def fit_lstm_model(X_train, y_train, n_words, n_tags, seq_len, class_weights,
epochs):
'''Set up LSTM model with one input - equal length sequences of encoded text'''
input_seq = Input(shape=(seq_len, ))
'''Pass the GloVe pretrained model weights into the embedding layer'''
embedding = Embedding(input_dim=n_words,
output_dim=300,
weights=[embedding_matrix],
trainable=True)(input_seq)
embedding = Dropout(0.1)(embedding)
'''Add Bidirectional LSTM layer, dense hidden layer, and final output layer'''
model = Bidirectional(
LSTM(units=64, return_sequences=True,
recurrent_dropout=0.1))(embedding)
model = TimeDistributed(Dense(64, activation='relu'))(model)
output = Dense(n_tags, activation="softmax")(model)
'''Compile and fit deep neural network'''
model = Model(inputs=input_seq, outputs=output)
model.compile(optimizer="adam",
loss="categorical_crossentropy",
metrics=["accuracy"])
history = model.fit(X_train,
y_train,
epochs=epochs,
batch_size=32,
validation_split=0.1,
verbose=1,
class_weight=[class_weights])
'''Create simple performance report for the model'''
val_loss, val_acc = model.evaluate(X_test, y_test)
print(f'Model validation loss was {val_loss}')
print(f'Model validation accuracy was {val_acc}')
return model, history
def train(self, epochs, embedding=None):
# Embedded Words
txt_input = Input(shape=(None, ), name='txt_input')
txt_embed = Embedding(input_dim=self.num_words,
output_dim=MAX_LEN,
input_length=None,
name='txt_embedding',
trainable=False,
weights=([embedding]))(txt_input)
txt_drpot = Dropout(0.1, name='txt_dropout')(txt_embed)
# Embedded Part of Speech
pos_input = Input(shape=(None, ), name='pos_input')
pos_embed = Embedding(input_dim=self.num_pos,
output_dim=MAX_LEN,
input_length=None,
name='pos_embedding')(pos_input)
pos_drpot = Dropout(0.1, name='pos_dropout')(pos_embed)
# Embedded Characters
char_in = Input(shape=(
None,
MAX_LEN_CHAR,
), name="char_input")
emb_char = TimeDistributed(
Embedding(input_dim=self.num_chars,
output_dim=MAX_LEN_CHAR,
input_length=None))(char_in)
char_enc = TimeDistributed(
LSTM(units=20, return_sequences=False,
recurrent_dropout=0.5))(emb_char)
# Concatenate inputs
x = concatenate([txt_drpot, pos_drpot, char_enc], axis=2)
x = SpatialDropout1D(0.3)(x)
# Deep Layers
model = Bidirectional(
LSTM(units=100, return_sequences=True, recurrent_dropout=0.1))(x)
model = Bidirectional(
LSTM(units=100, return_sequences=True,
recurrent_dropout=0.1))(model)
# Output
out = TimeDistributed(Dense(self.num_entities,
activation="softmax"))(model)
model = Model(inputs=[txt_input, pos_input, char_in], outputs=[out])
model.compile(optimizer="rmsprop",
loss='categorical_crossentropy',
metrics=['accuracy'])
plot_model(model, to_file=self.save_path + 'model_structure.png')
print(model.summary())
history = model.fit(
[self.X_train, self.train_pos, self.train_characters],
np.array(self.Y_train),
batch_size=32,
epochs=epochs,
validation_data=([
self.X_validation, self.valid_pos, self.valid_characters
], np.array(self.Y_validation)),
verbose=1)
model.save(self.save_path + 'model_ner')
test_eval = model.evaluate(
[self.X_test, self.test_pos, self.test_characters],
np.array(self.Y_test))
print('Test loss:', test_eval[0])
print('Test accuracy:', test_eval[1])
return model, history
def bilstm(X_train, X_test, Y_train, Y_test, wordembeddings):
np.random.seed(1234)
tf.random.set_seed(1234)
random.seed(1234)
max_length_sentence = X_train.str.split().str.len().max()
tokenizer = Tokenizer(filters='!"#$%&()*+,-./:;<=>?@[\\]^_`{|}~\t\n\'',
lower=True)
tokenizer.fit_on_texts(X_train)
word_index = tokenizer.word_index
EMBEDDING_DIM = 300
vocabulary_size = len(word_index) + 1
print('Found %s unique tokens.' % len(word_index))
sequences_train = tokenizer.texts_to_sequences(X_train)
sequences_valid = tokenizer.texts_to_sequences(X_test)
X_train = pad_sequences(sequences_train, maxlen=max_length_sentence)
X_val = pad_sequences(sequences_valid, maxlen=X_train.shape[1])
y_train = np.asarray(Y_train)
y_val = np.asarray(Y_test)
#print(word_index)
'''
print('Shape of data tensor:', X_train.shape)
print('Shape of data tensor:', X_val.shape)
print('Shape of data tensor:', y_train.shape)
print('Shape of data tensor:', y_val.shape)
print(X_train)
print("*"*100)
print(X_val)
print("*"*100)
print(y_train)
print("*"*100)
print(y_val)
'''
embedding_matrix = np.zeros((vocabulary_size, EMBEDDING_DIM))
for word, i in word_index.items():
if (word in wordembeddings.keys()):
embedding_vector = wordembeddings[word]
if len(embedding_vector) == 0: #if array is empty
embedding_vector = wordembeddings[word.title()]
if len(embedding_vector) == 0:
embedding_vector = wordembeddings[word.upper()]
if len(embedding_vector) == 0:
embedding_vector = np.array([
round(np.random.rand(), 8) for i in range(0, 300)
])
else:
#print("WORD NOT IN DICT",word)
embedding_vector = np.array(
[round(np.random.rand(), 8) for i in range(0, 300)])
if len(embedding_vector) != 0:
embedding_matrix[i] = embedding_vector
embedding_layer = Embedding(vocabulary_size,
EMBEDDING_DIM,
weights=[embedding_matrix],
trainable=False) #Try with True
inputs = Input(shape=(X_train.shape[1], ))
model = (Embedding(vocabulary_size,
EMBEDDING_DIM,
input_length=max_length_sentence,
weights=[embedding_matrix]))(inputs)
model = Bidirectional(GRU(64))(
model) # !!!!!!! CHANGE THIS FOR OTHER MODELS
model = (Dense(900, activation='relu'))(model)
model = (Dense(400, activation='relu'))(model)
model = (Dense(250, activation='relu'))(model)
model = (Dense(204, activation='softmax'))(model)
model = Model(inputs=inputs, outputs=model)
model.compile(loss='categorical_crossentropy',
optimizer='adam',
metrics=['accuracy'])
model.summary()
callbacks = [EarlyStopping(monitor='val_loss')]
hist_adam = model.fit(
X_train,
y_train,
batch_size=1000,
epochs=200,
verbose=1,
validation_data=(X_val, y_val),
callbacks=callbacks
) #!!!!!!!!!!!!!!!!!!!!!!!CHANGE BATCH SIZE TO 1000 #change epochs to 200
model.save(config.bigru_prepocessed_dataset1_chai
) # !!!!!!! CHANGE THIS FOR OTHER MODELS
y_pred = model.predict(X_val)
print(y_pred)
y_val_class = pd.DataFrame(y_val).idxmax(axis=1)
print(y_val_class)
y_val_class_argmax = np.argmax(y_val, axis=1)
y_pred_class_argmax = np.argmax(y_pred, axis=1)
y_pred_class = pd.DataFrame(y_pred).idxmax(axis=1)
print(y_pred_class)
print(classification_report(y_val_class, y_pred_class))
plt.suptitle('Optimizer : Adam', fontsize=10)
plt.ylabel('Loss', fontsize=16)
plt.xlabel('Epoch', fontsize=14)
plt.plot(hist_adam.history['loss'], color='b', label='Training Loss')
plt.plot(hist_adam.history['val_loss'], color='r', label='Validation Loss')
plt.legend(loc='upper right')
plt.savefig(
'/home/ubuntu/asset_classification/results/bigru_model_dataset1_preprocessed_chai.png'
) # !!!!!!! CHANGE THIS FOR OTHER MODELS
tf.keras.utils.plot_model(
model, to_file=config.bigru_architecture,
show_shapes=True) # !!!!!!! CHANGE THIS FOR OTHER MODELS
return (y_pred, y_val_class, y_pred_class, y_val_class_argmax,
y_pred_class_argmax)
def main(self, glove):
# get word embeddings
utils = wordUtils.Utils()
if glove:
# use glove
self.words_list, self.embedding_matrix = utils.load_glove()
unword_n = len(self.words_list)
else:
self.words_list, self.embedding_matrix = utils.load_word2vec()
unword_n = len(self.words_list)
# get the training corpus
cr = corpusreader.CorpusReader(self.textfile, self.annotfile)
corpus = cr.trainseqs
print(len(corpus))
train = []
print("Processing training data", datetime.now())
for doc in corpus:
tmp_dic = {}
tmp_dic['tokens'] = doc['tokens']
# convert SOBIE tags to numbers
tags = doc['bio']
tags = [self.lablist[i] for i in tags]
tmp_dic['bion'] = tags
train.append(tmp_dic)
n_emb = 0
n_unk = 0
# get the number of the embedding
for idx in range(len(train)):
words = train[idx]['tokens']
words_id = []
for i in words:
# get the number of the embedding
try:
# the index of the word in the embedding matrix
index = self.words_list.index(i)
n_emb = n_emb + 1
except ValueError:
# use the embedding full of zeros to identify an unknown word
n_unk = n_unk + 1
index = unword_n
# the index of the word in the embedding matrix
words_id.append(index)
train[idx]['tokens'] = words_id
# get all sizes from the sequences with training data
train_l_d = {}
train_l_labels = {}
for seq in train:
# corpus
l = len(seq['tokens'])
if l not in train_l_d: train_l_d[l] = []
train_l_d[l].append(seq['tokens'])
# labels
l1 = len(seq['bion'])
if l1 not in train_l_labels: train_l_labels[l1] = []
train_l_labels[l1].append(seq['bion'])
sizes = list(train_l_d.keys())
for i in sizes:
if len(train_l_d[i]) != len(train_l_labels[i]):
print("merda")
for m in range(len(train_l_d[i])):
if len(train_l_d[i][m]) != len(train_l_labels[i][m]):
print("XXX")
input = Input(shape=(None,))
el = Embedding(len(self.words_list) + 1, 200, weights=[self.embedding_matrix], trainable=False)(input)
model = Bidirectional(LSTM(units=50, return_sequences=True, recurrent_dropout = 0.1))(el) # variational biLSTM
model = TimeDistributed(Dense(50, activation="relu"))(model) # a dense layer as suggested by neuralNer
crf = CRF(self.lab_len) # CRF layer
out = crf(model) # output
model = Model(input, out)
model.compile(optimizer="rmsprop", loss=crf.loss_function, metrics=[crf.accuracy])
model.summary()
f_best = -1
f_index = -1
# OK, start actually training
for epoch in range(self.epochsN):
print("Epoch", epoch, "start at", datetime.now())
# Train in batches of different sizes - randomize the order of sizes
# Except for the first few epochs
if epoch > 2:
random.shuffle(sizes)
for size in sizes:
batch = train_l_d[size]
labs = train_l_labels[size]
tx = np.array([seq for seq in batch])
y = [seq for seq in labs]
ty = [to_categorical(i, num_classes=self.lab_len) for i in y]
# This trains in mini-batches
model.fit(tx, np.array(ty), verbose=0, epochs=1)
print("Trained at", datetime.now())
# save all epochs
save_load_utils.save_all_weights(model, 'words-results/epoch_%s.h5' % epoch)
# test the results
test_data = 'corpus_char/tmVarCorpus/treated/test_data.txt'
test_labels = 'corpus_char/tmVarCorpus/treated/test_labels.tsv'
self.test_model(test_data, test_labels, model, glove)
f = self.eval()
if f > f_best:
f_best = f
f_index = epoch
# Pick the best model, and save it with a useful name
print("Choosing the best epoch")
shutil.copyfile("words-results/epoch_%s.h5" % f_index, "words_glove_%s.h5" % f_index)
LSTM(units=50, return_sequences=True, recurrent_dropout=0.1))(input)
model = TimeDistributed(Dense(50, activation="relu"))(model)
crf = CRF_2nd(len(data.tag_to_index))
out_layer = crf(model)
model = Model(input, out_layer)
model.compile(optimizer="rmsprop",
loss=crf.loss_function,
metrics=[crf.accuracy])
model.summary()
BATCH_SIZE = 64
EPOCHS = 10
history = model.fit(X_train,
np.array(y_train),
batch_size=BATCH_SIZE,
epochs=EPOCHS,
validation_split=0.1,
verbose=2)
def pred2label(pred):
out = []
for pred_i in pred:
out_i = []
for p in pred_i:
p_i = np.argmax(p)
out_i.append(idx2tag[p_i].replace("PADword", "O"))
out.append(out_i)
return out
# learning rate decay
dataset_size = train_data.shape[0]
batches_per_epoch = dataset_size/batch_size
lr_decay = (1./(1/32) -1)/batches_per_epoch
model.compile(
optimizer=Adam(lr=0.012, decay=lr_decay),
loss=crf.loss_function,
metrics=[crf.accuracy]
)
model.summary()
from keras.utils.vis_utils import plot_model
history = model.fit([X_w_tr,np.array(X_c_tr).reshape((len(X_c_tr), max_len, max_len_char))], np.array(y_tr),
batch_size=batch_size,
epochs=ephochs,
validation_data = ([X_w_v,np.array(X_c_v).reshape((len(X_c_v), max_len, max_len_char))], np.array(y_v)),
verbose=1,
)
# # history is a dictionary，keys are val_loss,val_acc,loss,acc
hist = pd.DataFrame(history.history)
fig = plt.figure(figsize=(12,12))
# add subplots
sub_fig1 = fig.add_subplot(1,2,1) # 1 row 2 cols 1st figure
sub_fig2 = fig.add_subplot(1,2,2)
# set titles
sub_fig1.set_title('Accuracy')
sub_fig2.set_title('Loss')
print(hist)
# set values and labels
Y = Y.reshape((Y.shape[0], Y.shape[1], 1))
all_train = all[:int(0.8 * all.shape[0]), ...]
Y_train = Y[:int(0.8 * all.shape[0]), ...]
Y_train_dense = np.reshape(Y_train, (Y_train.shape[0], Y_train.shape[1]))
Y_train_dense = np.argmax(Y_train_dense, axis=-1)
all_test = all[int(0.8 * all.shape[0]):, ...]
Y_test = Y[int(0.8 * all.shape[0]):, ...]
# pu.db
Y_test_dense = np.reshape(Y_test, (Y_test.shape[0], Y_test.shape[1]))
Y_test_dense = np.argmax(Y_test_dense, axis=-1)
for i in xrange(100):
print i
model.fit(all_train, Y_train, batch_size=1000, epochs=5, verbose=1)
Y_pred_train = model.predict(all_train, batch_size=1000)
Y_pred_test = model.predict(all_test, batch_size=1000)
Y_pred_train_dense = np.reshape(
Y_pred_train, (Y_pred_train.shape[0], Y_pred_train.shape[1]))
Y_pred_train_dense = np.argmax(Y_pred_train_dense, axis=-1)
Y_pred_test_dense = np.reshape(
Y_pred_test, (Y_pred_test.shape[0], Y_pred_test.shape[1]))
Y_pred_test_dense = np.argmax(Y_pred_test_dense, axis=-1)
train_acc = np.sum(
Y_pred_train_dense == Y_train_dense) * 100.0 / len(Y_pred_train_dense)
val_acc = np.sum(