def __init__(self, dim=256, activation='rectify', proj_init_fn='orthogonal', rec_init_fn='identity',
bias_init_fn='constant', update_fn='nag'):
self.dim = dim
self.activation = instantiate(activations, activation)
self.proj_init_fn = instantiate(inits, proj_init_fn)
self.rec_init_fn = instantiate(inits, rec_init_fn)
self.bias_init_fn = instantiate(inits, bias_init_fn)
self.update_fn = instantiate(updates, update_fn)
def __init__(self, dim=256, activation='rectify', proj_init_fn='orthogonal', rec_init_fn='identity',
bias_init_fn='constant', update_fn='nag'):
self.dim = dim
self.activation = instantiate(activations, activation)
self.proj_init_fn = instantiate(inits, proj_init_fn)
self.rec_init_fn = instantiate(inits, rec_init_fn)
self.bias_init_fn = instantiate(inits, bias_init_fn)
self.update_fn = instantiate(updates, update_fn)
def __init__(self, model, e, a=0.5, verbose=2, iterator='linear'):
self.verbose = verbose
self.model = init(model)
try:
self.iterator = instantiate(iterators, iterator)
except:
self.iterator = instantiate(async_iterators, iterator)
y_tr = self.model[-1].op({
'dropout': True,
'bn_active': True,
'infer': False
})
y_te = self.model[-1].op({
'dropout': False,
'bn_active': False,
'infer': False
})
y_inf = self.model[-1].op({
'dropout': False,
'bn_active': True,
'infer': True
})
self.X = self.model[0].X
self.Y = T.TensorType(theano.config.floatX,
(False, ) * (len(model[-1].out_shape)))()
cost = T.nnet.categorical_crossentropy(y_tr, self.Y).mean()
X_adv = self.X + e * T.sgn(T.grad(cost, self.X))
self.model[0].X = X_adv
y_tr_adv = self.model[-1].op({
'dropout': True,
'bn_active': True,
'infer': False
})
cost_adv = a * cost + (1. - a) * T.nnet.categorical_crossentropy(
y_tr_adv, self.Y).mean()
te_cost = T.nnet.categorical_crossentropy(y_te, self.Y).mean()
X_te_adv = self.X + e * T.sgn(T.grad(te_cost, self.X))
self.updates = collect_updates(self.model, cost_adv)
self.infer_updates = collect_infer_updates(self.model)
self.reset_updates = collect_reset_updates(self.model)
self._train = theano.function([self.X, self.Y],
cost_adv,
updates=self.updates)
self._predict = theano.function([self.X], y_te)
self._fast_sign = theano.function([self.X, self.Y], X_te_adv)
self._infer = theano.function([self.X],
y_inf,
updates=self.infer_updates)
self._reset = theano.function([], updates=self.reset_updates)
def __instantiate_exec(target, source, env):
varlist = env['varlist']
missing = [key for key in varlist if not env.has_key(key)]
if missing:
print >> stderr, 'error: missing variables for template instantiation:', ', '.join(
missing)
Exit(1)
keywords = dict((key, env.subst('$' + key)) for key in varlist)
instantiate(str(source[0]), str(target[0]), **keywords)
def __init__(
self,
dim=256,
activation="rectify",
proj_init_fn="orthogonal",
rec_init_fn="identity",
bias_init_fn="constant",
update_fn="nag",
):
self.dim = dim
self.activation = instantiate(activations, activation)
self.proj_init_fn = instantiate(inits, proj_init_fn)
self.rec_init_fn = instantiate(inits, rec_init_fn)
self.bias_init_fn = instantiate(inits, bias_init_fn)
self.update_fn = instantiate(updates, update_fn)
def __init__(self, n=32, shape=(3, 3), pad='same', stride=(1, 1), init_fn='orthogonal', update_fn='nag'):
self.n = n
if isinstance(shape, int):
shape = (shape, shape)
self.shape = shape
if pad != 'same':
raise NotImplementedError('Only same pad supported right now!')
self.pad = pad
if isinstance(stride, int):
stride = (stride, stride)
if stride != (1, 1):
raise NotImplementedError('Only (1, 1) stride supported right now!')
self.stride = stride
self.init_fn = instantiate(inits, init_fn)
self.update_fn = instantiate(updates, update_fn)
def __init__(self, n=32, shape=(3, 3), pad='same', stride=(1, 1), init_fn='orthogonal', update_fn='nag'):
self.n = n
if isinstance(shape, int):
shape = (shape, shape)
self.shape = shape
if pad != 'same':
raise NotImplementedError('Only same pad supported right now!')
self.pad = pad
if isinstance(stride, int):
stride = (stride, stride)
if stride != (1, 1):
raise NotImplementedError('Only (1, 1) stride supported right now!')
self.stride = stride
self.init_fn = instantiate(inits, init_fn)
self.update_fn = instantiate(updates, update_fn)
def __init__(self, n=32, shape=(3, 3), pad='same', stride=(1, 1), init_fn='orthogonal', update_fn='nag'):
self.n = n
if isinstance(shape, int):
shape = (shape, shape)
self.shape = shape
if isinstance(pad, int):
pad = (pad, pad)
elif pad == 'same':
pad = (same_pad(shape[0]), same_pad(shape[1]))
self.pad = pad
if isinstance(stride, int):
stride = (stride, stride)
self.stride = stride
self.init_fn = instantiate(inits, init_fn)
self.update_fn = instantiate(updates, update_fn)
def __init__(self, n=32, shape=(3, 3), pad='same', stride=(1, 1), init_fn='orthogonal', update_fn='nag'):
self.n = n
if isinstance(shape, int):
shape = (shape, shape)
self.shape = shape
if isinstance(pad, int):
pad = (pad, pad)
elif pad == 'same':
pad = (same_pad(shape[0]), same_pad(shape[1]))
self.pad = pad
if isinstance(stride, int):
stride = (stride, stride)
self.stride = stride
self.init_fn = instantiate(inits, init_fn)
self.update_fn = instantiate(updates, update_fn)
def __init__(self, model, cost=None, verbose=2, iterator='linear'):
if cost is not None:
self.cost = instantiate(costs, cost)
else:
if isinstance(model[-1], ops.Activation):
if isinstance(model[-1].activation, activations.Sigmoid):
self.cost = instantiate(costs, 'bce')
elif isinstance(model[-1].activation, activations.Softmax):
self.cost = instantiate(costs, 'cce')
else:
self.cost = instantiate(costs, 'mse')
else:
self.cost = instantiate(costs, 'mse')
self.verbose = verbose
self.model = init(model)
try:
self.iterator = instantiate(iterators, iterator)
except:
self.iterator = instantiate(async_iterators, iterator)
y_tr = self.model[-1].op({
'dropout': True,
'bn_active': True,
'infer': False
})
y_te = self.model[-1].op({
'dropout': False,
'bn_active': False,
'infer': False
})
y_inf = self.model[-1].op({
'dropout': False,
'bn_active': True,
'infer': True
})
self.X = self.model[0].X
self.Y = T.TensorType(theano.config.floatX,
(False, ) * (len(model[-1].out_shape)))()
cost = self.cost(self.Y, y_tr)
self.updates = collect_updates(self.model, cost)
self.infer_updates = collect_infer_updates(self.model)
self.reset_updates = collect_reset_updates(self.model)
self._train = theano.function([self.X, self.Y],
cost,
updates=self.updates)
self._predict = theano.function([self.X], y_te)
self._infer = theano.function([self.X],
y_inf,
updates=self.infer_updates)
self._reset = theano.function([], updates=self.reset_updates)
def __init__(self, model, e, a=0.5, verbose=2, iterator='linear'):
self.verbose = verbose
self.model = init(model)
try:
self.iterator = instantiate(iterators, iterator)
except:
self.iterator = instantiate(async_iterators, iterator)
y_tr = self.model[-1].op({'dropout':True, 'bn_active':True, 'infer':False})
y_te = self.model[-1].op({'dropout':False, 'bn_active':False, 'infer':False})
y_inf = self.model[-1].op({'dropout':False, 'bn_active':True, 'infer':True})
self.X = self.model[0].X
self.Y = T.TensorType(theano.config.floatX, (False,)*(len(model[-1].out_shape)))()
cost = T.nnet.categorical_crossentropy(y_tr, self.Y).mean()
X_adv = self.X + e*T.sgn(T.grad(cost, self.X))
self.model[0].X = X_adv
y_tr_adv = self.model[-1].op({'dropout':True, 'bn_active':True, 'infer':False})
cost_adv = a*cost + (1.-a)*T.nnet.categorical_crossentropy(y_tr_adv, self.Y).mean()
te_cost = T.nnet.categorical_crossentropy(y_te, self.Y).mean()
X_te_adv = self.X + e*T.sgn(T.grad(te_cost, self.X))
self.updates = collect_updates(self.model, cost_adv)
self.infer_updates = collect_infer_updates(self.model)
self.reset_updates = collect_reset_updates(self.model)
self._train = theano.function([self.X, self.Y], cost_adv, updates=self.updates)
self._predict = theano.function([self.X], y_te)
self._fast_sign = theano.function([self.X, self.Y], X_te_adv)
self._infer = theano.function([self.X], y_inf, updates=self.infer_updates)
self._reset = theano.function([], updates=self.reset_updates)
def __init__(self, model, cost=None, verbose=2, iterator='linear'):
if cost is not None:
self.cost = instantiate(costs, cost)
else:
if isinstance(model[-1], ops.Activation):
if isinstance(model[-1].activation, activations.Sigmoid):
self.cost = instantiate(costs, 'bce')
elif isinstance(model[-1].activation, activations.Softmax):
self.cost = instantiate(costs, 'cce')
else:
self.cost = instantiate(costs, 'mse')
else:
self.cost = instantiate(costs, 'mse')
self.verbose = verbose
self.model = init(model)
try:
self.iterator = instantiate(iterators, iterator)
except:
self.iterator = instantiate(async_iterators, iterator)
y_tr = self.model[-1].op({'dropout':True, 'bn_active':True, 'infer':False})
y_te = self.model[-1].op({'dropout':False, 'bn_active':False, 'infer':False})
y_inf = self.model[-1].op({'dropout':False, 'bn_active':True, 'infer':True})
self.X = self.model[0].X
self.Y = T.TensorType(theano.config.floatX, (False,)*(len(model[-1].out_shape)))()
cost = self.cost(self.Y, y_tr)
self.updates = collect_updates(self.model, cost)
self.infer_updates = collect_infer_updates(self.model)
self.reset_updates = collect_reset_updates(self.model)
self._train = theano.function([self.X, self.Y], cost, updates=self.updates)
self._predict = theano.function([self.X], y_te)
self._infer = theano.function([self.X], y_inf, updates=self.infer_updates)
self._reset = theano.function([], updates=self.reset_updates)
def __init__(self, dim=256, init_fn='orthogonal', update_fn='nag'):
self.dim = dim
self.init_fn = utils.instantiate(inits, init_fn)
self.update_fn = utils.instantiate(updates, update_fn)
def __init__(self, dim=256, init_fn='orthogonal', update_fn='nag'):
self.dim = dim
self.init_fn = instantiate(inits, init_fn)
self.update_fn = instantiate(updates, update_fn)
def __init__(self, update_fn='nag', e=1e-8):
self.update_fn = utils.instantiate(updates, update_fn)
self.e = e
def __init__(self, init_fn='constant', update_fn='nag'):
self.init_fn = utils.instantiate(inits, init_fn)
self.update_fn = utils.instantiate(updates, update_fn)
def __init__(self, activation, init_fn=inits.Constant(c=0.25), update_fn='nag'):
self.activation = utils.instantiate(activations, activation)
self.init_fn = utils.instantiate(inits, init_fn)
self.update_fn = utils.instantiate(updates, update_fn)
def __init__(self, dim, n_embed, init_fn='uniform', update_fn='nag'):
self.dim = dim
self.n_embed = n_embed
self.init_fn = utils.instantiate(inits, init_fn)
self.update_fn = utils.instantiate(updates, update_fn)
def __init__(self, init_fn='normal', update_fn='nag'):
self.init_fn = instantiate(inits, init_fn)
self.update_fn = instantiate(updates, update_fn)
def __init__(self, init_fn="constant", update_fn="nag"):
self.init_fn = instantiate(inits, init_fn)
self.update_fn = instantiate(updates, update_fn)
def __init__(self, dim, n_embed, init_fn='uniform', update_fn='nag'):
self.dim = dim
self.n_embed = n_embed
self.init_fn = instantiate(inits, init_fn)
self.update_fn = instantiate(updates, update_fn)
def run_for_single_file(path, args, config):
logging.info('Opening: {0}'.format(path))
# Read the time-series from file
raw_ts = read_file(path, args)
if raw_ts.ndim == 1:
raw_ts = np.expand_dims(raw_ts, axis=-1)
epochs = config['epochs']
batch_size = config['batch_size']
scaler = utils.instantiate(config['scaler'])
data = processing.TimeSeries(
raw_ts,
window=config['window_size'],
window_stride=config['window_stride'],
return_sequences=config['return_sequences'],
train_test_split=config['train_test_split'],
num_derivatives=config['num_derivatives'],
deepcast_derivatives=config['deepcast_derivatives'],
scaler=scaler,
use_time_diff=False)
model = utils.instantiate(config['model'], data.input_shape,
**config['model_args']) # type: keras.Model
model.summary()
all_len = batch_size * (len(data.x) // batch_size)
train_len = batch_size * (len(data.x_train) // batch_size)
test_len = batch_size * (len(data.x_test) // batch_size)
early_stopping = keras.callbacks.EarlyStopping(monitor='val_loss',
min_delta=0,
patience=20,
verbose=0,
mode='auto')
history = model.fit(data.x_train[:train_len],
data.y_train[:train_len],
batch_size=batch_size,
epochs=epochs,
shuffle=True,
verbose=2,
callbacks=[early_stopping],
validation_data=(data.x_test[:test_len],
data.y_test[:test_len]))
if args.weights_out:
model.save_weights(args.weights_out)
# Evaluation
y_true = data.y_test[:test_len]
y_pred = model.predict(data.x_test[:test_len], batch_size=batch_size)
y_true = data.inverse_transform_predictions(data.t_test[:test_len],
y_true)[:, 0]
y_pred = data.inverse_transform_predictions(data.t_test[:test_len],
y_pred)[:, 0]
scores = metrics.evaluate(y_true, y_pred, metrics=config['metrics'])
logging.info('Scores on test data: {0}'.format(scores))
if not args.noplot:
output_dir = os.path.dirname(args.output)
filename = '{0}_{1}.csv'.format(
args.run,
os.path.splitext(os.path.basename(path))[0])
plot_path = os.path.join(output_dir, filename)
# Prediction
y_true = data.y[:all_len]
y_pred = model.predict(data.x[:all_len], batch_size=batch_size)
y_true = data.inverse_transform_predictions(data.t[:all_len],
y_true)[:, 0]
y_pred = data.inverse_transform_predictions(data.t[:all_len],
y_pred)[:, 0]
data = np.vstack((y_true, y_pred)).T
np.savetxt(plot_path,
data,
delimiter=',',
header='True, Predicted',
comments='')
else:
plot_path = ''
if args.output:
results = config.copy()
results.update({
'file': path,
'run': args.run,
'plot': plot_path,
'finished': datetime.datetime.now(),
'epochs_trained': history.epoch[-1],
})
results.update(scores)
utils.write_row_to_csv(args.output, **results)
keras.backend.clear_session()
def __init__(self, update_fn='nag', e=1e-8):
self.update_fn = instantiate(updates, update_fn)
self.e = e
def __init__(self, activation, init_fn=inits.Constant(c=0.25), update_fn='nag'):
self.activation = instantiate(activations, activation)
self.init_fn = instantiate(inits, init_fn)
self.update_fn = instantiate(updates, update_fn)
def __init__(self, init_fn='constant', update_fn='nag'):
self.init_fn = instantiate(inits, init_fn)
self.update_fn = instantiate(updates, update_fn)
def __init__(self, dim=256, init_fn="orthogonal", update_fn="nag"):
self.dim = dim
self.init_fn = instantiate(inits, init_fn)
self.update_fn = instantiate(updates, update_fn)
help=
"Optional, name of the file in --model_dir containing weights to reload before \
training") # 'best' or 'train'
args = parser.parse_args()
np.random.seed(42)
torch.random.manual_seed(42)
yaml_path = os.path.join(args.model_dir, 'params.yml')
assert os.path.isfile(
yaml_path), "No yaml configuration file found at {}".format(yaml_path)
params = utils.Params(yaml_path)
# Instantiate algorithm
algorithm_module, algorithm_name = params.algorithm[
'module'], params.algorithm['name']
algorithm = instantiate(algorithm_module, algorithm_name)
algorithm_params = params.algorithm['params']
# Instantiate model
model_module, model_name = params.model['module'], params.model['name']
model = instantiate(model_module, model_name)
model_params = params.model['params']
# Instantiate optimizer
optimizer_module, optimizer_name = params.optimizer[
'module'], params.optimizer['name']
optimizer = instantiate(optimizer_module, optimizer_name)
# Instantiate dataset
dataset_module, dataset_name = params.dataset['module'], params.dataset[
'name']