler,
):
if not os.path.exists(os.path.abspath(modelpath)):
os.mkdir(os.path.abspath(modelpath))
experiment = Experiment(project_name="mof-oxidation-states")
experiment.log_asset(xpath)
experiment.log_asset(ypath)
experiment.log_asset(xvalidpath)
experiment.log_asset(yvalidpath)
experiment.log_asset(xtestpath)
experiment.log_asset(ytestpath)
trainlogger.info("Train X: {}".format(xpath))
trainlogger.info("Train y: {}".format(ypath))
trainlogger.info("Validation X: {}".format(xvalidpath))
trainlogger.info("Validation y: {}".format(yvalidpath))
trainlogger.info("Test X: {}".format(xtestpath))
trainlogger.info("Test y: {}".format(ytestpath))
train_stem = Path(xpath).stem
ml_object = MLOxidationStates.from_x_y_paths(
xpath=os.path.abspath(xpath),
ypath=os.path.abspath(ypath),
xvalidpath=os.path.abspath(xvalidpath),
yvalidpath=os.path.abspath(yvalidpath),
modelpath=os.path.abspath(modelpath),
scaler=scaler,
n=int(10),
voting="soft",
calibrate="istonic",
experiment=experiment,
)
X_test = np.load(xtestpath)
y_test = np.load(ytestpath)
X_test = ml_object.scaler.transform(X_test)
models_loaded = []
for model in models:
name = Path(model).stem
model = joblib.load(model)
models_loaded.append((name, model))
votingclassifier, _ = ml_object.calibrate_ensemble(
models_loaded,
ml_object.x_valid,
ml_object.y_valid,
ml_object.experiment,
ml_object.voting,
ml_object.calibrate,
)
votingclassifier_tuple = [("votingclassifier_" + train_stem, votingclassifier)]
cores_test = ml_object.model_eval(
votingclassifier_tuple, X_test, y_test, experiment, "test", modelpath
)
scores_train = ml_object.model_eval(
votingclassifier_tuple, ml_object.x, ml_object.y, experiment, "train", modelpath
)
scores_valid = ml_object.model_eval(
votingclassifier_tuple,
ml_object.x_valid,
ml_object.y_valid,
experiment,
"valid",
modelpath,
)
}
def getBestModelfromTrials(trials):
valid_trial_list = [
trial for trial in trials if STATUS_OK == trial['result']['status']
]
losses = [float(trial['result']['loss']) for trial in valid_trial_list]
index_having_minumum_loss = np.argmin(losses)
best_trial_obj = valid_trial_list[index_having_minumum_loss]
return best_trial_obj['result']['mlp']
if __name__ == '__main__':
experiment = Experiment(project_name='color-ml')
with experiment.train():
trials = Trials()
best = fmin(keras_fmin_fnct,
get_space(),
algo=tpe.suggest,
max_evals=150,
trials=trials)
X_train, Y_train, X_test, Y_test = data()
print('Evalutation of best performing model:')
joblib.dump(best, 'best.joblib')
model = getBestModelfromTrials(trials)
joblib.dump(model, 'best_model.joblib')
experiment.log_asset('best.joblib')
experiment.log_asset('best_model.joblib')
options['clip_gradient_norm'])
optimizer.step()
N, C = output_fw.shape
running_loss += total_loss.item()
#torch.cuda.empty_cache()
div = len(train_dl)
experiment.log_metric('Epoch', epoch)
experiment.log_metric('Running_loss',
running_loss / float(div))
experiment.log_metric('Temporal_loss',
temporal_loss / float(div))
experiment.log_metric('Caption_loss',
caption_loss / float(div))
torch.save({
'model_state_dict': model.state_dict(),
}, "full_caption_C3D_16_" + str(epoch) + ".pt")
experiment.log_asset("full_caption_C3D_16_" + str(epoch) +
".pt")
if epoch % 5 == 0:
val_loss_old = val_loss
val_loss = val_model(model, val_loader)
if val_loss - val_loss_old < 1e-4:
step_count += 1