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train_doc.py
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train_doc.py
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'''
Code to accompany
"Unsupervised Discovery of Multimodal Links in Multi-Sentence/Multi-Image Documents."
https://github.com/jmhessel/multi-retrieval
This is a work-in-progress TF2.0 port.
'''
import argparse
import collections
import json
import tensorflow as tf
import numpy as np
import os
import sys
import tqdm
import text_utils
import image_utils
import eval_utils
import model_utils
import training_utils
import bipartite_utils
import pickle
import sklearn.preprocessing
from pprint import pprint
def load_data(fname):
with open(fname) as f:
return json.loads(f.read())
def parse_args():
parser = argparse.ArgumentParser()
parser.add_argument('documents',
help='json of train/val/test documents.')
parser.add_argument('--image_features',
help='path to pre-extracted image-feature numpy array.')
parser.add_argument('--image_id2row',
help='path to mapping from image id --> numpy row for image features.')
parser.add_argument('--joint_emb_dim',
type=int,
help='Embedding dimension of the shared, multimodal space.',
default=1024)
parser.add_argument('--margin',
type=float,
help='Margin for computing hinge loss.',
default=.2)
parser.add_argument('--seq_len',
type=int,
help='Maximum token sequence length for each sentence before truncation.',
default=20)
parser.add_argument('--docs_per_batch',
type=int,
help='How many docs per batch? 11 docs = 10 negative samples per doc.',
default=11)
parser.add_argument('--neg_mining',
help='What type of negative mining?',
default='hard_negative',
choices=['negative_sample', 'hard_negative'],
type=str)
parser.add_argument('--sim_mode',
help='What similarity function should we use?',
default='AP',
choices=['DC','TK','AP'],
type=str)
parser.add_argument('--sim_mode_k',
help='If --sim_mode=TK/AP, what should the k be? '
'k=-1 for dynamic = min(n_images, n_sentences))? '
'if k > 0, then k=ceil(1./k * min(n_images, n_sentences))',
default=-1,
type=float)
parser.add_argument('--lr',
type=float,
help='Starting learning rate',
default=.0002)
parser.add_argument('--n_epochs',
type=int,
help='How many epochs to run for?',
default=60)
parser.add_argument('--checkpoint_dir',
type=str,
help='What directory to save checkpoints in?',
default='checkpoints')
parser.add_argument('--word2vec_binary',
type=str,
help='If cached word embeddings have not been generated, '
'what is the location of the word2vec binary?',
default=None)
parser.add_argument('--cached_word_embeddings',
type=str,
help='Where are/will the cached word embeddings saved?',
default='cached_word2vec.json')
parser.add_argument('--print_metrics',
type=int,
help='Should we print the metrics if there are ground-truth '
'labels, or no?',
default=0)
parser.add_argument('--cached_vocab',
type=str,
help='Where should we cache the vocab, if anywhere '
'(None means no caching)',
default=None)
parser.add_argument('--output',
type=str,
default=None,
help='If output is set, we will save a pkl file'
'with the validation/test metrics.')
parser.add_argument('--seed',
type=int,
help='Random seed',
default=1)
parser.add_argument('--dropout',
type=float,
default=0.5,
help='How much dropout should we apply?')
parser.add_argument('--subsample_image',
type=int,
default=-1,
help='Should we subsample images to constant lengths? '
'This option is useful if the model is being trained end2end '
'and there are memory issues.')
parser.add_argument('--subsample_text',
type=int,
default=-1,
help='Should we subsample sentences to constant lengths? '
'This option is useful if the model is being trained end2end '
'and there are memory issues.')
parser.add_argument('--rnn_type',
type=str,
default='GRU',
help='What RNN should we use')
parser.add_argument('--end2end',
type=int,
default=0,
help='Should we backprop through the whole vision network?')
parser.add_argument('--image_dir',
type=str,
default=None,
help='What image dir should we use, if end2end?')
parser.add_argument('--lr_patience',
type=int,
default=3,
help='What learning rate patience should we use?')
parser.add_argument('--lr_decay',
type=float,
default=.2,
help='What learning rate decay factor should we use?')
parser.add_argument('--min_lr',
type=float,
default=.0000001,
help='What learning rate decay factor should we use?')
parser.add_argument('--full_image_paths',
type=int,
default=0,
help='For end2end training, should we use full image paths '
'(i.e., is the file extention already on images?)?')
parser.add_argument('--test_eval',
type=int,
help='(DEBUG OPTION) If test_eval >= 1, then training '
'only happens over this many batches',
default=-1)
parser.add_argument('--force',
type=int,
default=0,
help='Should we force the run if the output exists?')
parser.add_argument('--save_predictions',
type=str,
default=None,
help='Should we save the train/val/test predictions? '
'If so --- they will be saved in this directory.')
parser.add_argument('--image_model_checkpoint',
type=str,
default=None,
help='If set, the image model will be initialized from '
'this model checkpoint.')
parser.add_argument('--text_model_checkpoint',
type=str,
default=None,
help='If set, the text model will be initialized from '
'this model checkpoint.')
parser.add_argument('--loss_mode',
help='What loss function should we use?',
default='hinge',
choices=['hinge', 'logistic', 'softmax'],
type=str)
parser.add_argument('--compute_mscoco_eval_metrics',
help='Should we compute the mscoco MT metrics?',
default=0,
type=int)
parser.add_argument('--compute_metrics_train',
help='Should we also compute metrics over the training set?',
default=1,
type=int)
parser.add_argument('--lr_warmup_steps',
help='If positive value, we will warmup the learning rate linearly '
'over this many steps.',
default=-1,
type=int)
parser.add_argument('--l2_norm',
help='If 1, we will l2 normalize extracted features, else, no normalization.',
default=1,
type=int)
parser.add_argument('--n_layers',
help='How many layers in the encoders?',
default=1,
type=int,
choices=[1,2,3])
parser.add_argument('--scale_image_features',
help='Should we standard scale image features?',
default=0,
type=int)
args = parser.parse_args()
# check to make sure that various flags are set correctly
if args.end2end:
assert args.image_dir is not None
if not args.end2end:
assert args.image_features is not None and args.image_id2row is not None
# print out some info about the run's inputs/outputs
if args.output and '.pkl' not in args.output:
args.output += '.pkl'
if args.output:
print('Output will be saved to {}'.format(args.output))
print('Model checkpoints will be saved in {}'.format(args.checkpoint_dir))
if args.output and os.path.exists(args.output) and not args.force:
print('{} already done! If you want to force it, set --force 1'.format(args.output))
quit()
if not os.path.exists(args.checkpoint_dir):
os.makedirs(args.checkpoint_dir)
if args.save_predictions:
if not os.path.exists(args.checkpoint_dir):
os.makedirs(args.checkpoint_dir)
os.makedirs(args.checkpoint_dir + '/train')
os.makedirs(args.checkpoint_dir + '/val')
os.makedirs(args.checkpoint_dir + '/test')
return args
def main():
args = parse_args()
np.random.seed(args.seed)
data = load_data(args.documents)
train, val, test = data['train'], data['val'], data['test']
np.random.shuffle(train); np.random.shuffle(val); np.random.shuffle(test)
max_n_sentence, max_n_image = -1, -1
for d in train + val + test:
imgs, sents, meta = d
max_n_sentence = max(max_n_sentence, len(sents))
max_n_image = max(max_n_image, len(imgs))
# remove zero image/zero sentence cases:
before_lens = list(map(len, [train, val, test]))
train = [t for t in train if len(t[0]) > 0 and len(t[1]) > 0]
val = [t for t in val if len(t[0]) > 0 and len(t[1]) > 0]
test = [t for t in test if len(t[0]) > 0 and len(t[1]) > 0]
after_lens = list(map(len, [train, val, test]))
for bl, al, split in zip(before_lens, after_lens, ['train', 'val', 'test']):
if bl == al: continue
print('Removed {} documents from {} split that had zero images and/or sentences'.format(
bl-al, split))
print('Max n sentence={}, max n image={}'.format(max_n_sentence, max_n_image))
if args.cached_vocab:
print('Saving/loading vocab from {}'.format(args.cached_vocab))
# create vocab from training documents:
flattened_train_sents = []
for _, sents, _ in train:
flattened_train_sents.extend([s[0] for s in sents])
word2idx = text_utils.get_vocab(flattened_train_sents, cached=args.cached_vocab)
print('Vocab size was {}'.format(len(word2idx)))
if args.word2vec_binary:
we_init = text_utils.get_word2vec_matrix(
word2idx, args.cached_word_embeddings, args.word2vec_binary)
else:
we_init = np.random.uniform(low=-.02, high=.02, size=(len(word2idx), 300))
if args.end2end:
image_features = None
image_idx2row = None
else:
image_features = np.load(args.image_features)
image_idx2row = load_data(args.image_id2row)
if args.scale_image_features:
ss = sklearn.preprocessing.StandardScaler()
all_train_images = []
for img, txt, cid in train:
all_train_images.extend([x[0] for x in img])
print('standard scaling with {} images total'.format(len(all_train_images)))
all_train_rows = [image_idx2row[cid] for cid in all_train_images]
ss.fit(image_features[np.array(all_train_rows)])
image_features = ss.transform(image_features)
word_emb_dim = 300
if val[0][0][0][1] is not None:
ground_truth = True
print('The input has ground truth, so AUC will be computed.')
else:
ground_truth = False
# Step 1: Specify model inputs/outputs:
# (n docs, n sent, max n words,)
text_inp = tf.keras.layers.Input((None, args.seq_len))
# this input tells you how many sentences are really in each doc
text_n_inp = tf.keras.layers.Input((1,), dtype='int32')
if args.end2end:
# (n docs, n image, x, y, color)
img_inp = tf.keras.layers.Input((None, 224, 224, 3))
else:
# (n docs, n image, feature dim)
img_inp = tf.keras.layers.Input((None, image_features.shape[1]))
# this input tells you how many images are really in each doc
img_n_inp = tf.keras.layers.Input((1,), dtype='int32')
# Step 2: Define transformations to shared multimodal space.
# Step 2.1: The text model:
if args.text_model_checkpoint:
print('Loading pretrained text model from {}'.format(
args.text_model_checkpoint))
single_text_doc_model = tf.keras.models.load_model(args.text_model_checkpoint)
extracted_text_features = single_text_doc_model(text_inp)
else:
word_embedding = tf.keras.layers.Embedding(
len(word2idx),
word_emb_dim,
weights=[we_init] if we_init is not None else None,
mask_zero=True)
element_dropout = tf.keras.layers.SpatialDropout1D(args.dropout)
if args.rnn_type == 'GRU':
rnn_maker = tf.keras.layers.GRU
else:
rnn_maker = tf.keras.layers.LSTM
enc_layers = []
for idx in range(args.n_layers):
if idx == args.n_layers-1:
enc_layers.append(rnn_maker(args.joint_emb_dim))
else:
enc_layers.append(rnn_maker(args.joint_emb_dim, return_sequences=True))
embedded_text_inp = word_embedding(text_inp)
extracted_text_features = tf.keras.layers.TimeDistributed(element_dropout)(embedded_text_inp)
for l in enc_layers:
extracted_text_features = tf.keras.layers.TimeDistributed(l)(extracted_text_features)
# extracted_text_features is now (n docs, max n setnences, multimodal dim)
if args.l2_norm:
l2_norm_layer = tf.keras.layers.Lambda(lambda x: tf.nn.l2_normalize(x, axis=-1))
extracted_text_features = l2_norm_layer(extracted_text_features)
single_text_doc_model = tf.keras.models.Model(
inputs=text_inp,
outputs=extracted_text_features)
# Step 2.2: The image model:
if args.image_model_checkpoint:
print('Loading pretrained image model from {}'.format(
args.image_model_checkpoint))
single_img_doc_model = tf.keras.models.load_model(args.image_model_checkpoint)
extracted_img_features = single_img_doc_model(img_inp)
else:
if args.end2end:
img_projection = tf.keras.layers.Dense(args.joint_emb_dim)
from tf.keras.applications.nasnet import NASNetMobile
cnn = tf.keras.applications.nasnet.NASNetMobile(
include_top=False, input_shape=(224, 224, 3), pooling='avg')
extracted_img_features = tf.keras.layers.TimeDistributed(cnn)(img_inp)
if args.dropout > 0.0:
extracted_img_features = tf.keras.layers.TimeDistributed(
tf.keras.layers.Dropout(args.dropout))(extracted_img_features)
extracted_img_features = keras.layers.TimeDistributed(img_projection)(
extracted_img_features)
else:
extracted_img_features = tf.keras.layers.Masking()(img_inp)
if args.dropout > 0.0:
extracted_img_features = tf.keras.layers.TimeDistributed(
tf.keras.layers.Dropout(args.dropout))(extracted_img_features)
enc_layers = []
for idx in range(args.n_layers):
if idx == args.n_layers-1:
enc_layers.append(tf.keras.layers.Dense(args.joint_emb_dim))
else:
enc_layers.append(tf.keras.layers.Dense(args.joint_emb_dim, activation='relu'))
enc_layers.append(tf.keras.layers.BatchNormalization())
for l in enc_layers:
extracted_img_features = tf.keras.layers.TimeDistributed(l)(extracted_img_features)
# extracted_img_features is now (n docs, max n images, multimodal dim)
if args.l2_norm:
l2_norm_layer = tf.keras.layers.Lambda(lambda x: tf.nn.l2_normalize(x, axis=-1))
extracted_img_features = l2_norm_layer(extracted_img_features)
single_img_doc_model = tf.keras.models.Model(
inputs=img_inp,
outputs=extracted_img_features)
# Step 3: Extract/stack the non-padding image/sentence representations
def mask_slice_and_stack(inp):
stacker = []
features, n_inputs = inp
n_inputs = tf.dtypes.cast(n_inputs, tf.int32)
# for each document, we will extract the portion of input features that are not padding
# this means, for features[doc_idx], we will take the first n_inputs[doc_idx] rows.
# we stack them into one big array so we can do a big cosine sim dot product between all
# sentence image pairs in parallel. We'll slice up this array back up later.
for idx in range(args.docs_per_batch):
cur_valid_idxs = tf.range(n_inputs[idx,0])
cur_valid_features = features[idx]
feats = tf.gather(cur_valid_features, cur_valid_idxs)
stacker.append(feats)
return tf.concat(stacker, axis=0)
# extracted text/img features are (n_docs, max_in_seq, dim)
# we want to compute cosine sims between all (sent, img) pairs quickly
# so we will stack them into new tensors ...
# text_enc has shape (total number of sent in batch, dim)
# img_enc has shape (total number of image in batch, dim)
text_enc = mask_slice_and_stack([extracted_text_features, text_n_inp])
img_enc = mask_slice_and_stack([extracted_img_features, img_n_inp])
def DC_sim(sim_matrix):
text2im_S = tf.reduce_mean(tf.reduce_max(sim_matrix, 1))
im2text_S = tf.reduce_mean(tf.reduce_max(sim_matrix, 0))
return text2im_S + im2text_S
def get_k(sim_matrix):
k = tf.minimum(tf.shape(sim_matrix)[0], tf.shape(sim_matrix)[1])
if args.sim_mode_k > 0:
k = tf.dtypes.cast(k, tf.float32)
k = tf.math.ceil(tf.div(k, args.sim_mode_k))
k = tf.dtypes.cast(k, tf.int32)
return k
def TK_sim(sim_matrix):
k = get_k(sim_matrix)
im2text_S, text2im_S = tf.reduce_max(sim_matrix, 0), tf.reduce_max(sim_matrix, 1)
text2im_S = tf.reduce_mean(tf.math.top_k(text2im_S, k=k)[0], axis=-1)
im2text_S = tf.reduce_mean(tf.math.top_k(im2text_S, k=k)[0], axis=-1)
return text2im_S + im2text_S
bipartite_match_fn = bipartite_utils.generate_fast_hungarian_solving_function()
def AP_sim(sim_matrix):
k = get_k(sim_matrix)
sol = tf.numpy_function(bipartite_match_fn, [sim_matrix, k], tf.int32)
return tf.reduce_mean(tf.gather_nd(sim_matrix, sol))
if args.sim_mode == 'DC':
sim_fn = DC_sim
elif args.sim_mode == 'TK':
sim_fn = TK_sim
elif args.sim_mode == 'AP':
sim_fn = AP_sim
else:
raise NotImplementedError('{} is not implemented sim function'.format(args.sim_fn))
def make_sims(inp):
sims = tf.keras.backend.dot(inp[0], tf.keras.backend.transpose(inp[1]))
return sims
all_sims = make_sims([text_enc, img_enc])
get_pos_neg_sims = model_utils.make_get_pos_neg_sims(
args,
sim_fn)
pos_sims, neg_img_sims, neg_text_sims = tf.keras.layers.Lambda(
get_pos_neg_sims)([all_sims, text_n_inp, img_n_inp])
if args.loss_mode == 'hinge':
def per_neg_loss(inp):
pos_s, neg_s = inp
return tf.math.maximum(neg_s - pos_s + args.margin, 0)
elif args.loss_mode == 'logistic':
def per_neg_loss(inp):
pos_s, neg_s = inp
return tf.nn.sigmoid_cross_entropy_with_logits(
labels=tf.ones_like(neg_s),
logits=pos_s - neg_s)
elif args.loss_mode == 'softmax':
def per_neg_loss(inp):
pos_s, neg_s = inp
pos_s -= args.margin
pos_l, neg_l = tf.ones_like(pos_s), tf.zeros_like(neg_s)
return tf.nn.softmax_cross_entropy_with_logits(
tf.concat([pos_l, neg_l], axis=1),
tf.concat([pos_s, neg_s], axis=1))
neg_img_losses = per_neg_loss([pos_sims, neg_img_sims])
neg_text_losses = per_neg_loss([pos_sims, neg_text_sims])
if args.loss_mode != 'softmax':
if args.neg_mining == 'negative_sample':
pool_fn = lambda x: tf.reduce_mean(x, axis=1, keepdims=True)
elif args.neg_mining == 'hard_negative':
pool_fn = lambda x: tf.reduce_max(x, axis=1, keepdims=True)
else:
raise NotImplementedError('{} is not a valid for args.neg_mining'.format(
args.neg_mining))
neg_img_loss = tf.keras.layers.Lambda(pool_fn, name='neg_img')(neg_img_losses)
neg_text_loss = tf.keras.layers.Lambda(pool_fn, name='neg_text')(neg_text_losses)
else:
neg_img_loss = neg_img_losses
neg_text_loss = neg_text_losses
inputs = [text_inp,
img_inp,
text_n_inp,
img_n_inp]
model = tf.keras.models.Model(inputs=inputs,
outputs=[neg_img_loss, neg_text_loss])
opt = tf.keras.optimizers.Adam(args.lr)
def identity(y_true, y_pred):
del y_true
return tf.reduce_mean(y_pred, axis=-1)
model.compile(opt, loss=identity)
if args.test_eval > 0:
train = train[:args.test_eval * args.docs_per_batch]
val = val[:args.test_eval * args.docs_per_batch]
test = test[:args.test_eval * args.docs_per_batch]
train_seq = training_utils.DocumentSequence(
train,
image_features,
image_idx2row,
max_n_sentence,
max_n_image,
word2idx,
args=args,
shuffle_docs=True,
shuffle_sentences=False,
shuffle_images=True)
val_seq = training_utils.DocumentSequence(
val,
image_features,
image_idx2row,
max_n_sentence,
max_n_image,
word2idx,
args=args,
augment=False,
shuffle_sentences=False,
shuffle_docs=False,
shuffle_images=False)
sdm = training_utils.SaveDocModels(
args.checkpoint_dir,
single_text_doc_model,
single_img_doc_model)
if args.loss_mode == 'hinge':
val_loss_thresh = 2 * args.margin # constant prediction performance
else:
val_loss_thresh = np.inf
reduce_lr = training_utils.ReduceLROnPlateauAfterValLoss(
activation_val_loss=val_loss_thresh,
factor=args.lr_decay,
patience=args.lr_patience,
min_lr=args.min_lr,
verbose=True)
callbacks = [reduce_lr, sdm]
if args.print_metrics:
metrics_printer = training_utils.PrintMetrics(
val,
image_features,
image_idx2row,
word2idx,
single_text_doc_model,
single_img_doc_model,
args)
callbacks.append(metrics_printer)
if args.lr_warmup_steps > 0:
warmup_lr = training_utils.LearningRateLinearIncrease(
args.lr,
args.lr_warmup_steps)
callbacks.append(warmup_lr)
history = model.fit(
train_seq,
epochs=args.n_epochs,
validation_data=val_seq,
callbacks=callbacks)
if args.output:
best_image_model_str, best_sentence_model_str, best_logs, best_epoch = sdm.best_checkpoints_and_logs
single_text_doc_model = tf.keras.models.load_model(best_sentence_model_str)
single_image_doc_model = tf.keras.models.load_model(best_image_model_str)
if args.scale_image_features:
with open(args.checkpoint_dir + '/image_standardscaler.pkl', 'wb') as f:
pickle.dump(ss, f)
if ground_truth and args.compute_metrics_train:
train_aucs, train_match_metrics, train_mt_metrics = eval_utils.compute_match_metrics_doc(
train,
image_features,
image_idx2row,
word2idx,
single_text_doc_model,
single_img_doc_model,
args)
else:
train_aucs, train_match_metrics, train_mt_metrics = None, None, None
if ground_truth:
val_aucs, val_match_metrics, val_mt_metrics = eval_utils.compute_match_metrics_doc(
val,
image_features,
image_idx2row,
word2idx,
single_text_doc_model,
single_img_doc_model,
args)
test_aucs, test_match_metrics, test_mt_metrics = eval_utils.compute_match_metrics_doc(
test,
image_features,
image_idx2row,
word2idx,
single_text_doc_model,
single_img_doc_model,
args)
else:
train_aucs, val_aucs, test_aucs = None, None, None
train_match_metrics, val_match_metrics, test_match_metrics = None, None, None
train_mt_metrics, val_mt_metrics, test_mt_metrics = None, None, None
output = {'logs':best_logs,
'best_sentence_model_str':best_sentence_model_str,
'best_image_model_str':best_image_model_str,
'train_aucs':train_aucs,
'train_match_metrics':train_match_metrics,
'train_mt_metrics':train_mt_metrics,
'val_aucs':val_aucs,
'val_match_metrics':val_match_metrics,
'val_mt_metrics':val_mt_metrics,
'test_aucs':test_aucs,
'test_match_metrics':test_match_metrics,
'test_mt_metrics':test_mt_metrics,
'args':args,
'epoch':best_epoch}
if args.scale_image_features:
output['image_standard_scaler_str'] = args.checkpoint_dir + '/image_standardscaler.pkl'
for k, v in history.history.items():
output['history_{}'.format(k)] = v
if args.print_metrics:
for k, v in metrics_printer.history.items():
output['metrics_history_{}'.format(k)] = v
with open(args.output, 'wb') as f:
pickle.dump(output, f, protocol=pickle.HIGHEST_PROTOCOL)
print('saved output to {}'.format(args.output))
if args.save_predictions:
for d, name in zip([train, val, test], ['train', 'val', 'test']):
out_dir = args.save_predictions + '/' + name
if not os.path.exists(out_dir):
os.makedirs(out_dir)
eval_utils.save_predictions(
d,
image_features,
image_idx2row,
word2idx,
single_text_doc_model,
single_img_doc_model,
out_dir,
args)
if __name__ == '__main__':
main()