I'm working with the LSTM model in Tensorflow.
I already trained and saved the LSTM model. Now I'm coming up to the last task to generate the sentences.
Here is my pseudo code:
# We have already the run_epoch(session, m, data, eval_op, verbose=False) function with fee_dict like this:
feed_dict = {m.input_data: x,
m.targets: y,
m.initial_state: state}
...
# train and save model
...
# load saved model for generating task
new_sentence = [START_TOKEN]
# Here I want to generate a sentence until END_TOKEN is generated.
while new_sentence[-1] != END_TOKEN:
logits = get_logits(model, new_sentence)
# get argmax(logits) or sample(logits)
next_word = argmax(logits)
new_sentence.append(next_word)
print(new_sentence)
My question is:
When training, validating, or testing model I have to feed both of the inputs and their labels (by shifted inputs one) into model via feed_dict dictionary. But in the generating task, I have only one input which is the generating sentence new_sentence.
How can I build the right get_logits function or full generate function also?
when you train you have an output of the neural network, based on that output you calculate the error, based on error you create the optimizer to minimize the error.
In order to generate a new sentence you need to get just the output of the neural network(rnn).
Edited:
"""
Placeholders
"""
x = tf.placeholder(tf.int32, [batch_size, num_steps], name='input_placeholder')
y = tf.placeholder(tf.int32, [batch_size, num_steps], name='labels_placeholder')
init_state = tf.zeros([batch_size, state_size])
"""
RNN Inputs
"""
# Turn our x placeholder into a list of one-hot tensors:
# rnn_inputs is a list of num_steps tensors with shape [batch_size, num_classes]
x_one_hot = tf.one_hot(x, num_classes)
rnn_inputs = tf.unpack(x_one_hot, axis=1)
"""
Definition of rnn_cell
This is very similar to the __call__ method on Tensorflow's BasicRNNCell. See:
https://github.com/tensorflow/tensorflow/blob/master/tensorflow/python/ops/rnn_cell.py
"""
with tf.variable_scope('rnn_cell'):
W = tf.get_variable('W', [num_classes + state_size, state_size])
b = tf.get_variable('b', [state_size], initializer=tf.constant_initializer(0.0))
def rnn_cell(rnn_input, state):
with tf.variable_scope('rnn_cell', reuse=True):
W = tf.get_variable('W', [num_classes + state_size, state_size])
b = tf.get_variable('b', [state_size], initializer=tf.constant_initializer(0.0))
return tf.tanh(tf.matmul(tf.concat(1, [rnn_input, state]), W) + b)
state = init_state
rnn_outputs = []
for rnn_input in rnn_inputs:
state = rnn_cell(rnn_input, state)
rnn_outputs.append(state)
final_state = rnn_outputs[-1]
#logits and predictions
with tf.variable_scope('softmax'):
W = tf.get_variable('W', [state_size, num_classes])
b = tf.get_variable('b', [num_classes], initializer=tf.constant_initializer(0.0))
logits = [tf.matmul(rnn_output, W) + b for rnn_output in rnn_outputs]
predictions = [tf.nn.softmax(logit) for logit in logits]
# Turn our y placeholder into a list labels
y_as_list = [tf.squeeze(i, squeeze_dims=[1]) for i in tf.split(1, num_steps, y)]
#losses and train_step
losses = [tf.nn.sparse_softmax_cross_entropy_with_logits(logit,label) for \
logit, label in zip(logits, y_as_list)]
total_loss = tf.reduce_mean(losses)
train_step = tf.train.AdagradOptimizer(learning_rate).minimize(total_loss)
def train():
with tf.Session() as sess:
#load the model
training_losses = []
for idx, epoch in enumerate(gen_epochs(num_epochs, num_steps)):
training_loss = 0
training_state = np.zeros((batch_size, state_size))
if verbose:
print("\nEPOCH", idx)
for step, (X, Y) in enumerate(epoch):
tr_losses, training_loss_, training_state, _ = \
sess.run([losses,
total_loss,
final_state,
train_step],
feed_dict={x:X, y:Y, init_state:training_state})
training_loss += training_loss_
if step % 100 == 0 and step > 0:
if verbose:
print("Average loss at step", step,
"for last 250 steps:", training_loss/100)
training_losses.append(training_loss/100)
training_loss = 0
#save the model
def generate_seq():
with tf.Session() as sess:
#load the model
# load saved model for generating task
new_sentence = [START_TOKEN]
# Here I want to generate a sentence until END_TOKEN is generated.
while new_sentence[-1] != END_TOKEN:
logits = sess.run(final_state,{x:np.asarray([new_sentence])})
# get argmax(logits) or sample(logits)
next_word = argmax(logits[0])
new_sentence.append(next_word)
print(new_sentence)
Related
I'm implementing a physical informed neural network (PINN) model to solve the Navier-Stokes equation, as in PINN. This type of model works better when using L_BFGS_B, and the better optimizer for my case is the fmin_l_bfgs_b from SciPy.
The problem with this optimizer is that they do not work directly with the TensorFlow library. To work with TensorFlow, I implement a class L_BFGS_B with the following methods.
set_weights: Set weights to the model.:
evaluate: evaluate loss and gradients
tf_evaluate: Evaluate loss and gradients as tf.tensor
fit: Train the model
All works fine. The optimizer is training all weights of the model, but the problem is that I only want to train two out of 18 trainable variables.
**Optimizer class **
class L_BFGS_B:
def __init__(self, model, x_train, y_train, factr = 1, m=50, maxls=50,maxfun = 50000, maxiter=50000):
self.model = model
#x_train = xyt, y_train = uv
self.x_train = x_train #tf.constant(x_train, dtype=tf.float32)
self.y_train = y_train #tf.constant(y_train, dtype=tf.float32)
# quando iteração termina
self.factr = factr
#The maximum number of variable metric corrections used
self.m = m
#max number of line search steps/iteration
# nesse caso 50/iteração
self.maxls = maxls
#max number of interation
self.maxiter = maxiter
self.maxfun = maxfun
#tf.function
def tf_evaluate(self, x, y):
"""
Evaluate loss and gradients for weights as tf.Tensor.
Args:
x: input data.
Returns:
loss and gradients for weights as tf.Tensor.
"""
# wehre x = xyt , y = uv
with tf.GradientTape() as g:
uv_fuv = self.model([x, y])
loss = self.model.losses[0]
grads = g.gradient(loss, self.model.trainable_variables, unconnected_gradients=tf.UnconnectedGradients.ZERO)
return loss, grads
def set_weights(self, flat_weights):
"""
Set weights to the model.
Args:
flat_weights: flatten weights.
"""
weights_shapes = [ w.shape for w in self.model.get_weights() ]
n = [0] + [ np.prod(shape) for shape in weights_shapes ]
partition = np.cumsum(n)
weights = [ flat_weights[from_part:to_part].reshape(shape)
for from_part, to_part, shape
in zip(partition[:-1], partition[1:], weights_shapes) ]
self.model.set_weights(weights)
def evaluate(self, flat_weights):
"""
Evaluate loss and gradients for weights as ndarray.
Args:
weights: flatten weights.
Returns:
loss and gradients for weights as ndarray.
"""
self.set_weights(flat_weights)
loss, grads = self.tf_evaluate(self.x_train, self.y_train)
loss = loss.numpy().astype('float64')
grads = np.concatenate([ g.numpy().flatten() for g in grads ]).astype('float64')
#printest('loss', loss)
return loss, grads
def fit(self):
"""
Train the model using L-BFGS-B algorithm.
"""
# Flatten initial weights
initial_weights = np.concatenate([ w.flatten() for w in self.model.get_weights() ])
#optmizer
fmin_l_bfgs_b(func = self.evaluate, x0 = initial_weights,
factr = self.factr, m = self.m,
maxls = self.maxls, maxiter = self.maxiter,
maxfun = self.maxfun)
if __name__ == "__main__":
...
# load Data
...
indices = np.random.choice(N*T, n_train, replace = False)
xyt_train = tf.concat( (x_1d[indices], y_1d[indices], t_1d[indices]), axis = 1)
uv_train = tf.concat( (u_1d[indices], v_1d[indices]), axis = 1)
# Model
nn_model = NeuralNet().build()
pinn_model = PhysicsInformedNN(model = nn_model).build()
#Optimizer
lbfgs = L_BFGS_B(model = pinn_model, x_train = xyt_train, y_train = uv_train)
lbfgs.fit()
Attempt
Use arg in the fmin_l_bfgs_b, where args is passed as the trainable variables that I want to fix and **x0 ** the initial two variables to be minimized. The following code is only a sanity test to see if passing the weights in this way works.
def evaluate(self, weights_var, *args):
weights = np.append(weights_var, args)
self.set_weights(weights)
loss, grads = self.tf_evaluate(self.x_train, self.y_train)
loss = loss.numpy().astype('float64')
grads = np.concatenate([ g.numpy().flatten() for g in grads ]).astype('float64')
#printest('loss', loss)
return loss, grads
def fit(self):
"""
Train the model using L-BFGS-B algorithm.
"""
# Flatten initial weights
weights_fixed = np.concatenate([ w.flatten() for w in self.model.get_weights()[2:] ])
weights_var = np.concatenate([ w.flatten() for w in self.model.get_weights()[0:2] ])
#optmizer
fmin_l_bfgs_b(func = self.evaluate, x0 = initial_weights, args = (weights_fixed)
factr = self.factr, m = self.m,
maxls = self.maxls, maxiter = self.maxiter,
maxfun = self.maxfun)
Unfortunately, the following error is raised: 0-th dimension must be fixed to 2 but got 2644.
Question: There is a way to fix the trainable variables that I do not want to minimize, work with the ones that are not fixed, and in the final set back then to the neural network model using this type of optimizer?
I want to make a weighted average ensemble of 3 of my trained models. So, I want first to multiply the softmax output of a model (element-wise) by a vector and then average the 3 weighted outputs of the 3 models.
I used the following code to multiply the output of the first model by its weight vector:
from keras.layers import Multiply, Average
resnet_weights = np.asarray([[0.91855, 0.99485, 0.89065, 0.96525, 0.98005,
0.93645, 0.6149, 0.934, 0.92505, 0.785, 0.85]], np.float32)
resnet_weight_tensor=tf.constant(resnet_weights, np.float32)
sess = tf.InteractiveSession()
print(resnet_weight_tensor.eval())
sess.close()
resnet_weighted = Multiply()([finetuned_model.layers[-1].output, resnet_weight_tensor])
print(resnet_weighted)
new_model=Model(model.input, resnet_weighted)
However, I'm stuck with the following error:
What can I do?
Use Lambda instead of Multiply, and K.constant instead of tf.constant (is backend-neutral):
resnet_weight_tensor=K.constant(resnet_weights, 'float32')
out = finetuned_model.layers[-1].output
resnet_weighted = Lambda(lambda x: x * resnet_weight_tensor)(out)
FULL EXAMPLE:
## BUILD MODELS
batch_size = 32
num_batches = 100
input_shape = (4,)
num_classes = 3
model_1 = make_model(input_shape, 8, num_classes)
model_2 = make_model(input_shape, 10, num_classes)
model_3 = make_model(input_shape, 12, num_classes)
## BUILD ENSEMBLE
models = (model_1, model_2, model_3)
models_ins = [model.input for model in models]
models_outs = [model.input for model in models]
outputs_weights = [np.random.random((batch_size, num_classes)),
np.random.random((batch_size, num_classes)),
np.random.random((batch_size, num_classes))]
outs_avg = model_outputs_average(models, outputs_weights)
final_out = Dense(num_classes, activation='softmax')(outs_avg)
model_ensemble = Model(inputs=models_ins, outputs=final_out)
model_ensemble.compile('adam', loss='categorical_crossentropy')
### TEST ENSEMBLE
x1 = np.random.randn(batch_size, *input_shape) # toy data
x2 = np.random.randn(batch_size, *input_shape)
x3 = np.random.randn(batch_size, *input_shape)
y = np.random.randint(0,2,(batch_size, num_classes)) # toy labels
model_ensemble.fit([x1,x2,x3], y)
Verify averaging:
[print(layer.name) for layer in model_ensemble.layers] # show layer names
preouts1 = get_layer_outputs(model_ensemble, 'lambda_1', [x1,x2,x3])
preouts2 = get_layer_outputs(model_ensemble, 'lambda_2', [x1,x2,x3])
preouts3 = get_layer_outputs(model_ensemble, 'lambda_3', [x1,x2,x3])
preouts_avg = get_layer_outputs(model_ensemble, 'average_1',[x1,x2,x3])
preouts = np.asarray([preouts1, preouts2, preouts3])
sum_of_diff_of_means = np.sum(np.mean(preouts, axis=0) - preouts_avg)
print(np.sum(np.mean([preouts1, preouts2, preouts3],axis=0) - preouts_avg))
# 4.69e-07
Functions used:
def make_model(input_shape, dense_dim, num_classes=3):
ipt = Input(shape=input_shape)
x = Dense(dense_dim, activation='relu')(ipt)
out = Dense(num_classes, activation='softmax')(x)
model = Model(ipt, out)
model.compile('adam', loss='categorical_crossentropy')
return model
def model_outputs_average(models, outputs_weights):
outs = [model.output for model in models]
out_shape = K.int_shape(outs[0])[1:] # ignore batch dim
assert all([(K.int_shape(out)[1:] == out_shape) for out in outs]), \
"All model output shapes must match"
outs_weights = [K.constant(w, 'float32') for w in outputs_weights]
ow_shape = K.int_shape(outs_weights[0])
assert all([(K.int_shape(w) == ow_shape) for w in outs_weights]), \
"All outputs_weights and model.output shapes must match"
weights_layers = [Lambda(lambda x: x * ow)(out) for ow, out
in zip(outs_weights, outs)]
return Average()(weights_layers)
def get_layer_outputs(model,layer_name,input_data,train_mode=False):
outputs = [layer.output for layer in model.layers if layer_name in layer.name]
layers_fn = K.function([model.input, K.learning_phase()], outputs)
return [layers_fn([input_data,int(train_mode)])][0][0]
The bug is possibly caused by the mixture of kears api and tensorflow api, since your resnet_weight_tensor is a tensor from tensorflow api, while finetuned_model.layers[-1].output is the output from a keras layer. Some discusses can be seen here issue 7362
One walk around is to wrap resnet_weight_tensor into keras Input layer.
from keras.layers import Multiply, Average, Input
resnet_weights = np.asarray([[0.91855, 0.99485, 0.89065, 0.96525, 0.98005,
0.93645, 0.6149, 0.934, 0.92505, 0.785, 0.85]], np.float32)
resnet_weight_tensor=tf.constant(resnet_weights, np.float32)
resnet_weight_input = Input(tensor=resnet_weight_tensor)
sess = tf.InteractiveSession()
print(resnet_weight_tensor.eval())
sess.close()
resnet_weighted = Multiply()([finetuned_model.layers[-1].output, resnet_weight_input])
print(resnet_weighted)
new_model=Model([model.input, resnet_weight_input], resnet_weighted)
I am trying to create an end-to-end trainable offline English Handwriting Recognition Model (without segmenting individual character). I am using the word dataset from IAM Handwriting Database for training.
I tried decreasing the learning rate, increasing batch size, etc. but the loss keeps on fluctuating with no/significant overall decrease - TensorBoard visualization for cost at each step
I am new to TensorFlow so could have made some naive error. The code used:
class CRNN(object):
def __init__(self, config):
self.config = config
tf.reset_default_graph()
def read_and_decode(self, filename_queue):
reader = tf.TFRecordReader()
_, serialized_example = reader.read(filename_queue)
# Define how to parse the example
context_features = {
'length': tf.FixedLenFeature([], dtype=tf.int64),
'out_length': tf.FixedLenFeature([], dtype=tf.int64)
}
sequence_features = {
'token': tf.FixedLenSequenceFeature([], dtype=tf.float32),
'labels': tf.FixedLenSequenceFeature([], dtype=tf.int64)
}
context_parsed, sequence_parsed = tf.parse_single_sequence_example(
serialized=serialized_example,
context_features=context_features,
sequence_features=sequence_features)
image = sequence_parsed['token']
label = tf.cast(sequence_parsed['labels'], tf.int32)
length = tf.cast(context_parsed['length'], tf.int32)
lab_length = tf.cast(context_parsed['out_length'], tf.int32)
image_shape = tf.cast(tf.stack([self.config.im_height,
length/self.config.im_height]), tf.int32)
image = tf.reshape(image, image_shape)
# Updating length to represent image width
length = tf.shape(image)[1]
# Batch the variable length tensor with dynamic padding
self.images, self.labels, self.lengths, self.lab_lengths = tf.train.batch(
tensors=[image, label, length, lab_length],
batch_size=self.config.batch_size, dynamic_pad=True)
def net(self):
batch_lab_length = tf.reduce_max(self.lab_lengths)
batch_im_length = tf.reduce_max(self.lengths)
# Reshape to time major
sequences = tf.reshape(self.images, [batch_im_length, self.config.batch_size,
self.config.im_height])
# Feed sequences into RNN
with tf.name_scope('RNN'):
self.cell_fw = tf.nn.rnn_cell.LSTMCell(num_units=self.config.rnn_num_hidden,
state_is_tuple=True)
self.cell_bw = tf.nn.rnn_cell.LSTMCell(num_units=self.config.rnn_num_hidden,
state_is_tuple=True)
self.output, self.state = tf.nn.bidirectional_dynamic_rnn(
cell_fw=self.cell_fw,
cell_bw=self.cell_bw,
inputs=sequences,
dtype=tf.float32,
sequence_length=self.lengths,
time_major=True,
scope='RNN'
)
# Reshaping to apply the same weights over the timesteps
self.output = tf.reshape(self.output, [-1, self.config.rnn_num_hidden])
self.out_W = tf.Variable(tf.truncated_normal([self.config.rnn_num_hidden,
self.config.num_classes],
stddev=0.1), name='out_W')
self.out_b = tf.Variable(tf.constant(0., shape=[self.config.num_classes]), name='out_b')
# Doing the affine projection
logits = tf.matmul(self.output, self.out_W) + self.out_b
# Reshaping back to the original shape
logits = tf.reshape(logits, [self.config.batch_size, -1, self.config.num_classes])
# Time major
logits = tf.transpose(logits, (1, 0, 2))
# Training computation
# Prepare sparse tensor for CTC loss
labs = tf.reshape(self.labels, (self.config.batch_size, batch_lab_length))
sparse_tensor_indices = tf.where(tf.less(tf.cast(0, tf.int32), labs))
labels_vals = tf.reshape(self.labels, [batch_lab_length*self.config.batch_size])
mask = tf.cast(tf.sign(labels_vals), dtype=tf.bool)
labels_vals = tf.boolean_mask(labels_vals,mask)
labels_sparse = tf.SparseTensor(indices=sparse_tensor_indices, values=labels_vals,
dense_shape=[self.config.batch_size,
tf.cast(batch_lab_length, tf.int64)])
self.loss = tf.nn.ctc_loss(labels_sparse, logits, sequence_length=self.lab_lengths,
preprocess_collapse_repeated=False, ctc_merge_repeated=False,
time_major=True)
self.cost = tf.reduce_mean(self.loss)
# Optimizer
self.optimizer = tf.train.MomentumOptimizer(learning_rate=0.01,
momentum=0.9, use_nesterov=True).minimize(self.cost)
# Predictions for the training, validation, and test data.
self.train_prediction = tf.nn.ctc_beam_search_decoder(logits,
sequence_length=self.lab_lengths)
def train(self):
num_steps = int((self.config.num_epochs*self.config.sample_size)/self.config.batch_size)
tf.reset_default_graph()
filename_queue = tf.train.string_input_producer(
[self.config.tfrecord_filename], num_epochs=self.config.num_epochs)
self.read_and_decode(filename_queue)
self.net()
# The op for initializing the variables.
init_op = tf.group(tf.global_variables_initializer(),
tf.local_variables_initializer())
saver = tf.train.Saver()
with tf.Session() as sess:
training_summary = tf.summary.scalar("training_cost", self.cost)
writer = tf.summary.FileWriter("./TensorBoard/graph", sess.graph)
sess.run(init_op)
print('Initialized')
coord = tf.train.Coordinator()
threads = tf.train.start_queue_runners(coord=coord)
start = time.time()
steps_time = start
epoch = 1
for step in range(num_steps):
_, c, predictions, actual_labels, train_summ = sess.run([self.optimizer, self.cost,
self.train_prediction,
self.labels, training_summary])
writer.add_summary(train_summ, step)
if (step % 10000 == 0):
preds = np.zeros((predictions[0][0].dense_shape))
i = 0
for idx in predictions[0][0].indices:
preds[idx[0]][idx[1]] = predictions[0][0].values[i]
i+=1
print(time.time() - steps_time)
steps_time = time.time()
print('Minibatch cost at step %d: %f' % (step, c))
print('Label =', [''.join([char_map_inv[j] for j in i]) for i in actual_labels],
'Prediction =', [''.join([char_map_inv[j] for j in i]) for i in preds])
if (step!=0 and step % int(self.config.sample_size/self.config.batch_size) == 0):
print('Epoch', epoch, 'Completed')
epoch+=1
last_step = step
saver.save(sess, "model_BLSTM", global_step=last_step)
writer.close()
print(time.time() - start)
After trying a lot of things unsuccessfully, I found that an incorrect argument was provided to the sequence_length argument of tf.nn.ctc_loss. It should be set to 'length of input sequence' but I had set it to 'length of output sequence(labels - number of character)'
More details can be found in comments under the selected answer to this question - CTC Loss InvalidArgumentError: sequence_length(b) <= time
Also, if one has a GPU it would be better to use Baidu's CTC GPU implementation (https://github.com/baidu-research/warp-ctc) as it can speed up the training a lot.
The problem is that you are feeding raw images in the LSTM, so it is very difficult for it to extract any useful information. The CRNN paper first uses a series of convolutional layers to extract features from the images, and then these are fed into the LSTM.
I have built a system that leverages Google ML Engine to train various text classifiers using a simple flat CNN architecture (borrowed from the excellent WildML post). I've also leveraged heavily the ML Engine trainer template which exists here - specifically using the Tensorflow core functions.
My issue is that while the model trains and learns parameters correctly, I cannot get the serialized export in the binary SavedModel format (i.e. - the .pb files) to maintain the learned weights. I can tell this by using the gcloud predict local API on the model export folder and each time it makes randomized predictions - leading me to believe that while the graph structure is being saved to the proto-buf format, the associated weights in the checkpoint file are not being carried over.
Here's the code for my run function:
def run(...):
# ... code to load and transform train/test data
with train_graph.as_default():
with tf.Session(graph=train_graph).as_default() as session:
# Features and label tensors as read using filename queue
features, labels = model.input_fn(
x_train,
y_train,
num_epochs=num_epochs,
batch_size=train_batch_size
)
# Returns the training graph and global step tensor
tf.logging.info("Train vocab size: {:d}".format(vocab_size))
train_op, global_step_tensor, cnn, train_summaries = model.model_fn(
model.TRAIN,
sequence_length,
num_classes,
label_values,
vocab_size,
embedding_size,
filter_sizes,
num_filters
)
tf.logging.info("Created simple training CNN with ({}) filter types".format(filter_sizes))
# Setup writers
train_summary_op = tf.summary.merge(train_summaries)
train_summary_dir = os.path.join(job_dir, "summaries", "train")
# Generate writer
train_summary_writer = tf.summary.FileWriter(train_summary_dir, session.graph)
# Initialize all variables
session.run(tf.global_variables_initializer())
session.run(tf.local_variables_initializer())
model_dir = os.path.abspath(os.path.join(job_dir, "model"))
if not os.path.exists(model_dir):
os.makedirs(model_dir)
saver = tf.train.Saver()
def train_step(x_batch, y_batch):
"""
A single training step
"""
feed_dict = {
cnn.input_x: x_batch,
cnn.input_y: y_batch,
cnn.dropout_keep_prob: 0.5
}
step, _, loss, accuracy = session.run([global_step_tensor, train_op, cnn.loss, cnn.accuracy],
feed_dict=feed_dict)
time_str = datetime.datetime.now().isoformat()
if step % 10 == 0:
tf.logging.info("{}: step {}, loss {:g}, acc {:g}".format(time_str, step, loss, accuracy))
# Return current step
return step
def eval_step(x_batch, y_batch, train_step, total_steps):
"""
Evaluates model on a dev set
"""
feed_dict = {
cnn.input_x: x_batch,
cnn.input_y: y_batch,
cnn.dropout_keep_prob: 1.0
}
step, loss, accuracy, scores, predictions = session.run([global_step_tensor, cnn.loss, cnn.accuracy, cnn.scores, cnn.predictions],
feed_dict=feed_dict)
# Get metrics
y_actual = np.argmax(y_batch, 1)
model_metrics = precision_recall_fscore_support(y_actual, predictions)
#print(scores)
time_str = datetime.datetime.now().isoformat()
print("\n---- EVAULATION ----")
avg_precision = np.mean(model_metrics[0], axis=0)
avg_recall = np.mean(model_metrics[1], axis=0)
avg_f1 = np.mean(model_metrics[2], axis=0)
print("{}: step {}, loss {:g}, acc {:g}, prec {:g}, rec {:g}, f1 {:g}".format(time_str, step, loss, accuracy, avg_precision, avg_recall, avg_f1))
print("Model metrics: ", model_metrics)
print("---- EVALUATION ----\n")
# Generate batches
batches = data_helpers.batch_iter(
list(zip(features, labels)), train_batch_size, num_epochs)
# Training loop. For each batch...
for batch in batches:
x_batch, y_batch = zip(*batch)
current_step = train_step(x_batch, y_batch)
if current_step % 20 == 0 or current_step == 1:
eval_step(x_eval, y_eval, current_step, total_steps)
# Checkpoint directory. Tensorflow assumes this directory already exists so we need to create it
print(model_dir)
trained_model = saver.save(session, os.path.join(job_dir, 'model') + "/model.ckpt", global_step=current_step)
print(trained_model)
print("Saved final model checkpoint to {}".format(trained_model))
# Only perform this if chief
if is_chief:
build_and_run_exports(trained_model, job_dir,
model.SERVING_INPUT_FUNCTIONS[model.TEXT],
sequence_length, num_classes, label_values,
vocab_size, embedding_size, filter_sizes,
num_filters, vocab_processor)
And my build_and_run_exports function:
def build_and_run_exports(...):
# Check if we export already exists - if so delete
export_dir = os.path.join(job_dir, 'export')
if os.path.exists(export_dir):
print("Export currently exists - going to delete:", export_dir)
shutil.rmtree(export_dir)
# Create exporter
exporter = tf.saved_model.builder.SavedModelBuilder(export_dir)
# Restore prediction graph
prediction_graph = tf.Graph()
with prediction_graph.as_default():
with tf.Session(graph=prediction_graph) as session:
# Get training data
features, inputs_dict = serving_input_fn()
# Setup inputs
inputs_info = {
name: tf.saved_model.utils.build_tensor_info(tensor)
for name, tensor in inputs_dict.iteritems()
}
# Load model
cnn = TextCNN(
sequence_length=sequence_length,
num_classes=num_classes,
vocab_size=vocab_size,
embedding_size=embedding_size,
filter_sizes=list(map(int, filter_sizes.split(","))),
num_filters=num_filters,
input_tensor=features)
# Restore model
saver = tf.train.Saver()
saver.restore(session, latest_checkpoint)
# Setup outputs
outputs = {
'logits': cnn.scores,
'probabilities': cnn.probabilities,
'predicted_indices': cnn.predictions
}
# Create output info
output_info = {
name: tf.saved_model.utils.build_tensor_info(tensor)
for name, tensor in outputs.iteritems()
}
# Setup signature definition
signature_def = tf.saved_model.signature_def_utils.build_signature_def(
inputs=inputs_info,
outputs=output_info,
method_name=sig_constants.PREDICT_METHOD_NAME
)
# Create graph export
exporter.add_meta_graph_and_variables(
session,
tags=[tf.saved_model.tag_constants.SERVING],
signature_def_map={
sig_constants.DEFAULT_SERVING_SIGNATURE_DEF_KEY: signature_def
},
legacy_init_op=tf.saved_model.main_op.main_op()
)
# Export model
exporter.save()
And last, but not least, the TextCNN model:
class TextCNN(object):
"""
A CNN for text classification.
Uses an embedding layer, followed by a convolutional, max-pooling and softmax layer.
"""
def __init__(
self, sequence_length, num_classes, vocab_size,
embedding_size, filter_sizes, num_filters, l2_reg_lambda=0.0,
dropout_keep_prob=0.5, input_tensor=None):
# Setup input
if input_tensor != None:
self.input_x = input_tensor
self.dropout_keep_prob = tf.constant(1.0)
else:
self.input_x = tf.placeholder(tf.int32, [None, sequence_length], name="input_x")
self.dropout_keep_prob = tf.placeholder(tf.float32, name="dropout_keep_prob")
# Placeholders for input, output and dropout
self.input_y = tf.placeholder(tf.int32, [None, num_classes], name="input_y")
# Keeping track of l2 regularization loss (optional)
l2_loss = tf.constant(0.0)
# Embedding layer
with tf.device('/cpu:0'), tf.name_scope("embedding"):
self.W = tf.Variable(
tf.random_uniform([vocab_size, embedding_size], -1.0, 1.0),
name="W")
self.embedded_chars = tf.nn.embedding_lookup(self.W, self.input_x)
self.embedded_chars_expanded = tf.expand_dims(self.embedded_chars, -1)
# Create a convolution + maxpool layer for each filter size
pooled_outputs = []
for i, filter_size in enumerate(filter_sizes):
with tf.name_scope("conv-maxpool-%s" % filter_size):
# Convolution Layer
filter_shape = [filter_size, embedding_size, 1, num_filters]
W = tf.Variable(tf.truncated_normal(filter_shape, stddev=0.1), name="W")
b = tf.Variable(tf.constant(0.1, shape=[num_filters]), name="b")
conv = tf.nn.conv2d(
self.embedded_chars_expanded,
W,
strides=[1, 1, 1, 1],
padding="VALID",
name="conv")
# Apply nonlinearity
h = tf.nn.relu(tf.nn.bias_add(conv, b), name="relu")
# Maxpooling over the outputs
pooled = tf.nn.max_pool(
h,
ksize=[1, sequence_length - filter_size + 1, 1, 1],
strides=[1, 1, 1, 1],
padding='VALID',
name="pool")
pooled_outputs.append(pooled)
# Combine all the pooled features
num_filters_total = num_filters * len(filter_sizes)
self.h_pool = tf.concat(pooled_outputs, 3)
self.h_pool_flat = tf.reshape(self.h_pool, [-1, num_filters_total])
# Add dropout
with tf.name_scope("dropout"):
self.h_drop = tf.nn.dropout(self.h_pool_flat, self.dropout_keep_prob)
# Final (unnormalized) scores and predictions
with tf.name_scope("output"):
W = tf.get_variable(
"W",
shape=[num_filters_total, num_classes],
initializer=tf.contrib.layers.xavier_initializer())
b = tf.Variable(tf.constant(0.1, shape=[num_classes]), name="b")
l2_loss += tf.nn.l2_loss(W)
l2_loss += tf.nn.l2_loss(b)
self.scores = tf.nn.xw_plus_b(self.h_drop, W, b, name="scores")
self.predictions = tf.argmax(self.scores, 1, name="predictions")
# CalculateMean cross-entropy loss
with tf.name_scope("loss"):
losses = tf.nn.softmax_cross_entropy_with_logits(logits=self.scores, labels=self.input_y)
self.loss = tf.reduce_mean(losses) + l2_reg_lambda * l2_loss
with tf.name_scope("probabilities"):
self.probabilities = tf.nn.softmax(logits=self.scores)
# Accuracy
with tf.name_scope("accuracy"):
correct_predictions = tf.equal(self.predictions, tf.argmax(self.input_y, 1))
self.accuracy = tf.reduce_mean(tf.cast(correct_predictions, "float"), name="accuracy")
I'm hoping I'm just missing something simple in how I'm creating the TF graph / session and restoring stats.
Thank you in advance for your help!
This behavior is caused due to the behavior of tf.saved_model.main_op.main_op() which randomly initializes all of the variables in the graph (code). However, legacy_init_op happens after the variables are restored from the checkpoint (restore happens here followed by legacy_init_op here).
The solution is simply to not re-initialize all of the variables, for example, in your code:
from tensorflow.python.ops import variables
from tensorflow.python.ops import lookup_ops
from tensorflow.python.ops import control_flow_ops
def my_main_op():
init_local = variables.local_variables_initializer()
init_tables = lookup_ops.tables_initializer()
return control_flow_ops.group(init_local, init_tables)
def build_and_run_exports(...):
...
# Create graph export
exporter.add_meta_graph_and_variables(
session,
tags=[tf.saved_model.tag_constants.SERVING],
signature_def_map={
sig_constants.DEFAULT_SERVING_SIGNATURE_DEF_KEY: signature_def
},
legacy_init_op=my_main_op()
)
# Export model
exporter.save()
I created a simple TensorFlow program that tries to predict the next character using the previous 3 characters in a body of text.
A single input could look like this:
np.array(['t','h','i'])
with the target about being
np.array(['s'])
I'm trying to expand this to output the next say 4 character rather than just the next character. To do this I tried feeding in a longer array to y
np.array(['s','','i'])
In addition to changing the y to
y = tf.placeholder(dtype=tf.int32, shape=[None, n_steps])
however, this yields the error:
Rank mismatch: Rank of labels (received 2) should equal rank of logits
minus 1 (received 2).
Here's the full code
embedding_size=40
n_neurons = 200
n_output = vocab_size
learning_rate = 0.001
with tf.Graph().as_default():
x = tf.placeholder(dtype=tf.int32, shape=[None, n_steps])
y = tf.placeholder(dtype=tf.int32, shape=[None])
seq_length = tf.placeholder(tf.int32, [None])
# Let's set up the embedding converting words to vectors
embeddings = tf.Variable(tf.random_uniform(shape=[vocab_size, embedding_size], minval=-1, maxval=1))
train_input = tf.nn.embedding_lookup(embeddings, x)
basic_cell = tf.nn.rnn_cell.GRUCell(num_units=n_neurons)
outputs, states = tf.nn.dynamic_rnn(basic_cell, train_input, sequence_length=seq_length, dtype=tf.float32)
logits = tf.layers.dense(states, units=vocab_size, activation=None)
predictions = tf.nn.softmax(logits)
xentropy = tf.nn.sparse_softmax_cross_entropy_with_logits(
labels=y,
logits=logits)
loss = tf.reduce_mean(xentropy)
optimizer = tf.train.AdamOptimizer(learning_rate=learning_rate)
training_op = optimizer.minimize(loss)
with tf.Session() as sess:
sess.run(tf.global_variables_initializer())
for r in range(1000):
x_batch, y_batch, seq_length_batch = input_fn()
feed_dict = {x: x_batch, y: y_batch, seq_length: seq_length_batch}
_, loss_out = sess.run([training_op, loss], feed_dict=feed_dict)
if r % 1000 == 0:
print("loss_out", loss_out)
sample_text = "for th"
sample_text_ids = np.expand_dims(np.array([w_to_id[c] for c in sample_text]+[0, 0], dtype=np.int32), 0)
prediction_out = sess.run(predictions, feed_dict={x: sample_text_ids, seq_length: np.array([len(sample_text)])})
print("Result:", id_to_w[np.argmax(prediction_out)])
In case of many-to-many RNN, you should use tf.contrib.seq2seq.sequence_loss to calculate per time step loss. Your code should look like this:
...
logits = tf.layers.dense(states, units=vocab_size, activation=None)
weights = tf.sequence_mask(seq_length, n_steps)
xentropy = tf.contrib.seq2seq.sequence_loss(logits, y, weights)
...
See here for more details on tf.contrib.seq2seq.sequence_loss.