def evaluate(sess, model):
Yhat = inference(model)
#Return the index with the largest value across axis
Ypredict = tf.argmax(Yhat, axis=1, output_type=tf.int32)
# predictions test
predictions_test = [
map(lambda x: idx2label[x],
sess.run(Ypredict, feed_dict={x_input: [sentence]}))
for sentence in test_lex
]
groundtruth_test = [map(lambda x: idx2label[x], label) for label in test_y]
words_test = [map(lambda x: idx2word[x], word) for word in test_lex]
predictions_valid = [
map(lambda x: idx2label[x],
sess.run(Ypredict, feed_dict={x_input: [sentence]}))
for sentence in valid_lex
]
groundtruth_valid = [
map(lambda x: idx2label[x], label) for label in valid_y
]
words_valid = [map(lambda x: idx2word[x], w) for w in valid_lex]
# evaluation // compute the accuracy using conlleval.pl
res_test = conlleval(predictions_test, groundtruth_test, words_test,
folder + "current.test.txt")
res_valid = conlleval(predictions_valid, groundtruth_valid, words_valid,
folder + "current.valid.txt")
return res_test, res_valid
def validate(model_filename):
word_model = CustomEmbedding()
valid_set, indexes = word_model.valid_set, word_model.indexes
w2idx, la2idx = indexes['w2idx'], indexes['la2idx']
idx2w, idx2la = indexes['idx2w'], indexes['idx2la']
n_classes = len(idx2la)
n_vocab = len(idx2w)
valid_x, valid_label = valid_set
log("Processing word indexes... ")
words_val = [list(map(lambda x: idx2w[x], w)) for w in valid_x]
groundtruth_val = [list(map(lambda x: idx2la[x], y)) for y in valid_label]
log("Done processing word indexes!")
process = Process()
process.load(model_filename)
predword_val = process.validate(valid_set)
metrics = conlleval(predword_val, groundtruth_val, words_val, 'diff.txt')
log('Precision = {}, Recall = {}, F1 = {}'.format(metrics['precision'],
metrics['recall'],
metrics['f1']))
# View each sentence as a batch ..
sent = sent[np.newaxis, :]
if sent.shape[1] > 1: # ignore 1 word sentences
model.train_on_batch(sent, label)
from metrics.accuracy import conlleval
labels_pred_val = []
bar = progressbar.ProgressBar(max_value=len(val_x))
for n_batch, sent in bar(enumerate(val_x)):
label = val_label[n_batch]
label = np.eye(n_classes)[label][np.newaxis, :]
sent = sent[np.newaxis, :]
pred = model.predict_on_batch(sent)
pred = np.argmax(pred, -1)[0]
labels_pred_val.append(pred)
labels_pred_val = [list(map(lambda x: idx2la[x], y)) \
for y in labels_pred_val]
con_dict = conlleval(labels_pred_val, labels_val, words_val, 'measure.txt')
print('Precision = {}, Recall = {}, F1 = {}'.format(
con_dict['r'], con_dict['p'], con_dict['f1']))
# model.fit(x=train_x, y=train_label, steps_per_epoch=1,callbacks=[checkpointer, tensorboard])
model.save_weights(path + "MUSIC_LSTM-" + str(i) + ".h5")
model_json = model.to_json()
with open(path + "model_embed_lstm.json", "w") as jf:
jf.write(model_json)
# evaluation // back into the real world : idx -> words
predictions_test = [map(lambda x: idx2label[x],
rnn.classify(numpy.asarray(contextwin(x, s['win'])).astype('int32'), f) ) for x, f in zip (test_lex, test_feat)]
ground_truth_test = [map(lambda x: idx2label[x], y) for y in test_y]
words_test = [ map(lambda x: idx2word[x], w) for w in test_lex]
predictions_valid = [map(lambda x: idx2label[x],
rnn.classify(numpy.asarray(contextwin(x, s['win'])).astype('int32'), f)) for x, f in zip (valid_lex, valid_feat)]
ground_truth_valid = [map(lambda x: idx2label[x], y) for y in valid_y]
words_valid = [map(lambda x: idx2word[x], w) for w in valid_lex]
# evaluation // compute the accuracy using conlleval.pl
res_test = conlleval(predictions_test, ground_truth_test, words_test, model_folder + '/current.test.txt')
res_valid = conlleval(predictions_valid, ground_truth_valid, words_valid, model_folder + '/current.valid.txt')
if res_test['f1'] > best_f1_test:
rnn.save(model_folder)
best_f1_test, best_f1_test_val = res_test['f1'], res_valid['f1']
if s['verbose']:
print 'NEW BEST: epoch', e, 'valid F1', res_valid['f1'], 'best test F1', res_test['f1'], ' '*20
s['vf1'], s['vp'], s['vr'] = res_valid['f1'], res_valid['p'], res_valid['r']
s['tf1'], s['tp'], s['tr'] = res_test['f1'], res_test['p'], res_test['r']
s['be'] = e
def main():
settings = {
'fold': 3, # 5 folds 0,1,2,3,4
'lr': 0.0627142536696559,
'verbose': 1,
'decay': False, # decay on the learning rate if improvement stops
'win': 7, # number of words in the context window
'bs': 9, # number of backprop through time steps
'nhidden': 100, # number of hidden units
'seed': 345,
'emb_dimension': 100, # dimension of word embedding
'nepochs': 50
}
folder = os.path.basename(__file__).split('.')[0]
if not os.path.exists(folder):
os.mkdir(folder)
# load the dataset
train_set, valid_set, test_set, dic = load.atisfold(settings['fold'])
idx2label = dict((k, v) for v, k in dic['labels2idx'].iteritems())
idx2word = dict((k, v) for v, k in dic['words2idx'].iteritems())
train_lex, train_ne, train_y = train_set
valid_lex, valid_ne, valid_y = valid_set
test_lex, test_ne, test_y = test_set
vocsize = len(dic['words2idx'])
nclasses = len(dic['labels2idx'])
nsentences = len(train_lex)
# instantiate the model
numpy.random.seed(settings['seed'])
random.seed(settings['seed'])
if LOAD:
print "Loading model from %s..." % folder
rnn = ElmanRNNModel.load(folder)
else:
rnn = ElmanRNNModel(
hidden_dims=settings['nhidden'],
num_classes=nclasses,
vocab_size=vocsize,
embed_dims=settings['emb_dimension'],
context_size=settings['win']
)
# train with early stopping on validation set
best_f1 = -numpy.inf
settings['current_lr'] = settings['lr']
for e in xrange(settings['nepochs']):
# shuffle
shuffle([train_lex, train_ne, train_y], settings['seed'])
settings['current_epoch'] = e
tic = time.time()
for i in xrange(nsentences):
cwords = contextwin(train_lex[i], settings['win'])
words = map(
lambda x: numpy.asarray(x).astype('int32'),
minibatch(cwords, settings['bs'])
)
labels = train_y[i]
for word_batch, label_last_word in zip(words, labels):
rnn.train(word_batch, label_last_word, settings['current_lr'])
rnn.normalize()
if settings['verbose']:
print '[learning] epoch %i >> %2.2f%%' % (e, (i+1)*100./nsentences), \
'completed in %.2f (sec) <<\r' % (time.time()-tic),
sys.stdout.flush()
# evaluation // back into the real world : idx -> words
predictions_test = [
map(lambda x: idx2label[x],
rnn.classify(numpy.asarray(contextwin(x, settings['win'])).astype('int32')))
for x in test_lex
]
groundtruth_test = [map(lambda x: idx2label[x], y) for y in test_y ]
words_test = [map(lambda x: idx2word[x], w) for w in test_lex]
predictions_valid = [
map(
lambda idx: idx2label[idx],
rnn.classify(
numpy.asarray(contextwin(x, settings['win'])).astype('int32'))
)
for x in valid_lex
]
groundtruth_valid = [map(lambda x: idx2label[x], y) for y in valid_y]
words_valid = [map(lambda x: idx2word[x], w) for w in valid_lex]
# evaluation // compute the accuracy using conlleval.pl
res_test = conlleval(predictions_test, groundtruth_test, words_test, folder + '/current.test.txt')
res_valid = conlleval(predictions_valid, groundtruth_valid, words_valid, folder + '/current.valid.txt')
if res_valid['f1'] > best_f1:
rnn.save(folder)
best_f1 = res_valid['f1']
if settings['verbose']:
print 'NEW BEST: epoch', e, 'valid F1', res_valid['f1'], 'best test F1', res_test['f1'], ' '*20
settings['vf1'], settings['vp'], settings['vr'] = res_valid['f1'], res_valid['p'], res_valid['r']
settings['tf1'], settings['tp'], settings['tr'] = res_test['f1'], res_test['p'], res_test['r']
settings['be'] = e
subprocess.call(['mv', folder + '/current.test.txt', folder + '/best.test.txt'])
subprocess.call(['mv', folder + '/current.valid.txt', folder + '/best.valid.txt'])
else:
print ''
# learning rate decay if no improvement in 10 epochs
if settings['decay'] and abs(settings['be'] - settings['current_epoch']) >= 10:
settings['current_lr'] *= 0.5
if settings['current_lr'] < 1e-5:
break
print 'BEST RESULT: epoch', e, 'valid F1', settings['vf1'], 'best test F1', settings['tf1'], 'with the model', folder
def train(self):
# Prepare data
sentence_train, slot_train, sentence_dev, slot_dev, vocab_sentence,\
vocab_slot = data_helper.prepare_data(
"data",
sentence_training_file,
slot_training_file,
sentence_developing_file,
slot_developing_file,
from_vocabulary_size=2000,
to_vocabulary_size=2000,
tokenizer=None)
sentence_developing, slot_devloping = data_helper.read_data(
sentence_dev, slot_dev, max_size=None)
sentence_training, slot_training = data_helper.read_data(
sentence_train, slot_train, max_size=None)
## TODO:
#sentence_training, slot_training = sentence_training[:1000],\
# slot_training[:1000]
# Dictionaries
w2id_sentence, id2w_sentence = data_helper.initialize_vocabulary(
vocab_sentence)
w2id_slot, id2w_slot = data_helper.initialize_vocabulary(vocab_slot)
# For conlleval script
words_train = [
list(map(lambda x: id2w_sentence[x].decode('utf8'), w))
for w in sentence_training
]
labels_train = [
list(map(lambda x: id2w_slot[x].decode('utf8'), y))
for y in slot_training
]
words_val = [
list(map(lambda x: id2w_sentence[x].decode('utf8'), w))
for w in sentence_developing
]
labels_val = [
list(map(lambda x: id2w_slot[x].decode('utf8'), y))
for y in slot_devloping
]
# Define model
n_vocab = len(w2id_sentence)
n_classes = len(w2id_slot)
#model = Sequential()
#model.add(Embedding(n_vocab,100))
#model.add(Convolution1D(128, 5, border_mode='same', activation='relu'))
#model.add(Dropout(0.25))
#model.add(GRU(100,return_sequences=True))
#model.add(TimeDistributed(Dense(n_classes, activation='softmax')))
#model.compile('rmsprop', 'categorical_crossentropy')
## Training
##n_epochs = 30
#n_epochs = 1
train_f_scores = []
val_f_scores = []
best_val_f1 = 0
#print("Training =>")
#train_pred_label = []
#avgLoss = 0
#for i in range(n_epochs):
# print("Training epoch {}".format(i))
# bar = progressbar.ProgressBar(max_value=len(sentence_training))
# for n_batch, sent in bar(enumerate(sentence_training)):
# label = slot_training[n_batch]
# # Make labels one hot
# label = np.eye(n_classes)[label][np.newaxis, :]
# # View each sentence as a batch
# sent = sent[np.newaxis, :]
# if sent.shape[1] > 1: #ignore 1 word sentences
# loss = model.train_on_batch(sent, label)
# avgLoss += loss
# pred = model.predict_on_batch(sent)
# pred = np.argmax(pred, -1)[0]
# train_pred_label.append(pred)
# avgLoss = avgLoss/n_batch
# predword_train = [list(map(lambda x: id2w_slot[x].decode('utf8'), y))
# for y in train_pred_label]
# con_dict = conlleval(predword_train, labels_train,
# words_train, 'measure.txt')
# train_f_scores.append(con_dict['f1'])
# print('Loss = {}, Precision = {}, Recall = {}, F1 = {}'.format(
# avgLoss, con_dict['r'], con_dict['p'], con_dict['f1']))
# # Save model
# model.save(filepath_model)
# gc.collect()
print("Validating =>")
from keras.models import load_model
model = load_model(filepath_model)
labels_pred_val = []
avgLoss = 0
bar = progressbar.ProgressBar(max_value=len(sentence_developing))
for n_batch, sent in bar(enumerate(sentence_developing)):
label = slot_devloping[n_batch]
label = np.eye(n_classes)[label][np.newaxis, :]
sent = sent[np.newaxis, :]
if sent.shape[1] > 1: #some bug in keras
loss = model.test_on_batch(sent, label)
avgLoss += loss
pred = model.predict_on_batch(sent)
pred = np.argmax(pred, -1)[0]
labels_pred_val.append(pred)
avgLoss = avgLoss / n_batch
gc.collect()
predword_val = [
list(map(lambda x: id2w_slot[x].decode('utf8'), y))
for y in labels_pred_val
]
con_dict = conlleval(predword_val, labels_val, words_val,
'measure.txt')
val_f_scores.append(con_dict['f1'])
print('Loss = {}, Precision = {}, Recall = {}, F1 = {}'.format(
avgLoss, con_dict['r'], con_dict['p'], con_dict['f1']))
if con_dict['f1'] > best_val_f1:
best_val_f1 = con_dict['f1']
print('here')
with open('model_architecture.json', 'w') as outf:
outf.write(model.to_json())
model.save_weights('best_model_weights.h5', overwrite=True)
print("Best validation F1 score = {}".format(best_val_f1))
print()
def play_with_spelling():
"""Play with spelling mistakes"""
print CONF
np.random.seed(CONF['seed'])
random.seed(CONF['seed'])
print "Calculate output"
session_files = get_session_files(number_of_files=CONF['number_of_files'], random_seed=CONF['seed'])
sentences = get_sentences(session_files)
print len(sentences)
labels2idx = char2idx = get_char_to_idx(sentences)
print "Prepare train, validation and test sets"
train_valid_sentences, test_sentences = train_test_split(sentences, test_size=0.15, random_state=CONF['seed'])
train_sentences, valid_sentences = train_test_split(train_valid_sentences, test_size=0.2, random_state=CONF['seed'])
print len(train_valid_sentences), len(test_sentences)
test_lex, test_y = create_tests(test_sentences, CONF['error_probability'], labels2idx, char2idx)
valid_lex, valid_y = create_tests(valid_sentences, CONF['error_probability'], labels2idx, char2idx)
train_lex = []
train_y = []
for error_probability in (CONF['error_probability'], CONF['error_probability'] / 10, CONF['error_probability'] / 100, 0):
_train_idxes, _train_labels_idxes = create_tests(train_sentences, error_probability, labels2idx, char2idx)
train_lex.extend(_train_idxes)
train_y.extend(_train_labels_idxes)
# train_lex, valid_lex, train_y, valid_y = train_test_split(train_valid_idxes, train_valid_labels_idxes, test_size=0.2, random_state=CONF['seed'])
print len(train_lex), len(valid_lex), len(train_y), len(valid_y)
print "Some more prep"
idx2label = dict((k, v) for v, k in labels2idx.iteritems()) # Reverse the dictionary
idx2word = dict((k, v) for v, k in char2idx.iteritems()) # Reverse the dictionary
groundtruth_test = [map(lambda x: idx2label[x], y) for y in test_y]
windowed_test_lex = [np.asarray(contextwin(x, CONF['win'])).astype('int32') for x in test_lex]
windowed_valid_lex = [np.asarray(contextwin(x, CONF['win'])).astype('int32') for x in valid_lex]
words_test = [ map(lambda x: idx2word[x], w) for w in test_lex]
groundtruth_valid = [ map(lambda x: idx2label[x], y) for y in valid_y ]
words_valid = [ map(lambda x: idx2word[x], w) for w in valid_lex]
vocsize = 1 + len(set(item for lex in (train_lex, valid_lex, test_lex) for sublist in lex for item in sublist))
nclasses = 1 + len(set(item for _y in (train_y, test_y, valid_y) for sublist in _y for item in sublist))
nsentences = len(train_lex)
words_lex = []
for i in xrange(nsentences):
cwords = contextwin(train_lex[i], CONF['win'])
words = [np.asarray(x).astype(np.int32) for x in minibatch(cwords, CONF['batch_size'])]
words_lex.append(words)
print "Some file os calls"
folder = os.path.basename(__file__).split('.')[0] + "_3"
if not os.path.exists(folder):
os.mkdir(folder)
print "Create a Neural Network"
rnn = regular_elman(nh=CONF['nhidden'],
nc=nclasses,
ne=vocsize,
de=CONF['emb_dimension'],
cs=CONF['win'],)
# train with early stopping on validation set
best_f1 = -np.inf
CONF['current_learning_rate'] = CONF['learning_rate']
print "Start training"
start_time = print_time = time.time()
for epoch in xrange(CONF['nepochs']):
# shuffle
shuffle([words_lex, train_y], CONF['seed'])
CONF['ce'] = epoch
tic = time.time()
percentage_of_sentences_to_train = (epoch + 1) / CONF['nepochs']
numer_of_sentences_to_train = int(nsentences * percentage_of_sentences_to_train)
print "starting an epoch, numer_of_sentences_to_train =", numer_of_sentences_to_train
test_size = int(len(windowed_test_lex) * percentage_of_sentences_to_train)
print "test_size", test_size
validation_size = int(len(windowed_valid_lex) * percentage_of_sentences_to_train)
print "validation_size", validation_size
for _ in xrange(30): # Trauma!
print "_", _
for i in xrange(numer_of_sentences_to_train):
words = words_lex[i]
labels = train_y[i]
for word_batch, label_last_word in zip(words, labels):
rnn.train(word_batch, label_last_word, CONF['current_learning_rate'])
rnn.normalize()
if CONF['verbose'] and time.time() - print_time > 30:
print '[learning] epoch %i >> %2.2f%%' % (epoch, (i + 1) * 100. / numer_of_sentences_to_train), 'completed in %.2f (sec) <<\r' % (time.time() - tic),
print_time = time.time()
# evaluation // back into the real world : idx -> words
if CONF['verbose']:
print "Classify test"
predictions_test = [[idx2label[x] for x in rnn.classify(windowed_test_lex_item)]
for windowed_test_lex_item in windowed_test_lex[:test_size]]
if CONF['verbose']:
print "Classify validation"
predictions_valid = [[idx2label[x] for x in rnn.classify(windowed_valid_lex_item)]
for windowed_valid_lex_item in windowed_valid_lex[:validation_size]]
# evaluation // compute the accuracy using conlleval.pl
if CONF['verbose']:
print "Evaluate test and validation"
res_test = conlleval(predictions_test, groundtruth_test[:test_size], words_test[:test_size], folder + '/current.test.txt')
res_valid = conlleval(predictions_valid, groundtruth_valid[:validation_size], words_valid[:validation_size], folder + '/current.valid.txt')
if res_valid['f1'] > best_f1:
rnn.save(folder)
best_f1 = res_valid['f1']
print 'NEW BEST: epoch', epoch, 'valid F1', res_valid['f1'], 'best test F1', res_test['f1'], ' ' * 20
CONF['vf1'], CONF['vp'], CONF['vr'] = res_valid['f1'], res_valid['p'], res_valid['r']
CONF['tf1'], CONF['tp'], CONF['tr'] = res_test['f1'], res_test['p'], res_test['r']
CONF['be'] = epoch
subprocess.call(['mv', folder + '/current.test.txt', folder + '/best.test.txt'])
subprocess.call(['mv', folder + '/current.valid.txt', folder + '/best.valid.txt'])
else:
print ' : epoch', epoch, 'valid F1', res_valid['f1'], ' test F1', res_test['f1'], ' ' * 20
# rnn.load(folder)
# learning rate decay if no improvement in 10 epochs
if CONF['decay'] and abs(CONF['be'] - CONF['ce']) >= 10:
CONF['current_learning_rate'] *= 0.5
if CONF['current_learning_rate'] < 1e-5:
break
print 'BEST RESULT: epoch', CONF['be'], 'valid F1', best_f1, 'best test F1', CONF['tf1'], 'with the model', folder
print "total time = {} seconds".format(time.time() - start_time)
def play_with_splitting_sentences():
"""Play with splitting sentences"""
conf = { # 'fold': 3, # 5 folds 0,1,2,3,4
'lr': 0.0627142536696559,
'verbose': False,
'decay': True, # decay on the learning rate if improvement stops
'win': 15, # number of characters in the context window
'bs': 5, # number of back-propagation through time steps
'nhidden': 100, # number of hidden units
'seed': 345,
'emb_dimension': 30, # dimension of character embedding
'nepochs': 10}
number_of_files = 50000
np.random.seed(conf['seed'])
random.seed(conf['seed'])
print "Calculate output"
session_files = get_session_files(number_of_files=number_of_files, random_seed=conf['seed']) # Limit the scope To speed things up...
labels2idx = {"O": 0, "X": 1}
sentences = []
idxes = []
labels_idxes = []
labels = []
char2idx = get_char_to_idx(session_files)
for session_file in session_files:
session = json.loads(open(session_file, "rb").read())
sentence = session_to_text0(session)
if not sentence.strip():
continue
sentence_out, label = create_test(sentence, probability=0.2)
sentences.append(sentence_out)
labels.append(label)
labels_idxes.append(np.fromiter((labels2idx[l] for l in label), dtype=np.uint32))
idxes.append(np.fromiter((char2idx[char] for char in sentence_out), dtype=np.uint32))
print "Prepare train, validation and test sets"
train_valid_lex, test_lex, train_valid_y, test_y = train_test_split(idxes, labels_idxes, test_size=0.15, random_state=42)
train_lex, valid_lex, train_y, valid_y = train_test_split(train_valid_lex, train_valid_y, test_size=0.2, random_state=42)
print "Some more prep"
idx2label = dict((k, v) for v, k in labels2idx.iteritems()) # Reverse the dictionary
idx2word = dict((k, v) for v, k in char2idx.iteritems()) # Reverse the dictionary
# vocsize = 1 + len(set(reduce(\
# lambda x, y: list(x)+list(y),\
# train_lex+valid_lex+test_lex)))
vocsize = 1 + len(set(item for lex in (train_lex, valid_lex, test_lex) for sublist in lex for item in sublist))
nclasses = 2 #len(set(reduce(lambda x, y: list(x) + list(y), train_y + test_y + valid_y)))
nsentences = len(train_lex)
print "Some file os calls"
folder = os.path.basename(__file__).split('.')[0] + "_3"
if not os.path.exists(folder):
os.mkdir(folder)
print "Create a Neural Network"
rnn = regular_elman(nh=conf['nhidden'],
nc=nclasses,
ne=vocsize,
de=conf['emb_dimension'],
cs=conf['win'],)
# train with early stopping on validation set
best_f1 = -np.inf
conf['clr'] = conf['lr']
print "Start training"
start_time = time.time()
for epoch in xrange(conf['nepochs']):
# shuffle
shuffle([train_lex, train_y], conf['seed'])
conf['ce'] = epoch
tic = time.time()
for i in xrange(nsentences):
cwords = contextwin(train_lex[i], conf['win'])
words = [np.asarray(x).astype(np.int32) for x in minibatch(cwords, conf['bs'])]
labels = train_y[i]
for word_batch , label_last_word in zip(words, labels):
rnn.train(word_batch, label_last_word, conf['clr'])
rnn.normalize()
if conf['verbose']:
print '[learning] epoch %i >> %2.2f%%' % (epoch, (i + 1) * 100. / nsentences), 'completed in %.2f (sec) <<\r' % (time.time() - tic),
sys.stdout.flush()
# evaluation // back into the real world : idx -> words
predictions_test = [ map(lambda x: idx2label[x], \
rnn.classify(np.asarray(contextwin(x, conf['win'])).astype('int32')))\
for x in test_lex ]
groundtruth_test = [ map(lambda x: idx2label[x], y) for y in test_y ]
words_test = [ map(lambda x: idx2word[x], w) for w in test_lex]
predictions_valid = [ map(lambda x: idx2label[x], \
rnn.classify(np.asarray(contextwin(x, conf['win'])).astype('int32')))\
for x in valid_lex ]
groundtruth_valid = [ map(lambda x: idx2label[x], y) for y in valid_y ]
words_valid = [ map(lambda x: idx2word[x], w) for w in valid_lex]
# evaluation // compute the accuracy using conlleval.pl
res_test = conlleval(predictions_test, groundtruth_test, words_test, folder + '/current.test.txt')
res_valid = conlleval(predictions_valid, groundtruth_valid, words_valid, folder + '/current.valid.txt')
if res_valid['f1'] > best_f1:
rnn.save(folder)
best_f1 = res_valid['f1']
print 'NEW BEST: epoch', epoch, 'valid F1', res_valid['f1'], 'best test F1', res_test['f1'], ' ' * 20
conf['vf1'], conf['vp'], conf['vr'] = res_valid['f1'], res_valid['p'], res_valid['r']
conf['tf1'], conf['tp'], conf['tr'] = res_test['f1'], res_test['p'], res_test['r']
conf['be'] = epoch
subprocess.call(['mv', folder + '/current.test.txt', folder + '/best.test.txt'])
subprocess.call(['mv', folder + '/current.valid.txt', folder + '/best.valid.txt'])
else:
print ' : epoch', epoch, 'valid F1', res_valid['f1'], ' test F1', res_test['f1'], ' ' * 20
# learning rate decay if no improvement in 10 epochs
if conf['decay'] and abs(conf['be'] - conf['ce']) >= 10:
conf['clr'] *= 0.5
if conf['clr'] < 1e-5:
break
print 'BEST RESULT: epoch', conf['be'], 'valid F1', best_f1, 'best test F1', conf['tf1'], 'with the model', folder
print "total time = {} seconds".format(time.time() - start_time)
ground_truth_test = [map(lambda x: idx2label[x], y) for y in test_y]
words_test = [map(lambda x: idx2word[x], w) for w in test_lex]
predictions_valid = [
map(
lambda x: idx2label[x],
rnn.classify(
numpy.asarray(contextwin(x, s['win'])).astype('int32'), f))
for x, f in zip(valid_lex, valid_feat)
]
ground_truth_valid = [map(lambda x: idx2label[x], y) for y in valid_y]
words_valid = [map(lambda x: idx2word[x], w) for w in valid_lex]
# evaluation // compute the accuracy using conlleval.pl
res_test = conlleval(predictions_test, ground_truth_test, words_test,
model_folder + '/current.test.txt')
res_valid = conlleval(predictions_valid, ground_truth_valid,
words_valid, model_folder + '/current.valid.txt')
if res_test['f1'] > best_f1_test:
rnn.save(model_folder)
best_f1_test, best_f1_test_val = res_test['f1'], res_valid['f1']
if s['verbose']:
print 'NEW BEST: epoch', e, 'valid F1', res_valid[
'f1'], 'best test F1', res_test['f1'], ' ' * 20
s['vf1'], s['vp'], s['vr'] = res_valid['f1'], res_valid[
'p'], res_valid['r']
s['tf1'], s['tp'], s['tr'] = res_test['f1'], res_test[
sent = sent[np.newaxis, :]
#print(sent)
if sent.shape[1] > 1: #some bug in keras
loss = model.train_on_batch(sent, label)
avgLoss += loss
pred = model.predict_on_batch(sent)
pred = np.argmax(pred, -1)[0]
#print(pred)
train_pred_label.append(pred)
avgLoss = avgLoss / n_batch
predword_train = [
list(map(lambda x: idx2la[x], y)) for y in train_pred_label
]
con_dict = conlleval(predword_train, trainY, trainY, 'r.txt')
train_f_scores.append(con_dict['f1'])
print('Loss = {}, Precision = {}, Recall = {}, F1 = {}'.format(
avgLoss, con_dict['r'], con_dict['p'], con_dict['f1']))
print("Validating =>")
val_pred_label = []
avgLoss = 0
bar = progressbar.ProgressBar(max_value=len(val_x))
for n_batch, sent in bar(enumerate(val_x)):
label = val_label[n_batch]
label = np.eye(n_classes)[label][np.newaxis, :]
sent = sent[np.newaxis, :]
def train(self):
sentence_developing, slot_devloping = data_helper.read_data(
self.sentence_dev, self.slot_dev, max_size=None)
sentence_training, slot_training = data_helper.read_data(
self.sentence_train, self.slot_train, max_size=None)
# Make toy data; comment this block to train on the full dataset
#n_toy = 1000
#sentence_training, slot_training = sentence_training[:n_toy],\
# slot_training[:n_toy]
#sentence_developing, slot_devloping = sentence_developing[:round(n_toy/2)],\
# slot_devloping[:round(n_toy/2)]
# Dictionaries
w2id_sentence, id2w_sentence = data_helper.initialize_vocabulary(
self.vocab_sentence)
w2id_slot, id2w_slot = data_helper.initialize_vocabulary(
self.vocab_slot)
# For conlleval script
words_train = [
list(map(lambda x: id2w_sentence[x].decode('utf8'), w))
for w in sentence_training
]
labels_train = [
list(map(lambda x: id2w_slot[x].decode('utf8'), y))
for y in slot_training
]
words_val = [
list(map(lambda x: id2w_sentence[x].decode('utf8'), w))
for w in sentence_developing
]
labels_val = [
list(map(lambda x: id2w_slot[x].decode('utf8'), y))
for y in slot_devloping
]
# Define model
n_vocab = len(w2id_sentence)
n_classes = len(w2id_slot)
model = Sequential()
model.add(Embedding(n_vocab, 100))
model.add(Convolution1D(128, 5, border_mode='same', activation='relu'))
model.add(Dropout(0.25))
model.add(GRU(100, return_sequences=True))
model.add(TimeDistributed(Dense(n_classes, activation='softmax')))
model.compile('rmsprop', 'categorical_crossentropy')
# Training
#n_epochs = 30
n_epochs = 1
train_f_scores = []
val_f_scores = []
best_val_f1 = 0
print("Training =>")
train_pred_label = []
avgLoss = 0
for i in range(n_epochs):
print("Training epoch {}".format(i))
bar = progressbar.ProgressBar(max_value=len(sentence_training))
for n_batch, sent in bar(enumerate(sentence_training)):
label = slot_training[n_batch]
# Make labels one hot
label = np.eye(n_classes)[label][np.newaxis, :]
# View each sentence as a batch
sent = sent[np.newaxis, :]
if sent.shape[1] > 1: #ignore 1 word sentences
loss = model.train_on_batch(sent, label)
avgLoss += loss
pred = model.predict_on_batch(sent)
pred = np.argmax(pred, -1)[0]
train_pred_label.append(pred)
avgLoss = avgLoss / n_batch
predword_train = [
list(map(lambda x: id2w_slot[x].decode('utf8'), y))
for y in train_pred_label
]
con_dict = conlleval(predword_train, labels_train, words_train,
'measure.txt')
train_f_scores.append(con_dict['f1'])
print('Loss = {}, Precision = {}, Recall = {}, F1 = {}'.format(
avgLoss, con_dict['r'], con_dict['p'], con_dict['f1']))
# Save model
model.save(model_file)
print("Validating =>")
labels_pred_val = []
avgLoss = 0
bar = progressbar.ProgressBar(max_value=len(sentence_developing))
for n_batch, sent in bar(enumerate(sentence_developing)):
label = slot_devloping[n_batch]
label = np.eye(n_classes)[label][np.newaxis, :]
sent = sent[np.newaxis, :]
if sent.shape[1] > 1: #some bug in keras
loss = model.test_on_batch(sent, label)
avgLoss += loss
pred = model.predict_on_batch(sent)
pred = np.argmax(pred, -1)[0]
labels_pred_val.append(pred)
avgLoss = avgLoss / n_batch
predword_val = [
list(map(lambda x: id2w_slot[x].decode('utf8'), y))
for y in labels_pred_val
]
con_dict = conlleval(predword_val, labels_val, words_val,
'measure.txt')
val_f_scores.append(con_dict['f1'])
print('Loss = {}, Precision = {}, Recall = {}, F1 = {}'.format(
avgLoss, con_dict['r'], con_dict['p'], con_dict['f1']))
if con_dict['f1'] > best_val_f1:
best_val_f1 = con_dict['f1']
with open('model_architecture.json', 'w') as outf:
outf.write(model.to_json())
model.save_weights('best_model_weights.h5', overwrite=True)
print("Best validation F1 score = {}".format(best_val_f1))
print()
# Prevent from tensorflow bugs: BaseSession.__del__
gc.collect()
def train(model=None, re_train=False):
word_model = CustomEmbedding(
re_train=re_train
) # To prevent creating embeddings if re_train is True
train_set, valid_set, indexes = word_model.train_set, word_model.valid_set, word_model.indexes
w2idx, la2idx = indexes['w2idx'], indexes['la2idx']
idx2w, idx2la = indexes['idx2w'], indexes['idx2la']
n_classes = len(idx2la)
n_vocab = len(idx2w)
train_x, train_label = train_set
valid_x, valid_label = valid_set
log("Processing word indexes... ")
words_val = [list(map(lambda x: idx2w[x], w)) for w in valid_x]
groundtruth_val = [list(map(lambda x: idx2la[x], y)) for y in valid_label]
log("Done processing word indexes!")
if re_train == False:
'''
DEFINE MODEL
'''
model = Sequential()
model.add(word_model.EmbeddingLayer())
model.add(Conv1D(128, 5, padding="same", activation='relu'))
model.add(Dropout(Config.DROPOUT))
model.add(
Bidirectional(
LSTM(units=Config.EMBEDDING_SIZE,
dropout=Config.DROPOUT,
recurrent_dropout=Config.DROPOUT,
kernel_initializer=he_normal(),
return_sequences=True)))
model.add(SeqSelfAttention(attention_activation='sigmoid'))
# model.add(GRU(units=Config.EMBEDDING_SIZE,
# dropout=Config.DROPOUT,
# recurrent_dropout=Config.DROPOUT,
# kernel_initializer=he_normal(),
# return_sequences=True))
model.add(TimeDistributed(Dense(n_classes, activation='softmax')))
model.add(CRF(n_classes, sparse_target=False, learn_mode='join'))
model.compile(Config.OPTIMIZER,
Config.LOSS,
metrics=[crf_viterbi_accuracy])
process = Process(model)
max_f1 = 0
try:
for i in range(Config.N_EPOCHS):
log("Epoch " + str(i + 1), display=False)
highlight('violet', 'Epoch ' + str(i + 1))
partition(80)
log("Training ")
process.train(train_set)
log("Validating ")
predword_val = process.validate(valid_set)
# Accuracy tests here using (predword_val, groundtruth_val, words_val) and save best model
metrics = conlleval(predword_val, groundtruth_val, words_val,
'diff.txt')
log('Precision = {}, Recall = {}, F1 = {}'.format(
metrics['precision'], metrics['recall'], metrics['f1']))
if metrics['f1'] > max_f1:
max_f1 = metrics['f1']
process.save('trained_model_' + str(Config.FILE_PATTERN) +
'_' + str(max_f1))
log("New model saved!", display=False)
highlight('white', 'Best validation F1 score : ' + str(max_f1))
log('Best validation F1 score : ' + str(max_f1), display=False)
log('Cleaning /trained_model folder...')
clean()
log('Removed all other saved models, kept the best model only!')
except KeyboardInterrupt: # If in case ctrl + c pressed, needs to clean up and exit
log("\nTraining interrupted with ctrl + c ...")
log('Cleaning /trained_model folder...')
clean()
log('Removed all other saved models, kept the best model only!')
sys.exit()
if sent.shape[1] > 1: # ignore 1 word sentences
model.train_on_batch(sent, label)
from metrics.accuracy import conlleval
labels_pred_val = []
bar = progressbar.ProgressBar(max_value=len(train_encoded[851:]))
for n_batch, sent in bar(enumerate(train_encoded[851:])):
label = lbl_encoded[n_batch]
label = np.eye(n_classes)[label][np.newaxis, :]
sent = sent[np.newaxis, :]
pred = model.predict_on_batch(sent)
pred = np.argmax(pred, -1)[0]
labels_pred_val.append(pred)
labels_pred_val = [list(map(lambda x: idx2la[x], y)) \
for y in labels_pred_val]
con_dict = conlleval(labels_pred_val, labels_train[851:],
words_train[851:], 'measure.txt')
print('Precision = {}, Recall = {}, F1 = {}'.format(
con_dict['r'], con_dict['p'], con_dict['f1']))
# model.fit(x=train_x, y=train_label, steps_per_epoch=1,callbacks=[checkpointer, tensorboard])
model.save_weights(path + "music_LSTM-" + str(i) + ".h5")
model_json = model.to_json()
with open(path + "model_embed_lstm.json", "w") as jf:
jf.write(model_json)
def run(params):
start_time = time.time()
folder = os.path.basename(__file__).split('.')[0]
if not os.path.exists(folder): os.mkdir(folder)
rhoList = numpy.array([100, 50]).astype(
numpy.int32
) # 100,90,80,70,60,50,0 # combining forward and backward layers
# load the dataset
eval_options = []
params['measure'] = 'F1score'
if params['dataset'] == 'atis':
train_set, valid_set, test_set, dic = loadData.atisfold(params['fold'])
if params['dataset'] == 'ner':
train_set, valid_set, test_set, dic = loadData.ner()
if params['dataset'] == 'chunk':
train_set, valid_set, test_set, dic = loadData.chunk()
if params['dataset'] == 'pos':
train_set, valid_set, test_set, dic = loadData.pos()
eval_options = ['-r']
params['measure'] = 'Accuracy'
idx2label = dict((k, v) for v, k in dic['labels2idx'].items())
idx2word = dict((k, v) for v, k in dic['words2idx'].items())
train_lex, train_ne, train_y = train_set
valid_lex, valid_ne, valid_y = valid_set
test_lex, test_ne, test_y = test_set
## :( hack
# train_lex = train_lex[::100]
# train_ne = train_ne[::100]
# train_y = train_y[::100]
# valid_lex = valid_lex[::100]
# valid_ne = valid_ne[::100]
# valid_y = valid_y[::100]
# test_lex = test_lex[::100]
# test_ne = test_ne[::100]
# test_y = test_y[::100]
vocsize = len(dic['words2idx'])
nclasses = len(dic['labels2idx'])
nsentences = len(train_lex)
wv = None
if params['WVFolder'] != 'random':
if '[' in params['WVFolder'] and ']' in params['WVFolder']:
folderSet = set(
eval(params['WVFolder'].replace('[', '[\'').replace(
']', '\']').replace(',', '\',\'')))
print(folderSet)
wv = numpy.zeros(
(vocsize + 1,
params['WVModel']['emb_dimension'] * len(folderSet)))
modelIndex = 0
for folder in folderSet:
params['WVFile'] = folder + '/' + 'words' + str(
params['WVModel']['emb_dimension']) + '.npy'
params['WVVocabFile'] = folder + '/' + 'words' + str(
params['WVModel']['emb_dimension']) + '.vocab'
# load word vector
wvnp = np.load(params['WVFile'])
# load vocab
with open(params['WVVocabFile']) as f:
vocab = [line.strip() for line in f if len(line) > 0]
wi = dict([(a, i) for i, a in enumerate(vocab)])
random_v = math.sqrt(
6.0 / numpy.sum(params['WVModel']['emb_dimension'])
) * numpy.random.uniform(-1.0, 1.0,
(params['WVModel']['emb_dimension']))
miss = 0 # the number of missing words in pre-trained word embeddings
for i in range(0, vocsize):
word = idx2word[i]
if word in wi:
wv[i][params['WVModel']['emb_dimension'] *
modelIndex:params['WVModel']['emb_dimension'] *
(modelIndex + 1)] = wvnp[wi[word]]
# print wvnp[wi[word]]
else:
wv[i][params['WVModel']['emb_dimension'] *
modelIndex:params['WVModel']['emb_dimension'] *
(modelIndex + 1)] = random_v
miss += 1
print("missing words rate : ", miss, '/', vocsize)
params['WVModel']['vocab_size'] = len(vocab)
modelIndex = modelIndex + 1
params['WVModel']['emb_dimension'] *= len(folderSet)
# return
else:
folder = params['WVFolder']
params['WVFile'] = folder + '/' + 'words' + str(
params['WVModel']['emb_dimension']) + '.npy'
params['WVVocabFile'] = folder + '/' + 'words' + str(
params['WVModel']['emb_dimension']) + '.vocab'
# load word vector
wvnp = np.load(params['WVFile'])
params['WVModel']['emb_dimension'] = len(wvnp[0])
# load vocab
with open(params['WVVocabFile']) as f:
vocab = [line.strip() for line in f if len(line) > 0]
wi = dict([(a, i) for i, a in enumerate(vocab)])
wv = numpy.zeros((vocsize + 1, params['WVModel']['emb_dimension']))
random_v = math.sqrt(6.0 / numpy.sum(
params['WVModel']['emb_dimension'])) * numpy.random.uniform(
-1.0, 1.0, (params['WVModel']['emb_dimension']))
miss = 0 # the number of missing words in pre-trained word embeddings
for i in range(0, vocsize):
word = idx2word[i]
if word in wi:
wv[i] = wvnp[wi[word]]
# print wvnp[wi[word]]
else:
wv[i] = random_v
miss += 1
print("missing words rate : ", miss, '/', vocsize)
params['WVModel']['vocab_size'] = len(vocab)
print(json.dumps(params, sort_keys=True, indent=4, separators=(',', ': ')))
rhoSuffix = "%_forward"
best_valid = {}
best_test = {}
for i_rho in range(len(rhoList)):
best_valid[str(rhoList[i_rho]) + rhoSuffix] = -numpy.inf
best_test[str(rhoList[i_rho]) + rhoSuffix] = -numpy.inf
validMeasureList = {}
testMeasureList = {} # this is used for drawing line chart.
for i_rho in range(len(rhoList)):
validMeasureList[str(rhoList[i_rho]) + rhoSuffix] = []
testMeasureList[str(rhoList[i_rho]) + rhoSuffix] = []
# instanciate the model
numpy.random.seed(params['seed'])
random.seed(params['seed'])
rnn = elman_attention.model(nh=params['nhidden'],
nc=nclasses,
ne=vocsize,
de=params['WVModel']['emb_dimension'],
attention=params['attention'],
h_win=(params['h_win_left'],
params['h_win_right']),
lvrg=params['lvrg'],
wv=wv)
# train
for e in range(params['nepochs']):
# shuffle
shuffle([train_lex, train_ne, train_y], params['seed'])
tic = time.time()
for i in range(nsentences):
cwords = contextwin(train_lex[i])
labels = train_y[i]
nl, aaL = rnn.train(cwords, labels, params['dropRate'], 1)
# rnn.normalize()
if params['verbose']:
sys.stdout.write(
('\r[learning] epoch %i >> %2.2f%%' %
(e, (i + 1) * 100. / nsentences) +
(' average speed in %.2f (min) <<' %
((time.time() - tic) / 60 / (i + 1) * nsentences)) +
(' completed in %.2f (sec) <<' % ((time.time() - tic)))))
sys.stdout.flush()
print('start test', time.time() / 60)
print('start pred train', time.time() / 60)
predictions_train = [[map(lambda varible: idx2label[varible], w) \
for w in rnn.classify(numpy.asarray(contextwin(x)).astype('int32'), params['dropRate'], 0, rhoList)]
for x in train_lex]
predictions_test = [[map(lambda varible: idx2label[varible], w) \
for w in rnn.classify(numpy.asarray(contextwin(x)).astype('int32'), params['dropRate'], 0, rhoList)]
for x in test_lex]
predictions_valid = [[map(lambda varible: idx2label[varible], w) \
for w in rnn.classify(numpy.asarray(contextwin(x)).astype('int32'), params['dropRate'], 0, rhoList)]
for x in valid_lex]
for i_rho in range(len(rhoList)):
groundtruth_train = [
map(lambda x: idx2label[x], y) for y in train_y
]
words_train = [map(lambda x: idx2word[x], w) for w in train_lex]
groundtruth_test = [map(lambda x: idx2label[x], y) for y in test_y]
words_test = [map(lambda x: idx2word[x], w) for w in test_lex]
groundtruth_valid = [
map(lambda x: idx2label[x], y) for y in valid_y
]
words_valid = [map(lambda x: idx2word[x], w) for w in valid_lex]
ptrain = [p[i_rho] for p in predictions_train]
ptest = [p[i_rho] for p in predictions_test]
pvalid = [p[i_rho] for p in predictions_valid]
res_train = conlleval(
ptrain, groundtruth_train, words_train, folder +
'/current.train.txt' + str(i_rho) + str(params['seed']),
eval_options)
res_test = conlleval(
ptest, groundtruth_test, words_test, folder +
'/current.test.txt' + str(i_rho) + str(params['seed']),
eval_options)
res_valid = conlleval(
pvalid, groundtruth_valid, words_valid, folder +
'/current.valid.txt' + str(i_rho) + str(params['seed']),
eval_options)
print(' epoch', e, ' rhoList ',
i_rho, ' train p', res_train['p'], 'valid p',
res_valid['p'], ' train r', res_train['r'], 'valid r',
res_valid['r'], ' train ', params['measure'],
res_train['measure'], 'valid ', params['measure'],
res_valid['measure'], 'best test ', params['measure'],
res_test['measure'], ' ' * 20)
validMeasureList[str(rhoList[i_rho]) + rhoSuffix].append(
res_valid['measure'])
testMeasureList[str(rhoList[i_rho]) + rhoSuffix].append(
res_test['measure'])
if res_valid['measure'] > best_valid[str(rhoList[i_rho]) +
rhoSuffix]:
best_valid[str(rhoList[i_rho]) +
rhoSuffix] = res_valid['measure']
best_test[str(rhoList[i_rho]) +
rhoSuffix] = res_test['measure']
for i_rho in range(
len(rhoList)): # this is used for drawing line chart.
print(i_rho, params['dataset'], end=' ')
for v in testMeasureList[str(rhoList[i_rho]) + rhoSuffix]:
print(v, end=' ')
print('')
for i_rho in range(len(rhoList)):
print('current best results', rhoList[i_rho], ' ',
best_valid[str(rhoList[i_rho]) + rhoSuffix], '/',
best_test[str(rhoList[i_rho]) + rhoSuffix])
end_time = time.time()
with open(params['JSONOutputFile'], 'w') as outputFile:
params['results'] = {}
params['results']['best_valid_' + params['measure']] = best_valid
params['results']['best_test_' + params['measure']] = best_test
params['results']['valid_' + params['measure'] +
'ListBasedOnEpochs'] = validMeasureList
params['results']['test_' + params['measure'] +
'ListBasedOnEpochs'] = testMeasureList
params['running_time'] = {}
params['running_time']['start'] = time.strftime(
"%Y-%m-%d %H:%M:%S", time.localtime(start_time))
params['running_time']['end'] = time.strftime("%Y-%m-%d %H:%M:%S",
time.localtime(end_time))
params['running_time']['duration'] = end_time - start_time
res = json.dump(params,
outputFile,
sort_keys=True,
indent=4,
separators=(',', ': '))
print(res)
sent = sent[np.newaxis, :]
# if sent.shape[1] > 1: # some bug in keras
# loss = model.train_on_batch(sent, label)
# avgLoss += loss
pred = model.predict_on_batch(sent)
pred = np.argmax(pred, -1)[0]
train_pred_label.append(pred)
avgLoss = avgLoss / n_batch
predword_train = [
list(map(lambda x: idx2la[x], y)) for y in train_pred_label
]
con_dict = conlleval(predword_train, groundtruth_train, words_train,
'r.txt')
train_f_scores.append(con_dict['f1'])
print('Loss = {}, Precision = {}, Recall = {}, F1 = {}'.format(
avgLoss, con_dict['r'], con_dict['p'], con_dict['f1']))
print("Validating =>")
val_pred_label = []
avgLoss = 0
bar = progressbar.ProgressBar(max_value=len(val_x))
for n_batch, sent in bar(enumerate(val_x)):
label = val_label[n_batch]
label = np.eye(n_classes)[label][np.newaxis, :]
sent = sent[np.newaxis, :]
label = train_label[n_batch]
label = np.eye(n_classes)[label][np.newaxis,:]
sent = sent[np.newaxis,:]
if sent.shape[1] > 1: #some bug in keras
loss = model.train_on_batch(sent, label)
avgLoss += loss
pred = model.predict_on_batch(sent)
pred = np.argmax(pred,-1)[0]
train_pred_label.append(pred)
avgLoss = avgLoss/n_batch
predword_train = [ list(map(lambda x: idx2la[x], y)) for y in train_pred_label]
con_dict = conlleval(predword_train, groundtruth_train, words_train, 'r.txt')
train_f_scores.append(con_dict['f1'])
print('Loss = {}, Precision = {}, Recall = {}, F1 = {}'.format(avgLoss, con_dict['r'], con_dict['p'], con_dict['f1']))
print("Validating =>")
val_pred_label = []
avgLoss = 0
bar = progressbar.ProgressBar(max_value=len(val_x))
for n_batch, sent in bar(enumerate(val_x)):
label = val_label[n_batch]
label = np.eye(n_classes)[label][np.newaxis,:]
sent = sent[np.newaxis,:]
def prepare_data():
"""Prepare the data"""
conf = {
'fold': 3, # 5 folds 0,1,2,3,4
'lr': 0.0627142536696559,
'verbose': True,
'decay': True, # decay on the learning rate if improvement stops
'win': 7, # number of words in the context window
'bs': 9, # number of back-propagation through time steps
'nhidden': 100, # number of hidden units
'seed': 345,
'emb_dimension': 300, # dimension of word embedding
'nepochs': 50
}
np.random.seed(conf['seed'])
random.seed(conf['seed'])
session_files = get_session_files(
number_of_files=None,
random_seed=conf['seed']) # Limit the scope To speed things up...
sentences = []
idxes = []
labels = []
labels_idxes = []
print "Calculate words2idx"
words2idx = get_words2idx(session_files)
unknown = words2idx["<UNK>"]
print "Calculate output"
for session_file in session_files:
session = json.loads(open(session_file, "rb").read())
sentence = session_to_text0(session)
if not sentence.strip():
continue
sentences.append(sentence)
token_list = tokenize(sentence.lower())
dtp_search_res = dtp_search(sentence, None)
iobes = to_iob(token_list, dtp_search_res)
labels.append(iobes)
labels_idxes.append(
np.fromiter((LABELS2IDX[iob] for iob in iobes), dtype=np.int32))
# token_list = [re.sub(r"\d", "DIGIT", token) for token in token_list]
idxes.append(
np.fromiter(
(words2idx.get(token, unknown) for token in token_list),
dtype=np.int32))
print "Prepare train, validation and test sets"
train_valid_lex, test_lex, train_valid_y, test_y = train_test_split(
idxes, labels_idxes, test_size=0.15, random_state=42)
train_lex, valid_lex, train_y, valid_y = train_test_split(train_valid_lex,
train_valid_y,
test_size=0.2,
random_state=42)
idx2label = dict(
(k, v) for v, k in LABELS2IDX.iteritems()) # Reverse the dictionary
idx2word = dict(
(k, v) for v, k in words2idx.iteritems()) # Reverse the dictionary
vocsize = len(idx2word)
nclasses = len({label for labels in labels_idxes for label in labels})
# nclasses = len(set(reduce(lambda x, y: list(x) + list(y), train_y + test_y + valid_y)))
nsentences = len(train_lex)
folder = os.path.basename(__file__).split('.')[0]
if not os.path.exists(folder):
os.mkdir(folder)
print "Loading Word2Vec"
word2vec = Word2Vec.load_word2vec_format(WORD2VEC_FILENAME,
binary=True) # C binary format
print "Calculate word embeddings"
embeddings = 0.2 * np.random.uniform(
-1.0, 1.0, (vocsize + 1, conf['emb_dimension'])).astype(
theano.config.floatX
) # add one for PADDING at the end @UndefinedVariable
for idx, word in idx2word.iteritems():
try:
embedding = word2vec[word]
except KeyError:
try:
embedding = word2vec[word.capitalize()]
except KeyError:
embedding = embeddings[idx] # Keep it random
embeddings[idx] = embedding
del word2vec # It is huge
print "Create a Neural Network"
rnn = elman2vec(nh=conf['nhidden'],
nc=nclasses,
ne=vocsize,
de=conf['emb_dimension'],
cs=conf['win'],
embeddings=embeddings)
# train with early stopping on validation set
best_f1 = -np.inf
conf['clr'] = conf['lr']
print "Start training"
for epoch in xrange(conf['nepochs']):
# shuffle
shuffle([train_lex, train_y], conf['seed'])
conf['ce'] = epoch
tic = time.time()
for i in xrange(nsentences):
cwords = contextwin(train_lex[i], conf['win'])
words = [
np.asarray(x).astype(np.int32)
for x in minibatch(cwords, conf['bs'])
]
labels = train_y[i]
for word_batch, label_last_word in zip(words, labels):
rnn.train(word_batch, label_last_word, conf['clr'])
# rnn.normalize()
if conf['verbose']:
print '[learning] epoch %i >> %2.2f%%' % (
epoch, (i + 1) * 100. / nsentences
), 'completed in %.2f (sec) <<\r' % (time.time() - tic),
sys.stdout.flush()
# evaluation // back into the real world : idx -> words
predictions_test = [ map(lambda x: idx2label[x], \
rnn.classify(np.asarray(contextwin(x, conf['win'])).astype('int32')))\
for x in test_lex ]
groundtruth_test = [map(lambda x: idx2label[x], y) for y in test_y]
words_test = [map(lambda x: idx2word[x], w) for w in test_lex]
predictions_valid = [ map(lambda x: idx2label[x], \
rnn.classify(np.asarray(contextwin(x, conf['win'])).astype('int32')))\
for x in valid_lex ]
groundtruth_valid = [map(lambda x: idx2label[x], y) for y in valid_y]
words_valid = [map(lambda x: idx2word[x], w) for w in valid_lex]
# evaluation // compute the accuracy using conlleval.pl
res_test = conlleval(predictions_test, groundtruth_test, words_test,
folder + '/current.test.txt')
res_valid = conlleval(predictions_valid, groundtruth_valid,
words_valid, folder + '/current.valid.txt')
if res_valid['f1'] > best_f1:
rnn.save(folder)
best_f1 = res_valid['f1']
print 'NEW BEST: epoch', epoch, 'valid F1', res_valid[
'f1'], 'best test F1', res_test['f1'], ' ' * 20
conf['vf1'], conf['vp'], conf['vr'] = res_valid['f1'], res_valid[
'p'], res_valid['r']
conf['tf1'], conf['tp'], conf['tr'] = res_test['f1'], res_test[
'p'], res_test['r']
conf['be'] = epoch
subprocess.call([
'mv', folder + '/current.test.txt', folder + '/best.test.txt'
])
subprocess.call([
'mv', folder + '/current.valid.txt', folder + '/best.valid.txt'
])
else:
print ' : epoch', epoch, 'valid F1', res_valid[
'f1'], ' test F1', res_test['f1'], ' ' * 20
# learning rate decay if no improvement in 10 epochs
if conf['decay'] and abs(conf['be'] - conf['ce']) >= 10:
conf['clr'] *= 0.5
if conf['clr'] < 1e-5:
break
print 'BEST RESULT: epoch', epoch, 'valid F1', res_valid[
'f1'], 'best test F1', res_test['f1'], 'with the model', folder
def play_with_splitting_sentences():
"""Play with splitting sentences"""
conf = { # 'fold': 3, # 5 folds 0,1,2,3,4
'lr': 0.0627142536696559,
'verbose': False,
'decay': True, # decay on the learning rate if improvement stops
'win': 15, # number of characters in the context window
'bs': 5, # number of back-propagation through time steps
'nhidden': 100, # number of hidden units
'seed': 345,
'emb_dimension': 30, # dimension of character embedding
'nepochs': 10
}
number_of_files = 50000
np.random.seed(conf['seed'])
random.seed(conf['seed'])
print "Calculate output"
session_files = get_session_files(
number_of_files=number_of_files,
random_seed=conf['seed']) # Limit the scope To speed things up...
labels2idx = {"O": 0, "X": 1}
sentences = []
idxes = []
labels_idxes = []
labels = []
char2idx = get_char_to_idx(session_files)
for session_file in session_files:
session = json.loads(open(session_file, "rb").read())
sentence = session_to_text0(session)
if not sentence.strip():
continue
sentence_out, label = create_test(sentence, probability=0.2)
sentences.append(sentence_out)
labels.append(label)
labels_idxes.append(
np.fromiter((labels2idx[l] for l in label), dtype=np.uint32))
idxes.append(
np.fromiter((char2idx[char] for char in sentence_out),
dtype=np.uint32))
print "Prepare train, validation and test sets"
train_valid_lex, test_lex, train_valid_y, test_y = train_test_split(
idxes, labels_idxes, test_size=0.15, random_state=42)
train_lex, valid_lex, train_y, valid_y = train_test_split(train_valid_lex,
train_valid_y,
test_size=0.2,
random_state=42)
print "Some more prep"
idx2label = dict(
(k, v) for v, k in labels2idx.iteritems()) # Reverse the dictionary
idx2word = dict(
(k, v) for v, k in char2idx.iteritems()) # Reverse the dictionary
# vocsize = 1 + len(set(reduce(\
# lambda x, y: list(x)+list(y),\
# train_lex+valid_lex+test_lex)))
vocsize = 1 + len(
set(item for lex in (train_lex, valid_lex, test_lex) for sublist in lex
for item in sublist))
nclasses = 2 #len(set(reduce(lambda x, y: list(x) + list(y), train_y + test_y + valid_y)))
nsentences = len(train_lex)
print "Some file os calls"
folder = os.path.basename(__file__).split('.')[0] + "_3"
if not os.path.exists(folder):
os.mkdir(folder)
print "Create a Neural Network"
rnn = regular_elman(
nh=conf['nhidden'],
nc=nclasses,
ne=vocsize,
de=conf['emb_dimension'],
cs=conf['win'],
)
# train with early stopping on validation set
best_f1 = -np.inf
conf['clr'] = conf['lr']
print "Start training"
start_time = time.time()
for epoch in xrange(conf['nepochs']):
# shuffle
shuffle([train_lex, train_y], conf['seed'])
conf['ce'] = epoch
tic = time.time()
for i in xrange(nsentences):
cwords = contextwin(train_lex[i], conf['win'])
words = [
np.asarray(x).astype(np.int32)
for x in minibatch(cwords, conf['bs'])
]
labels = train_y[i]
for word_batch, label_last_word in zip(words, labels):
rnn.train(word_batch, label_last_word, conf['clr'])
rnn.normalize()
if conf['verbose']:
print '[learning] epoch %i >> %2.2f%%' % (
epoch, (i + 1) * 100. / nsentences
), 'completed in %.2f (sec) <<\r' % (time.time() - tic),
sys.stdout.flush()
# evaluation // back into the real world : idx -> words
predictions_test = [ map(lambda x: idx2label[x], \
rnn.classify(np.asarray(contextwin(x, conf['win'])).astype('int32')))\
for x in test_lex ]
groundtruth_test = [map(lambda x: idx2label[x], y) for y in test_y]
words_test = [map(lambda x: idx2word[x], w) for w in test_lex]
predictions_valid = [ map(lambda x: idx2label[x], \
rnn.classify(np.asarray(contextwin(x, conf['win'])).astype('int32')))\
for x in valid_lex ]
groundtruth_valid = [map(lambda x: idx2label[x], y) for y in valid_y]
words_valid = [map(lambda x: idx2word[x], w) for w in valid_lex]
# evaluation // compute the accuracy using conlleval.pl
res_test = conlleval(predictions_test, groundtruth_test, words_test,
folder + '/current.test.txt')
res_valid = conlleval(predictions_valid, groundtruth_valid,
words_valid, folder + '/current.valid.txt')
if res_valid['f1'] > best_f1:
rnn.save(folder)
best_f1 = res_valid['f1']
print 'NEW BEST: epoch', epoch, 'valid F1', res_valid[
'f1'], 'best test F1', res_test['f1'], ' ' * 20
conf['vf1'], conf['vp'], conf['vr'] = res_valid['f1'], res_valid[
'p'], res_valid['r']
conf['tf1'], conf['tp'], conf['tr'] = res_test['f1'], res_test[
'p'], res_test['r']
conf['be'] = epoch
subprocess.call([
'mv', folder + '/current.test.txt', folder + '/best.test.txt'
])
subprocess.call([
'mv', folder + '/current.valid.txt', folder + '/best.valid.txt'
])
else:
print ' : epoch', epoch, 'valid F1', res_valid[
'f1'], ' test F1', res_test['f1'], ' ' * 20
# learning rate decay if no improvement in 10 epochs
if conf['decay'] and abs(conf['be'] - conf['ce']) >= 10:
conf['clr'] *= 0.5
if conf['clr'] < 1e-5:
break
print 'BEST RESULT: epoch', conf[
'be'], 'valid F1', best_f1, 'best test F1', conf[
'tf1'], 'with the model', folder
print "total time = {} seconds".format(time.time() - start_time)
def prepare_data():
"""Prepare the data"""
conf = {'fold': 3, # 5 folds 0,1,2,3,4
'lr': 0.0627142536696559,
'verbose': True,
'decay': True, # decay on the learning rate if improvement stops
'win': 7, # number of words in the context window
'bs': 9, # number of back-propagation through time steps
'nhidden': 100, # number of hidden units
'seed': 345,
'emb_dimension': 300, # dimension of word embedding
'nepochs': 50}
np.random.seed(conf['seed'])
random.seed(conf['seed'])
session_files = get_session_files(number_of_files=None, random_seed=conf['seed']) # Limit the scope To speed things up...
sentences = []
idxes = []
labels = []
labels_idxes = []
print "Calculate words2idx"
words2idx = get_words2idx(session_files)
unknown = words2idx["<UNK>"]
print "Calculate output"
for session_file in session_files:
session = json.loads(open(session_file, "rb").read())
sentence = session_to_text0(session)
if not sentence.strip():
continue
sentences.append(sentence)
token_list = tokenize(sentence.lower())
dtp_search_res = dtp_search(sentence, None)
iobes = to_iob(token_list, dtp_search_res)
labels.append(iobes)
labels_idxes.append(np.fromiter((LABELS2IDX[iob] for iob in iobes), dtype=np.int32))
# token_list = [re.sub(r"\d", "DIGIT", token) for token in token_list]
idxes.append(np.fromiter((words2idx.get(token, unknown) for token in token_list), dtype=np.int32))
print "Prepare train, validation and test sets"
train_valid_lex, test_lex, train_valid_y, test_y = train_test_split(idxes, labels_idxes, test_size=0.15, random_state=42)
train_lex, valid_lex, train_y, valid_y = train_test_split(train_valid_lex, train_valid_y, test_size=0.2, random_state=42)
idx2label = dict((k, v) for v, k in LABELS2IDX.iteritems()) # Reverse the dictionary
idx2word = dict((k, v) for v, k in words2idx.iteritems()) # Reverse the dictionary
vocsize = len(idx2word)
nclasses = len({label for labels in labels_idxes for label in labels})
# nclasses = len(set(reduce(lambda x, y: list(x) + list(y), train_y + test_y + valid_y)))
nsentences = len(train_lex)
folder = os.path.basename(__file__).split('.')[0]
if not os.path.exists(folder):
os.mkdir(folder)
print "Loading Word2Vec"
word2vec = Word2Vec.load_word2vec_format(WORD2VEC_FILENAME, binary=True) # C binary format
print "Calculate word embeddings"
embeddings = 0.2 * np.random.uniform(-1.0, 1.0, (vocsize + 1, conf['emb_dimension'])).astype(theano.config.floatX) # add one for PADDING at the end @UndefinedVariable
for idx, word in idx2word.iteritems():
try:
embedding = word2vec[word]
except KeyError:
try:
embedding = word2vec[word.capitalize()]
except KeyError:
embedding = embeddings[idx] # Keep it random
embeddings[idx] = embedding
del word2vec # It is huge
print "Create a Neural Network"
rnn = elman2vec(nh=conf['nhidden'],
nc=nclasses,
ne=vocsize,
de=conf['emb_dimension'],
cs=conf['win'],
embeddings=embeddings)
# train with early stopping on validation set
best_f1 = -np.inf
conf['clr'] = conf['lr']
print "Start training"
for epoch in xrange(conf['nepochs']):
# shuffle
shuffle([train_lex, train_y], conf['seed'])
conf['ce'] = epoch
tic = time.time()
for i in xrange(nsentences):
cwords = contextwin(train_lex[i], conf['win'])
words = [np.asarray(x).astype(np.int32) for x in minibatch(cwords, conf['bs'])]
labels = train_y[i]
for word_batch , label_last_word in zip(words, labels):
rnn.train(word_batch, label_last_word, conf['clr'])
# rnn.normalize()
if conf['verbose']:
print '[learning] epoch %i >> %2.2f%%' % (epoch, (i + 1) * 100. / nsentences), 'completed in %.2f (sec) <<\r' % (time.time() - tic),
sys.stdout.flush()
# evaluation // back into the real world : idx -> words
predictions_test = [ map(lambda x: idx2label[x], \
rnn.classify(np.asarray(contextwin(x, conf['win'])).astype('int32')))\
for x in test_lex ]
groundtruth_test = [ map(lambda x: idx2label[x], y) for y in test_y ]
words_test = [ map(lambda x: idx2word[x], w) for w in test_lex]
predictions_valid = [ map(lambda x: idx2label[x], \
rnn.classify(np.asarray(contextwin(x, conf['win'])).astype('int32')))\
for x in valid_lex ]
groundtruth_valid = [ map(lambda x: idx2label[x], y) for y in valid_y ]
words_valid = [ map(lambda x: idx2word[x], w) for w in valid_lex]
# evaluation // compute the accuracy using conlleval.pl
res_test = conlleval(predictions_test, groundtruth_test, words_test, folder + '/current.test.txt')
res_valid = conlleval(predictions_valid, groundtruth_valid, words_valid, folder + '/current.valid.txt')
if res_valid['f1'] > best_f1:
rnn.save(folder)
best_f1 = res_valid['f1']
print 'NEW BEST: epoch', epoch, 'valid F1', res_valid['f1'], 'best test F1', res_test['f1'], ' ' * 20
conf['vf1'], conf['vp'], conf['vr'] = res_valid['f1'], res_valid['p'], res_valid['r']
conf['tf1'], conf['tp'], conf['tr'] = res_test['f1'], res_test['p'], res_test['r']
conf['be'] = epoch
subprocess.call(['mv', folder + '/current.test.txt', folder + '/best.test.txt'])
subprocess.call(['mv', folder + '/current.valid.txt', folder + '/best.valid.txt'])
else:
print ' : epoch', epoch, 'valid F1', res_valid['f1'], ' test F1', res_test['f1'], ' ' * 20
# learning rate decay if no improvement in 10 epochs
if conf['decay'] and abs(conf['be'] - conf['ce']) >= 10:
conf['clr'] *= 0.5
if conf['clr'] < 1e-5:
break
print 'BEST RESULT: epoch', epoch, 'valid F1', res_valid['f1'], 'best test F1', res_test['f1'], 'with the model', folder
