def train_rcnn():
"""Training RCNN model."""
# Load sentences, labels, and training parameters
logger.info('✔︎ Loading data...')
logger.info('✔︎ Training data processing...')
train_data = dh.load_data_and_labels(FLAGS.training_data_file,
FLAGS.embedding_dim)
logger.info('✔︎ Validation data processing...')
validation_data = dh.load_data_and_labels(FLAGS.validation_data_file,
FLAGS.embedding_dim)
logger.info('Recommended padding Sequence length is: {0}'.format(
FLAGS.pad_seq_len))
logger.info('✔︎ Training data padding...')
x_train_front, x_train_behind, y_train = dh.pad_data(
train_data, FLAGS.pad_seq_len)
logger.info('✔︎ Validation data padding...')
x_validation_front, x_validation_behind, y_validation = dh.pad_data(
validation_data, FLAGS.pad_seq_len)
# Build vocabulary
VOCAB_SIZE = dh.load_vocab_size(FLAGS.embedding_dim)
pretrained_word2vec_matrix = dh.load_word2vec_matrix(
VOCAB_SIZE, FLAGS.embedding_dim)
# Build a graph and rcnn object
with tf.Graph().as_default():
session_conf = tf.ConfigProto(
allow_soft_placement=FLAGS.allow_soft_placement,
log_device_placement=FLAGS.log_device_placement)
session_conf.gpu_options.allow_growth = FLAGS.gpu_options_allow_growth
sess = tf.Session(config=session_conf)
with sess.as_default():
rcnn = TextRCNN(sequence_length=FLAGS.pad_seq_len,
num_classes=y_train.shape[1],
vocab_size=VOCAB_SIZE,
lstm_hidden_size=FLAGS.lstm_hidden_size,
fc_hidden_size=FLAGS.fc_hidden_size,
embedding_size=FLAGS.embedding_dim,
embedding_type=FLAGS.embedding_type,
filter_sizes=list(
map(int, FLAGS.filter_sizes.split(","))),
num_filters=FLAGS.num_filters,
l2_reg_lambda=FLAGS.l2_reg_lambda,
pretrained_embedding=pretrained_word2vec_matrix)
# Define training procedure
with tf.control_dependencies(
tf.get_collection(tf.GraphKeys.UPDATE_OPS)):
learning_rate = tf.train.exponential_decay(
learning_rate=FLAGS.learning_rate,
global_step=rcnn.global_step,
decay_steps=FLAGS.decay_steps,
decay_rate=FLAGS.decay_rate,
staircase=True)
optimizer = tf.train.AdamOptimizer(learning_rate)
grads, vars = zip(*optimizer.compute_gradients(rcnn.loss))
grads, _ = tf.clip_by_global_norm(grads,
clip_norm=FLAGS.norm_ratio)
train_op = optimizer.apply_gradients(
zip(grads, vars),
global_step=rcnn.global_step,
name="train_op")
# Keep track of gradient values and sparsity (optional)
grad_summaries = []
for g, v in zip(grads, vars):
if g is not None:
grad_hist_summary = tf.summary.histogram(
"{0}/grad/hist".format(v.name), g)
sparsity_summary = tf.summary.scalar(
"{0}/grad/sparsity".format(v.name),
tf.nn.zero_fraction(g))
grad_summaries.append(grad_hist_summary)
grad_summaries.append(sparsity_summary)
grad_summaries_merged = tf.summary.merge(grad_summaries)
# Output directory for models and summaries
if FLAGS.train_or_restore == 'R':
MODEL = input(
"☛ Please input the checkpoints model you want to restore, "
"it should be like(1490175368): "
) # The model you want to restore
while not (MODEL.isdigit() and len(MODEL) == 10):
MODEL = input(
'✘ The format of your input is illegal, please re-input: '
)
logger.info(
'✔︎ The format of your input is legal, now loading to next step...'
)
checkpoint_dir = 'runs/' + MODEL + '/checkpoints/'
out_dir = os.path.abspath(
os.path.join(os.path.curdir, "runs", MODEL))
logger.info("✔︎ Writing to {0}\n".format(out_dir))
else:
timestamp = str(int(time.time()))
out_dir = os.path.abspath(
os.path.join(os.path.curdir, "runs", timestamp))
logger.info("✔︎ Writing to {0}\n".format(out_dir))
# Summaries for loss and accuracy
loss_summary = tf.summary.scalar("loss", rcnn.loss)
acc_summary = tf.summary.scalar("accuracy", rcnn.accuracy)
# Train summaries
train_summary_op = tf.summary.merge(
[loss_summary, acc_summary, grad_summaries_merged])
train_summary_dir = os.path.join(out_dir, "summaries", "train")
train_summary_writer = tf.summary.FileWriter(
train_summary_dir, sess.graph)
# Validation summaries
validation_summary_op = tf.summary.merge(
[loss_summary, acc_summary])
validation_summary_dir = os.path.join(out_dir, "summaries",
"validation")
validation_summary_writer = tf.summary.FileWriter(
validation_summary_dir, sess.graph)
saver = tf.train.Saver(tf.global_variables(),
max_to_keep=FLAGS.num_checkpoints)
if FLAGS.train_or_restore == 'R':
# Load rcnn model
logger.info("✔ Loading model...")
checkpoint_file = tf.train.latest_checkpoint(checkpoint_dir)
logger.info(checkpoint_file)
# Load the saved meta graph and restore variables
saver = tf.train.import_meta_graph(
"{0}.meta".format(checkpoint_file))
saver.restore(sess, checkpoint_file)
else:
checkpoint_dir = os.path.abspath(
os.path.join(out_dir, "checkpoints"))
if not os.path.exists(checkpoint_dir):
os.makedirs(checkpoint_dir)
sess.run(tf.global_variables_initializer())
sess.run(tf.local_variables_initializer())
# Embedding visualization config
config = projector.ProjectorConfig()
embedding_conf = config.embeddings.add()
embedding_conf.tensor_name = 'embedding'
embedding_conf.metadata_path = FLAGS.metadata_file
projector.visualize_embeddings(train_summary_writer, config)
projector.visualize_embeddings(validation_summary_writer,
config)
# Save the embedding visualization
saver.save(
sess, os.path.join(out_dir, 'embedding', 'embedding.ckpt'))
current_step = sess.run(rcnn.global_step)
def train_step(x_batch_front, x_batch_behind, y_batch):
"""A single training step"""
feed_dict = {
rcnn.input_x_front: x_batch_front,
rcnn.input_x_behind: x_batch_behind,
rcnn.input_y: y_batch,
rcnn.dropout_keep_prob: FLAGS.dropout_keep_prob,
rcnn.is_training: True
}
_, step, summaries, loss, accuracy = sess.run([
train_op, rcnn.global_step, train_summary_op, rcnn.loss,
rcnn.accuracy
], feed_dict)
logger.info("step {0}: loss {1:g}, acc {2:g}".format(
step, loss, accuracy))
train_summary_writer.add_summary(summaries, step)
def validation_step(x_batch_front,
x_batch_behind,
y_batch,
writer=None):
"""Evaluates model on a validation set"""
feed_dict = {
rcnn.input_x_front: x_batch_front,
rcnn.input_x_behind: x_batch_behind,
rcnn.input_y: y_batch,
rcnn.dropout_keep_prob: 1.0,
rcnn.is_training: False
}
step, summaries, loss, accuracy, recall, precision, f1, auc = sess.run(
[
rcnn.global_step, validation_summary_op, rcnn.loss,
rcnn.accuracy, rcnn.recall, rcnn.precision, rcnn.F1,
rcnn.AUC
], feed_dict)
logger.info(
"step {0}: loss {1:g}, acc {2:g}, recall {3:g}, precision {4:g}, f1 {5:g}, AUC {6}"
.format(step, loss, accuracy, recall, precision, f1, auc))
if writer:
writer.add_summary(summaries, step)
# Generate batches
batches = dh.batch_iter(
list(zip(x_train_front, x_train_behind, y_train)),
FLAGS.batch_size, FLAGS.num_epochs)
num_batches_per_epoch = int(
(len(x_train_front) - 1) / FLAGS.batch_size) + 1
# Training loop. For each batch...
for batch in batches:
x_batch_front, x_batch_behind, y_batch = zip(*batch)
train_step(x_batch_front, x_batch_behind, y_batch)
current_step = tf.train.global_step(sess, rcnn.global_step)
if current_step % FLAGS.evaluate_every == 0:
logger.info("\nEvaluation:")
validation_step(x_validation_front,
x_validation_behind,
y_validation,
writer=validation_summary_writer)
if current_step % FLAGS.checkpoint_every == 0:
checkpoint_prefix = os.path.join(checkpoint_dir, "model")
path = saver.save(sess,
checkpoint_prefix,
global_step=current_step)
logger.info(
"✔︎ Saved model checkpoint to {0}\n".format(path))
if current_step % num_batches_per_epoch == 0:
current_epoch = current_step // num_batches_per_epoch
logger.info(
"✔︎ Epoch {0} has finished!".format(current_epoch))
logger.info("✔︎ Done.")
def train_ann():
"""Training ANN model."""
# Load sentences, labels, and training parameters
logger.info('✔︎ Loading data...')
logger.info('✔︎ Training data processing...')
train_data = dh.load_data_and_labels(FLAGS.training_data_file,
FLAGS.num_classes,
FLAGS.embedding_dim)
logger.info('✔︎ Validation data processing...')
validation_data = \
dh.load_data_and_labels(FLAGS.validation_data_file, FLAGS.num_classes, FLAGS.embedding_dim)
logger.info('Recommended padding Sequence length is: {0}'.format(
FLAGS.pad_seq_len))
logger.info('✔︎ Training data padding...')
x_train, y_train = dh.pad_data(train_data, FLAGS.pad_seq_len)
logger.info('✔︎ Validation data padding...')
x_validation, y_validation = dh.pad_data(validation_data,
FLAGS.pad_seq_len)
# Build vocabulary
VOCAB_SIZE = dh.load_vocab_size(FLAGS.embedding_dim)
pretrained_word2vec_matrix = dh.load_word2vec_matrix(
VOCAB_SIZE, FLAGS.embedding_dim)
# Build a graph and ann object
with tf.Graph().as_default():
session_conf = tf.ConfigProto(
allow_soft_placement=FLAGS.allow_soft_placement,
log_device_placement=FLAGS.log_device_placement)
session_conf.gpu_options.allow_growth = FLAGS.gpu_options_allow_growth
sess = tf.Session(config=session_conf)
with sess.as_default():
ann = TextANN(sequence_length=FLAGS.pad_seq_len,
num_classes=FLAGS.num_classes,
vocab_size=VOCAB_SIZE,
fc_hidden_size=FLAGS.fc_hidden_size,
embedding_size=FLAGS.embedding_dim,
embedding_type=FLAGS.embedding_type,
l2_reg_lambda=FLAGS.l2_reg_lambda,
pretrained_embedding=pretrained_word2vec_matrix)
# Define training procedure
with tf.control_dependencies(
tf.get_collection(tf.GraphKeys.UPDATE_OPS)):
learning_rate = tf.train.exponential_decay(
learning_rate=FLAGS.learning_rate,
global_step=ann.global_step,
decay_steps=FLAGS.decay_steps,
decay_rate=FLAGS.decay_rate,
staircase=True)
optimizer = tf.train.AdamOptimizer(learning_rate)
grads, vars = zip(*optimizer.compute_gradients(ann.loss))
grads, _ = tf.clip_by_global_norm(grads,
clip_norm=FLAGS.norm_ratio)
train_op = optimizer.apply_gradients(
zip(grads, vars),
global_step=ann.global_step,
name="train_op")
# Keep track of gradient values and sparsity (optional)
grad_summaries = []
for g, v in zip(grads, vars):
if g is not None:
grad_hist_summary = tf.summary.histogram(
"{0}/grad/hist".format(v.name), g)
sparsity_summary = tf.summary.scalar(
"{0}/grad/sparsity".format(v.name),
tf.nn.zero_fraction(g))
grad_summaries.append(grad_hist_summary)
grad_summaries.append(sparsity_summary)
grad_summaries_merged = tf.summary.merge(grad_summaries)
# Output directory for models and summaries
if FLAGS.train_or_restore == 'R':
MODEL = input(
"☛ Please input the checkpoints model you want to restore, "
"it should be like(1490175368): "
) # The model you want to restore
while not (MODEL.isdigit() and len(MODEL) == 10):
MODEL = input(
'✘ The format of your input is illegal, please re-input: '
)
logger.info(
'✔︎ The format of your input is legal, now loading to next step...'
)
checkpoint_dir = 'runs/' + MODEL + '/checkpoints/'
out_dir = os.path.abspath(
os.path.join(os.path.curdir, "runs", MODEL))
logger.info("✔︎ Writing to {0}\n".format(out_dir))
else:
timestamp = str(int(time.time()))
out_dir = os.path.abspath(
os.path.join(os.path.curdir, "runs", timestamp))
logger.info("✔︎ Writing to {0}\n".format(out_dir))
# Summaries for loss
loss_summary = tf.summary.scalar("loss", ann.loss)
# Train summaries
train_summary_op = tf.summary.merge(
[loss_summary, grad_summaries_merged])
train_summary_dir = os.path.join(out_dir, "summaries", "train")
train_summary_writer = tf.summary.FileWriter(
train_summary_dir, sess.graph)
# Validation summaries
validation_summary_op = tf.summary.merge([loss_summary])
validation_summary_dir = os.path.join(out_dir, "summaries",
"validation")
validation_summary_writer = tf.summary.FileWriter(
validation_summary_dir, sess.graph)
saver = tf.train.Saver(tf.global_variables(),
max_to_keep=FLAGS.num_checkpoints)
if FLAGS.train_or_restore == 'R':
# Load ann model
logger.info("✔ Loading model...")
checkpoint_file = tf.train.latest_checkpoint(checkpoint_dir)
logger.info(checkpoint_file)
# Load the saved meta graph and restore variables
saver = tf.train.import_meta_graph(
"{0}.meta".format(checkpoint_file))
saver.restore(sess, checkpoint_file)
else:
checkpoint_dir = os.path.abspath(
os.path.join(out_dir, "checkpoints"))
if not os.path.exists(checkpoint_dir):
os.makedirs(checkpoint_dir)
sess.run(tf.global_variables_initializer())
sess.run(tf.local_variables_initializer())
# Embedding visualization config
config = projector.ProjectorConfig()
embedding_conf = config.embeddings.add()
embedding_conf.tensor_name = 'embedding'
embedding_conf.metadata_path = FLAGS.metadata_file
projector.visualize_embeddings(train_summary_writer, config)
projector.visualize_embeddings(validation_summary_writer,
config)
# Save the embedding visualization
saver.save(
sess, os.path.join(out_dir, 'embedding', 'embedding.ckpt'))
current_step = sess.run(ann.global_step)
def train_step(x_batch, y_batch):
"""A single training step"""
feed_dict = {
ann.input_x: x_batch,
ann.input_y: y_batch,
ann.dropout_keep_prob: FLAGS.dropout_keep_prob,
ann.is_training: True
}
_, step, summaries, loss = sess.run(
[train_op, ann.global_step, train_summary_op, ann.loss],
feed_dict)
logger.info("step {0}: loss {1:g}".format(step, loss))
train_summary_writer.add_summary(summaries, step)
def validation_step(x_validation, y_validation, writer=None):
"""Evaluates model on a validation set"""
batches_validation = dh.batch_iter(
list(zip(x_validation, y_validation)), FLAGS.batch_size, 1)
# Predict classes by threshold or topk ('ts': threshold; 'tk': topk)
eval_counter, eval_loss, eval_rec_ts, eval_pre_ts, eval_F_ts = 0, 0.0, 0.0, 0.0, 0.0
eval_rec_tk = [0.0] * FLAGS.top_num
eval_pre_tk = [0.0] * FLAGS.top_num
eval_F_tk = [0.0] * FLAGS.top_num
for batch_validation in batches_validation:
x_batch_validation, y_batch_validation = zip(
*batch_validation)
feed_dict = {
ann.input_x: x_batch_validation,
ann.input_y: y_batch_validation,
ann.dropout_keep_prob: 1.0,
ann.is_training: False
}
step, summaries, scores, cur_loss = sess.run([
ann.global_step, validation_summary_op, ann.scores,
ann.loss
], feed_dict)
# Predict by threshold
predicted_labels_threshold, predicted_values_threshold = \
dh.get_label_using_scores_by_threshold(scores=scores, threshold=FLAGS.threshold)
cur_rec_ts, cur_pre_ts, cur_F_ts = 0.0, 0.0, 0.0
for index, predicted_label_threshold in enumerate(
predicted_labels_threshold):
rec_inc_ts, pre_inc_ts = dh.cal_metric(
predicted_label_threshold,
y_batch_validation[index])
cur_rec_ts, cur_pre_ts = cur_rec_ts + rec_inc_ts, cur_pre_ts + pre_inc_ts
cur_rec_ts = cur_rec_ts / len(y_batch_validation)
cur_pre_ts = cur_pre_ts / len(y_batch_validation)
cur_F_ts = dh.cal_F(cur_rec_ts, cur_pre_ts)
eval_rec_ts, eval_pre_ts = eval_rec_ts + cur_rec_ts, eval_pre_ts + cur_pre_ts
# Predict by topK
topK_predicted_labels = []
for top_num in range(FLAGS.top_num):
predicted_labels_topk, predicted_values_topk = \
dh.get_label_using_scores_by_topk(scores=scores, top_num=top_num+1)
topK_predicted_labels.append(predicted_labels_topk)
cur_rec_tk = [0.0] * FLAGS.top_num
cur_pre_tk = [0.0] * FLAGS.top_num
cur_F_tk = [0.0] * FLAGS.top_num
for top_num, predicted_labels_topK in enumerate(
topK_predicted_labels):
for index, predicted_label_topK in enumerate(
predicted_labels_topK):
rec_inc_tk, pre_inc_tk = dh.cal_metric(
predicted_label_topK,
y_batch_validation[index])
cur_rec_tk[top_num], cur_pre_tk[top_num] = \
cur_rec_tk[top_num] + rec_inc_tk, cur_pre_tk[top_num] + pre_inc_tk
cur_rec_tk[top_num] = cur_rec_tk[top_num] / len(
y_batch_validation)
cur_pre_tk[top_num] = cur_pre_tk[top_num] / len(
y_batch_validation)
cur_F_tk[top_num] = dh.cal_F(cur_rec_tk[top_num],
cur_pre_tk[top_num])
eval_rec_tk[top_num], eval_pre_tk[top_num] = \
eval_rec_tk[top_num] + cur_rec_tk[top_num], eval_pre_tk[top_num] + cur_pre_tk[top_num]
eval_loss = eval_loss + cur_loss
eval_counter = eval_counter + 1
logger.info("✔︎ validation batch {0}: loss {1:g}".format(
eval_counter, cur_loss))
logger.info(
"︎☛ Predict by threshold: recall {0:g}, precision {1:g}, F {2:g}"
.format(cur_rec_ts, cur_pre_ts, cur_F_ts))
logger.info("︎☛ Predict by topK:")
for top_num in range(FLAGS.top_num):
logger.info(
"Top{0}: recall {1:g}, precision {2:g}, F {3:g}".
format(top_num + 1, cur_rec_tk[top_num],
cur_pre_tk[top_num], cur_F_tk[top_num]))
if writer:
writer.add_summary(summaries, step)
eval_loss = float(eval_loss / eval_counter)
eval_rec_ts = float(eval_rec_ts / eval_counter)
eval_pre_ts = float(eval_pre_ts / eval_counter)
eval_F_ts = dh.cal_F(eval_rec_ts, eval_pre_ts)
for top_num in range(FLAGS.top_num):
eval_rec_tk[top_num] = float(eval_rec_tk[top_num] /
eval_counter)
eval_pre_tk[top_num] = float(eval_pre_tk[top_num] /
eval_counter)
eval_F_tk[top_num] = dh.cal_F(eval_rec_tk[top_num],
eval_pre_tk[top_num])
return eval_loss, eval_rec_ts, eval_pre_ts, eval_F_ts, eval_rec_tk, eval_pre_tk, eval_F_tk
# Generate batches
batches_train = dh.batch_iter(list(zip(x_train, y_train)),
FLAGS.batch_size, FLAGS.num_epochs)
num_batches_per_epoch = int(
(len(x_train) - 1) / FLAGS.batch_size) + 1
# Training loop. For each batch...
for batch_train in batches_train:
x_batch_train, y_batch_train = zip(*batch_train)
train_step(x_batch_train, y_batch_train)
current_step = tf.train.global_step(sess, ann.global_step)
if current_step % FLAGS.evaluate_every == 0:
logger.info("\nEvaluation:")
eval_loss, eval_rec_ts, eval_pre_ts, eval_F_ts, eval_rec_tk, eval_pre_tk, eval_F_tk = \
validation_step(x_validation, y_validation, writer=validation_summary_writer)
logger.info(
"All Validation set: Loss {0:g}".format(eval_loss))
# Predict by threshold
logger.info(
"︎☛ Predict by threshold: Recall {0:g}, Precision {1:g}, F {2:g}"
.format(eval_rec_ts, eval_pre_ts, eval_F_ts))
# Predict by topK
logger.info("︎☛ Predict by topK:")
for top_num in range(FLAGS.top_num):
logger.info(
"Top{0}: Recall {1:g}, Precision {2:g}, F {3:g}".
format(top_num + 1, eval_rec_tk[top_num],
eval_pre_tk[top_num], eval_F_tk[top_num]))
if current_step % FLAGS.checkpoint_every == 0:
checkpoint_prefix = os.path.join(checkpoint_dir, "model")
path = saver.save(sess,
checkpoint_prefix,
global_step=current_step)
logger.info(
"✔︎ Saved model checkpoint to {0}\n".format(path))
if current_step % num_batches_per_epoch == 0:
current_epoch = current_step // num_batches_per_epoch
logger.info(
"✔︎ Epoch {0} has finished!".format(current_epoch))
logger.info("✔︎ Done.")
def test_sann():
"""Test SANN model."""
# Print parameters used for the model
dh.tab_printer(args, logger)
# Load data
logger.info("Loading data...")
logger.info("Data processing...")
test_data = dh.load_data_and_labels(args.test_file, args.word2vec_file)
logger.info("Data padding...")
x_test_front, x_test_behind, y_test = dh.pad_data(test_data, args.pad_seq_len)
# Load sann model
OPTION = dh._option(pattern=1)
if OPTION == 'B':
logger.info("Loading best model...")
checkpoint_file = cm.get_best_checkpoint(BEST_CPT_DIR, select_maximum_value=True)
else:
logger.info("Loading latest model...")
checkpoint_file = tf.train.latest_checkpoint(CPT_DIR)
logger.info(checkpoint_file)
graph = tf.Graph()
with graph.as_default():
session_conf = tf.ConfigProto(
allow_soft_placement=args.allow_soft_placement,
log_device_placement=args.log_device_placement)
session_conf.gpu_options.allow_growth = args.gpu_options_allow_growth
sess = tf.Session(config=session_conf)
with sess.as_default():
# Load the saved meta graph and restore variables
saver = tf.train.import_meta_graph("{0}.meta".format(checkpoint_file))
saver.restore(sess, checkpoint_file)
# Get the placeholders from the graph by name
input_x_front = graph.get_operation_by_name("input_x_front").outputs[0]
input_x_behind = graph.get_operation_by_name("input_x_behind").outputs[0]
input_y = graph.get_operation_by_name("input_y").outputs[0]
dropout_keep_prob = graph.get_operation_by_name("dropout_keep_prob").outputs[0]
is_training = graph.get_operation_by_name("is_training").outputs[0]
# Tensors we want to evaluate
predictions = graph.get_operation_by_name("output/predictions").outputs[0]
topKPreds = graph.get_operation_by_name("output/topKPreds").outputs[0]
loss = graph.get_operation_by_name("loss/loss").outputs[0]
# Split the output nodes name by '|' if you have several output nodes
output_node_names = "output/predictions|output/topKPreds"
# Save the .pb model file
output_graph_def = tf.graph_util.convert_variables_to_constants(sess, sess.graph_def,
output_node_names.split("|"))
tf.train.write_graph(output_graph_def, "graph", "graph-sann-{0}.pb".format(MODEL), as_text=False)
# Generate batches for one epoch
batches_test = dh.batch_iter(list(zip(x_test_front, x_test_behind, y_test)),
args.batch_size, 1, shuffle=False)
# Collect the predictions here
test_counter, test_loss = 0, 0.0
all_labels = []
all_predicted_labels = []
all_predicted_scores = []
for batch_test in batches_test:
x_batch_test_front, x_batch_test_behind, y_batch_test = zip(*batch_test)
feed_dict = {
input_x_front: x_batch_test_front,
input_x_behind: x_batch_test_behind,
input_y: y_batch_test,
dropout_keep_prob: 1.0,
is_training: False
}
batch_predicted_labels, batch_predicted_scores, batch_loss \
= sess.run([predictions, topKPreds, loss], feed_dict)
for i in y_batch_test:
all_labels.append(np.argmax(i))
for j in batch_predicted_scores:
all_predicted_scores.append(j[0])
for k in batch_predicted_labels:
all_predicted_labels.append(k)
test_loss = test_loss + batch_loss
test_counter = test_counter + 1
test_loss = float(test_loss / test_counter)
# Calculate Precision & Recall & F1
test_acc = accuracy_score(y_true=np.array(all_labels), y_pred=np.array(all_predicted_labels))
test_pre = precision_score(y_true=np.array(all_labels),
y_pred=np.array(all_predicted_labels), average='micro')
test_rec = recall_score(y_true=np.array(all_labels),
y_pred=np.array(all_predicted_labels), average='micro')
test_F1 = f1_score(y_true=np.array(all_labels),
y_pred=np.array(all_predicted_labels), average='micro')
# Calculate the average AUC
test_auc = roc_auc_score(y_true=np.array(all_labels),
y_score=np.array(all_predicted_scores), average='micro')
logger.info("All Test Dataset: Loss {0:g} | Acc {1:g} | Precision {2:g} | "
"Recall {3:g} | F1 {4:g} | AUC {5:g}"
.format(test_loss, test_acc, test_pre, test_rec, test_F1, test_auc))
# Save the prediction result
if not os.path.exists(SAVE_DIR):
os.makedirs(SAVE_DIR)
dh.create_prediction_file(output_file=SAVE_DIR + "/predictions.json", front_data_id=test_data.front_testid,
behind_data_id=test_data.behind_testid, all_labels=all_labels,
all_predict_labels=all_predicted_labels, all_predict_scores=all_predicted_scores)
logger.info("All Done.")
def test_han():
"""Test HAN model."""
# Load data
logger.info("✔ Loading data...")
logger.info('Recommended padding Sequence length is: {0}'.format(
FLAGS.pad_seq_len))
logger.info('✔︎ Test data processing...')
test_data = dh.load_data_and_labels(FLAGS.test_data_file,
FLAGS.embedding_dim)
logger.info('✔︎ Test data padding...')
x_test_front, x_test_behind, y_test = dh.pad_data(test_data,
FLAGS.pad_seq_len)
y_test_labels = test_data.labels
# Load han model
logger.info("✔ Loading model...")
checkpoint_file = tf.train.latest_checkpoint(FLAGS.checkpoint_dir)
logger.info(checkpoint_file)
graph = tf.Graph()
with graph.as_default():
session_conf = tf.ConfigProto(
allow_soft_placement=FLAGS.allow_soft_placement,
log_device_placement=FLAGS.log_device_placement)
session_conf.gpu_options.allow_growth = FLAGS.gpu_options_allow_growth
sess = tf.Session(config=session_conf)
with sess.as_default():
# Load the saved meta graph and restore variables
saver = tf.train.import_meta_graph(
"{0}.meta".format(checkpoint_file))
saver.restore(sess, checkpoint_file)
# Get the placeholders from the graph by name
input_x_front = graph.get_operation_by_name(
"input_x_front").outputs[0]
input_x_behind = graph.get_operation_by_name(
"input_x_behind").outputs[0]
input_y = graph.get_operation_by_name("input_y").outputs[0]
dropout_keep_prob = graph.get_operation_by_name(
"dropout_keep_prob").outputs[0]
is_training = graph.get_operation_by_name("is_training").outputs[0]
# Tensors we want to evaluate
predictions = graph.get_operation_by_name(
"output/predictions").outputs[0]
topKPreds = graph.get_operation_by_name(
"output/topKPreds").outputs[0]
accuracy = graph.get_operation_by_name(
"accuracy/accuracy").outputs[0]
loss = graph.get_operation_by_name("loss/loss").outputs[0]
# Split the output nodes name by '|' if you have several output nodes
output_node_names = 'output/logits|output/predictions|output/softmax_scores|output/topKPreds'
# Save the .pb model file
output_graph_def = tf.graph_util.convert_variables_to_constants(
sess, sess.graph_def, output_node_names.split("|"))
tf.train.write_graph(output_graph_def,
'graph',
'graph-han-{0}.pb'.format(MODEL),
as_text=False)
# Generate batches for one epoch
batches = dh.batch_iter(list(
zip(x_test_front, x_test_behind, y_test, y_test_labels)),
FLAGS.batch_size,
1,
shuffle=False)
# Collect the predictions here
all_labels = []
all_predicted_labels = []
all_predicted_values = []
for index, x_test_batch in enumerate(batches):
x_batch_front, x_batch_behind, y_batch, y_batch_labels = zip(
*x_test_batch)
feed_dict = {
input_x_front: x_batch_front,
input_x_behind: x_batch_behind,
input_y: y_batch,
dropout_keep_prob: 1.0,
is_training: False
}
all_labels = np.append(all_labels, y_batch_labels)
batch_predicted_labels = sess.run(predictions, feed_dict)
all_predicted_labels = np.concatenate(
[all_predicted_labels, batch_predicted_labels])
batch_predicted_values = sess.run(topKPreds, feed_dict)
all_predicted_values = np.append(all_predicted_values,
batch_predicted_values)
batch_loss = sess.run(loss, feed_dict)
batch_acc = sess.run(accuracy, feed_dict)
logger.info(
"✔︎ Test batch {0}: loss {1:g}, accuracy {2:g}.".format(
(index + 1), batch_loss, batch_acc))
# Save the prediction result
if not os.path.exists(SAVE_DIR):
os.makedirs(SAVE_DIR)
dh.create_prediction_file(output_file=SAVE_DIR +
'/predictions.json',
front_data_id=test_data.front_testid,
behind_data_id=test_data.behind_testid,
all_labels=all_labels,
all_predict_labels=all_predicted_labels,
all_predict_values=all_predicted_values)
logger.info("✔ Done.")
def test_cnn():
"""Test CNN model."""
# Load data
logger.info("✔ Loading data...")
logger.info('Recommended padding Sequence length is: {0}'.format(
FLAGS.pad_seq_len))
logger.info('✔︎ Test data processing...')
test_data = dh.load_data_and_labels(FLAGS.test_data_file,
FLAGS.embedding_dim)
logger.info('✔︎ Test data padding...')
x_test_front, x_test_behind, y_test = dh.pad_data(test_data,
FLAGS.pad_seq_len)
# Build vocabulary
VOCAB_SIZE = dh.load_vocab_size(FLAGS.embedding_dim)
pretrained_word2vec_matrix = dh.load_word2vec_matrix(
VOCAB_SIZE, FLAGS.embedding_dim)
# Load cnn model
logger.info("✔ Loading model...")
checkpoint_file = tf.train.latest_checkpoint(FLAGS.checkpoint_dir)
logger.info(checkpoint_file)
graph = tf.Graph()
with graph.as_default():
session_conf = tf.ConfigProto(
allow_soft_placement=FLAGS.allow_soft_placement,
log_device_placement=FLAGS.log_device_placement)
session_conf.gpu_options.allow_growth = FLAGS.gpu_options_allow_growth
sess = tf.Session(config=session_conf)
with sess.as_default():
# Load the saved meta graph and restore variables
saver = tf.train.import_meta_graph(
"{0}.meta".format(checkpoint_file))
saver.restore(sess, checkpoint_file)
# Get the placeholders from the graph by name
input_x_front = graph.get_operation_by_name(
"input_x_front").outputs[0]
input_x_behind = graph.get_operation_by_name(
"input_x_behind").outputs[0]
input_y = graph.get_operation_by_name("input_y").outputs[0]
dropout_keep_prob = graph.get_operation_by_name(
"dropout_keep_prob").outputs[0]
is_training = graph.get_operation_by_name("is_training").outputs[0]
# pre-trained word2vec
pretrained_embedding = graph.get_operation_by_name(
"embedding/embedding").outputs[0]
# Tensors we want to evaluate
scores = graph.get_operation_by_name("output/scores").outputs
predictions = graph.get_operation_by_name(
"output/predictions").outputs[0]
softmax_scores = graph.get_operation_by_name(
"output/SoftMax_scores").outputs[0]
topKPreds = graph.get_operation_by_name(
"output/topKPreds").outputs[0]
accuracy = graph.get_operation_by_name(
"accuracy/accuracy").outputs[0]
loss = graph.get_operation_by_name("loss/loss").outputs[0]
# Split the output nodes name by '|' if you have several output nodes
output_node_names = 'output/scores|output/predictions|output/SoftMax_scores|output/topKPreds'
# Save the .pb model file
output_graph_def = tf.graph_util.convert_variables_to_constants(
sess, sess.graph_def, output_node_names.split("|"))
tf.train.write_graph(output_graph_def,
'graph',
'graph-cnn-{0}.pb'.format(MODEL_LOG),
as_text=False)
# Generate batches for one epoch
batches = dh.batch_iter(list(
zip(x_test_front, x_test_behind, y_test)),
FLAGS.batch_size,
1,
shuffle=False)
# Collect the predictions here
all_scores = []
all_softmax_scores = []
all_predictions = []
all_topKPreds = []
for index, x_test_batch in enumerate(batches):
x_batch_front, x_batch_behind, y_batch = zip(*x_test_batch)
feed_dict = {
input_x_front: x_batch_front,
input_x_behind: x_batch_behind,
input_y: y_batch,
dropout_keep_prob: 1.0,
is_training: False
}
batch_scores = sess.run(scores, feed_dict)
all_scores = np.append(all_scores, batch_scores)
batch_softmax_scores = sess.run(softmax_scores, feed_dict)
all_softmax_scores = np.append(all_softmax_scores,
batch_softmax_scores)
batch_predictions = sess.run(predictions, feed_dict)
all_predictions = np.concatenate(
[all_predictions, batch_predictions])
batch_topKPreds = sess.run(topKPreds, feed_dict)
all_topKPreds = np.append(all_topKPreds, batch_topKPreds)
batch_loss = sess.run(loss, feed_dict)
batch_acc = sess.run(accuracy, feed_dict)
logger.info(
"✔︎ Test batch {0}: loss {1:g}, accuracy {2:g}.".format(
(index + 1), batch_loss, batch_acc))
os.makedirs(SAVE_DIR)
np.savetxt(SAVE_DIR + '/result_sub_' + SUBSET + '.txt',
list(zip(all_predictions, all_topKPreds)),
fmt='%s')
logger.info("✔ Done.")
def train_harnn():
"""Training HARNN model."""
# Load sentences, labels, and training parameters
logger.info("✔︎ Loading data...")
logger.info("✔︎ Training data processing...")
train_data = dh.load_data_and_labels(FLAGS.training_data_file,
FLAGS.num_classes_list,
FLAGS.total_classes,
FLAGS.embedding_dim,
data_aug_flag=False)
logger.info("✔︎ Validation data processing...")
val_data = dh.load_data_and_labels(FLAGS.validation_data_file,
FLAGS.num_classes_list,
FLAGS.total_classes,
FLAGS.embedding_dim,
data_aug_flag=False)
logger.info("Recommended padding Sequence length is: {0}".format(
FLAGS.pad_seq_len))
logger.info("✔︎ Training data padding...")
x_train, y_train, y_train_tuple = dh.pad_data(train_data,
FLAGS.pad_seq_len)
logger.info("✔︎ Validation data padding...")
x_val, y_val, y_val_tuple = dh.pad_data(val_data, FLAGS.pad_seq_len)
# Build vocabulary
VOCAB_SIZE, pretrained_word2vec_matrix = dh.load_word2vec_matrix(
FLAGS.embedding_dim)
# Build a graph and harnn object
with tf.Graph().as_default():
session_conf = tf.ConfigProto(
allow_soft_placement=FLAGS.allow_soft_placement,
log_device_placement=FLAGS.log_device_placement)
session_conf.gpu_options.allow_growth = FLAGS.gpu_options_allow_growth
sess = tf.Session(config=session_conf)
with sess.as_default():
harnn = eval(FLAGS.harnn_type)(
sequence_length=FLAGS.pad_seq_len,
num_classes_list=list(
map(int, FLAGS.num_classes_list.split(','))),
total_classes=FLAGS.total_classes,
vocab_size=VOCAB_SIZE,
batch_size=FLAGS.batch_size,
lstm_hidden_size=FLAGS.lstm_hidden_size,
attention_unit_size=FLAGS.attention_unit_size,
fc_hidden_size=FLAGS.fc_hidden_size,
embedding_size=FLAGS.embedding_dim,
embedding_type=FLAGS.embedding_type,
l2_reg_lambda=FLAGS.l2_reg_lambda,
alpha=FLAGS.alpha,
pretrained_embedding=pretrained_word2vec_matrix)
# Define training procedure
with tf.control_dependencies(
tf.get_collection(tf.GraphKeys.UPDATE_OPS)):
learning_rate = tf.train.exponential_decay(
learning_rate=FLAGS.learning_rate,
global_step=harnn.global_step,
decay_steps=FLAGS.decay_steps,
decay_rate=FLAGS.decay_rate,
staircase=True)
optimizer = tf.train.AdamOptimizer(learning_rate)
grads, vars = zip(*optimizer.compute_gradients(harnn.loss))
grads, _ = tf.clip_by_global_norm(grads,
clip_norm=FLAGS.norm_ratio)
train_op = optimizer.apply_gradients(
zip(grads, vars),
global_step=harnn.global_step,
name="train_op")
# Keep track of gradient values and sparsity (optional)
grad_summaries = []
for g, v in zip(grads, vars):
if g is not None:
grad_hist_summary = tf.summary.histogram(
"{0}/grad/hist".format(v.name), g)
sparsity_summary = tf.summary.scalar(
"{0}/grad/sparsity".format(v.name),
tf.nn.zero_fraction(g))
grad_summaries.append(grad_hist_summary)
grad_summaries.append(sparsity_summary)
grad_summaries_merged = tf.summary.merge(grad_summaries)
# Output directory for models and summaries
if FLAGS.train_or_restore == 'R':
MODEL = input(
"☛ Please input the checkpoints model you want to restore, "
"it should be like(1490175368): "
) # The model you want to restore
while not (MODEL.isdigit() and len(MODEL) == 10):
MODEL = input(
"✘ The format of your input is illegal, please re-input: "
)
logger.info(
"✔︎ The format of your input is legal, now loading to next step..."
)
out_dir = os.path.abspath(
os.path.join(os.path.curdir, "runs", MODEL))
logger.info("✔︎ Writing to {0}\n".format(out_dir))
else:
timestamp = str(int(time.time()))
out_dir = os.path.abspath(
os.path.join(os.path.curdir, "runs", timestamp))
logger.info("✔︎ Writing to {0}\n".format(out_dir))
checkpoint_dir = os.path.abspath(
os.path.join(out_dir, "checkpoints"))
best_checkpoint_dir = os.path.abspath(
os.path.join(out_dir, "bestcheckpoints"))
# Summaries for loss
loss_summary = tf.summary.scalar("loss", harnn.loss)
# Train summaries
train_summary_op = tf.summary.merge(
[loss_summary, grad_summaries_merged])
train_summary_dir = os.path.join(out_dir, "summaries", "train")
train_summary_writer = tf.summary.FileWriter(
train_summary_dir, sess.graph)
# Validation summaries
validation_summary_op = tf.summary.merge([loss_summary])
validation_summary_dir = os.path.join(out_dir, "summaries",
"validation")
validation_summary_writer = tf.summary.FileWriter(
validation_summary_dir, sess.graph)
saver = tf.train.Saver(tf.global_variables(),
max_to_keep=FLAGS.num_checkpoints)
best_saver = cm.BestCheckpointSaver(save_dir=best_checkpoint_dir,
num_to_keep=3,
maximize=True)
if FLAGS.train_or_restore == 'R':
# Load harnn model
logger.info("✔︎ Loading model...")
checkpoint_file = tf.train.latest_checkpoint(checkpoint_dir)
logger.info(checkpoint_file)
# Load the saved meta graph and restore variables
saver = tf.train.import_meta_graph(
"{0}.meta".format(checkpoint_file))
saver.restore(sess, checkpoint_file)
else:
if not os.path.exists(checkpoint_dir):
os.makedirs(checkpoint_dir)
sess.run(tf.global_variables_initializer())
sess.run(tf.local_variables_initializer())
# Save the embedding visualization
saver.save(
sess, os.path.join(out_dir, "embedding", "embedding.ckpt"))
current_step = sess.run(harnn.global_step)
def train_step(x_batch, y_batch, y_batch_tuple):
"""A single training step"""
y_batch_first = [i[0] for i in y_batch_tuple]
y_batch_second = [j[1] for j in y_batch_tuple]
y_batch_third = [k[2] for k in y_batch_tuple]
y_batch_fourth = [t[3] for t in y_batch_tuple]
feed_dict = {
harnn.input_x: x_batch,
harnn.input_y_first: y_batch_first,
harnn.input_y_second: y_batch_second,
harnn.input_y_third: y_batch_third,
harnn.input_y_fourth: y_batch_fourth,
harnn.input_y: y_batch,
harnn.dropout_keep_prob: FLAGS.dropout_keep_prob,
harnn.beta: FLAGS.beta,
harnn.is_training: True
}
_, step, summaries, loss = sess.run([
train_op, harnn.global_step, train_summary_op, harnn.loss
], feed_dict)
logger.info("step {0}: loss {1:g}".format(step, loss))
train_summary_writer.add_summary(summaries, step)
def validation_step(x_val, y_val, y_val_tuple, writer=None):
"""Evaluates model on a validation set"""
batches_validation = dh.batch_iter(list(
zip(x_val, y_val, y_val_tuple)),
FLAGS.batch_size,
1,
shuffle=False)
# Predict classes by threshold or topk ('ts': threshold; 'tk': topk)
eval_counter, eval_loss = 0, 0.0
eval_pre_tk = [0.0] * FLAGS.top_num
eval_rec_tk = [0.0] * FLAGS.top_num
eval_F_tk = [0.0] * FLAGS.top_num
true_onehot_labels = []
predicted_onehot_scores = []
predicted_onehot_labels_ts = []
predicted_onehot_labels_tk = [[] for _ in range(FLAGS.top_num)]
for batch_validation in batches_validation:
x_batch_val, y_batch_val, y_batch_val_tuple = zip(
*batch_validation)
y_batch_val_first = [i[0] for i in y_batch_val_tuple]
y_batch_val_second = [j[1] for j in y_batch_val_tuple]
y_batch_val_third = [k[2] for k in y_batch_val_tuple]
y_batch_val_fourth = [t[3] for t in y_batch_val_tuple]
feed_dict = {
harnn.input_x: x_batch_val,
harnn.input_y_first: y_batch_val_first,
harnn.input_y_second: y_batch_val_second,
harnn.input_y_third: y_batch_val_third,
harnn.input_y_fourth: y_batch_val_fourth,
harnn.input_y: y_batch_val,
harnn.dropout_keep_prob: 1.0,
harnn.beta: FLAGS.beta,
harnn.is_training: False
}
step, summaries, scores, cur_loss = sess.run([
harnn.global_step, validation_summary_op, harnn.scores,
harnn.loss
], feed_dict)
# Prepare for calculating metrics
for onehot_labels in y_batch_val:
true_onehot_labels.append(onehot_labels)
for onehot_scores in scores:
predicted_onehot_scores.append(onehot_scores)
# Predict by threshold
batch_predicted_onehot_labels_ts = \
dh.get_onehot_label_threshold(scores=scores, threshold=FLAGS.threshold)
for onehot_labels in batch_predicted_onehot_labels_ts:
predicted_onehot_labels_ts.append(onehot_labels)
# Predict by topK
for top_num in range(FLAGS.top_num):
batch_predicted_onehot_labels_tk = dh.get_onehot_label_topk(
scores=scores, top_num=top_num + 1)
for onehot_labels in batch_predicted_onehot_labels_tk:
predicted_onehot_labels_tk[top_num].append(
onehot_labels)
eval_loss = eval_loss + cur_loss
eval_counter = eval_counter + 1
if writer:
writer.add_summary(summaries, step)
eval_loss = float(eval_loss / eval_counter)
# Calculate Precision & Recall & F1
eval_pre_ts = precision_score(
y_true=np.array(true_onehot_labels),
y_pred=np.array(predicted_onehot_labels_ts),
average='micro')
eval_rec_ts = recall_score(
y_true=np.array(true_onehot_labels),
y_pred=np.array(predicted_onehot_labels_ts),
average='micro')
eval_F_ts = f1_score(
y_true=np.array(true_onehot_labels),
y_pred=np.array(predicted_onehot_labels_ts),
average='micro')
# Calculate the average AUC
eval_auc = roc_auc_score(
y_true=np.array(true_onehot_labels),
y_score=np.array(predicted_onehot_scores),
average='micro')
# Calculate the average PR
eval_prc = average_precision_score(
y_true=np.array(true_onehot_labels),
y_score=np.array(predicted_onehot_scores),
average='micro')
for top_num in range(FLAGS.top_num):
eval_pre_tk[top_num] = precision_score(
y_true=np.array(true_onehot_labels),
y_pred=np.array(predicted_onehot_labels_tk[top_num]),
average='micro')
eval_rec_tk[top_num] = recall_score(
y_true=np.array(true_onehot_labels),
y_pred=np.array(predicted_onehot_labels_tk[top_num]),
average='micro')
eval_F_tk[top_num] = f1_score(
y_true=np.array(true_onehot_labels),
y_pred=np.array(predicted_onehot_labels_tk[top_num]),
average='micro')
return eval_loss, eval_auc, eval_prc, eval_rec_ts, eval_pre_ts, eval_F_ts, \
eval_rec_tk, eval_pre_tk, eval_F_tk
# Generate batches
batches_train = dh.batch_iter(
list(zip(x_train, y_train, y_train_tuple)), FLAGS.batch_size,
FLAGS.num_epochs)
num_batches_per_epoch = int(
(len(x_train) - 1) / FLAGS.batch_size) + 1
# Training loop. For each batch...
for batch_train in batches_train:
x_batch_train, y_batch_train, y_batch_train_tuple = zip(
*batch_train)
train_step(x_batch_train, y_batch_train, y_batch_train_tuple)
current_step = tf.train.global_step(sess, harnn.global_step)
if current_step % FLAGS.evaluate_every == 0:
logger.info("\nEvaluation:")
eval_loss, eval_auc, eval_prc, \
eval_rec_ts, eval_pre_ts, eval_F_ts, eval_rec_tk, eval_pre_tk, eval_F_tk = \
validation_step(x_val, y_val, y_val_tuple, writer=validation_summary_writer)
logger.info(
"All Validation set: Loss {0:g} | AUC {1:g} | AUPRC {2:g}"
.format(eval_loss, eval_auc, eval_prc))
# Predict by threshold
logger.info(
"☛ Predict by threshold: Precision {0:g}, Recall {1:g}, F {2:g}"
.format(eval_pre_ts, eval_rec_ts, eval_F_ts))
# Predict by topK
logger.info("☛ Predict by topK:")
for top_num in range(FLAGS.top_num):
logger.info(
"Top{0}: Precision {1:g}, Recall {2:g}, F {3:g}".
format(top_num + 1, eval_pre_tk[top_num],
eval_rec_tk[top_num], eval_F_tk[top_num]))
best_saver.handle(eval_prc, sess, current_step)
if current_step % FLAGS.checkpoint_every == 0:
checkpoint_prefix = os.path.join(checkpoint_dir, "model")
path = saver.save(sess,
checkpoint_prefix,
global_step=current_step)
logger.info(
"✔︎ Saved model checkpoint to {0}\n".format(path))
if current_step % num_batches_per_epoch == 0:
current_epoch = current_step // num_batches_per_epoch
logger.info(
"✔︎ Epoch {0} has finished!".format(current_epoch))
logger.info("✔︎ Done.")
def visualize():
"""visualize HARNN model."""
# Load data
logger.info("✔︎ Loading data...")
logger.info("Recommended padding Sequence length is: {0}".format(FLAGS.pad_seq_len))
logger.info("✔︎ Test data processing...")
test_data = dh.load_data_and_labels(FLAGS.test_data_file, FLAGS.num_classes_list, FLAGS.total_classes,
FLAGS.embedding_dim, data_aug_flag=False)
logger.info("✔︎ Test data padding...")
x_test, y_test, y_test_tuple = dh.pad_data(test_data, FLAGS.pad_seq_len)
x_test_content, y_test_labels = test_data.abstract_content, test_data.labels
# Load harnn model
BEST_OR_LATEST = input("☛ Load Best or Latest Model?(B/L): ")
while not (BEST_OR_LATEST.isalpha() and BEST_OR_LATEST.upper() in ['B', 'L']):
BEST_OR_LATEST = input("✘ The format of your input is illegal, please re-input: ")
if BEST_OR_LATEST.upper() == 'B':
logger.info("✔︎ Loading best model...")
checkpoint_file = cm.get_best_checkpoint(FLAGS.best_checkpoint_dir, select_maximum_value=True)
else:
logger.info("✔︎ Loading latest model...")
checkpoint_file = tf.train.latest_checkpoint(FLAGS.checkpoint_dir)
logger.info(checkpoint_file)
graph = tf.Graph()
with graph.as_default():
session_conf = tf.ConfigProto(
allow_soft_placement=FLAGS.allow_soft_placement,
log_device_placement=FLAGS.log_device_placement)
session_conf.gpu_options.allow_growth = FLAGS.gpu_options_allow_growth
sess = tf.Session(config=session_conf)
with sess.as_default():
# Load the saved meta graph and restore variables
saver = tf.train.import_meta_graph("{0}.meta".format(checkpoint_file))
saver.restore(sess, checkpoint_file)
# Get the placeholders from the graph by name
input_x = graph.get_operation_by_name("input_x").outputs[0]
input_y_first = graph.get_operation_by_name("input_y_first").outputs[0]
input_y_second = graph.get_operation_by_name("input_y_second").outputs[0]
input_y_third = graph.get_operation_by_name("input_y_third").outputs[0]
input_y = graph.get_operation_by_name("input_y").outputs[0]
dropout_keep_prob = graph.get_operation_by_name("dropout_keep_prob").outputs[0]
beta = graph.get_operation_by_name("beta").outputs[0]
is_training = graph.get_operation_by_name("is_training").outputs[0]
# Tensors we want to evaluate
first_visual = graph.get_operation_by_name("first-output/visual").outputs[0]
second_visual = graph.get_operation_by_name("second-output/visual").outputs[0]
third_visual = graph.get_operation_by_name("third-output/visual").outputs[0]
scores = graph.get_operation_by_name("output/scores").outputs[0]
# Split the output nodes name by '|' if you have several output nodes
output_node_names = "first-output/visual|second-output/visual|third-output/visual|output/scores"
# Save the .pb model file
output_graph_def = tf.graph_util.convert_variables_to_constants(sess, sess.graph_def,
output_node_names.split("|"))
tf.train.write_graph(output_graph_def, "graph", "graph-harnn-{0}.pb".format(MODEL), as_text=False)
# Generate batches for one epoch
batches = dh.batch_iter(list(zip(x_test, y_test, y_test_tuple, x_test_content, y_test_labels)),
FLAGS.batch_size, 1, shuffle=False)
for batch_test in batches:
x_batch_test, y_batch_test, y_batch_test_tuple, \
x_batch_test_content, y_batch_test_labels = zip(*batch_test)
y_batch_test_first = [i[0] for i in y_batch_test_tuple]
y_batch_test_second = [j[1] for j in y_batch_test_tuple]
y_batch_test_third = [k[2] for k in y_batch_test_tuple]
feed_dict = {
input_x: x_batch_test,
input_y_first: y_batch_test_first,
input_y_second: y_batch_test_second,
input_y_third: y_batch_test_third,
input_y: y_batch_test,
dropout_keep_prob: 1.0,
beta: FLAGS.beta,
is_training: False
}
batch_first_visual, batch_second_visual, batch_third_visual, batch_scores = \
sess.run([first_visual, second_visual, third_visual, scores], feed_dict)
seq_len = len(x_batch_test_content[0])
pad_len = len(batch_first_visual[0])
if seq_len >= pad_len:
length = pad_len
else:
length = seq_len
# print(seq_len, pad_len, length)
final_first_visual = normalization(batch_first_visual[0].tolist(), length)
final_second_visual = normalization(batch_second_visual[0].tolist(), length)
final_third_visual = normalization(batch_third_visual[0].tolist(), length)
visual_list = [final_first_visual, final_second_visual, final_third_visual]
print(visual_list)
f = open('attention.html', 'w')
f.write('<html style="margin:0;padding:0;"><body style="margin:0;padding:0;">\n')
f.write('<div style="margin:25px;">\n')
for k in range(len(visual_list)):
f.write('<p style="margin:10px;">\n')
for i in range(seq_len):
alpha = "{:.2f}".format(visual_list[k][i])
word = x_batch_test_content[0][i]
f.write('\t<span style="margin-left:3px;background-color:rgba(255,0,0,{0})">{1}</span>\n'
.format(alpha, word))
f.write('</p>\n')
f.write('</div>\n')
f.write('</body></html>')
f.close()
logger.info("✔︎ Done.")
def test_tarnn():
"""Test TARNN model."""
# Print parameters used for the model
dh.tab_printer(args, logger)
# Load data
logger.info("Loading data...")
logger.info("Data processing...")
test_data = dh.load_data_and_labels(args.test_file, args.word2vec_file, data_aug_flag=False)
logger.info("Data padding...")
x_test_content, x_test_question, x_test_option, y_test = dh.pad_data(test_data, args.pad_seq_len)
# Load tarnn model
OPTION = dh.option(pattern=1)
if OPTION == 'B':
logger.info("Loading best model...")
checkpoint_file = cm.get_best_checkpoint(BEST_CPT_DIR, select_maximum_value=True)
else:
logger.info("Loading latest model...")
checkpoint_file = tf.train.latest_checkpoint(CPT_DIR)
logger.info(checkpoint_file)
graph = tf.Graph()
with graph.as_default():
session_conf = tf.ConfigProto(
allow_soft_placement=args.allow_soft_placement,
log_device_placement=args.log_device_placement)
session_conf.gpu_options.allow_growth = args.gpu_options_allow_growth
sess = tf.Session(config=session_conf)
with sess.as_default():
# Load the saved meta graph and restore variables
saver = tf.train.import_meta_graph("{0}.meta".format(checkpoint_file))
saver.restore(sess, checkpoint_file)
# Get the placeholders from the graph by name
input_x_content = graph.get_operation_by_name("input_x_content").outputs[0]
input_x_question = graph.get_operation_by_name("input_x_question").outputs[0]
input_x_option = graph.get_operation_by_name("input_x_option").outputs[0]
input_y = graph.get_operation_by_name("input_y").outputs[0]
dropout_keep_prob = graph.get_operation_by_name("dropout_keep_prob").outputs[0]
is_training = graph.get_operation_by_name("is_training").outputs[0]
# Tensors we want to evaluate
scores = graph.get_operation_by_name("output/scores").outputs[0]
loss = graph.get_operation_by_name("loss/loss").outputs[0]
# Split the output nodes name by '|' if you have several output nodes
output_node_names = "output/scores"
# Save the .pb model file
output_graph_def = tf.graph_util.convert_variables_to_constants(sess, sess.graph_def,
output_node_names.split("|"))
tf.train.write_graph(output_graph_def, "graph", "graph-tarnn-{0}.pb".format(MODEL), as_text=False)
# Generate batches for one epoch
batches = dh.batch_iter(list(zip(x_test_content, x_test_question, x_test_option, y_test)),
args.batch_size, 1, shuffle=False)
test_counter, test_loss = 0, 0.0
# Collect the predictions here
true_labels = []
predicted_scores = []
for batch_test in batches:
x_batch_content, x_batch_question, x_batch_option, y_batch = zip(*batch_test)
feed_dict = {
input_x_content: x_batch_content,
input_x_question: x_batch_question,
input_x_option: x_batch_option,
input_y: y_batch,
dropout_keep_prob: 1.0,
is_training: False
}
batch_scores, cur_loss = sess.run([scores, loss], feed_dict)
# Prepare for calculating metrics
for i in y_batch:
true_labels.append(i)
for j in batch_scores:
predicted_scores.append(j)
test_loss = test_loss + cur_loss
test_counter = test_counter + 1
# Calculate PCC & DOA
pcc, doa = dh.evaluation(true_labels, predicted_scores)
# Calculate RMSE
rmse = mean_squared_error(true_labels, predicted_scores) ** 0.5
r2 = r2_score(true_labels, predicted_scores)
test_loss = float(test_loss / test_counter)
logger.info("All Test Dataset: Loss {0:g} | PCC {1:g} | DOA {2:g} | RMSE {3:g} | R2 {4:g}"
.format(test_loss, pcc, doa, rmse, r2))
# Save the prediction result
if not os.path.exists(SAVE_DIR):
os.makedirs(SAVE_DIR)
dh.create_prediction_file(output_file=SAVE_DIR + "/predictions.json", all_id=test_data.id,
all_labels=true_labels, all_predict_scores=predicted_scores)
logger.info("All Done.")
def test_lmlp():
"""Test LMLP model."""
# Load data
logger.info("✔︎ Loading data...")
logger.info("Recommended padding Sequence length is: {0}".format(
FLAGS.pad_seq_len))
logger.info("✔︎ Test data processing...")
test_data = dh.load_data_and_labels(FLAGS.test_data_file,
FLAGS.num_classes_list,
FLAGS.embedding_dim,
data_aug_flag=False)
logger.info("✔︎ Test data padding...")
x_test, y_test = dh.pad_data(test_data, FLAGS.pad_seq_len)
y_test_labels = test_data.labels
# Load LMLP model
BEST_OR_LATEST = input("☛ Load Best or Latest Model?(B/L): ")
while not (BEST_OR_LATEST.isalpha()
and BEST_OR_LATEST.upper() in ['B', 'L']):
BEST_OR_LATEST = input(
"✘ The format of your input is illegal, please re-input: ")
if BEST_OR_LATEST == 'B':
logger.info("✔︎ Loading best model...")
checkpoint_file = cm.get_best_checkpoint(FLAGS.best_checkpoint_dir,
select_maximum_value=True)
else:
logger.info("✔︎ Loading latest model...")
checkpoint_file = tf.train.latest_checkpoint(FLAGS.checkpoint_dir)
logger.info(checkpoint_file)
graph = tf.Graph()
with graph.as_default():
session_conf = tf.ConfigProto(
allow_soft_placement=FLAGS.allow_soft_placement,
log_device_placement=FLAGS.log_device_placement)
session_conf.gpu_options.allow_growth = FLAGS.gpu_options_allow_growth
sess = tf.Session(config=session_conf)
with sess.as_default():
# Load the saved meta graph and restore variables
saver = tf.train.import_meta_graph(
"{0}.meta".format(checkpoint_file))
saver.restore(sess, checkpoint_file)
# Get the placeholders from the graph by name
input_x = graph.get_operation_by_name("input_x").outputs[0]
input_y_first = graph.get_operation_by_name(
"input_y_first").outputs[0]
input_y_second = graph.get_operation_by_name(
"input_y_second").outputs[0]
input_y = graph.get_operation_by_name("input_y").outputs[0]
dropout_keep_prob = graph.get_operation_by_name(
"dropout_keep_prob").outputs[0]
is_training = graph.get_operation_by_name("is_training").outputs[0]
# Tensors we want to evaluate
scores = graph.get_operation_by_name("output/scores").outputs[0]
loss = graph.get_operation_by_name("loss/loss").outputs[0]
# Split the output nodes name by '|' if you have several output nodes
output_node_names = "output/logits|output/scores"
# Save the .pb model file
output_graph_def = tf.graph_util.convert_variables_to_constants(
sess, sess.graph_def, output_node_names.split("|"))
tf.train.write_graph(output_graph_def,
"graph",
"graph-cnn-{0}.pb".format(MODEL),
as_text=False)
# Generate batches for one epoch
batches = dh.batch_iter(list(zip(x_test, y_test, y_test_labels)),
FLAGS.batch_size,
1,
shuffle=False)
# Collect the predictions here
all_labels = []
all_predicted_labels = []
all_predicted_values = []
# Calculate the metric
test_counter, test_loss, test_rec, test_pre, test_F = 0, 0.0, 0.0, 0.0, 0.0
for batch_test in batches:
x_batch_test, y_batch_test, y_batch_test_labels = zip(
*batch_test)
y_batch_test_first = [i[0] for i in y_batch_test]
y_batch_test_second = [j[1] for j in y_batch_test]
y_batch_test_third = [k[2] for k in y_batch_test]
feed_dict = {
input_x: x_batch_test,
input_y_first: y_batch_test_first,
input_y_second: y_batch_test_second,
input_y: y_batch_test_third,
dropout_keep_prob: 1.0,
is_training: False
}
batch_scores, cur_loss = sess.run([scores, loss], feed_dict)
# Predict by threshold
predicted_labels_threshold, predicted_values_threshold = \
dh.get_label_using_scores_by_threshold(scores=batch_scores, threshold=FLAGS.threshold)
cur_rec, cur_pre, cur_F = 0.0, 0.0, 0.0
for index, predicted_label_threshold in enumerate(
predicted_labels_threshold):
rec_inc, pre_inc = dh.cal_metric(predicted_label_threshold,
y_batch_test_third[index])
cur_rec, cur_pre = cur_rec + rec_inc, cur_pre + pre_inc
cur_rec = cur_rec / len(y_batch_test_third)
cur_pre = cur_pre / len(y_batch_test_third)
test_rec, test_pre = test_rec + cur_rec, test_pre + cur_pre
# Add results to collection
for item in y_batch_test_labels:
all_labels.append(item)
for item in predicted_labels_threshold:
all_predicted_labels.append(item)
for item in predicted_values_threshold:
all_predicted_values.append(item)
test_loss = test_loss + cur_loss
test_counter = test_counter + 1
test_loss = float(test_loss / test_counter)
test_rec = float(test_rec / test_counter)
test_pre = float(test_pre / test_counter)
test_F = dh.cal_F(test_rec, test_pre)
logger.info("☛ All Test Dataset: Loss {0:g}".format(test_loss))
# Predict by threshold
logger.info(
"☛ Predict by threshold: Recall {0:g}, Precision {1:g}, F {2:g}"
.format(test_rec, test_pre, test_F))
# Save the prediction result
if not os.path.exists(SAVE_DIR):
os.makedirs(SAVE_DIR)
dh.create_prediction_file(output_file=SAVE_DIR +
"/predictions.json",
data_id=test_data.patent_id,
all_labels=all_labels,
all_predict_labels=all_predicted_labels,
all_predict_values=all_predicted_values)
logger.info("✔︎ Done.")
def test_ann():
"""Test ANN model."""
# Load data
logger.info("✔︎ Loading data...")
logger.info("Recommended padding Sequence length is: {0}".format(FLAGS.pad_seq_len))
logger.info("✔︎ Test data processing...")
test_data = dh.load_data_and_labels(FLAGS.test_data_file, FLAGS.num_classes,
FLAGS.embedding_dim, data_aug_flag=False)
logger.info("✔︎ Test data padding...")
x_test, y_test = dh.pad_data(test_data, FLAGS.pad_seq_len)
y_test_labels = test_data.labels
# Load ann model
BEST_OR_LATEST = input("☛ Load Best or Latest Model?(B/L): ")
while not (BEST_OR_LATEST.isalpha() and BEST_OR_LATEST.upper() in ['B', 'L']):
BEST_OR_LATEST = input("✘ The format of your input is illegal, please re-input: ")
if BEST_OR_LATEST.upper() == 'B':
logger.info("✔︎ Loading best model...")
checkpoint_file = cm.get_best_checkpoint(FLAGS.best_checkpoint_dir, select_maximum_value=True)
else:
logger.info("✔︎ Loading latest model...")
checkpoint_file = tf.train.latest_checkpoint(FLAGS.checkpoint_dir)
logger.info(checkpoint_file)
graph = tf.Graph()
with graph.as_default():
session_conf = tf.ConfigProto(
allow_soft_placement=FLAGS.allow_soft_placement,
log_device_placement=FLAGS.log_device_placement)
session_conf.gpu_options.allow_growth = FLAGS.gpu_options_allow_growth
sess = tf.Session(config=session_conf)
with sess.as_default():
# Load the saved meta graph and restore variables
saver = tf.train.import_meta_graph("{0}.meta".format(checkpoint_file))
saver.restore(sess, checkpoint_file)
# Get the placeholders from the graph by name
input_x = graph.get_operation_by_name("input_x").outputs[0]
input_y = graph.get_operation_by_name("input_y").outputs[0]
dropout_keep_prob = graph.get_operation_by_name("dropout_keep_prob").outputs[0]
is_training = graph.get_operation_by_name("is_training").outputs[0]
# Tensors we want to evaluate
scores = graph.get_operation_by_name("output/scores").outputs[0]
loss = graph.get_operation_by_name("loss/loss").outputs[0]
# Split the output nodes name by '|' if you have several output nodes
output_node_names = "output/scores"
# Save the .pb model file
output_graph_def = tf.graph_util.convert_variables_to_constants(sess, sess.graph_def,
output_node_names.split("|"))
tf.train.write_graph(output_graph_def, "graph", "graph-ann-{0}.pb".format(MODEL), as_text=False)
# Generate batches for one epoch
batches = dh.batch_iter(list(zip(x_test, y_test, y_test_labels)), FLAGS.batch_size, 1, shuffle=False)
test_counter, test_loss = 0, 0.0
test_pre_tk = [0.0] * FLAGS.top_num
test_rec_tk = [0.0] * FLAGS.top_num
test_F_tk = [0.0] * FLAGS.top_num
# Collect the predictions here
true_labels = []
predicted_labels = []
predicted_scores = []
# Collect for calculating metrics
true_onehot_labels = []
predicted_onehot_scores = []
predicted_onehot_labels_ts = []
predicted_onehot_labels_tk = [[] for _ in range(FLAGS.top_num)]
for batch_test in batches:
x_batch_test, y_batch_test, y_batch_test_labels = zip(*batch_test)
feed_dict = {
input_x: x_batch_test,
input_y: y_batch_test,
dropout_keep_prob: 1.0,
is_training: False
}
batch_scores, cur_loss = sess.run([scores, loss], feed_dict)
# Prepare for calculating metrics
for i in y_batch_test:
true_onehot_labels.append(i)
for j in batch_scores:
predicted_onehot_scores.append(j)
# Get the predicted labels by threshold
batch_predicted_labels_ts, batch_predicted_scores_ts = \
dh.get_label_threshold(scores=batch_scores, threshold=FLAGS.threshold)
# Add results to collection
for i in y_batch_test_labels:
true_labels.append(i)
for j in batch_predicted_labels_ts:
predicted_labels.append(j)
for k in batch_predicted_scores_ts:
predicted_scores.append(k)
# Get onehot predictions by threshold
batch_predicted_onehot_labels_ts = \
dh.get_onehot_label_threshold(scores=batch_scores, threshold=FLAGS.threshold)
for i in batch_predicted_onehot_labels_ts:
predicted_onehot_labels_ts.append(i)
# Get onehot predictions by topK
for top_num in range(FLAGS.top_num):
batch_predicted_onehot_labels_tk = dh.get_onehot_label_topk(scores=batch_scores, top_num=top_num+1)
for i in batch_predicted_onehot_labels_tk:
predicted_onehot_labels_tk[top_num].append(i)
test_loss = test_loss + cur_loss
test_counter = test_counter + 1
# Calculate Precision & Recall & F1 (threshold & topK)
test_pre_ts = precision_score(y_true=np.array(true_onehot_labels),
y_pred=np.array(predicted_onehot_labels_ts), average='micro')
test_rec_ts = recall_score(y_true=np.array(true_onehot_labels),
y_pred=np.array(predicted_onehot_labels_ts), average='micro')
test_F_ts = f1_score(y_true=np.array(true_onehot_labels),
y_pred=np.array(predicted_onehot_labels_ts), average='micro')
for top_num in range(FLAGS.top_num):
test_pre_tk[top_num] = precision_score(y_true=np.array(true_onehot_labels),
y_pred=np.array(predicted_onehot_labels_tk[top_num]),
average='micro')
test_rec_tk[top_num] = recall_score(y_true=np.array(true_onehot_labels),
y_pred=np.array(predicted_onehot_labels_tk[top_num]),
average='micro')
test_F_tk[top_num] = f1_score(y_true=np.array(true_onehot_labels),
y_pred=np.array(predicted_onehot_labels_tk[top_num]),
average='micro')
# Calculate the average AUC
test_auc = roc_auc_score(y_true=np.array(true_onehot_labels),
y_score=np.array(predicted_onehot_scores), average='micro')
# Calculate the average PR
test_prc = average_precision_score(y_true=np.array(true_onehot_labels),
y_score=np.array(predicted_onehot_scores), average="micro")
test_loss = float(test_loss / test_counter)
logger.info("☛ All Test Dataset: Loss {0:g} | AUC {1:g} | AUPRC {2:g}"
.format(test_loss, test_auc, test_prc))
# Predict by threshold
logger.info("☛ Predict by threshold: Precision {0:g}, Recall {1:g}, F1 {2:g}"
.format(test_pre_ts, test_rec_ts, test_F_ts))
# Predict by topK
logger.info("☛ Predict by topK:")
for top_num in range(FLAGS.top_num):
logger.info("Top{0}: Precision {1:g}, Recall {2:g}, F {3:g}"
.format(top_num + 1, test_pre_tk[top_num], test_rec_tk[top_num], test_F_tk[top_num]))
# Save the prediction result
if not os.path.exists(SAVE_DIR):
os.makedirs(SAVE_DIR)
dh.create_prediction_file(output_file=SAVE_DIR + "/predictions.json", data_id=test_data.testid,
all_labels=true_labels, all_predict_labels=predicted_labels,
all_predict_scores=predicted_scores)
logger.info("✔︎ Done.")
def test_fasttext():
"""Test FASTTEXT model."""
# Load data
logger.info("✔︎ Loading data...")
logger.info("Recommended padding Sequence length is: {0}".format(FLAGS.pad_seq_len))
logger.info("✔︎ Test data processing...")
test_data = dh.load_data_and_labels(FLAGS.test_data_file, FLAGS.embedding_dim)
logger.info("✔︎ Test data padding...")
x_test_front, x_test_behind, y_test = dh.pad_data(test_data, FLAGS.pad_seq_len)
y_test_labels = test_data.labels
# Load fasttext model
BEST_OR_LATEST = input("☛ Load Best or Latest Model?(B/L): ")
while not (BEST_OR_LATEST.isalpha() and BEST_OR_LATEST.upper() in ['B', 'L']):
BEST_OR_LATEST = input("✘ The format of your input is illegal, please re-input: ")
if BEST_OR_LATEST == 'B':
logger.info("✔︎ Loading best model...")
checkpoint_file = cm.get_best_checkpoint(FLAGS.best_checkpoint_dir, select_maximum_value=True)
else:
logger.info("✔︎ Loading latest model...")
checkpoint_file = tf.train.latest_checkpoint(FLAGS.checkpoint_dir)
logger.info(checkpoint_file)
graph = tf.Graph()
with graph.as_default():
session_conf = tf.ConfigProto(
allow_soft_placement=FLAGS.allow_soft_placement,
log_device_placement=FLAGS.log_device_placement)
session_conf.gpu_options.allow_growth = FLAGS.gpu_options_allow_growth
sess = tf.Session(config=session_conf)
with sess.as_default():
# Load the saved meta graph and restore variables
saver = tf.train.import_meta_graph("{0}.meta".format(checkpoint_file))
saver.restore(sess, checkpoint_file)
# Get the placeholders from the graph by name
input_x_front = graph.get_operation_by_name("input_x_front").outputs[0]
input_x_behind = graph.get_operation_by_name("input_x_behind").outputs[0]
input_y = graph.get_operation_by_name("input_y").outputs[0]
dropout_keep_prob = graph.get_operation_by_name("dropout_keep_prob").outputs[0]
is_training = graph.get_operation_by_name("is_training").outputs[0]
# Tensors we want to evaluate
predictions = graph.get_operation_by_name("output/predictions").outputs[0]
topKPreds = graph.get_operation_by_name("output/topKPreds").outputs[0]
accuracy = graph.get_operation_by_name("accuracy/accuracy").outputs[0]
loss = graph.get_operation_by_name("loss/loss").outputs[0]
# Split the output nodes name by '|' if you have several output nodes
output_node_names = "output/logits|output/predictions|output/softmax_scores|output/topKPreds"
# Save the .pb model file
output_graph_def = tf.graph_util.convert_variables_to_constants(sess, sess.graph_def,
output_node_names.split("|"))
tf.train.write_graph(output_graph_def, "graph", "graph-fasttext-{0}.pb".format(MODEL), as_text=False)
# Generate batches for one epoch
batches = dh.batch_iter(list(zip(x_test_front, x_test_behind, y_test, y_test_labels)),
FLAGS.batch_size, 1, shuffle=False)
# Collect the predictions here
all_labels = []
all_predicted_labels = []
all_predicted_values = []
for index, x_test_batch in enumerate(batches):
x_batch_front, x_batch_behind, y_batch, y_batch_labels = zip(*x_test_batch)
feed_dict = {
input_x_front: x_batch_front,
input_x_behind: x_batch_behind,
input_y: y_batch,
dropout_keep_prob: 1.0,
is_training: False
}
batch_predicted_labels, batch_predicted_values, batch_acc, batch_loss \
= sess.run([predictions, topKPreds, accuracy, loss], feed_dict)
all_labels = np.append(all_labels, y_batch_labels)
all_predicted_labels = np.concatenate([all_predicted_labels, batch_predicted_labels])
all_predicted_values = np.append(all_predicted_values, batch_predicted_values)
logger.info("✔︎ Test batch {0}: loss {1:g}, accuracy {2:g}.".format((index+1), batch_loss, batch_acc))
# Save the prediction result
if not os.path.exists(SAVE_DIR):
os.makedirs(SAVE_DIR)
dh.create_prediction_file(output_file=SAVE_DIR + "/predictions.json", front_data_id=test_data.front_testid,
behind_data_id=test_data.behind_testid, all_labels=all_labels,
all_predict_labels=all_predicted_labels, all_predict_values=all_predicted_values)
logger.info("✔︎ Done.")
def visualize():
"""Visualize HARNN model."""
# Load data
logger.info("Loading data...")
logger.info("Data processing...")
test_data = dh.load_data_and_labels(args.test_file,
args.num_classes_list,
args.total_classes,
args.word2vec_file,
data_aug_flag=False)
logger.info("Data padding...")
x_test, y_test, y_test_tuple = dh.pad_data(test_data, args.pad_seq_len)
x_test_content, y_test_labels = test_data.abstract_content, test_data.labels
# Load harnn model
OPTION = dh._option(pattern=1)
if OPTION == 'B':
logger.info("Loading best model...")
checkpoint_file = cm.get_best_checkpoint(BEST_CPT_DIR,
select_maximum_value=True)
else:
logger.info("Loading latest model...")
checkpoint_file = tf.train.latest_checkpoint(CPT_DIR)
logger.info(checkpoint_file)
graph = tf.Graph()
with graph.as_default():
session_conf = tf.ConfigProto(
allow_soft_placement=args.allow_soft_placement,
log_device_placement=args.log_device_placement)
session_conf.gpu_options.allow_growth = args.gpu_options_allow_growth
sess = tf.Session(config=session_conf)
with sess.as_default():
# Load the saved meta graph and restore variables
saver = tf.train.import_meta_graph(
"{0}.meta".format(checkpoint_file))
saver.restore(sess, checkpoint_file)
# Get the placeholders from the graph by name
input_x = graph.get_operation_by_name("input_x").outputs[0]
input_y_first = graph.get_operation_by_name(
"input_y_first").outputs[0]
input_y_second = graph.get_operation_by_name(
"input_y_second").outputs[0]
input_y_third = graph.get_operation_by_name(
"input_y_third").outputs[0]
input_y_fourth = graph.get_operation_by_name(
"input_y_fourth").outputs[0]
input_y = graph.get_operation_by_name("input_y").outputs[0]
dropout_keep_prob = graph.get_operation_by_name(
"dropout_keep_prob").outputs[0]
alpha = graph.get_operation_by_name("alpha").outputs[0]
is_training = graph.get_operation_by_name("is_training").outputs[0]
# Tensors we want to evaluate
first_visual = graph.get_operation_by_name(
"first-output/visual").outputs[0]
second_visual = graph.get_operation_by_name(
"second-output/visual").outputs[0]
third_visual = graph.get_operation_by_name(
"third-output/visual").outputs[0]
fourth_visual = graph.get_operation_by_name(
"fourth-output/visual").outputs[0]
scores = graph.get_operation_by_name("output/scores").outputs[0]
# Split the output nodes name by '|' if you have several output nodes
output_node_names = "first-output/visual|second-output/visual|third-output/visual|fourth-output/visual|output/scores"
# Save the .pb model file
output_graph_def = tf.graph_util.convert_variables_to_constants(
sess, sess.graph_def, output_node_names.split("|"))
tf.train.write_graph(output_graph_def,
"graph",
"graph-harnn-{0}.pb".format(MODEL),
as_text=False)
# Generate batches for one epoch
batches = dh.batch_iter(list(
zip(x_test, y_test, y_test_tuple, x_test_content,
y_test_labels)),
args.batch_size,
1,
shuffle=False)
for batch_test in batches:
x_batch_test, y_batch_test, y_batch_test_tuple, \
x_batch_test_content, y_batch_test_labels = zip(*batch_test)
y_batch_test_first = [i[0] for i in y_batch_test_tuple]
y_batch_test_second = [j[1] for j in y_batch_test_tuple]
y_batch_test_third = [k[2] for k in y_batch_test_tuple]
y_batch_test_fourth = [t[3] for t in y_batch_test_tuple]
feed_dict = {
input_x: x_batch_test,
input_y_first: y_batch_test_first,
input_y_second: y_batch_test_second,
input_y_third: y_batch_test_third,
input_y_fourth: y_batch_test_fourth,
input_y: y_batch_test,
dropout_keep_prob: 1.0,
alpha: args.alpha,
is_training: False
}
batch_first_visual, batch_second_visual, batch_third_visual, batch_fourth_visual = \
sess.run([first_visual, second_visual, third_visual, fourth_visual], feed_dict)
seq_len = len(x_batch_test_content[0])
pad_len = len(batch_first_visual[0])
length = (pad_len if seq_len >= pad_len else seq_len)
# print(seq_len, pad_len, length)
final_first_visual = normalization(
batch_first_visual[0].tolist(), length)
final_second_visual = normalization(
batch_second_visual[0].tolist(), length)
final_third_visual = normalization(
batch_third_visual[0].tolist(), length)
final_fourth_visual = normalization(
batch_fourth_visual[0].tolist(), length)
visual_list = [
final_first_visual, final_second_visual,
final_third_visual, final_fourth_visual
]
print(visual_list)
f = open('attention.html', 'w')
f.write(
'<html style="margin:0;padding:0;"><body style="margin:0;padding:0;">\n'
)
f.write('<div style="margin:25px;">\n')
for k in range(len(visual_list)):
f.write('<p style="margin:10px;">\n')
for i in range(seq_len):
alpha = "{:.2f}".format(visual_list[k][i])
word = x_batch_test_content[0][i]
f.write(
'\t<span style="margin-left:3px;background-color:rgba(255,0,0,{0})">{1}</span>\n'
.format(alpha, word))
f.write('</p>\n')
f.write('</div>\n')
f.write('</body></html>')
f.close()
logger.info("Done.")
def test_rmidp():
"""Test RMIDP model."""
# Load data
logger.info("✔︎ Loading data...")
logger.info("Recommended padding Sequence length is: {0}".format(
FLAGS.pad_seq_len))
logger.info("✔︎ Test data processing...")
test_data = dh.load_data_and_labels(FLAGS.test_data_file,
FLAGS.embedding_dim,
data_aug_flag=False)
logger.info("✔︎ Test data padding...")
x_test_content, x_test_question, x_test_option, y_test = dh.pad_data(
test_data, FLAGS.pad_seq_len)
# Load rmidp model
BEST_OR_LATEST = input("☛ Load Best or Latest Model?(B/L): ")
while not (BEST_OR_LATEST.isalpha()
and BEST_OR_LATEST.upper() in ['B', 'L']):
BEST_OR_LATEST = input(
"✘ The format of your input is illegal, please re-input: ")
if BEST_OR_LATEST.upper() == 'B':
logger.info("✔︎ Loading best model...")
checkpoint_file = cm.get_best_checkpoint(FLAGS.best_checkpoint_dir,
select_maximum_value=True)
else:
logger.info("✔︎ Loading latest model...")
checkpoint_file = tf.train.latest_checkpoint(FLAGS.checkpoint_dir)
logger.info(checkpoint_file)
graph = tf.Graph()
with graph.as_default():
session_conf = tf.ConfigProto(
allow_soft_placement=FLAGS.allow_soft_placement,
log_device_placement=FLAGS.log_device_placement)
session_conf.gpu_options.allow_growth = FLAGS.gpu_options_allow_growth
sess = tf.Session(config=session_conf)
with sess.as_default():
# Load the saved meta graph and restore variables
saver = tf.train.import_meta_graph(
"{0}.meta".format(checkpoint_file))
saver.restore(sess, checkpoint_file)
# Get the placeholders from the graph by name
input_x_content = graph.get_operation_by_name(
"input_x_content").outputs[0]
input_x_question = graph.get_operation_by_name(
"input_x_question").outputs[0]
input_x_option = graph.get_operation_by_name(
"input_x_option").outputs[0]
input_y = graph.get_operation_by_name("input_y").outputs[0]
dropout_keep_prob = graph.get_operation_by_name(
"dropout_keep_prob").outputs[0]
is_training = graph.get_operation_by_name("is_training").outputs[0]
# Tensors we want to evaluate
scores = graph.get_operation_by_name("output/scores").outputs[0]
loss = graph.get_operation_by_name("loss/loss").outputs[0]
# Split the output nodes name by '|' if you have several output nodes
output_node_names = "output/scores"
# Save the .pb model file
output_graph_def = tf.graph_util.convert_variables_to_constants(
sess, sess.graph_def, output_node_names.split("|"))
tf.train.write_graph(output_graph_def,
"graph",
"graph-rmidp-{0}.pb".format(MODEL),
as_text=False)
# Generate batches for one epoch
batches = dh.batch_iter(list(
zip(x_test_content, x_test_question, x_test_option, y_test)),
FLAGS.batch_size,
1,
shuffle=False)
test_counter, test_loss = 0, 0.0
# Collect the predictions here
true_labels = []
predicted_scores = []
for batch_test in batches:
x_batch_content, x_batch_question, x_batch_option, y_batch = zip(
*batch_test)
feed_dict = {
input_x_content: x_batch_content,
input_x_question: x_batch_question,
input_x_option: x_batch_option,
input_y: y_batch,
dropout_keep_prob: 1.0,
is_training: False
}
batch_scores, cur_loss = sess.run([scores, loss], feed_dict)
# Prepare for calculating metrics
for i in y_batch:
true_labels.append(i)
for j in batch_scores:
predicted_scores.append(j)
test_loss = test_loss + cur_loss
test_counter = test_counter + 1
# Calculate PCC & DOA
pcc, doa = dh.evaluation(true_labels, predicted_scores)
# Calculate RMSE
rmse = mean_squared_error(true_labels, predicted_scores)**0.5
test_loss = float(test_loss / test_counter)
logger.info(
"☛ All Test Dataset: Loss {0:g} | PCC {1:g} | DOA {2:g} | RMSE {1:g}"
.format(test_loss, pcc, doa, rmse))
# Save the prediction result
if not os.path.exists(SAVE_DIR):
os.makedirs(SAVE_DIR)
dh.create_prediction_file(output_file=SAVE_DIR +
"/predictions.json",
all_id=test_data.id,
all_labels=true_labels,
all_predict_scores=predicted_scores)
logger.info("✔︎ Done.")
def train_cnn():
"""Training CNN model."""
# Print parameters used for the model
dh.tab_printer(args, logger)
# Load sentences, labels, and training parameters
logger.info("Loading data...")
logger.info("Data processing...")
train_data = dh.load_data_and_labels(args.train_file, args.word2vec_file)
validation_data = dh.load_data_and_labels(args.validation_file,
args.word2vec_file)
logger.info("Data padding...")
x_train_front, x_train_behind, y_train = dh.pad_data(
train_data, args.pad_seq_len)
x_validation_front, x_validation_behind, y_validation = dh.pad_data(
validation_data, args.pad_seq_len)
# Build vocabulary
VOCAB_SIZE, EMBEDDING_SIZE, pretrained_word2vec_matrix = dh.load_word2vec_matrix(
args.word2vec_file)
# Build a graph and cnn object
with tf.Graph().as_default():
session_conf = tf.ConfigProto(
allow_soft_placement=args.allow_soft_placement,
log_device_placement=args.log_device_placement)
session_conf.gpu_options.allow_growth = args.gpu_options_allow_growth
sess = tf.Session(config=session_conf)
with sess.as_default():
cnn = TextCNN(sequence_length=args.pad_seq_len,
vocab_size=VOCAB_SIZE,
embedding_type=args.embedding_type,
embedding_size=EMBEDDING_SIZE,
filter_sizes=args.filter_sizes,
num_filters=args.num_filters,
fc_hidden_size=args.fc_dim,
num_classes=y_train.shape[1],
l2_reg_lambda=args.l2_lambda,
pretrained_embedding=pretrained_word2vec_matrix)
# Define training procedure
with tf.control_dependencies(
tf.get_collection(tf.GraphKeys.UPDATE_OPS)):
learning_rate = tf.train.exponential_decay(
learning_rate=args.learning_rate,
global_step=cnn.global_step,
decay_steps=args.decay_steps,
decay_rate=args.decay_rate,
staircase=True)
optimizer = tf.train.AdamOptimizer(learning_rate)
grads, vars = zip(*optimizer.compute_gradients(cnn.loss))
grads, _ = tf.clip_by_global_norm(grads,
clip_norm=args.norm_ratio)
train_op = optimizer.apply_gradients(
zip(grads, vars),
global_step=cnn.global_step,
name="train_op")
# Keep track of gradient values and sparsity (optional)
grad_summaries = []
for g, v in zip(grads, vars):
if g is not None:
grad_hist_summary = tf.summary.histogram(
"{0}/grad/hist".format(v.name), g)
sparsity_summary = tf.summary.scalar(
"{0}/grad/sparsity".format(v.name),
tf.nn.zero_fraction(g))
grad_summaries.append(grad_hist_summary)
grad_summaries.append(sparsity_summary)
grad_summaries_merged = tf.summary.merge(grad_summaries)
# Output directory for models and summaries
out_dir = dh.get_out_dir(OPTION, logger)
checkpoint_dir = os.path.abspath(
os.path.join(out_dir, "checkpoints"))
best_checkpoint_dir = os.path.abspath(
os.path.join(out_dir, "bestcheckpoints"))
# Summaries for loss
loss_summary = tf.summary.scalar("loss", cnn.loss)
# Train summaries
train_summary_op = tf.summary.merge(
[loss_summary, grad_summaries_merged])
train_summary_dir = os.path.join(out_dir, "summaries", "train")
train_summary_writer = tf.summary.FileWriter(
train_summary_dir, sess.graph)
# Validation summaries
validation_summary_op = tf.summary.merge([loss_summary])
validation_summary_dir = os.path.join(out_dir, "summaries",
"validation")
validation_summary_writer = tf.summary.FileWriter(
validation_summary_dir, sess.graph)
saver = tf.train.Saver(tf.global_variables(),
max_to_keep=args.num_checkpoints)
best_saver = cm.BestCheckpointSaver(save_dir=best_checkpoint_dir,
num_to_keep=3,
maximize=True)
if OPTION == 'R':
# Load cnn model
logger.info("Loading model...")
checkpoint_file = tf.train.latest_checkpoint(checkpoint_dir)
logger.info(checkpoint_file)
# Load the saved meta graph and restore variables
saver = tf.train.import_meta_graph(
"{0}.meta".format(checkpoint_file))
saver.restore(sess, checkpoint_file)
if OPTION == 'T':
if not os.path.exists(checkpoint_dir):
os.makedirs(checkpoint_dir)
sess.run(tf.global_variables_initializer())
sess.run(tf.local_variables_initializer())
# Embedding visualization config
config = projector.ProjectorConfig()
embedding_conf = config.embeddings.add()
embedding_conf.tensor_name = "embedding"
embedding_conf.metadata_path = args.metadata_file
projector.visualize_embeddings(train_summary_writer, config)
projector.visualize_embeddings(validation_summary_writer,
config)
# Save the embedding visualization
saver.save(
sess, os.path.join(out_dir, "embedding", "embedding.ckpt"))
current_step = sess.run(cnn.global_step)
def train_step(x_batch_front, x_batch_behind, y_batch):
"""A single training step"""
feed_dict = {
cnn.input_x_front: x_batch_front,
cnn.input_x_behind: x_batch_behind,
cnn.input_y: y_batch,
cnn.dropout_keep_prob: args.dropout_rate,
cnn.is_training: True
}
_, step, summaries, loss = sess.run(
[train_op, cnn.global_step, train_summary_op, cnn.loss],
feed_dict)
logger.info("step {0}: loss {1:g}".format(step, loss))
train_summary_writer.add_summary(summaries, step)
def validation_step(x_batch_front,
x_batch_behind,
y_batch,
writer=None):
"""Evaluates model on a validation set"""
batches_validation = dh.batch_iter(
list(zip(x_batch_front, x_batch_behind, y_batch)),
args.batch_size, 1)
eval_counter, eval_loss = 0, 0.0
true_labels = []
predicted_scores = []
predicted_labels = []
for batch_validation in batches_validation:
x_batch_val_front, x_batch_val_behind, y_batch_val = zip(
*batch_validation)
feed_dict = {
cnn.input_x_front: x_batch_val_front,
cnn.input_x_behind: x_batch_val_behind,
cnn.input_y: y_batch_val,
cnn.dropout_keep_prob: 1.0,
cnn.is_training: False
}
step, summaries, scores, predictions, cur_loss = sess.run([
cnn.global_step, validation_summary_op, cnn.topKPreds,
cnn.predictions, cnn.loss
], feed_dict)
# Prepare for calculating metrics
for i in y_batch_val:
true_labels.append(np.argmax(i))
for j in scores[0]:
predicted_scores.append(j[0])
for k in predictions:
predicted_labels.append(k)
eval_loss = eval_loss + cur_loss
eval_counter = eval_counter + 1
if writer:
writer.add_summary(summaries, step)
eval_loss = float(eval_loss / eval_counter)
# Calculate Precision & Recall & F1
eval_acc = accuracy_score(y_true=np.array(true_labels),
y_pred=np.array(predicted_labels))
eval_pre = precision_score(y_true=np.array(true_labels),
y_pred=np.array(predicted_labels),
average='micro')
eval_rec = recall_score(y_true=np.array(true_labels),
y_pred=np.array(predicted_labels),
average='micro')
eval_F1 = f1_score(y_true=np.array(true_labels),
y_pred=np.array(predicted_labels),
average='micro')
# Calculate the average AUC
eval_auc = roc_auc_score(y_true=np.array(true_labels),
y_score=np.array(predicted_scores),
average='micro')
return eval_loss, eval_acc, eval_pre, eval_rec, eval_F1, eval_auc
# Generate batches
batches_train = dh.batch_iter(
list(zip(x_train_front, x_train_behind, y_train)),
args.batch_size, args.epochs)
num_batches_per_epoch = int(
(len(x_train_front) - 1) / args.batch_size) + 1
# Training loop. For each batch...
for batch_train in batches_train:
x_batch_front, x_batch_behind, y_batch = zip(*batch_train)
train_step(x_batch_front, x_batch_behind, y_batch)
current_step = tf.train.global_step(sess, cnn.global_step)
if current_step % args.evaluate_steps == 0:
logger.info("\nEvaluation:")
eval_loss, eval_acc, eval_pre, eval_rec, eval_F1, eval_auc = \
validation_step(x_validation_front, x_validation_behind,
y_validation, writer=validation_summary_writer)
logger.info(
"All Validation set: Loss {0:g} | Acc {1:g} | Precision {2:g} | "
"Recall {3:g} | F1 {4:g} | AUC {5:g}".format(
eval_loss, eval_acc, eval_pre, eval_rec, eval_F1,
eval_auc))
best_saver.handle(eval_acc, sess, current_step)
if current_step % args.checkpoint_steps == 0:
checkpoint_prefix = os.path.join(checkpoint_dir, "model")
path = saver.save(sess,
checkpoint_prefix,
global_step=current_step)
logger.info("Saved model checkpoint to {0}\n".format(path))
if current_step % num_batches_per_epoch == 0:
current_epoch = current_step // num_batches_per_epoch
logger.info(
"Epoch {0} has finished!".format(current_epoch))
logger.info("All Done.")
def train_tarnn():
"""Training TARNN model."""
# Load sentences, labels, and training parameters
logger.info("✔︎ Loading data...")
logger.info("✔︎ Training data processing...")
train_data = dh.load_data_and_labels(FLAGS.training_data_file,
FLAGS.embedding_dim,
data_aug_flag=False)
logger.info("✔︎ Validation data processing...")
val_data = dh.load_data_and_labels(FLAGS.validation_data_file,
FLAGS.embedding_dim,
data_aug_flag=False)
logger.info("✔︎ Training data padding...")
x_train_content, x_train_question, x_train_option, y_train = dh.pad_data(
train_data, FLAGS.pad_seq_len)
logger.info("✔︎ Validation data padding...")
x_val_content, x_val_question, x_val_option, y_val = dh.pad_data(
val_data, FLAGS.pad_seq_len)
# Build vocabulary
VOCAB_SIZE, pretrained_word2vec_matrix = dh.load_word2vec_matrix(
FLAGS.embedding_dim)
# Build a graph and tarnn object
with tf.Graph().as_default():
session_conf = tf.ConfigProto(
allow_soft_placement=FLAGS.allow_soft_placement,
log_device_placement=FLAGS.log_device_placement)
session_conf.gpu_options.allow_growth = FLAGS.gpu_options_allow_growth
sess = tf.Session(config=session_conf)
with sess.as_default():
tarnn = TextTARNN(sequence_length=list(
map(int, FLAGS.pad_seq_len.split(','))),
vocab_size=VOCAB_SIZE,
lstm_hidden_size=FLAGS.lstm_hidden_size,
fc_hidden_size=FLAGS.fc_hidden_size,
attention_type=FLAGS.attention_type,
embedding_size=FLAGS.embedding_dim,
embedding_type=FLAGS.embedding_type,
l2_reg_lambda=FLAGS.l2_reg_lambda,
pretrained_embedding=pretrained_word2vec_matrix)
# Define training procedure
with tf.control_dependencies(
tf.get_collection(tf.GraphKeys.UPDATE_OPS)):
learning_rate = tf.train.exponential_decay(
learning_rate=FLAGS.learning_rate,
global_step=tarnn.global_step,
decay_steps=FLAGS.decay_steps,
decay_rate=FLAGS.decay_rate,
staircase=True)
optimizer = tf.train.AdamOptimizer(learning_rate)
grads, vars = zip(*optimizer.compute_gradients(tarnn.loss))
grads, _ = tf.clip_by_global_norm(grads,
clip_norm=FLAGS.norm_ratio)
train_op = optimizer.apply_gradients(
zip(grads, vars),
global_step=tarnn.global_step,
name="train_op")
# Keep track of gradient values and sparsity (optional)
grad_summaries = []
for g, v in zip(grads, vars):
if g is not None:
grad_hist_summary = tf.summary.histogram(
"{0}/grad/hist".format(v.name), g)
sparsity_summary = tf.summary.scalar(
"{0}/grad/sparsity".format(v.name),
tf.nn.zero_fraction(g))
grad_summaries.append(grad_hist_summary)
grad_summaries.append(sparsity_summary)
grad_summaries_merged = tf.summary.merge(grad_summaries)
# Output directory for models and summaries
if FLAGS.train_or_restore == 'R':
MODEL = input(
"☛ Please input the checkpoints model you want to restore, "
"it should be like(1490175368): "
) # The model you want to restore
while not (MODEL.isdigit() and len(MODEL) == 10):
MODEL = input(
"✘ The format of your input is illegal, please re-input: "
)
logger.info(
"✔︎ The format of your input is legal, now loading to next step..."
)
out_dir = os.path.abspath(
os.path.join(os.path.curdir, "runs", MODEL))
logger.info("✔︎ Writing to {0}\n".format(out_dir))
else:
timestamp = str(int(time.time()))
out_dir = os.path.abspath(
os.path.join(os.path.curdir, "runs", timestamp))
logger.info("✔︎ Writing to {0}\n".format(out_dir))
checkpoint_dir = os.path.abspath(
os.path.join(out_dir, "checkpoints"))
best_checkpoint_dir = os.path.abspath(
os.path.join(out_dir, "bestcheckpoints"))
# Summaries for loss
loss_summary = tf.summary.scalar("loss", tarnn.loss)
# Train summaries
train_summary_op = tf.summary.merge(
[loss_summary, grad_summaries_merged])
train_summary_dir = os.path.join(out_dir, "summaries", "train")
train_summary_writer = tf.summary.FileWriter(
train_summary_dir, sess.graph)
# Validation summaries
validation_summary_op = tf.summary.merge([loss_summary])
validation_summary_dir = os.path.join(out_dir, "summaries",
"validation")
validation_summary_writer = tf.summary.FileWriter(
validation_summary_dir, sess.graph)
saver = tf.train.Saver(tf.global_variables(),
max_to_keep=FLAGS.num_checkpoints)
best_saver = cm.BestCheckpointSaver(save_dir=best_checkpoint_dir,
num_to_keep=3,
maximize=False)
if FLAGS.train_or_restore == 'R':
# Load tarnn model
logger.info("✔︎ Loading model...")
checkpoint_file = tf.train.latest_checkpoint(checkpoint_dir)
logger.info(checkpoint_file)
# Load the saved meta graph and restore variables
saver = tf.train.import_meta_graph(
"{0}.meta".format(checkpoint_file))
saver.restore(sess, checkpoint_file)
else:
if not os.path.exists(checkpoint_dir):
os.makedirs(checkpoint_dir)
sess.run(tf.global_variables_initializer())
sess.run(tf.local_variables_initializer())
# Embedding visualization config
config = projector.ProjectorConfig()
embedding_conf = config.embeddings.add()
embedding_conf.tensor_name = "embedding"
embedding_conf.metadata_path = FLAGS.metadata_file
projector.visualize_embeddings(train_summary_writer, config)
projector.visualize_embeddings(validation_summary_writer,
config)
# Save the embedding visualization
saver.save(
sess, os.path.join(out_dir, "embedding", "embedding.ckpt"))
current_step = sess.run(tarnn.global_step)
def train_step(x_batch_content, x_batch_question, x_batch_option,
y_batch):
"""A single training step"""
feed_dict = {
tarnn.input_x_content: x_batch_content,
tarnn.input_x_question: x_batch_question,
tarnn.input_x_option: x_batch_option,
tarnn.input_y: y_batch,
tarnn.dropout_keep_prob: FLAGS.dropout_keep_prob,
tarnn.is_training: True
}
_, step, summaries, loss = sess.run([
train_op, tarnn.global_step, train_summary_op, tarnn.loss
], feed_dict)
logger.info("step {0}: loss {1:g}".format(step, loss))
train_summary_writer.add_summary(summaries, step)
def validation_step(x_val_content,
x_val_question,
x_val_option,
y_val,
writer=None):
"""Evaluates model on a validation set"""
batches_validation = dh.batch_iter(
list(
zip(x_val_content, x_val_question, x_val_option,
y_val)), FLAGS.batch_size, 1)
eval_counter, eval_loss = 0, 0.0
true_labels = []
predicted_scores = []
for batch_validation in batches_validation:
x_batch_content, x_batch_question, x_batch_option, y_batch = zip(
*batch_validation)
feed_dict = {
tarnn.input_x_content: x_batch_content,
tarnn.input_x_question: x_batch_question,
tarnn.input_x_option: x_batch_option,
tarnn.input_y: y_batch,
tarnn.dropout_keep_prob: 1.0,
tarnn.is_training: False
}
step, summaries, scores, cur_loss = sess.run([
tarnn.global_step, validation_summary_op, tarnn.scores,
tarnn.loss
], feed_dict)
# Prepare for calculating metrics
for i in y_batch:
true_labels.append(i)
for j in scores:
predicted_scores.append(j)
eval_loss = eval_loss + cur_loss
eval_counter = eval_counter + 1
if writer:
writer.add_summary(summaries, step)
eval_loss = float(eval_loss / eval_counter)
# Calculate RMSE
rmse = mean_squared_error(true_labels, predicted_scores)**0.5
return eval_loss, rmse
# Generate batches
batches_train = dh.batch_iter(
list(
zip(x_train_content, x_train_question, x_train_option,
y_train)), FLAGS.batch_size, FLAGS.num_epochs)
num_batches_per_epoch = int(
(len(y_train) - 1) / FLAGS.batch_size) + 1
# Training loop. For each batch...
for batch_train in batches_train:
x_batch_train_content, x_batch_train_question, x_batch_train_option, y_batch_train = zip(
*batch_train)
train_step(x_batch_train_content, x_batch_train_question,
x_batch_train_option, y_batch_train)
current_step = tf.train.global_step(sess, tarnn.global_step)
if current_step % FLAGS.evaluate_every == 0:
logger.info("\nEvaluation:")
eval_loss, rmse = validation_step(
x_val_content,
x_val_question,
x_val_option,
y_val,
writer=validation_summary_writer)
logger.info(
"All Validation set: Loss {0:g} | RMSE {1:g}".format(
eval_loss, rmse))
best_saver.handle(rmse, sess, current_step)
if current_step % FLAGS.checkpoint_every == 0:
checkpoint_prefix = os.path.join(checkpoint_dir, "model")
path = saver.save(sess,
checkpoint_prefix,
global_step=current_step)
logger.info(
"✔︎ Saved model checkpoint to {0}\n".format(path))
if current_step % num_batches_per_epoch == 0:
current_epoch = current_step // num_batches_per_epoch
logger.info(
"✔︎ Epoch {0} has finished!".format(current_epoch))
logger.info("✔︎ Done.")
def test_ann():
"""Test ANN model."""
# Load data
logger.info("✔ Loading data...")
logger.info('Recommended padding Sequence length is: {0}'.format(
FLAGS.pad_seq_len))
logger.info('✔︎ Test data processing...')
test_data = dh.load_data_and_labels(FLAGS.test_data_file,
FLAGS.num_classes, FLAGS.embedding_dim)
logger.info('✔︎ Test data padding...')
x_test, y_test = dh.pad_data(test_data, FLAGS.pad_seq_len)
y_test_labels = test_data.labels
# Load ann model
logger.info("✔ Loading model...")
checkpoint_file = tf.train.latest_checkpoint(FLAGS.checkpoint_dir)
logger.info(checkpoint_file)
graph = tf.Graph()
with graph.as_default():
session_conf = tf.ConfigProto(
allow_soft_placement=FLAGS.allow_soft_placement,
log_device_placement=FLAGS.log_device_placement)
session_conf.gpu_options.allow_growth = FLAGS.gpu_options_allow_growth
sess = tf.Session(config=session_conf)
with sess.as_default():
# Load the saved meta graph and restore variables
saver = tf.train.import_meta_graph(
"{0}.meta".format(checkpoint_file))
saver.restore(sess, checkpoint_file)
# Get the placeholders from the graph by name
input_x = graph.get_operation_by_name("input_x").outputs[0]
input_y = graph.get_operation_by_name("input_y").outputs[0]
dropout_keep_prob = graph.get_operation_by_name(
"dropout_keep_prob").outputs[0]
is_training = graph.get_operation_by_name("is_training").outputs[0]
# Tensors we want to evaluate
scores = graph.get_operation_by_name("output/scores").outputs[0]
loss = graph.get_operation_by_name("loss/loss").outputs[0]
# Split the output nodes name by '|' if you have several output nodes
output_node_names = 'output/logits|output/scores'
# Save the .pb model file
output_graph_def = tf.graph_util.convert_variables_to_constants(
sess, sess.graph_def, output_node_names.split("|"))
tf.train.write_graph(output_graph_def,
'graph',
'graph-ann-{0}.pb'.format(MODEL),
as_text=False)
# Generate batches for one epoch
batches = dh.batch_iter(list(zip(x_test, y_test, y_test_labels)),
FLAGS.batch_size,
1,
shuffle=False)
# Collect the predictions here
all_labels = []
all_predicted_labels = []
all_predicted_values = []
# Calculate the metric
test_counter, test_loss, test_rec, test_pre, test_F = 0, 0.0, 0.0, 0.0, 0.0
for batch_test in batches:
x_batch_test, y_batch_test, y_batch_test_labels = zip(
*batch_test)
feed_dict = {
input_x: x_batch_test,
input_y: y_batch_test,
dropout_keep_prob: 1.0,
is_training: False
}
batch_scores, cur_loss = sess.run([scores, loss], feed_dict)
# Predict by threshold
predicted_labels_threshold, predicted_values_threshold = \
dh.get_label_using_scores_by_threshold(scores=batch_scores, threshold=FLAGS.threshold)
cur_rec, cur_pre, cur_F = 0.0, 0.0, 0.0
for index, predicted_label_threshold in enumerate(
predicted_labels_threshold):
rec_inc, pre_inc = dh.cal_metric(predicted_label_threshold,
y_batch_test[index])
cur_rec, cur_pre = cur_rec + rec_inc, cur_pre + pre_inc
cur_rec = cur_rec / len(y_batch_test)
cur_pre = cur_pre / len(y_batch_test)
test_rec, test_pre = test_rec + cur_rec, test_pre + cur_pre
# Add results to collection
for item in y_batch_test_labels:
all_labels.append(item)
for item in predicted_labels_threshold:
all_predicted_labels.append(item)
for item in predicted_values_threshold:
all_predicted_values.append(item)
test_loss = test_loss + cur_loss
test_counter = test_counter + 1
test_loss = float(test_loss / test_counter)
test_rec = float(test_rec / test_counter)
test_pre = float(test_pre / test_counter)
test_F = dh.cal_F(test_rec, test_pre)
logger.info("☛ All Test Dataset: Loss {0:g}".format(test_loss))
# Predict by threshold
logger.info(
"︎☛ Predict by threshold: Recall {0:g}, Precision {1:g}, F {2:g}"
.format(test_rec, test_pre, test_F))
# Save the prediction result
if not os.path.exists(SAVE_DIR):
os.makedirs(SAVE_DIR)
dh.create_prediction_file(output_file=SAVE_DIR +
'/predictions.json',
data_id=test_data.testid,
all_labels=all_labels,
all_predict_labels=all_predicted_labels,
all_predict_values=all_predicted_values)
logger.info("✔ Done.")
def train_cnn():
"""Training CNN model."""
# Load sentences, labels, and training parameters
logger.info('✔︎ Loading data...')
logger.info('✔︎ Training data processing...')
train_data = dh.load_data_and_labels(FLAGS.training_data_file,
FLAGS.num_classes,
FLAGS.embedding_dim)
logger.info('✔︎ Validation data processing...')
validation_data = \
dh.load_data_and_labels(FLAGS.validation_data_file, FLAGS.num_classes, FLAGS.embedding_dim)
logger.info('Recommended padding Sequence length is: {0}'.format(
FLAGS.pad_seq_len))
logger.info('✔︎ Training data padding...')
x_train, y_train = dh.pad_data(train_data, FLAGS.pad_seq_len)
logger.info('✔︎ Validation data padding...')
x_validation, y_validation = dh.pad_data(validation_data,
FLAGS.pad_seq_len)
y_validation_bind = validation_data.labels_bind
# Build vocabulary
VOCAB_SIZE = dh.load_vocab_size(FLAGS.embedding_dim)
pretrained_word2vec_matrix = dh.load_word2vec_matrix(
VOCAB_SIZE, FLAGS.embedding_dim)
# Build a graph and cnn object
with tf.Graph().as_default():
session_conf = tf.ConfigProto(
allow_soft_placement=FLAGS.allow_soft_placement,
log_device_placement=FLAGS.log_device_placement)
session_conf.gpu_options.allow_growth = FLAGS.gpu_options_allow_growth
sess = tf.Session(config=session_conf)
with sess.as_default():
cnn = TextCNN(sequence_length=FLAGS.pad_seq_len,
num_classes=FLAGS.num_classes,
vocab_size=VOCAB_SIZE,
fc_hidden_size=FLAGS.fc_hidden_size,
embedding_size=FLAGS.embedding_dim,
embedding_type=FLAGS.embedding_type,
filter_sizes=list(
map(int, FLAGS.filter_sizes.split(","))),
num_filters=FLAGS.num_filters,
l2_reg_lambda=FLAGS.l2_reg_lambda,
pretrained_embedding=pretrained_word2vec_matrix)
# Define Training procedure
# learning_rate = tf.train.exponential_decay(learning_rate=FLAGS.learning_rate, global_step=cnn.global_step,
# decay_steps=FLAGS.decay_steps, decay_rate=FLAGS.decay_rate,
# staircase=True)
optimizer = tf.train.AdamOptimizer(FLAGS.learning_rate)
grads_and_vars = optimizer.compute_gradients(cnn.loss)
train_op = optimizer.apply_gradients(grads_and_vars,
global_step=cnn.global_step,
name="train_op")
# Keep track of gradient values and sparsity (optional)
grad_summaries = []
for g, v in grads_and_vars:
if g is not None:
grad_hist_summary = tf.summary.histogram(
"{0}/grad/hist".format(v.name), g)
sparsity_summary = tf.summary.scalar(
"{0}/grad/sparsity".format(v.name),
tf.nn.zero_fraction(g))
grad_summaries.append(grad_hist_summary)
grad_summaries.append(sparsity_summary)
grad_summaries_merged = tf.summary.merge(grad_summaries)
# Output directory for models and summaries
if FLAGS.train_or_restore == 'R':
MODEL = input(
"☛ Please input the checkpoints model you want to restore, "
"it should be like(1490175368): "
) # The model you want to restore
while not (MODEL.isdigit() and len(MODEL) == 10):
MODEL = input(
'✘ The format of your input is illegal, please re-input: '
)
logger.info(
'✔︎ The format of your input is legal, now loading to next step...'
)
checkpoint_dir = 'runs/' + MODEL + '/checkpoints/'
out_dir = os.path.abspath(
os.path.join(os.path.curdir, "runs", MODEL))
logger.info("✔︎ Writing to {0}\n".format(out_dir))
else:
timestamp = str(int(time.time()))
out_dir = os.path.abspath(
os.path.join(os.path.curdir, "runs", timestamp))
logger.info("✔︎ Writing to {0}\n".format(out_dir))
# Summaries for loss and accuracy
loss_summary = tf.summary.scalar("loss", cnn.loss)
# acc_summary = tf.summary.scalar("accuracy", cnn.accuracy)
# Train Summaries
train_summary_op = tf.summary.merge(
[loss_summary, grad_summaries_merged])
train_summary_dir = os.path.join(out_dir, "summaries", "train")
train_summary_writer = tf.summary.FileWriter(
train_summary_dir, sess.graph)
# Validation summaries
validation_summary_op = tf.summary.merge([loss_summary])
validation_summary_dir = os.path.join(out_dir, "summaries",
"validation")
validation_summary_writer = tf.summary.FileWriter(
validation_summary_dir, sess.graph)
saver = tf.train.Saver(tf.global_variables(),
max_to_keep=FLAGS.num_checkpoints)
if FLAGS.train_or_restore == 'R':
# Load cnn model
logger.info("✔ Loading model...")
checkpoint_file = tf.train.latest_checkpoint(checkpoint_dir)
logger.info(checkpoint_file)
# Load the saved meta graph and restore variables
saver = tf.train.import_meta_graph(
"{0}.meta".format(checkpoint_file))
saver.restore(sess, checkpoint_file)
else:
checkpoint_dir = os.path.abspath(
os.path.join(out_dir, "checkpoints"))
if not os.path.exists(checkpoint_dir):
os.makedirs(checkpoint_dir)
sess.run(tf.global_variables_initializer())
sess.run(tf.local_variables_initializer())
current_step = sess.run(cnn.global_step)
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: FLAGS.dropout_keep_prob,
cnn.is_training: True
}
_, step, summaries, loss = sess.run(
[train_op, cnn.global_step, train_summary_op, cnn.loss],
feed_dict)
time_str = datetime.datetime.now().isoformat()
logger.info("{0}: step {1}, loss {2:g}".format(
time_str, step, loss))
train_summary_writer.add_summary(summaries, step)
def validation_step(x_validation,
y_validation,
y_validation_bind,
writer=None):
"""Evaluates model on a validation set"""
batches_validation = dh.batch_iter(
list(zip(x_validation, y_validation, y_validation_bind)),
8 * FLAGS.batch_size, FLAGS.num_epochs)
eval_loss, eval_rec, eval_acc, eval_counter = 0.0, 0.0, 0.0, 0
for batch_validation in batches_validation:
x_batch_validation, y_batch_validation, y_batch_validation_bind = zip(
*batch_validation)
feed_dict = {
cnn.input_x: x_batch_validation,
cnn.input_y: y_batch_validation,
cnn.dropout_keep_prob: 1.0,
cnn.is_training: False
}
step, summaries, logits, cur_loss = sess.run([
cnn.global_step, validation_summary_op, cnn.logits,
cnn.loss
], feed_dict)
if FLAGS.use_classbind_or_not == 'Y':
predicted_labels = dh.get_label_using_logits_and_classbind(
logits,
y_batch_validation_bind,
top_number=FLAGS.top_num)
if FLAGS.use_classbind_or_not == 'N':
predicted_labels = dh.get_label_using_logits(
logits, top_number=FLAGS.top_num)
cur_rec, cur_acc = 0.0, 0.0
for index, predicted_label in enumerate(predicted_labels):
rec_inc, acc_inc = dh.cal_rec_and_acc(
predicted_label, y_batch_validation[index])
cur_rec, cur_acc = cur_rec + rec_inc, cur_acc + acc_inc
cur_rec = cur_rec / len(y_batch_validation)
cur_acc = cur_acc / len(y_batch_validation)
eval_loss, eval_rec, eval_acc, eval_counter = eval_loss + cur_loss, eval_rec + cur_rec, \
eval_acc + cur_acc, eval_counter + 1
logger.info("✔︎ validation batch {0} finished.".format(
eval_counter))
if writer:
writer.add_summary(summaries, step)
eval_loss = float(eval_loss / eval_counter)
eval_rec = float(eval_rec / eval_counter)
eval_acc = float(eval_acc / eval_counter)
return eval_loss, eval_rec, eval_acc
# Generate batches
batches_train = dh.batch_iter(list(zip(x_train, y_train)),
FLAGS.batch_size, FLAGS.num_epochs)
# Training loop. For each batch...
for batch_train in batches_train:
x_batch_train, y_batch_train = zip(*batch_train)
train_step(x_batch_train, y_batch_train)
current_step = tf.train.global_step(sess, cnn.global_step)
if current_step % FLAGS.evaluate_every == 0:
logger.info("\nEvaluation:")
eval_loss, eval_rec, eval_acc = validation_step(
x_validation,
y_validation,
y_validation_bind,
writer=validation_summary_writer)
time_str = datetime.datetime.now().isoformat()
logger.info(
"{0}: step {1}, loss {2:g}, rec {3:g}, acc {4:g}".
format(time_str, current_step, eval_loss, eval_rec,
eval_acc))
if current_step % FLAGS.checkpoint_every == 0:
checkpoint_prefix = os.path.join(checkpoint_dir, "model")
path = saver.save(sess,
checkpoint_prefix,
global_step=current_step)
logger.info(
"✔︎ Saved model checkpoint to {0}\n".format(path))
logger.info("✔︎ Done.")