onnxruntime/orttraining/tools/scripts/nv_run_pretraining.py
Justin Chu a36caba073
Bump ruff in CI (#15533)
### Description

Bump ruff version in CI and fixed new lint errors. 

- This change enables the flake8-implicit-str-concat rules which helps
detect unintended string concatenations:
https://beta.ruff.rs/docs/rules/#flake8-implicit-str-concat-isc
- Update gitignore to include common python files that we want to
exclude.


### Motivation and Context

Code quality
2023-04-17 10:11:44 -07:00

690 lines
29 KiB
Python

# Copyright (c) 2019 NVIDIA CORPORATION. All rights reserved.
# Copyright 2018 The Google AI Language Team Authors and The HugginFace Inc. team.
# 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.
"""BERT finetuning runner."""
import argparse
# ==================
import logging
import os
import random
import time
from concurrent.futures import ProcessPoolExecutor
import amp_C
import apex_C
import h5py
import numpy as np
import torch
from apex import amp
from apex.amp import _amp_state
from apex.parallel import DistributedDataParallel as DDP # noqa: N817
from apex.parallel.distributed import flat_dist_call
from file_utils import PYTORCH_PRETRAINED_BERT_CACHE # noqa: F401
from modeling import BertConfig, BertForPreTraining
from optimization import BertLAMB
from schedulers import LinearWarmUpScheduler # noqa: F401
from tokenization import BertTokenizer # noqa: F401
from torch.utils.data import DataLoader, Dataset, RandomSampler, SequentialSampler # noqa: F401
from torch.utils.data.distributed import DistributedSampler # noqa: F401
from tqdm import tqdm, trange # noqa: F401
from utils import is_main_process
logging.basicConfig(
format="%(asctime)s - %(levelname)s - %(name)s - %(message)s", datefmt="%m/%d/%Y %H:%M:%S", level=logging.INFO
)
logger = logging.getLogger(__name__)
def create_pretraining_dataset(input_file, max_pred_length, shared_list, args):
train_data = pretraining_dataset(input_file=input_file, max_pred_length=max_pred_length)
train_sampler = RandomSampler(train_data)
train_dataloader = DataLoader(
train_data, sampler=train_sampler, batch_size=args.train_batch_size * args.n_gpu, num_workers=4, pin_memory=True
)
# shared_list["0"] = (train_dataloader, input_file)
return train_dataloader, input_file
class pretraining_dataset(Dataset): # noqa: N801
def __init__(self, input_file, max_pred_length):
self.input_file = input_file
self.max_pred_length = max_pred_length
f = h5py.File(input_file, "r")
keys = [
"input_ids",
"input_mask",
"segment_ids",
"masked_lm_positions",
"masked_lm_ids",
"next_sentence_labels",
]
self.inputs = [np.asarray(f[key][:]) for key in keys]
f.close()
def __len__(self):
"Denotes the total number of samples"
return len(self.inputs[0])
def __getitem__(self, index):
[input_ids, input_mask, segment_ids, masked_lm_positions, masked_lm_ids, next_sentence_labels] = [
torch.from_numpy(input[index].astype(np.int64))
if indice < 5
else torch.from_numpy(np.asarray(input[index].astype(np.int64)))
for indice, input in enumerate(self.inputs)
]
masked_lm_labels = torch.ones(input_ids.shape, dtype=torch.long) * -1
index = self.max_pred_length
# store number of masked tokens in index
padded_mask_indices = (masked_lm_positions == 0).nonzero()
if len(padded_mask_indices) != 0:
index = padded_mask_indices[0].item()
masked_lm_labels[masked_lm_positions[:index]] = masked_lm_ids[:index]
return [input_ids, segment_ids, input_mask, masked_lm_labels, next_sentence_labels]
def parse_arguments():
parser = argparse.ArgumentParser()
## Required parameters
parser.add_argument(
"--input_dir",
default=None,
type=str,
required=True,
help="The input data dir. Should contain .hdf5 files for the task.",
)
parser.add_argument("--config_file", default=None, type=str, required=True, help="The BERT model config")
parser.add_argument(
"--bert_model",
default="bert-large-uncased",
type=str,
help="Bert pre-trained model selected in the list: bert-base-uncased, "
"bert-large-uncased, bert-base-cased, bert-base-multilingual, bert-base-chinese.",
)
parser.add_argument(
"--output_dir",
default=None,
type=str,
required=True,
help="The output directory where the model checkpoints will be written.",
)
## Other parameters
parser.add_argument(
"--max_seq_length",
default=512,
type=int,
help="The maximum total input sequence length after WordPiece tokenization. \n"
"Sequences longer than this will be truncated, and sequences shorter \n"
"than this will be padded.",
)
parser.add_argument(
"--max_predictions_per_seq", default=80, type=int, help="The maximum total of masked tokens in input sequence"
)
parser.add_argument("--train_batch_size", default=32, type=int, help="Total batch size for training.")
parser.add_argument("--learning_rate", default=5e-5, type=float, help="The initial learning rate for Adam.")
parser.add_argument(
"--num_train_epochs", default=3.0, type=float, help="Total number of training epochs to perform."
)
parser.add_argument("--max_steps", default=1000, type=float, help="Total number of training steps to perform.")
parser.add_argument(
"--warmup_proportion",
default=0.01,
type=float,
help="Proportion of training to perform linear learning rate warmup for. E.g., 0.1 = 10%% of training.",
)
parser.add_argument("--local_rank", type=int, default=-1, help="local_rank for distributed training on gpus")
parser.add_argument("--seed", type=int, default=42, help="random seed for initialization")
parser.add_argument(
"--gradient_accumulation_steps",
type=int,
default=1,
help="Number of updates steps to accumualte before performing a backward/update pass.",
)
parser.add_argument(
"--fp16", default=False, action="store_true", help="Whether to use 16-bit float precision instead of 32-bit"
)
parser.add_argument(
"--loss_scale",
type=float,
default=0.0,
help="Loss scaling, positive power of 2 values can improve fp16 convergence.",
)
parser.add_argument("--log_freq", type=float, default=50.0, help="frequency of logging loss.")
parser.add_argument(
"--checkpoint_activations", default=False, action="store_true", help="Whether to use gradient checkpointing"
)
parser.add_argument(
"--resume_from_checkpoint",
default=False,
action="store_true",
help="Whether to resume training from checkpoint.",
)
parser.add_argument("--resume_step", type=int, default=-1, help="Step to resume training from.")
parser.add_argument(
"--num_steps_per_checkpoint",
type=int,
default=100,
help="Number of update steps until a model checkpoint is saved to disk.",
)
parser.add_argument("--phase2", default=False, action="store_true", help="Whether to train with seq len 512")
parser.add_argument(
"--allreduce_post_accumulation",
default=False,
action="store_true",
help="Whether to do allreduces during gradient accumulation steps.",
)
parser.add_argument(
"--allreduce_post_accumulation_fp16",
default=False,
action="store_true",
help="Whether to do fp16 allreduce post accumulation.",
)
parser.add_argument(
"--accumulate_into_fp16", default=False, action="store_true", help="Whether to use fp16 gradient accumulators."
)
parser.add_argument(
"--phase1_end_step", type=int, default=7038, help="Number of training steps in Phase1 - seq len 128"
)
parser.add_argument("--do_train", default=False, action="store_true", help="Whether to run training.")
args = parser.parse_args()
return args
def setup_training(args):
assert torch.cuda.is_available()
if args.local_rank == -1:
device = torch.device("cuda")
args.n_gpu = torch.cuda.device_count()
else:
torch.cuda.set_device(args.local_rank)
device = torch.device("cuda", args.local_rank)
args.n_gpu = 1
# Initializes the distributed backend which will take care of sychronizing nodes/GPUs
torch.distributed.init_process_group(backend="nccl", init_method="env://")
logger.info("device %s n_gpu %d distributed training %r", device, args.n_gpu, bool(args.local_rank != -1))
if args.gradient_accumulation_steps < 1:
raise ValueError(
f"Invalid gradient_accumulation_steps parameter: {args.gradient_accumulation_steps}, should be >= 1"
)
if args.train_batch_size % args.gradient_accumulation_steps != 0:
raise ValueError(
"Invalid gradient_accumulation_steps parameter: {}, batch size {} should be divisible".format(
args.gradient_accumulation_steps, args.train_batch_size
)
)
args.train_batch_size = args.train_batch_size // args.gradient_accumulation_steps
if not args.do_train:
raise ValueError(" `do_train` must be True.")
if (
not args.resume_from_checkpoint
and os.path.exists(args.output_dir)
and (os.listdir(args.output_dir) and os.listdir(args.output_dir) != ["logfile.txt"])
):
raise ValueError(f"Output directory ({args.output_dir}) already exists and is not empty.")
if not args.resume_from_checkpoint:
os.makedirs(args.output_dir, exist_ok=True)
return device, args
def prepare_model_and_optimizer(args, device):
# Prepare model
config = BertConfig.from_json_file(args.config_file)
# Padding for divisibility by 8
if config.vocab_size % 8 != 0:
config.vocab_size += 8 - (config.vocab_size % 8)
model = BertForPreTraining(config)
checkpoint = None
if not args.resume_from_checkpoint:
global_step = 0
else:
if args.resume_step == -1:
model_names = [f for f in os.listdir(args.output_dir) if f.endswith(".pt")]
args.resume_step = max([int(x.split(".pt")[0].split("_")[1].strip()) for x in model_names])
global_step = args.resume_step
checkpoint = torch.load(os.path.join(args.output_dir, f"ckpt_{global_step}.pt"), map_location="cpu")
model.load_state_dict(checkpoint["model"], strict=False)
if args.phase2:
global_step -= args.phase1_end_step
if is_main_process():
print("resume step from ", args.resume_step)
model.to(device)
param_optimizer = list(model.named_parameters())
no_decay = ["bias", "gamma", "beta", "LayerNorm"]
optimizer_grouped_parameters = []
names = []
count = 1
for n, p in param_optimizer:
count += 1
if not any(nd in n for nd in no_decay):
optimizer_grouped_parameters.append({"params": [p], "weight_decay": 0.01, "name": n})
names.append({"params": [n], "weight_decay": 0.01})
if any(nd in n for nd in no_decay):
optimizer_grouped_parameters.append({"params": [p], "weight_decay": 0.00, "name": n})
names.append({"params": [n], "weight_decay": 0.00})
optimizer = BertLAMB(
optimizer_grouped_parameters, lr=args.learning_rate, warmup=args.warmup_proportion, t_total=args.max_steps
)
if args.fp16:
if args.loss_scale == 0:
# optimizer = FP16_Optimizer(optimizer, dynamic_loss_scale=True)
model, optimizer = amp.initialize(
model,
optimizer,
opt_level="O2",
loss_scale="dynamic",
master_weights=not args.accumulate_into_fp16,
)
else:
# optimizer = FP16_Optimizer(optimizer, static_loss_scale=args.loss_scale)
model, optimizer = amp.initialize(
model,
optimizer,
opt_level="O2",
loss_scale=args.loss_scale,
master_weights=not args.accumulate_into_fp16,
)
amp._amp_state.loss_scalers[0]._loss_scale = 2**20
if args.resume_from_checkpoint:
if args.phase2:
keys = list(checkpoint["optimizer"]["state"].keys())
# Override hyperparameters from Phase 1
for key in keys:
checkpoint["optimizer"]["state"][key]["step"] = global_step
for iter, _item in enumerate(checkpoint["optimizer"]["param_groups"]):
checkpoint["optimizer"]["param_groups"][iter]["t_total"] = args.max_steps
checkpoint["optimizer"]["param_groups"][iter]["warmup"] = args.warmup_proportion
checkpoint["optimizer"]["param_groups"][iter]["lr"] = args.learning_rate
optimizer.load_state_dict(checkpoint["optimizer"]) # , strict=False)
# Restore AMP master parameters
if args.fp16:
optimizer._lazy_init_maybe_master_weights()
optimizer._amp_stash.lazy_init_called = True
optimizer.load_state_dict(checkpoint["optimizer"])
for param, saved_param in zip(amp.master_params(optimizer), checkpoint["master params"]):
param.data.copy_(saved_param.data)
if args.local_rank != -1:
if not args.allreduce_post_accumulation:
model = DDP(model, message_size=250000000, gradient_predivide_factor=torch.distributed.get_world_size())
else:
flat_dist_call([param.data for param in model.parameters()], torch.distributed.broadcast, (0,))
elif args.n_gpu > 1:
model = torch.nn.DataParallel(model)
return model, optimizer, checkpoint, global_step
def take_optimizer_step(args, optimizer, model, overflow_buf, global_step):
if args.allreduce_post_accumulation:
# manually allreduce gradients after all accumulation steps
# check for Inf/NaN
# 1. allocate an uninitialized buffer for flattened gradient
scaler = _amp_state.loss_scalers[0]
master_grads = [p.grad for p in amp.master_params(optimizer) if p.grad is not None]
flat_grad_size = sum(p.numel() for p in master_grads)
allreduce_dtype = torch.float16 if args.allreduce_post_accumulation_fp16 else torch.float32
flat_raw = torch.empty(flat_grad_size, device="cuda", dtype=allreduce_dtype)
# 2. combine unflattening and predivision of unscaled 'raw' gradient
allreduced_views = apex_C.unflatten(flat_raw, master_grads)
overflow_buf.zero_()
amp_C.multi_tensor_scale(
65536,
overflow_buf,
[master_grads, allreduced_views],
scaler.loss_scale() / (torch.distributed.get_world_size() * args.gradient_accumulation_steps),
)
# 3. sum gradient across ranks. Because of the predivision, this averages the gradient
torch.distributed.all_reduce(flat_raw)
# 4. combine unscaling and unflattening of allreduced gradient
overflow_buf.zero_()
amp_C.multi_tensor_scale(65536, overflow_buf, [allreduced_views, master_grads], 1.0 / scaler.loss_scale())
# 5. update loss scale
scaler = _amp_state.loss_scalers[0]
old_overflow_buf = scaler._overflow_buf
scaler._overflow_buf = overflow_buf
had_overflow = scaler.update_scale()
scaler._overfloat_buf = old_overflow_buf
# 6. call optimizer step function
if had_overflow == 0:
optimizer.step()
global_step += 1
else:
# Overflow detected, print message and clear gradients
if is_main_process():
print(
f"Rank {torch.distributed.get_rank()} :: Gradient overflow. Skipping step, reducing loss scale to {scaler.loss_scale()}"
)
if _amp_state.opt_properties.master_weights:
for param in optimizer._amp_stash.all_fp32_from_fp16_params:
param.grad = None
for param in model.parameters():
param.grad = None
else:
optimizer.step()
# optimizer.zero_grad()
for param in model.parameters():
param.grad = None
global_step += 1
return global_step
def main():
args = parse_arguments()
random.seed(args.seed)
np.random.seed(args.seed)
torch.manual_seed(args.seed)
device, args = setup_training(args)
# Prepare optimizer
config = BertConfig.from_json_file(args.config_file)
model, optimizer, checkpoint, global_step = prepare_model_and_optimizer(args, device)
is_model_exported = False
if is_main_process():
print(f"SEED {args.seed}")
if args.do_train:
if is_main_process():
logger.info("***** Running training *****")
# logger.info(" Num examples = %d", len(train_data))
logger.info(" Batch size = %d", args.train_batch_size)
print(" LR = ", args.learning_rate)
print("Training. . .")
model.train()
most_recent_ckpts_paths = []
average_loss = 0.0 # averaged loss every args.log_freq steps
epoch = 0
training_steps = 0
pool = ProcessPoolExecutor(1)
# Note: We loop infinitely over epochs, termination is handled via iteration count
while True:
if not args.resume_from_checkpoint or epoch > 0 or args.phase2:
files = [
os.path.join(args.input_dir, f)
for f in os.listdir(args.input_dir)
if os.path.isfile(os.path.join(args.input_dir, f))
]
files.sort()
num_files = len(files)
random.shuffle(files)
f_start_id = 0
else:
f_start_id = checkpoint["files"][0]
files = checkpoint["files"][1:]
args.resume_from_checkpoint = False
num_files = len(files)
print("File list is [" + ",".join(files) + "].")
shared_file_list = {}
if torch.distributed.is_initialized() and torch.distributed.get_world_size() > num_files:
remainder = torch.distributed.get_world_size() % num_files
data_file = files[
(
f_start_id * torch.distributed.get_world_size()
+ torch.distributed.get_rank()
+ remainder * f_start_id
)
% num_files
]
else:
data_file = files[f_start_id % num_files]
previous_file = data_file
print(f"Create pretraining_dataset with file {data_file}...")
train_data = pretraining_dataset(data_file, args.max_predictions_per_seq)
train_sampler = RandomSampler(train_data)
train_dataloader = DataLoader(
train_data,
sampler=train_sampler,
batch_size=args.train_batch_size * args.n_gpu,
num_workers=4,
pin_memory=True,
)
# shared_file_list["0"] = (train_dataloader, data_file)
overflow_buf = None
if args.allreduce_post_accumulation:
overflow_buf = torch.cuda.IntTensor([0])
for f_id in range(f_start_id + 1, len(files)):
# torch.cuda.synchronize()
# f_start = time.time()
if torch.distributed.is_initialized() and torch.distributed.get_world_size() > num_files:
data_file = files[
(f_id * torch.distributed.get_world_size() + torch.distributed.get_rank() + remainder * f_id)
% num_files
]
else:
data_file = files[f_id % num_files]
logger.info(f"file no {f_id} file {previous_file}")
previous_file = data_file
# train_dataloader = shared_file_list["0"][0]
# thread = multiprocessing.Process(
# name="LOAD DATA:" + str(f_id) + ":" + str(data_file),
# target=create_pretraining_dataset,
# args=(data_file, args.max_predictions_per_seq, shared_file_list, args, n_gpu)
# )
# thread.start()
print(f"Submit new data file {data_file} for the next iteration...")
dataset_future = pool.submit(
create_pretraining_dataset, data_file, args.max_predictions_per_seq, shared_file_list, args
)
# torch.cuda.synchronize()
# f_end = time.time()
# print('[{}] : shard overhead {}'.format(torch.distributed.get_rank(), f_end - f_start))
train_iter = tqdm(train_dataloader, desc="Iteration") if is_main_process() else train_dataloader
for _step, batch in enumerate(train_iter):
# torch.cuda.synchronize()
# iter_start = time.time()
training_steps += 1
batch = [t.to(device) for t in batch] # noqa: PLW2901
input_ids, segment_ids, input_mask, masked_lm_labels, next_sentence_labels = batch
if not is_model_exported:
onnx_path = os.path.join(
args.output_dir, "bert_for_pretraining_without_loss_" + config.to_string() + ".onnx"
)
lm_score, sq_score = model(
input_ids=input_ids, token_type_ids=segment_ids, attention_mask=input_mask
)
torch.onnx.export(
model,
(input_ids, segment_ids, input_mask),
onnx_path,
verbose=True,
# input_names = ['input_ids', 'token_type_ids', 'input_mask'],
input_names=["input1", "input2", "input3"],
output_names=["output1", "output2"],
dynamic_axes={
"input1": {0: "batch"},
"input2": {0: "batch"},
"input3": {0: "batch"},
"output1": {0: "batch"},
"output2": {0: "batch"},
},
training=True,
)
is_model_exported = False
import onnxruntime as ort
sess = ort.InferenceSession(onnx_path, providers=ort.get_available_providers())
result = sess.run(
None,
{
"input1": input_ids.cpu().numpy(),
"input2": segment_ids.cpu().numpy(),
"input3": input_mask.cpu().numpy(),
},
)
print("---ORT result---")
print(result[0])
print(result[1])
print("---Pytorch result---")
print(lm_score)
print(sq_score)
print("---ORT-Pytorch Diff---")
print(np.linalg.norm(result[0] - lm_score.detach().cpu().numpy()))
print(np.linalg.norm(result[1] - sq_score.detach().cpu().numpy()))
return
loss = model(
input_ids=input_ids,
token_type_ids=segment_ids,
attention_mask=input_mask,
masked_lm_labels=masked_lm_labels,
next_sentence_label=next_sentence_labels,
checkpoint_activations=args.checkpoint_activations,
)
if args.n_gpu > 1:
loss = loss.mean() # mean() to average on multi-gpu.
divisor = args.gradient_accumulation_steps
if args.gradient_accumulation_steps > 1:
if not args.allreduce_post_accumulation:
# this division was merged into predivision
loss = loss / args.gradient_accumulation_steps
divisor = 1.0
if args.fp16:
with amp.scale_loss(
loss, optimizer, delay_overflow_check=args.allreduce_post_accumulation
) as scaled_loss:
scaled_loss.backward()
else:
loss.backward()
average_loss += loss.item()
if training_steps % args.gradient_accumulation_steps == 0:
global_step = take_optimizer_step(args, optimizer, model, overflow_buf, global_step)
if global_step >= args.max_steps:
last_num_steps = global_step % args.log_freq
last_num_steps = args.log_freq if last_num_steps == 0 else last_num_steps
average_loss = torch.tensor(average_loss, dtype=torch.float32).cuda()
average_loss = average_loss / (last_num_steps * divisor)
if torch.distributed.is_initialized():
average_loss /= torch.distributed.get_world_size()
torch.distributed.all_reduce(average_loss)
if is_main_process():
logger.info(f"Total Steps:{training_steps} Final Loss = {average_loss.item()}")
elif training_steps % (args.log_freq * args.gradient_accumulation_steps) == 0:
if is_main_process():
print(
"Step:{} Average Loss = {} Step Loss = {} LR {}".format(
global_step,
average_loss / (args.log_freq * divisor),
loss.item() * args.gradient_accumulation_steps / divisor,
optimizer.param_groups[0]["lr"],
)
)
average_loss = 0
if (
global_step >= args.max_steps
or training_steps % (args.num_steps_per_checkpoint * args.gradient_accumulation_steps) == 0
):
if is_main_process():
# Save a trained model
logger.info("** ** * Saving fine - tuned model ** ** * ")
model_to_save = (
model.module if hasattr(model, "module") else model
) # Only save the model it-self
if args.resume_step < 0 or not args.phase2:
output_save_file = os.path.join(args.output_dir, f"ckpt_{global_step}.pt")
else:
output_save_file = os.path.join(
args.output_dir, f"ckpt_{global_step + args.phase1_end_step}.pt"
)
if args.do_train:
torch.save(
{
"model": model_to_save.state_dict(),
"optimizer": optimizer.state_dict(),
"master params": list(amp.master_params(optimizer)),
"files": [f_id, *files],
},
output_save_file,
)
most_recent_ckpts_paths.append(output_save_file)
if len(most_recent_ckpts_paths) > 3:
ckpt_to_be_removed = most_recent_ckpts_paths.pop(0)
os.remove(ckpt_to_be_removed)
if global_step >= args.max_steps:
del train_dataloader
# thread.join()
return args
# torch.cuda.synchronize()
# iter_end = time.time()
# if torch.distributed.get_rank() == 0:
# print('step {} : {}'.format(global_step, iter_end - iter_start))
del train_dataloader
# thread.join()
# Make sure pool has finished and switch train_dataloader
# NOTE: Will block until complete
train_dataloader, data_file = dataset_future.result(timeout=None)
epoch += 1
if __name__ == "__main__":
now = time.time()
args = main()
if is_main_process():
print(f"Total time taken {time.time() - now}")