donut/donut-train.py

#!/usr/bin/env python
# coding: utf-8


from transformers import VisionEncoderDecoderConfig, DonutProcessor, VisionEncoderDecoderModel
from datasets import load_dataset
import json
import random
from typing import Any, List, Tuple
import torch
from torch.utils.data import Dataset, DataLoader
import re
from nltk import edit_distance
import numpy as np
from pytorch_lightning.loggers import WandbLogger
from pytorch_lightning.callbacks import Callback, ModelCheckpoint
import pytorch_lightning as pl
import os
from huggingface_hub import login
from pytorch_lightning.plugins import CheckpointIO



DATASET_PATH = "Zombely/pl-text-images-5000-whole"
PRETRAINED_MODEL_PATH = "Zombely/plwiki-proto-fine-tuned"
START_MODEL_PATH = "Zombely/plwiki-proto-fine-tuned"
OUTPUT_MODEL_PATH = "Zombely/plwiki-proto-fine-tuned-v2"
LOGGING_PATH = "plwiki-proto-ft-second-iter"
CHECKPOINT_PATH = "./checkpoint"


train_config = {
    "max_epochs":30,
    "val_check_interval":0.5, # how many times we want to validate during an epoch
    "check_val_every_n_epoch":1,
    "gradient_clip_val":1.0,
    "num_training_samples_per_epoch": 800,
    "lr":3e-5,
    "train_batch_sizes": [8],
    "val_batch_sizes": [1],
    "seed":2022,
    "num_nodes": 1,
    "warmup_steps": 300, # 800/8*30/10, 10%
    "result_path": "./result",
    "verbose": True,
}



dataset = load_dataset(DATASET_PATH)


max_length = 768
image_size = [1920, 2560]
config = VisionEncoderDecoderConfig.from_pretrained(PRETRAINED_MODEL_PATH)
config.encoder.image_size = image_size # (height, width)
config.decoder.max_length = max_length



processor = DonutProcessor.from_pretrained(START_MODEL_PATH)
model = VisionEncoderDecoderModel.from_pretrained(PRETRAINED_MODEL_PATH, config=config)

added_tokens = []

class CustomCheckpointIO(CheckpointIO):
    def save_checkpoint(self, checkpoint, path, storage_options=None):
        del checkpoint["state_dict"]
        torch.save(checkpoint, path)

    def load_checkpoint(self, path, storage_options=None):
        checkpoint = torch.load(path + "artifacts.ckpt")
        state_dict = torch.load(path + "pytorch_model.bin")
        checkpoint["state_dict"] = {"model." + key: value for key, value in state_dict.items()}
        return checkpoint

    def remove_checkpoint(self, path) -> None:
        return super().remove_checkpoint(path)

class DonutDataset(Dataset):
    """
    DonutDataset which is saved in huggingface datasets format. (see details in https://huggingface.co/docs/datasets)
    Each row, consists of image path(png/jpg/jpeg) and gt data (json/jsonl/txt),
    and it will be converted into input_tensor(vectorized image) and input_ids(tokenized string).
    Args:
        dataset_name_or_path: name of dataset (available at huggingface.co/datasets) or the path containing image files and metadata.jsonl
        max_length: the max number of tokens for the target sequences
        split: whether to load "train", "validation" or "test" split
        ignore_id: ignore_index for torch.nn.CrossEntropyLoss
        task_start_token: the special token to be fed to the decoder to conduct the target task
        prompt_end_token: the special token at the end of the sequences
        sort_json_key: whether or not to sort the JSON keys
    """

    def __init__(
        self,
        dataset_name_or_path: str,
        max_length: int,
        split: str = "train",
        ignore_id: int = -100,
        task_start_token: str = "<s>",
        prompt_end_token: str = None,
        sort_json_key: bool = True,
    ):
        super().__init__()

        self.max_length = max_length
        self.split = split
        self.ignore_id = ignore_id
        self.task_start_token = task_start_token
        self.prompt_end_token = prompt_end_token if prompt_end_token else task_start_token
        self.sort_json_key = sort_json_key

        self.dataset = load_dataset(dataset_name_or_path, split=self.split)
        self.dataset_length = len(self.dataset)

        self.gt_token_sequences = []
        for sample in self.dataset:
            ground_truth = json.loads(sample["ground_truth"])
            if "gt_parses" in ground_truth:  # when multiple ground truths are available, e.g., docvqa
                assert isinstance(ground_truth["gt_parses"], list)
                gt_jsons = ground_truth["gt_parses"]
            else:
                assert "gt_parse" in ground_truth and isinstance(ground_truth["gt_parse"], dict)
                gt_jsons = [ground_truth["gt_parse"]]

            self.gt_token_sequences.append(
                [
                    self.json2token(
                        gt_json,
                        update_special_tokens_for_json_key=self.split == "train",
                        sort_json_key=self.sort_json_key,
                    )
                    + processor.tokenizer.eos_token
                    for gt_json in gt_jsons  # load json from list of json
                ]
            )

        self.add_tokens([self.task_start_token, self.prompt_end_token])
        self.prompt_end_token_id = processor.tokenizer.convert_tokens_to_ids(self.prompt_end_token)

    def json2token(self, obj: Any, update_special_tokens_for_json_key: bool = True, sort_json_key: bool = True):
        """
        Convert an ordered JSON object into a token sequence
        """
        if type(obj) == dict:
            if len(obj) == 1 and "text_sequence" in obj:
                return obj["text_sequence"]
            else:
                output = ""
                if sort_json_key:
                    keys = sorted(obj.keys(), reverse=True)
                else:
                    keys = obj.keys()
                for k in keys:
                    if update_special_tokens_for_json_key:
                        self.add_tokens([fr"<s_{k}>", fr"</s_{k}>"])
                    output += (
                        fr"<s_{k}>"
                        + self.json2token(obj[k], update_special_tokens_for_json_key, sort_json_key)
                        + fr"</s_{k}>"
                    )
                return output
        elif type(obj) == list:
            return r"<sep/>".join(
                [self.json2token(item, update_special_tokens_for_json_key, sort_json_key) for item in obj]
            )
        else:
            obj = str(obj)
            if f"<{obj}/>" in added_tokens:
                obj = f"<{obj}/>"  # for categorical special tokens
            return obj
    
    def add_tokens(self, list_of_tokens: List[str]):
        """
        Add special tokens to tokenizer and resize the token embeddings of the decoder
        """
        newly_added_num = processor.tokenizer.add_tokens(list_of_tokens)
        if newly_added_num > 0:
            model.decoder.resize_token_embeddings(len(processor.tokenizer))
            added_tokens.extend(list_of_tokens)
    
    def __len__(self) -> int:
        return self.dataset_length

    def __getitem__(self, idx: int) -> Tuple[torch.Tensor, torch.Tensor, torch.Tensor]:
        """
        Load image from image_path of given dataset_path and convert into input_tensor and labels
        Convert gt data into input_ids (tokenized string)
        Returns:
            input_tensor : preprocessed image
            input_ids : tokenized gt_data
            labels : masked labels (model doesn't need to predict prompt and pad token)
        """
        sample = self.dataset[idx]

        # inputs
        pixel_values = processor(sample["image"], random_padding=self.split == "train", return_tensors="pt").pixel_values
        pixel_values = pixel_values.squeeze()

        # targets
        target_sequence = random.choice(self.gt_token_sequences[idx])  # can be more than one, e.g., DocVQA Task 1
        input_ids = processor.tokenizer(
            target_sequence,
            add_special_tokens=False,
            max_length=self.max_length,
            padding="max_length",
            truncation=True,
            return_tensors="pt",
        )["input_ids"].squeeze(0)

        labels = input_ids.clone()
        labels[labels == processor.tokenizer.pad_token_id] = self.ignore_id  # model doesn't need to predict pad token
        # labels[: torch.nonzero(labels == self.prompt_end_token_id).sum() + 1] = self.ignore_id  # model doesn't need to predict prompt (for VQA)
        return pixel_values, labels, target_sequence


processor.image_processor.size = image_size[::-1] # should be (width, height)
processor.image_processor.do_align_long_axis = False

train_dataset = DonutDataset(DATASET_PATH, max_length=max_length,
                             split="train", task_start_token="<s_cord-v2>", prompt_end_token="<s_cord-v2>",
                             sort_json_key=False, # cord dataset is preprocessed, so no need for this
                             )

val_dataset = DonutDataset(DATASET_PATH, max_length=max_length,
                             split="validation", task_start_token="<s_cord-v2>", prompt_end_token="<s_cord-v2>",
                             sort_json_key=False, # cord dataset is preprocessed, so no need for this
                             )




model.config.pad_token_id = processor.tokenizer.pad_token_id
model.config.decoder_start_token_id = processor.tokenizer.convert_tokens_to_ids(['<s_cord-v2>'])[0]

train_dataloader = DataLoader(train_dataset, batch_size=1, shuffle=True, num_workers=4)
val_dataloader = DataLoader(val_dataset, batch_size=1, shuffle=False, num_workers=4)


class DonutModelPLModule(pl.LightningModule):
    def __init__(self, config, processor, model):
        super().__init__()
        self.config = config
        self.processor = processor
        self.model = model

    def training_step(self, batch, batch_idx):
        pixel_values, labels, _ = batch
        
        outputs = self.model(pixel_values, labels=labels)
        loss = outputs.loss
        self.log_dict({"train_loss": loss}, sync_dist=True)
        return loss

    def validation_step(self, batch, batch_idx, dataset_idx=0):
        pixel_values, labels, answers = batch
        batch_size = pixel_values.shape[0]
        # we feed the prompt to the model
        decoder_input_ids = torch.full((batch_size, 1), self.model.config.decoder_start_token_id, device=self.device)
        
        outputs = self.model.generate(pixel_values,
                                   decoder_input_ids=decoder_input_ids,
                                   max_length=max_length,
                                   early_stopping=True,
                                   pad_token_id=self.processor.tokenizer.pad_token_id,
                                   eos_token_id=self.processor.tokenizer.eos_token_id,
                                   use_cache=True,
                                   num_beams=1,
                                   bad_words_ids=[[self.processor.tokenizer.unk_token_id]],
                                   return_dict_in_generate=True,)
    
        predictions = []
        for seq in self.processor.tokenizer.batch_decode(outputs.sequences):
            seq = seq.replace(self.processor.tokenizer.eos_token, "").replace(self.processor.tokenizer.pad_token, "")
            seq = re.sub(r"<.*?>", "", seq, count=1).strip()  # remove first task start token
            predictions.append(seq)

        scores = list()
        for pred, answer in zip(predictions, answers):
            pred = re.sub(r"(?:(?<=>) | (?=</s_))", "", pred)
            # NOT NEEDED ANYMORE
            # answer = re.sub(r"<.*?>", "", answer, count=1)
            answer = answer.replace(self.processor.tokenizer.eos_token, "")
            scores.append(edit_distance(pred, answer) / max(len(pred), len(answer)))

            if self.config.get("verbose", False) and len(scores) == 1:
                print(f"Prediction: {pred}")
                print(f"    Answer: {answer}")
                print(f" Normed ED: {scores[0]}")

        return scores

    def validation_epoch_end(self, validation_step_outputs):
        # I set this to 1 manually
        # (previously set to len(self.config.dataset_name_or_paths))
        num_of_loaders = 1
        if num_of_loaders == 1:
            validation_step_outputs = [validation_step_outputs]
        assert len(validation_step_outputs) == num_of_loaders
        cnt = [0] * num_of_loaders
        total_metric = [0] * num_of_loaders
        val_metric = [0] * num_of_loaders
        for i, results in enumerate(validation_step_outputs):
            for scores in results:
                cnt[i] += len(scores)
                total_metric[i] += np.sum(scores)
            val_metric[i] = total_metric[i] / cnt[i]
            val_metric_name = f"val_metric_{i}th_dataset"
            self.log_dict({val_metric_name: val_metric[i]}, sync_dist=True)
        self.log_dict({"val_metric": np.sum(total_metric) / np.sum(cnt)}, sync_dist=True)

    def configure_optimizers(self):
        # TODO add scheduler
        optimizer = torch.optim.Adam(self.parameters(), lr=self.config.get("lr"))
    
        return optimizer

    def train_dataloader(self):
        return train_dataloader

    def val_dataloader(self):
        return val_dataloader


class PushToHubCallback(Callback):
    def on_train_epoch_end(self, trainer, pl_module):
        print(f"Pushing model to the hub, epoch {trainer.current_epoch}")
        pl_module.model.push_to_hub(OUTPUT_MODEL_PATH,
                                    commit_message=f"Training in progress, epoch {trainer.current_epoch}")
        # pl_module.processor.push_to_hub(OUTPUT_MODEL_PATH, commit_message=f"Training in progress, epoch {trainer.current_epoch}")

    def on_train_end(self, trainer, pl_module):
        print(f"Pushing model to the hub after training")
        pl_module.processor.push_to_hub(OUTPUT_MODEL_PATH,
                                    commit_message=f"Training done")
        pl_module.model.push_to_hub(OUTPUT_MODEL_PATH,
                                    commit_message=f"Training done")



login(os.environ.get("HUG_TOKKEN", ""))


# ### Wandb.ai link: https://wandb.ai/michalkozlowski936/Donut?workspace=user-michalkozlowski936
# ### Hugging_face link https://huggingface.co/Zombely

model_module = DonutModelPLModule(train_config, processor, model)

wandb_logger = WandbLogger(project="Donut", name=LOGGING_PATH)

checkpoint_callback = ModelCheckpoint(
        monitor="val_metric",
        dirpath=CHECKPOINT_PATH,
        filename="artifacts",
        save_top_k=1,
        save_last=False,
        mode="min",
    )

custom_ckpt = CustomCheckpointIO()


trainer = pl.Trainer(
        accelerator="gpu", # change to gpu
        devices=1,
        max_epochs=train_config.get("max_epochs"),
        val_check_interval=train_config.get("val_check_interval"),
        check_val_every_n_epoch=train_config.get("check_val_every_n_epoch"),
        gradient_clip_val=train_config.get("gradient_clip_val"),
        precision=16, # we'll use mixed precision
        plugins=custom_ckpt,
        num_sanity_val_steps=0,
        logger=wandb_logger,
        callbacks=[PushToHubCallback(), checkpoint_callback],
)

trainer.fit(model_module)