def make_config(self, args):
'''
make_config
'''
config = Config(self.log_dir.path, "w")
config.append(args)
config["hostname"] = os.environ["HOSTNAME"]
config.save()
self.config = config
def main():
parser = argparse.ArgumentParser()
parser.add_argument("--name", default="rnn{}".format(datetime.now().strftime("%y%m%d%H%M%S")))
parser.add_argument("--directory", default="./logs")
# GPU
parser.add_argument("--num_gpus", default=len(get_available_gpus()), type=int)
parser.add_argument("--multi-gpu", default=False, action='store_true', dest='multi_gpu')
# Hyperparameters
parser.add_argument("--epoch", dest="epochs", default=200, type=int)
parser.add_argument("--batch_size", default=128, type=int)
parser.add_argument("--valid_batch_size", default=1024, type=int)
# Optimizer
parser.add_argument("--optimizer", default="Adam", type=str)
parser.add_argument("--lr", default=0.001, type=float)
parser.add_argument("--clipnorm", default=-1, type=float,
help="if it is greater than 0, then graidient clipping is activated")
parser.add_argument("--clipvalue", default=-1, type=float)
parser.add_argument("--use-class-weight", dest="use_class_weight",
default=False, action="store_true")
# Frequencies
parser.add_argument("--valid_freq", type=int, default=32)
parser.add_argument("--save_freq", type=int, default=32)
parser.add_argument("-v", "--verbose", action="store_true")
# Project parameters
parser.add_argument("--min-pt", dest="min_pt", default=100, type=int)
# Model Archtecture
parser.add_argument("--act", dest="activation", default="elu", type=str)
parser.add_argument("--rnn", default="gru", type=str)
args = parser.parse_args()
###################
#
###################
log_dir = Directory(path=os.path.join(args.directory, args.name))
log_dir.mkdir("script")
log_dir.mkdir("checkpoint")
log_dir.mkdir("learning_curve")
log_dir.mkdir("roc_curve")
log_dir.mkdir("model_response")
config = Config(log_dir.path, "w")
config.append(args)
config["hostname"] = os.environ["HOSTNAME"]
config["log_dir"] = log_dir.path
config.save()
scripts = [
"./dataset.py",
"./model.py",
"./train.py",
]
for each in scripts:
shutil.copy2(each, log_dir.script.path)
open(log_dir.script.concat("__init__.py"), 'w').close()
########################################
# Load training and validation datasets
########################################
dset = get_dataset_paths(config.min_pt)
config.append(dset)
config["seq_maxlen"] = {
"x_kin": 30,
"x_pid": 30
}
train_iter = get_data_iter(
path=dset["training"],
batch_size=config.batch_size,
seq_maxlen=config.seq_maxlen,
fit_generator_mode=True)
valid_iter = get_data_iter(
path=dset["validation"],
batch_size=config.valid_batch_size,
seq_maxlen=config.seq_maxlen,
fit_generator_mode=True)
test_iter = get_data_iter(
path=dset["test"],
batch_size=config.valid_batch_size,
seq_maxlen=config.seq_maxlen,
fit_generator_mode=False)
if config.use_class_weight:
class_weight = get_class_weight(train_iter)
config["class_weight"] = list(class_weight)
else:
class_weight = None
#################################
# Build & Compile a model.
#################################
x_kin_shape = train_iter.get_shape("x_kin", batch_shape=False)
x_pid_shape = train_iter.get_shape("x_pid", batch_shape=False)
model = build_model(
x_kin_shape,
x_pid_shape,
rnn=config.rnn,
activation=config.activation,
name=config.name)
config["model"] = model.get_config()
if config.multi_gpu:
model = multi_gpu_model(model, gpus=config.num_gpus)
if config.hostname == "cms05.sscc.uos.ac.kr":
model_plot_path = log_dir.concat("model.png")
plot_model(model, to_file=model_plot_path, show_shapes=True)
else:
model.summary()
loss = 'categorical_crossentropy'
# TODO capsulisation
optimizer_kwargs = {}
if config.clipnorm > 0:
optimizer_kwargs["clipnorm"] = config.clipnorm
if config.clipvalue > 0:
optimizer_kwargs["clipvalue"] = config.clipvalue
optimizer = getattr(optimizers, config.optimizer)(lr=config.lr, **optimizer_kwargs)
metric_list = ["accuracy" , roc_auc]
model.compile(
loss=loss,
optimizer=optimizer,
metrics=metric_list)
config["loss"] = loss
config["optimizer_config"] = optimizer.get_config()
###########################################################################
# Callbacks
###########################################################################
ckpt_format_str = "weights_epoch-{epoch:02d}_loss-{val_loss:.4f}_acc-{val_acc:.4f}_auc-{val_roc_auc:.4f}.hdf5"
ckpt_path = log_dir.checkpoint.concat(ckpt_format_str)
csv_log_path = log_dir.concat("log_file.csv")
learning_curve = LearningCurve(directory=log_dir.learning_curve.path)
learning_curve.book(x="step", y="roc_auc", best="max")
learning_curve.book(x="step", y="acc", best="max")
learning_curve.book(x="step", y="loss", best="min")
callback_list = [
callbacks.ModelCheckpoint(filepath=ckpt_path),
callbacks.ReduceLROnPlateau(verbose=1),
callbacks.CSVLogger(csv_log_path),
learning_curve,
]
############################################################################
# Training
############################################################################
model.fit_generator(
train_iter,
steps_per_epoch=len(train_iter),
epochs=config.epochs,
validation_data=valid_iter,
validation_steps=len(valid_iter),
callbacks=callback_list,
shuffle=True,
class_weight=class_weight)
del model
print("Training is over! :D")
###########################################
# Evaluation
############################################
train_iter.fit_generator_mode = False
train_iter.cycle = False
good_ckpt = find_good_checkpoint(
log_dir.checkpoint.path,
which={"max": ["auc", "acc"], "min": ["loss"]})
all_ckpt = set(log_dir.checkpoint.get_entries())
# no local optima
useless_ckpt = all_ckpt.difference(good_ckpt)
for each in useless_ckpt:
os.remove(each)
for idx, each in enumerate(good_ckpt, 1):
print("[{}/{}] {}".format(idx, len(good_ckpt), each))
K.clear_session()
evaluate(checkpoint_path=each,
train_iter=train_iter,
test_iter=test_iter,
log_dir=log_dir)
config.save()
def main():
##########################
# Argument Parsing
##########################
parser = argparse.ArgumentParser()
parser.add_argument("--logdir",
dest="log_dir",
type=str,
default="./logs/untitled-{}".format(
datetime.now().strftime("%y%m%d-%H%M%S")))
parser.add_argument("--num_gpus",
default=len(get_available_gpus()),
type=int)
parser.add_argument("--multi-gpu",
default=False,
action='store_true',
dest='multi_gpu')
# Hyperparameters
parser.add_argument("--optimizer", default="Adam", type=str)
parser.add_argument("--lr", default=0.003, type=float)
parser.add_argument(
"--clipnorm",
default=-1,
type=float,
help="if it is greater than 0, then graidient clipping is activated")
parser.add_argument("--clipvalue", default=-1, type=float)
parser.add_argument("--use-class-weight",
dest="use_class_weight",
default=False,
action="store_true")
parser.add_argument("--batch_size", default=128, type=int)
parser.add_argument("--valid_batch_size", default=1024, type=int)
# Frequencies
parser.add_argument("--valid_freq", type=int, default=32)
parser.add_argument("--save_freq", type=int, default=32)
parser.add_argument("-v", "--verbose", action="store_true")
# Project parameters
parser.add_argument("--min-pt", dest="min_pt", default=100, type=int)
# Model Archtecture
parser.add_argument("--act", dest="activation", default="elu", type=str)
args = parser.parse_args()
###################
#
###################
log_dir = Directory(path=args.log_dir)
log_dir.mkdir("script")
log_dir.mkdir("checkpoint")
log_dir.mkdir("learning_curve")
log_dir.mkdir("roc_curve")
log_dir.mkdir("model_response")
backup_scripts(log_dir.script.path)
config = Config(log_dir.path, "w")
config.append(args)
config["hostname"] = os.environ["HOSTNAME"]
###############################
# Load
#################################
if os.environ["HOSTNAME"] == "cms05.sscc.uos.ac.kr":
ckpt_dir = "/store/slowmoyang/QGJets/SJ-keras4hep/Dev-Composite"
elif os.environ["HOSTNAME"] == "gate2":
ckpt_dir = "/scratch/slowmoyang/QGJets/SJ-keras4hep/Dev-Composite"
else:
raise NotImplementedError
cnn_path = os.path.join(
ckpt_dir,
"VanillaConvNet_epoch-67_loss-0.4987_acc-0.7659_auc-0.8422.hdf5")
rnn_path = os.path.join(
ckpt_dir,
"RNNGatherEmbedding_weights_epoch-121_loss-0.4963_acc-0.7658_auc-0.8431.hdf5"
)
cnn_custom_objects = get_cnn_custom_objects()
rnn_custom_objects = get_rnn_custom_objects()
custom_objects = {}
custom_objects.update(cnn_custom_objects)
custom_objects.update(rnn_custom_objects)
cnn = load_model(cnn_path, custom_objects=cnn_custom_objects)
cnn.summary()
print("\n" * 5)
rnn = load_model(rnn_path, custom_objects=rnn_custom_objects)
rnn.summary()
print("\n" * 5)
######################################
# Build
######################################
inputs = cnn.inputs + rnn.inputs
# cnn_logits = cnn.get_layer("cnn_gap2d_0").output
# rnn_logits = rnn.get_layer("rnn_dense_6").output
cnn_softmax = cnn.get_layer("cnn_softmax_0").output
rnn_softmax = rnn.get_layer("rnn_softmax_0").output
# logits = Add()([cnn_logits, rnn_logits])
logits = Add()([cnn_softmax, rnn_softmax])
y_pred = Softmax()(logits)
model = Model(inputs=inputs, outputs=y_pred)
model.summary()
################################################
# Freeze
##################################################
for each in model.layers:
each.trainable = False
###################################################
#
####################################################
dset = get_dataset_paths(config.min_pt)
config["fit_generator_input"] = {
"x": ["x_img", "x_kin", "x_pid", "x_len"],
"y": ["y"]
}
train_iter = get_data_iter(path=dset["training"],
batch_size=config.batch_size,
fit_generator_input=config.fit_generator_input,
fit_generator_mode=True)
test_iter = get_data_iter(path=dset["test"],
batch_size=config.valid_batch_size,
fit_generator_input=config.fit_generator_input,
fit_generator_mode=False)
###########################################
# Evaluation
############################################
train_iter.fit_generator_mode = False
train_iter.cycle = False
evaluate(model=model,
train_iter=train_iter,
test_iter=test_iter,
log_dir=log_dir)
config.save()
def main():
parser = argparse.ArgumentParser()
parser.add_argument("--logdir",
dest="log_dir",
type=str,
default="./logs/untitled-{}".format(
datetime.now().strftime("%y%m%d-%H%M%S")))
parser.add_argument("--num_gpus",
default=len(get_available_gpus()),
type=int)
parser.add_argument("--multi-gpu",
default=False,
action='store_true',
dest='multi_gpu')
# Hyperparameters
parser.add_argument("--epoch", dest="num_epochs", default=100, type=int)
parser.add_argument("--batch_size", default=128, type=int)
parser.add_argument("--valid_batch_size", default=1024, type=int)
parser.add_argument("--lr", default=0.001, type=float)
parser.add_argument(
"--clipnorm",
default=-1,
type=float,
help="if it is greater than 0, then graidient clipping is activated")
parser.add_argument("--clipvalue", default=-1, type=float)
parser.add_argument("--use-class-weight",
dest="use_class_weight",
default=False,
action="store_true")
# Frequencies
parser.add_argument("--valid_freq", type=int, default=32)
parser.add_argument("--save_freq", type=int, default=32)
parser.add_argument("-v", "--verbose", action="store_true")
# Project parameters
parser.add_argument("--min-pt", dest="min_pt", default=100, type=int)
args = parser.parse_args()
###################
#
###################
log_dir = Directory(path=args.log_dir)
log_dir.mkdir("script")
log_dir.mkdir("model_checkpoint")
log_dir.mkdir("learning_curve")
log_dir.mkdir("roc_curve")
log_dir.mkdir("model_response")
backup_scripts(log_dir.script.path)
config = Config(log_dir.path, "w")
config.append(args)
config["hostname"] = os.environ["HOSTNAME"]
########################################
# Load training and validation datasets
########################################
dset = get_dataset_paths(args.min_pt)
config.append(dset)
config["seq_maxlen"] = {"x": 30}
train_iter = get_data_iter(path=dset["training"],
batch_size=args.batch_size,
seq_maxlen=config.seq_maxlen,
fit_generator_mode=True)
valid_iter = get_data_iter(path=dset["validation"],
batch_size=args.valid_batch_size,
seq_maxlen=config.seq_maxlen,
fit_generator_mode=True)
test_iter = get_data_iter(path=dset["test"],
batch_size=args.valid_batch_size,
seq_maxlen=config.seq_maxlen,
fit_generator_mode=False)
if args.use_class_weight:
class_weight = get_class_weight(train_iter)
config["class_weight"] = list(class_weight)
else:
class_weight = None
#################################
# Build & Compile a model.
#################################
x_shape = train_iter.get_shape("x", batch_shape=False)
model = build_a_model(x_shape=x_shape)
config["model"] = model.get_config()
if args.multi_gpu:
model = multi_gpu_model(_model, gpus=args.num_gpus)
model_plot_path = log_dir.concat("model.png")
plot_model(model, to_file=model_plot_path, show_shapes=True)
loss = 'categorical_crossentropy'
# TODO capsulisation
optimizer_kwargs = {}
if args.clipnorm > 0:
optimzer_kwargs["clipnorm"] = args.clipnorm
if args.clipvalue > 0:
optimzer_kwargs["clipvalue"] = args.clipvalue
optimizer = optimizers.Adam(lr=args.lr, **optimizer_kwargs)
metric_list = ["accuracy", roc_auc]
model.compile(loss=loss, optimizer=optimizer, metrics=metric_list)
config["loss"] = loss
config["optimizer"] = "Adam"
config["optimizer_config"] = optimizer.get_config()
###########################################################################
# Callbacks
###########################################################################
ckpt_format_str = "weights_epoch-{epoch:02d}_loss-{val_loss:.4f}_acc-{val_acc:.4f}_auc-{val_roc_auc:.4f}.hdf5"
ckpt_path = log_dir.model_checkpoint.concat(ckpt_format_str)
csv_log_path = log_dir.concat("log_file.csv")
learning_curve = LearningCurve(directory=log_dir.learning_curve.path)
learning_curve.book(x="step", y="roc_auc", best="max")
learning_curve.book(x="step", y="acc", best="max")
learning_curve.book(x="step", y="loss", best="min")
callback_list = [
callbacks.ModelCheckpoint(filepath=ckpt_path),
callbacks.EarlyStopping(monitor="val_loss", patience=5),
callbacks.ReduceLROnPlateau(),
callbacks.CSVLogger(csv_log_path),
learning_curve,
]
############################################################################
# Training
############################################################################
model.fit_generator(train_iter,
steps_per_epoch=len(train_iter),
epochs=50,
validation_data=valid_iter,
validation_steps=len(valid_iter),
callbacks=callback_list,
shuffle=True,
class_weight=class_weight)
print("Training is over! :D")
del model
###########################################
# Evaluation
############################################
train_iter.fit_generator_mode = False
train_iter.cycle = False
good_ckpt = find_good_checkpoint(log_dir.model_checkpoint.path,
which={
"max": ["auc", "acc"],
"min": ["loss"]
})
for idx, each in enumerate(good_ckpt, 1):
print("[{}/{}] {}".format(idx, len(good_ckpt), each))
K.clear_session()
evaluate(custom_objects={"roc_auc": roc_auc},
checkpoint_path=each,
train_iter=train_iter,
test_iter=test_iter,
log_dir=log_dir)
config.save()
def main():
##########################
# Argument Parsing
##########################
parser = argparse.ArgumentParser()
parser.add_argument("--logdir",
dest="log_dir",
type=str,
default="./logs/untitled-{}".format(
datetime.now().strftime("%y%m%d-%H%M%S")))
parser.add_argument("--num_gpus",
default=len(get_available_gpus()),
type=int)
parser.add_argument("--multi-gpu",
default=False,
action='store_true',
dest='multi_gpu')
# Hyperparameters
parser.add_argument("--epoch", dest="epochs", default=100, type=int)
parser.add_argument("--batch_size", default=128, type=int)
parser.add_argument("--valid_batch_size", default=1024, type=int)
parser.add_argument("--optimizer", default="Adam", type=str)
parser.add_argument("--lr", default=0.003, type=float)
parser.add_argument(
"--clipnorm",
default=-1,
type=float,
help="if it is greater than 0, then graidient clipping is activated")
parser.add_argument("--clipvalue", default=-1, type=float)
parser.add_argument("--use-class-weight",
dest="use_class_weight",
default=False,
action="store_true")
# Frequencies
parser.add_argument("--valid_freq", type=int, default=32)
parser.add_argument("--save_freq", type=int, default=32)
parser.add_argument("-v", "--verbose", action="store_true")
# Project parameters
parser.add_argument("--min-pt", dest="min_pt", default=100, type=int)
# Model Archtecture
parser.add_argument("--act", dest="activation", default="elu", type=str)
args = parser.parse_args()
###################
#
###################
log_dir = Directory(path=args.log_dir)
log_dir.mkdir("script")
log_dir.mkdir("checkpoint")
log_dir.mkdir("learning_curve")
log_dir.mkdir("roc_curve")
log_dir.mkdir("model_response")
backup_scripts(log_dir.script.path)
config = Config(log_dir.path, "w")
config.append(args)
config["hostname"] = os.environ["HOSTNAME"]
###############################
# Load
#################################
if os.environ["HOSTNAME"] == "cms05.sscc.uos.ac.kr":
ckpt_dir = "/store/slowmoyang/QGJets/SJ-keras4hep/Dev-Composite"
elif os.environ["HOSTNAME"] == "gate2":
ckpt_dir = "/scratch/slowmoyang/QGJets/SJ-keras4hep/Dev-Composite"
else:
raise NotImplementedError
cnn_path = os.path.join(
ckpt_dir,
"VanillaConvNet_epoch-67_loss-0.4987_acc-0.7659_auc-0.8422.hdf5")
rnn_path = os.path.join(
ckpt_dir,
"RNNGatherEmbedding_weights_epoch-121_loss-0.4963_acc-0.7658_auc-0.8431.hdf5"
)
cnn_custom_objects = get_cnn_custom_objects()
rnn_custom_objects = get_rnn_custom_objects()
custom_objects = {}
custom_objects.update(cnn_custom_objects)
custom_objects.update(rnn_custom_objects)
cnn = load_model(cnn_path, custom_objects=cnn_custom_objects)
cnn.summary()
print("\n" * 5)
rnn = load_model(rnn_path, custom_objects=rnn_custom_objects)
rnn.summary()
print("\n" * 5)
######################################
# Build
######################################
inputs = cnn.inputs + rnn.inputs
# cnn_last_hidden = cnn.get_layer("cnn_conv2d_3").output
# rnn_last_hidden = rnn.get_layer("rnn_dense_5").output
# cnn_flatten = Flatten()(cnn_last_hidden)
# joint = Concatenate(axis=-1)([cnn_flatten, rnn_last_hidden])
cnn_last_hidden = cnn.get_layer("cnn_batch_norm_2").output
rnn_last_hidden = rnn.get_layer("rnn_dense_5").output
cnn_gap = GlobalAveragePooling2D()(cnn_last_hidden)
cnn_flatten = Flatten()(cnn_gap)
joint = Concatenate(axis=-1)([cnn_flatten, rnn_last_hidden])
joint = BatchNormalization(axis=-1, name="joint_batch_norm")(joint)
joint = Dense(128)(joint)
joint = Activation("relu")(joint)
logits = Dense(2)(joint)
y_pred = Softmax()(logits)
model = Model(inputs=inputs, outputs=y_pred)
model.summary()
################################################
# Freeze
##################################################
for each in model.layers:
if each.name.startswith("cnn") or each.name.startswith("rnn"):
each.trainable = False
###################################################
#
####################################################
dset = get_dataset_paths(config.min_pt)
config["fit_generator_input"] = {
"x": ["x_img", "x_kin", "x_pid", "x_len"],
"y": ["y"]
}
train_iter = get_data_iter(path=dset["training"],
batch_size=config.batch_size,
fit_generator_input=config.fit_generator_input,
fit_generator_mode=True)
valid_iter = get_data_iter(path=dset["validation"],
batch_size=config.valid_batch_size,
fit_generator_input=config.fit_generator_input,
fit_generator_mode=True)
test_iter = get_data_iter(path=dset["test"],
batch_size=config.valid_batch_size,
fit_generator_input=config.fit_generator_input,
fit_generator_mode=False)
if config.use_class_weight:
class_weight = get_class_weight(train_iter)
config["class_weight"] = list(class_weight)
else:
class_weight = None
######################################
#
#######################################
loss = 'categorical_crossentropy'
# TODO capsulisation
optimizer_kwargs = {}
if config.clipnorm > 0:
optimizer_kwargs["clipnorm"] = config.clipnorm
if config.clipvalue > 0:
optimizer_kwargs["clipvalue"] = config.clipvalue
optimizer = getattr(optimizers, config.optimizer)(lr=config.lr,
**optimizer_kwargs)
metric_list = ["accuracy", roc_auc]
model.compile(loss=loss, optimizer=optimizer, metrics=metric_list)
###########################################################################
# Callbacks
###########################################################################
ckpt_format_str = "weights_epoch-{epoch:02d}_loss-{val_loss:.4f}_acc-{val_acc:.4f}_auc-{val_roc_auc:.4f}.hdf5"
ckpt_path = log_dir.checkpoint.concat(ckpt_format_str)
csv_log_path = log_dir.concat("log_file.csv")
learning_curve = LearningCurve(directory=log_dir.learning_curve.path)
learning_curve.book(x="step", y="roc_auc", best="max")
learning_curve.book(x="step", y="acc", best="max")
learning_curve.book(x="step", y="loss", best="min")
callback_list = [
callbacks.ModelCheckpoint(filepath=ckpt_path),
# callbacks.EarlyStopping(monitor="val_loss" , patience=5),
callbacks.ReduceLROnPlateau(verbose=1),
callbacks.CSVLogger(csv_log_path),
learning_curve,
]
############################################################################
# Training
############################################################################
model.fit_generator(train_iter,
steps_per_epoch=len(train_iter),
epochs=config.epochs,
validation_data=valid_iter,
validation_steps=len(valid_iter),
callbacks=callback_list,
shuffle=True,
class_weight=class_weight)
print("Training is over! :D")
del model
###########################################
# Evaluation
############################################
train_iter.fit_generator_mode = False
train_iter.cycle = False
good_ckpt = find_good_checkpoint(log_dir.checkpoint.path,
which={
"max": ["auc", "acc"],
"min": ["loss"]
})
for idx, each in enumerate(good_ckpt, 1):
print("[{}/{}] {}".format(idx, len(good_ckpt), each))
K.clear_session()
evaluate(custom_objects=custom_objects,
checkpoint_path=each,
train_iter=train_iter,
test_iter=test_iter,
log_dir=log_dir)
config.save()