run_mrqa.py

#   Copyright (c) 2019 PaddlePaddle Authors. 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.
"""Finetuning on MRQA."""

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

import argparse
import collections
import multiprocessing
import os
import time
import numpy as np
import paddle
import paddle.fluid as fluid

from reader.mrqa import DataProcessor, write_predictions
from model.bert import BertConfig, BertModel
from utils.args import ArgumentGroup, print_arguments
from optimization import optimization
from utils.init import init_pretraining_params, init_checkpoint

# yapf: disable
parser = argparse.ArgumentParser(__doc__)
model_g = ArgumentGroup(parser, "model", "model configuration and paths.")
model_g.add_arg("bert_config_path",         str,  None,           "Path to the json file for bert model config.")
model_g.add_arg("init_checkpoint",          str,  None,           "Init checkpoint to resume training from.")
model_g.add_arg("init_pretraining_params",  str,  None,
                "Init pre-training params which preforms fine-tuning from. If the "
                 "arg 'init_checkpoint' has been set, this argument wouldn't be valid.")
model_g.add_arg("checkpoints",              str,  "checkpoints",  "Path to save checkpoints.")

train_g = ArgumentGroup(parser, "training", "training options.")
train_g.add_arg("epoch",             int,    3,      "Number of epoches for fine-tuning.")
train_g.add_arg("learning_rate",     float,  5e-5,   "Learning rate used to train with warmup.")
train_g.add_arg("lr_scheduler",      str,    "linear_warmup_decay",
                "scheduler of learning rate.", choices=['linear_warmup_decay', 'noam_decay'])
train_g.add_arg("weight_decay",      float,  0.01,   "Weight decay rate for L2 regularizer.")
train_g.add_arg("use_ema",           bool,   True, "Whether to use ema.")
train_g.add_arg("ema_decay",         float,  0.9999, "Decay rate for expoential moving average.")
train_g.add_arg("warmup_proportion", float,  0.1,
                "Proportion of training steps to perform linear learning rate warmup for.")
train_g.add_arg("save_steps",        int,    1000,   "The steps interval to save checkpoints.")
train_g.add_arg("sample_rate",       float,  0.02,  "train samples num.")
train_g.add_arg("use_fp16",          bool,   False,  "Whether to use fp16 mixed precision training.")
train_g.add_arg("loss_scaling",      float,  1.0,
                "Loss scaling factor for mixed precision training, only valid when use_fp16 is enabled.")

log_g = ArgumentGroup(parser, "logging", "logging related.")
log_g.add_arg("skip_steps",          int,    10,    "The steps interval to print loss.")
log_g.add_arg("verbose",             bool,   False, "Whether to output verbose log.")

data_g = ArgumentGroup(parser, "data", "Data paths, vocab paths and data processing options")
data_g.add_arg("train_file", str, None, "json data for training.")
data_g.add_arg("predict_file", str, None, "json data for predictions.")
data_g.add_arg("vocab_path",                str,   None,  "Vocabulary path.")
data_g.add_arg("with_negative",   bool,  False,
               "If true, the examples contain some that do not have an answer.")
data_g.add_arg("max_seq_len",               int,   512,   "Number of words of the longest seqence.")
data_g.add_arg("max_query_length",          int,   64,    "Max query length.")
data_g.add_arg("max_answer_length",         int,   30,    "Max answer length.")
data_g.add_arg("batch_size",                int,   12,    "Total examples' number in batch for training. see also --in_tokens.")
data_g.add_arg("in_tokens",                 bool,  False,
               "If set, the batch size will be the maximum number of tokens in one batch. "
               "Otherwise, it will be the maximum number of examples in one batch.")
data_g.add_arg("do_lower_case",             bool,  True,
               "Whether to lower case the input text. Should be True for uncased models and False for cased models.")
data_g.add_arg("doc_stride",                int,   128,
               "When splitting up a long document into chunks, how much stride to take between chunks.")
data_g.add_arg("n_best_size",               int,   20,
               "The total number of n-best predictions to generate in the nbest_predictions.json output file.")
data_g.add_arg("null_score_diff_threshold", float, 0.0,
               "If null_score - best_non_null is greater than the threshold predict null.")
data_g.add_arg("random_seed",               int,   0,      "Random seed.")

run_type_g = ArgumentGroup(parser, "run_type", "running type options.")
run_type_g.add_arg("use_cuda",                     bool,   True,  "If set, use GPU for training.")
run_type_g.add_arg("use_fast_executor",            bool,   False, "If set, use fast parallel executor (in experiment).")
run_type_g.add_arg("num_iteration_per_drop_scope", int,    1,     "Ihe iteration intervals to clean up temporary variables.")
run_type_g.add_arg("do_train",                     bool,   True,  "Whether to perform training.")
run_type_g.add_arg("do_predict",                   bool,   True,  "Whether to perform prediction.")

args = parser.parse_args()
# yapf: enable.

def create_model(pyreader_name, bert_config, is_training=False):
    if is_training:
        pyreader = fluid.layers.py_reader(
            capacity=50,
            shapes=[[-1, args.max_seq_len, 1], [-1, args.max_seq_len, 1],
                    [-1, args.max_seq_len, 1],
                    [-1, args.max_seq_len, 1], [-1, 1], [-1, 1]],
            dtypes=[
                'int64', 'int64', 'int64', 'float32', 'int64', 'int64'],
            lod_levels=[0, 0, 0, 0, 0, 0],
            name=pyreader_name,
            use_double_buffer=True)
        (src_ids, pos_ids, sent_ids, input_mask, start_positions,
         end_positions) = fluid.layers.read_file(pyreader)
    else:
        pyreader = fluid.layers.py_reader(
            capacity=50,
            shapes=[[-1, args.max_seq_len, 1], [-1, args.max_seq_len, 1],
                    [-1, args.max_seq_len, 1],
                    [-1, args.max_seq_len, 1], [-1, 1]],
            dtypes=['int64', 'int64', 'int64', 'float32', 'int64'],
            lod_levels=[0, 0, 0, 0, 0],
            name=pyreader_name,
            use_double_buffer=True)
        (src_ids, pos_ids, sent_ids, input_mask, unique_id) = fluid.layers.read_file(pyreader)

    bert = BertModel(
        src_ids=src_ids,
        position_ids=pos_ids,
        sentence_ids=sent_ids,
        input_mask=input_mask,
        config=bert_config,
        use_fp16=args.use_fp16)

    enc_out = bert.get_sequence_output()

    logits = fluid.layers.fc(
        input=enc_out,
        size=2,
        num_flatten_dims=2,
        param_attr=fluid.ParamAttr(
            name="cls_squad_out_w",
            initializer=fluid.initializer.TruncatedNormal(scale=0.02)),
        bias_attr=fluid.ParamAttr(
            name="cls_squad_out_b", initializer=fluid.initializer.Constant(0.)))

    logits = fluid.layers.transpose(x=logits, perm=[2, 0, 1])
    start_logits, end_logits = fluid.layers.unstack(x=logits, axis=0)

    batch_ones = fluid.layers.fill_constant_batch_size_like(
        input=start_logits, dtype='int64', shape=[1], value=1)
    num_seqs = fluid.layers.reduce_sum(input=batch_ones)

    if is_training:

        def compute_loss(logits, positions):
            loss = fluid.layers.softmax_with_cross_entropy(
                logits=logits, label=positions)
            loss = fluid.layers.mean(x=loss)
            return loss

        start_loss = compute_loss(start_logits, start_positions)
        end_loss = compute_loss(end_logits, end_positions)
        total_loss = (start_loss + end_loss) / 2.0
        if args.use_fp16 and args.loss_scaling > 1.0:
            total_loss = total_loss * args.loss_scaling

        return pyreader, total_loss, num_seqs
    else:
        return pyreader, unique_id, start_logits, end_logits, num_seqs


RawResult = collections.namedtuple("RawResult",
                                   ["unique_id", "start_logits", "end_logits"])


def predict(test_exe, test_program, test_pyreader, fetch_list, processor, prefix=''):
    if not os.path.exists(args.checkpoints):
        os.makedirs(args.checkpoints)
    output_prediction_file = os.path.join(args.checkpoints, prefix + "predictions.json")
    output_nbest_file = os.path.join(args.checkpoints, prefix + "nbest_predictions.json")
    output_null_log_odds_file = os.path.join(args.checkpoints, prefix + "null_odds.json")

    test_pyreader.start()
    all_results = []
    time_begin = time.time()
    while True:
        try:
            np_unique_ids, np_start_logits, np_end_logits, np_num_seqs = test_exe.run(
                fetch_list=fetch_list, program=test_program)
            for idx in range(np_unique_ids.shape[0]):
                if np_unique_ids[idx] < 0:
                    continue
                if len(all_results) % 1000 == 0:
                    print("Processing example: %d" % len(all_results))
                unique_id = int(np_unique_ids[idx])
                start_logits = [float(x) for x in np_start_logits[idx].flat]
                end_logits = [float(x) for x in np_end_logits[idx].flat]
                all_results.append(
                    RawResult(
                        unique_id=unique_id,
                        start_logits=start_logits,
                        end_logits=end_logits))
        except fluid.core.EOFException:
            test_pyreader.reset()
            break
    time_end = time.time()

    features = processor.get_features(
        processor.predict_examples, is_training=False)
    write_predictions(processor.predict_examples, features, all_results,
                      args.n_best_size, args.max_answer_length,
                      args.do_lower_case, output_prediction_file,
                      output_nbest_file, output_null_log_odds_file,
                      args.with_negative,
                      args.null_score_diff_threshold, args.verbose)


def train(args):
    bert_config = BertConfig(args.bert_config_path)
    bert_config.print_config()

    if not (args.do_train or args.do_predict):
        raise ValueError("For args `do_train` and `do_predict`, at "
                         "least one of them must be True.")

    if args.use_cuda:
        place = fluid.CUDAPlace(0)
        dev_count = fluid.core.get_cuda_device_count()
    else:
        place = fluid.CPUPlace()
        dev_count = int(os.environ.get('CPU_NUM', multiprocessing.cpu_count()))
    exe = fluid.Executor(place)

    processor = DataProcessor(
        vocab_path=args.vocab_path,
        do_lower_case=args.do_lower_case,
        max_seq_length=args.max_seq_len,
        in_tokens=args.in_tokens,
        doc_stride=args.doc_stride,
        max_query_length=args.max_query_length)

    startup_prog = fluid.Program()
    if args.random_seed is not None:
        startup_prog.random_seed = args.random_seed

    if args.do_train: 
        build_strategy = fluid.BuildStrategy()
        print("estimating runtime number of examples...")
        num_train_examples = processor.estimate_runtime_examples(args.train_file, sample_rate=args.sample_rate)
        print("runtime number of examples:")
        print(num_train_examples)

        train_data_generator = processor.data_generator(
            data_path=args.train_file,
            batch_size=args.batch_size,
            max_len=args.max_seq_len,
            phase='train',
            shuffle=True,
            dev_count=dev_count,
            with_negative=args.with_negative,
            epoch=args.epoch)

        if args.in_tokens:
            max_train_steps = args.epoch * num_train_examples // (
                args.batch_size // args.max_seq_len) // dev_count
        else:
            max_train_steps = args.epoch * num_train_examples // (
                args.batch_size) // dev_count
        warmup_steps = int(max_train_steps * args.warmup_proportion)
        print("Device count: %d" % dev_count)
        print("Num train examples: %d" % num_train_examples)
        print("Max train steps: %d" % max_train_steps)
        print("Num warmup steps: %d" % warmup_steps)

        train_program = fluid.Program()
        with fluid.program_guard(train_program, startup_prog):
            with fluid.unique_name.guard():
                train_pyreader, loss, num_seqs = create_model(
                    pyreader_name='train_reader',
                    bert_config=bert_config,
                    is_training=True)
                
                train_pyreader.decorate_tensor_provider(train_data_generator)

                scheduled_lr = optimization(
                    loss=loss,
                    warmup_steps=warmup_steps,
                    num_train_steps=max_train_steps,
                    learning_rate=args.learning_rate,
                    train_program=train_program,
                    startup_prog=startup_prog,
                    weight_decay=args.weight_decay,
                    scheduler=args.lr_scheduler,
                    use_fp16=args.use_fp16,
                    loss_scaling=args.loss_scaling)
                
                loss.persistable = True 
                num_seqs.persistable = True 

                ema = fluid.optimizer.ExponentialMovingAverage(args.ema_decay)
                ema.update()

        train_compiled_program = fluid.CompiledProgram(train_program).with_data_parallel(
                loss_name=loss.name, build_strategy=build_strategy)

        if args.verbose:
            if args.in_tokens:
                lower_mem, upper_mem, unit = fluid.contrib.memory_usage(
                    program=train_program,
                    batch_size=args.batch_size // args.max_seq_len)
            else:
                lower_mem, upper_mem, unit = fluid.contrib.memory_usage(
                    program=train_program, batch_size=args.batch_size)
            print("Theoretical memory usage in training:  %.3f - %.3f %s" %
                  (lower_mem, upper_mem, unit))

    if args.do_predict: 
        build_strategy = fluid.BuildStrategy()
        test_prog = fluid.Program()
        with fluid.program_guard(test_prog, startup_prog):
            with fluid.unique_name.guard():
                test_pyreader, unique_ids, start_logits, end_logits, num_seqs = create_model(
                    pyreader_name='test_reader',
                    bert_config=bert_config,
                    is_training=False)
                
                if 'ema' not in dir():
                    ema = fluid.optimizer.ExponentialMovingAverage(args.ema_decay)

                unique_ids.persistable = True
                start_logits.persistable = True
                end_logits.persistable = True
                num_seqs.persistable = True

        test_prog = test_prog.clone(for_test=True)
        test_compiled_program = fluid.CompiledProgram(test_prog).with_data_parallel(
            build_strategy=build_strategy)

    exe.run(startup_prog)

    if args.do_train:
        if args.init_checkpoint and args.init_pretraining_params:
            print(
                "WARNING: args 'init_checkpoint' and 'init_pretraining_params' "
                "both are set! Only arg 'init_checkpoint' is made valid.")
        if args.init_checkpoint:
            init_checkpoint(
                exe,
                args.init_checkpoint,
                main_program=startup_prog,
                use_fp16=args.use_fp16)
        elif args.init_pretraining_params:
            init_pretraining_params(
                exe,
                args.init_pretraining_params,
                main_program=startup_prog,
                use_fp16=args.use_fp16)
    elif args.do_predict:
        if not args.init_checkpoint:
            raise ValueError("args 'init_checkpoint' should be set if"
                             "only doing prediction!")
        init_checkpoint(
            exe,
            args.init_checkpoint,
            main_program=startup_prog,
            use_fp16=args.use_fp16)

    if args.do_train:
        train_pyreader.start()

        steps = 0
        total_cost, total_num_seqs = [], []
        time_begin = time.time()
        while True:
            try:
                steps += 1
                if steps % args.skip_steps == 0:
                    if warmup_steps <= 0:
                        fetch_list = [loss.name, num_seqs.name]
                    else:
                        fetch_list = [
                            loss.name, scheduled_lr.name, num_seqs.name
                        ]
                else:
                    fetch_list = []

                outputs = exe.run(train_compiled_program, fetch_list=fetch_list)

                if steps % args.skip_steps == 0:
                    if warmup_steps <= 0:
                        np_loss, np_num_seqs = outputs
                    else:
                        np_loss, np_lr, np_num_seqs = outputs
                    total_cost.extend(np_loss * np_num_seqs)
                    total_num_seqs.extend(np_num_seqs)

                    if args.verbose:
                        verbose = "train pyreader queue size: %d, " % train_pyreader.queue.size(
                        )
                        verbose += "learning rate: %f" % (
                            np_lr[0]
                            if warmup_steps > 0 else args.learning_rate)
                        print(verbose)

                    time_end = time.time()
                    used_time = time_end - time_begin
                    current_example, epoch = processor.get_train_progress()

                    print("epoch: %d, progress: %d/%d, step: %d, loss: %f, "
                          "speed: %f steps/s" %
                          (epoch, current_example, num_train_examples, steps,
                           np.sum(total_cost) / np.sum(total_num_seqs),
                           args.skip_steps / used_time))
                    total_cost, total_num_seqs = [], []
                    time_begin = time.time()

                if steps % args.save_steps == 0:
                    save_path = os.path.join(args.checkpoints,
                                             "step_" + str(steps))
                    fluid.io.save_persistables(exe, save_path, train_program)
                if steps == max_train_steps:
                    save_path = os.path.join(args.checkpoints,
                                             "step_" + str(steps) + "_final")
                    fluid.io.save_persistables(exe, save_path, train_program)
                    break
            except Exception as err:
                save_path = os.path.join(args.checkpoints,
                                         "step_" + str(steps) + "_final")
                fluid.io.save_persistables(exe, save_path, train_program)
                train_pyreader.reset()
                break

    if args.do_predict:
        test_pyreader.decorate_tensor_provider(
            processor.data_generator(
                data_path=args.predict_file,
                batch_size=args.batch_size,
                max_len=args.max_seq_len,
                phase='predict',
                shuffle=False,
                dev_count=dev_count,
                epoch=1))

        if args.use_ema:
            with ema.apply(exe):
                predict(exe, test_prog, test_pyreader, [
                    unique_ids.name, start_logits.name, end_logits.name, num_seqs.name
                ], processor, prefix='ema_')
        else:
            predict(exe, test_prog, test_pyreader, [
                unique_ids.name, start_logits.name, end_logits.name, num_seqs.name
            ], processor)


if __name__ == '__main__':
    print_arguments(args)
    train(args)