create_pretraining_data.py

# coding=utf-8
# Copyright (c) 2019 NVIDIA CORPORATION. All rights reserved.
# Copyright 2020 MLBenchmark Group. All rights reserved.

# Licensed under the Apache License, Version 2.0 (the "License");
# you may not use this file except in compliance with the License.
# You may obtain a copy of the License at
#
#     http://www.apache.org/licenses/LICENSE-2.0
#
# Unless required by applicable law or agreed to in writing, software
# distributed under the License is distributed on an "AS IS" BASIS,
# WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied.
# See the License for the specific language governing permissions and
# limitations under the License.

"""Create masked LM/next sentence masked_lm TF examples for BERT."""

from __future__ import absolute_import
from __future__ import division
from __future__ import print_function

import collections
import random
import tokenization
import tensorflow as tf

import h5py
import numpy as np

hdf5_compression_method = None

flags = tf.flags

FLAGS = flags.FLAGS

flags.DEFINE_string("input_file", None,
                    "Input raw text file (or comma-separated list of files).")

flags.DEFINE_string(
    "output_file", None,
    "Output TF example file (or comma-separated list of files).")

flags.DEFINE_string("vocab_file", None,
                    "The vocabulary file that the BERT model was trained on.")

flags.DEFINE_bool(
    "do_lower_case", True,
    "Whether to lower case the input text. Should be True for uncased "
    "models and False for cased models.")

flags.DEFINE_integer("max_seq_length", 128, "Maximum sequence length.")

flags.DEFINE_integer("max_predictions_per_seq", 20,
                     "Maximum number of masked LM predictions per sequence.")

flags.DEFINE_integer("random_seed", 12345, "Random seed for data generation.")

flags.DEFINE_integer(
    "dupe_factor", 10,
    "Number of times to duplicate the input data (with different masks).")

flags.DEFINE_float("masked_lm_prob", 0.15, "Masked LM probability.")

flags.DEFINE_float(
    "short_seq_prob", 0.1,
    "Probability of creating sequences which are shorter than the "
    "maximum length.")


class TrainingInstance(object):
  """A single training instance (sentence pair)."""

  def __init__(self, tokens, segment_ids, masked_lm_positions, masked_lm_labels,
               is_random_next):
    self.tokens = tokens
    self.segment_ids = segment_ids
    self.is_random_next = is_random_next
    self.masked_lm_positions = masked_lm_positions
    self.masked_lm_labels = masked_lm_labels

  def __str__(self):
    s = ""
    s += "tokens: %s\n" % (" ".join(
        [tokenization.printable_text(x) for x in self.tokens]))
    s += "segment_ids: %s\n" % (" ".join([str(x) for x in self.segment_ids]))
    s += "is_random_next: %s\n" % self.is_random_next
    s += "masked_lm_positions: %s\n" % (" ".join(
        [str(x) for x in self.masked_lm_positions]))
    s += "masked_lm_labels: %s\n" % (" ".join(
        [tokenization.printable_text(x) for x in self.masked_lm_labels]))
    s += "\n"
    return s

  def __repr__(self):
    return self.__str__()


def write_instance_to_example_files(instances, tokenizer, max_seq_length,
                                    max_predictions_per_seq, output_files):
  """Create TF example files from `TrainingInstance`s."""
  writers = []
  h5_writers = []
  
  expected_instances_per_file = len(instances) // len(output_files) + 500    # Over-allocation to avoid resizing 
  for output_file in output_files:
    h5_writers.append({
      'handle' : h5py.File(output_file + ".hdf5", 'w'),
      'input_ids' : np.zeros([expected_instances_per_file, max_seq_length], dtype="int32"),
      'input_mask' : np.zeros([expected_instances_per_file, max_seq_length], dtype="int32"),
      'segment_ids' : np.zeros([expected_instances_per_file, max_seq_length], dtype="int32"),
      'masked_lm_positions' : np.zeros([expected_instances_per_file, max_predictions_per_seq], dtype="int32"),
      'masked_lm_ids' : np.zeros([expected_instances_per_file, max_predictions_per_seq], dtype="int32"),
      'next_sentence_labels' : np.zeros(expected_instances_per_file, dtype="int32"),
      'len' : 0 })

  writer_index = 0

  total_written = 0

  features_h5 = collections.OrderedDict()

  for (inst_index, instance) in enumerate(instances):
    input_ids = tokenizer.convert_tokens_to_ids(instance.tokens)
    input_mask = [1] * len(input_ids)
    segment_ids = list(instance.segment_ids)
    assert len(input_ids) <= max_seq_length

    while len(input_ids) < max_seq_length:
      input_ids.append(0)
      input_mask.append(0)
      segment_ids.append(0)

    assert len(input_ids) == max_seq_length
    assert len(input_mask) == max_seq_length
    assert len(segment_ids) == max_seq_length

    masked_lm_positions = list(instance.masked_lm_positions)
    masked_lm_ids = tokenizer.convert_tokens_to_ids(instance.masked_lm_labels)
    masked_lm_weights = [1.0] * len(masked_lm_ids)

    while len(masked_lm_positions) < max_predictions_per_seq:
      masked_lm_positions.append(0)
      masked_lm_ids.append(0)
      masked_lm_weights.append(0.0)

    next_sentence_label = 1 if instance.is_random_next else 0
    
    h5_writers[writer_index]['input_ids'][inst_index] = input_ids
    h5_writers[writer_index]['input_mask'][inst_index] = input_mask
    h5_writers[writer_index]['masked_lm_positions'][inst_index] = masked_lm_positions
    h5_writers[writer_index]['masked_lm_ids'][inst_index] = masked_lm_ids
    h5_writers[writer_index]['next_sentence_labels'][inst_index] = next_sentence_label
    h5_writers[writer_index]['len'] += 1

    writer_index = (writer_index + 1) % len(h5_writers)

    total_written += 1

    if inst_index < 20:
      tf.logging.info("*** Example ***")
      tf.logging.info("tokens: %s" % " ".join(
          [tokenization.printable_text(x) for x in instance.tokens]))
  
  print("saving data")
  for h5_writer in h5_writers:
    my_size = h5_writer['len']
    h5_writer['handle'].create_dataset('input_ids', data=h5_writer['input_ids'][:my_size], dtype='i4', compression=hdf5_compression_method)
    h5_writer['handle'].create_dataset('input_mask', data=h5_writer['input_mask'][:my_size], dtype='i1', compression=hdf5_compression_method)
    h5_writer['handle'].create_dataset('segment_ids', data=h5_writer['segment_ids'][:my_size], dtype='i1', compression=hdf5_compression_method)
    h5_writer['handle'].create_dataset('masked_lm_positions', data=h5_writer['masked_lm_positions'][:my_size], dtype='i4', compression=hdf5_compression_method)
    h5_writer['handle'].create_dataset('masked_lm_ids', data=h5_writer['masked_lm_ids'][:my_size], dtype='i4', compression=hdf5_compression_method)
    h5_writer['handle'].create_dataset('next_sentence_labels', data=h5_writer['next_sentence_labels'][:my_size], dtype='i1', compression=hdf5_compression_method)
    h5_writer['handle'].flush()
    h5_writer['handle'].close()

  tf.logging.info("Wrote %d total instances", total_written)


def create_int_feature(values):
  feature = tf.train.Feature(int64_list=tf.train.Int64List(value=list(values)))
  return feature

def create_float_feature(values):
  feature = tf.train.Feature(float_list=tf.train.FloatList(value=list(values)))
  return feature

def create_training_instances(input_files, tokenizer, max_seq_length,
                              dupe_factor, short_seq_prob, masked_lm_prob,
                              max_predictions_per_seq, rng):
  """Create `TrainingInstance`s from raw text."""
  all_documents = [[]]

  # Input file format:
  # (1) One sentence per line. These should ideally be actual sentences, not
  # entire paragraphs or arbitrary spans of text. (Because we use the
  # sentence boundaries for the "next sentence prediction" task).
  # (2) Blank lines between documents. Document boundaries are needed so
  # that the "next sentence prediction" task doesn't span between documents.
  for input_file in input_files:
    with tf.gfile.GFile(input_file, "r") as reader:
      while True:
        line = tokenization.convert_to_unicode(reader.readline())
        if not line:
          break
        line = line.strip()

        # Empty lines are used as document delimiters
        if not line:
          all_documents.append([])
        tokens = tokenizer.tokenize(line)
        if tokens:
          all_documents[-1].append(tokens)

  # Remove empty documents
  all_documents = [x for x in all_documents if x]
  rng.shuffle(all_documents)

  vocab_words = list(tokenizer.vocab.keys())
  instances = []
  for _ in range(dupe_factor):
    for document_index in range(len(all_documents)):
      instances.extend(
          create_instances_from_document(
              all_documents, document_index, max_seq_length, short_seq_prob,
              masked_lm_prob, max_predictions_per_seq, vocab_words, rng))

  rng.shuffle(instances)
  return instances


def create_instances_from_document(
    all_documents, document_index, max_seq_length, short_seq_prob,
    masked_lm_prob, max_predictions_per_seq, vocab_words, rng):
  """Creates `TrainingInstance`s for a single document."""
  document = all_documents[document_index]

  # Account for [CLS], [SEP], [SEP]
  max_num_tokens = max_seq_length - 3

  # We *usually* want to fill up the entire sequence since we are padding
  # to `max_seq_length` anyways, so short sequences are generally wasted
  # computation. However, we *sometimes*
  # (i.e., short_seq_prob == 0.1 == 10% of the time) want to use shorter
  # sequences to minimize the mismatch between pre-training and fine-tuning.
  # The `target_seq_length` is just a rough target however, whereas
  # `max_seq_length` is a hard limit.
  target_seq_length = max_num_tokens
  if rng.random() < short_seq_prob:
    target_seq_length = rng.randint(2, max_num_tokens)

  # We DON'T just concatenate all of the tokens from a document into a long
  # sequence and choose an arbitrary split point because this would make the
  # next sentence prediction task too easy. Instead, we split the input into
  # segments "A" and "B" based on the actual "sentences" provided by the user
  # input.
  instances = []
  current_chunk = []
  current_length = 0
  i = 0
  while i < len(document):
    segment = document[i]
    current_chunk.append(segment)
    current_length += len(segment)
    if i == len(document) - 1 or current_length >= target_seq_length:
      if current_chunk:
        # `a_end` is how many segments from `current_chunk` go into the `A`
        # (first) sentence.
        a_end = 1
        if len(current_chunk) >= 2:
          a_end = rng.randint(1, len(current_chunk) - 1)

        tokens_a = []
        for j in range(a_end):
          tokens_a.extend(current_chunk[j])

        tokens_b = []
        # Random next
        is_random_next = False
        if len(current_chunk) == 1 or rng.random() < 0.5:
          is_random_next = True
          target_b_length = target_seq_length - len(tokens_a)

          # This should rarely go for more than one iteration for large
          # corpora. However, just to be careful, we try to make sure that
          # the random document is not the same as the document
          # we're processing.
          for _ in range(10):
            random_document_index = rng.randint(0, len(all_documents) - 1)
            if random_document_index != document_index:
              break

          random_document = all_documents[random_document_index]
          random_start = rng.randint(0, len(random_document) - 1)
          for j in range(random_start, len(random_document)):
            tokens_b.extend(random_document[j])
            if len(tokens_b) >= target_b_length:
              break
          # We didn't actually use these segments so we "put them back" so
          # they don't go to waste.
          num_unused_segments = len(current_chunk) - a_end
          i -= num_unused_segments
        # Actual next
        else:
          is_random_next = False
          for j in range(a_end, len(current_chunk)):
            tokens_b.extend(current_chunk[j])
        truncate_seq_pair(tokens_a, tokens_b, max_num_tokens, rng)

        assert len(tokens_a) >= 1
        assert len(tokens_b) >= 1

        tokens = []
        segment_ids = []
        tokens.append("[CLS]")
        segment_ids.append(0)
        for token in tokens_a:
          tokens.append(token)
          segment_ids.append(0)

        tokens.append("[SEP]")
        segment_ids.append(0)

        for token in tokens_b:
          tokens.append(token)
          segment_ids.append(1)
        tokens.append("[SEP]")
        segment_ids.append(1)

        (tokens, masked_lm_positions,
         masked_lm_labels) = create_masked_lm_predictions(
             tokens, masked_lm_prob, max_predictions_per_seq, vocab_words, rng)
        instance = TrainingInstance(
            tokens=tokens,
            segment_ids=segment_ids,
            is_random_next=is_random_next,
            masked_lm_positions=masked_lm_positions,
            masked_lm_labels=masked_lm_labels)
        instances.append(instance)
      current_chunk = []
      current_length = 0
    i += 1

  return instances

MaskedLmInstance = collections.namedtuple("MaskedLmInstance",
                                          ["index", "label"])

def create_masked_lm_predictions(tokens, masked_lm_prob,
                                 max_predictions_per_seq, vocab_words, rng):
  """Creates the predictions for the masked LM objective."""

  cand_indexes = []
  for (i, token) in enumerate(tokens):
    if token == "[CLS]" or token == "[SEP]":
      continue
    cand_indexes.append(i)

  rng.shuffle(cand_indexes)

  output_tokens = list(tokens)

  num_to_predict = min(max_predictions_per_seq,
                       max(1, int(round(len(tokens) * masked_lm_prob))))

  masked_lms = []
  covered_indexes = set()
  for index in cand_indexes:
    if len(masked_lms) >= num_to_predict:
      break
    if index in covered_indexes:
      continue
    covered_indexes.add(index)

    masked_token = None
    # 80% of the time, replace with [MASK]
    if rng.random() < 0.8:
      masked_token = "[MASK]"
    else:
      # 10% of the time, keep original
      if rng.random() < 0.5:
        masked_token = tokens[index]
      # 10% of the time, replace with random word
      else:
        masked_token = vocab_words[rng.randint(0, len(vocab_words) - 1)]

    output_tokens[index] = masked_token

    masked_lms.append(MaskedLmInstance(index=index, label=tokens[index]))

  masked_lms = sorted(masked_lms, key=lambda x: x.index)

  masked_lm_positions = []
  masked_lm_labels = []
  for p in masked_lms:
    masked_lm_positions.append(p.index)
    masked_lm_labels.append(p.label)

  return (output_tokens, masked_lm_positions, masked_lm_labels)


def truncate_seq_pair(tokens_a, tokens_b, max_num_tokens, rng):
  """Truncates a pair of sequences to a maximum sequence length."""
  while True:
    total_length = len(tokens_a) + len(tokens_b)
    if total_length <= max_num_tokens:
      break

    trunc_tokens = tokens_a if len(tokens_a) > len(tokens_b) else tokens_b
    assert len(trunc_tokens) >= 1

    # We want to sometimes truncate from the front and sometimes from the
    # back to add more randomness and avoid biases.
    if rng.random() < 0.5:
      del trunc_tokens[0]
    else:
      trunc_tokens.pop()


def main(_):
  tf.logging.set_verbosity(tf.logging.INFO)

  tokenizer = tokenization.FullTokenizer(
      vocab_file=FLAGS.vocab_file, do_lower_case=FLAGS.do_lower_case)

  input_files = []
  for input_pattern in FLAGS.input_file.split(","):
    input_files.extend(tf.gfile.Glob(input_pattern))

  tf.logging.info("*** Reading from input files ***")
  for input_file in input_files:
    tf.logging.info("  %s", input_file)

  rng = random.Random(FLAGS.random_seed)
  instances = create_training_instances(
      input_files, tokenizer, FLAGS.max_seq_length, FLAGS.dupe_factor,
      FLAGS.short_seq_prob, FLAGS.masked_lm_prob, FLAGS.max_predictions_per_seq,
      rng)

  output_files = FLAGS.output_file.split(",")
  tf.logging.info("*** Writing to output files ***")
  for output_file in output_files:
    tf.logging.info("  %s", output_file)

  write_instance_to_example_files(instances, tokenizer, FLAGS.max_seq_length,
                                  FLAGS.max_predictions_per_seq, output_files)


if __name__ == "__main__":
  flags.mark_flag_as_required("input_file")
  flags.mark_flag_as_required("output_file")
  flags.mark_flag_as_required("vocab_file")
  tf.app.run()