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Remove custom pipeline

This commit is contained in:
Ankur Goyal 2022-09-05 14:29:58 -07:00
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commit 3dc6de3168
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6
config.json
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@ -6,12 +6,6 @@
"attention_probs_dropout_prob": 0.1,
"bos_token_id": 0,
"classifier_dropout": null,
"custom_pipelines": {
"document-question-answering": {
"impl": "pipeline_document_question_answering.DocumentQuestionAnsweringPipeline",
"pt": "AutoModelForQuestionAnswering"
}
},
"eos_token_id": 2,
"gradient_checkpointing": false,
"hidden_act": "gelu",

377
pipeline_document_question_answering.py
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# NOTE: This code is currently under review for inclusion in the main
# huggingface/transformers repository:
# https://github.com/huggingface/transformers/pull/18414
from typing import List, Optional, Tuple, Union
import numpy as np
from transformers.utils import add_end_docstrings, is_torch_available, logging
from transformers.pipelines.base import PIPELINE_INIT_ARGS, Pipeline
from .qa_helpers import select_starts_ends, Image, load_image, VISION_LOADED, pytesseract, TESSERACT_LOADED
if is_torch_available():
import torch
# We do not perform the check in this version of the pipeline code
# from transformers.models.auto.modeling_auto import MODEL_FOR_DOCUMENT_QUESTION_ANSWERING_MAPPING
logger = logging.get_logger(__name__)
# normalize_bbox() and apply_tesseract() are derived from apply_tesseract in models/layoutlmv3/feature_extraction_layoutlmv3.py.
# However, because the pipeline may evolve from what layoutlmv3 currently does, it's copied (vs. imported) to avoid creating an
# unecessary dependency.
def normalize_box(box, width, height):
return [
int(1000 * (box[0] / width)),
int(1000 * (box[1] / height)),
int(1000 * (box[2] / width)),
int(1000 * (box[3] / height)),
]
def apply_tesseract(image: "Image.Image", lang: Optional[str], tesseract_config: Optional[str]):
"""Applies Tesseract OCR on a document image, and returns recognized words + normalized bounding boxes."""
# apply OCR
data = pytesseract.image_to_data(image, lang=lang, output_type="dict", config=tesseract_config)
words, left, top, width, height = data["text"], data["left"], data["top"], data["width"], data["height"]
# filter empty words and corresponding coordinates
irrelevant_indices = [idx for idx, word in enumerate(words) if not word.strip()]
words = [word for idx, word in enumerate(words) if idx not in irrelevant_indices]
left = [coord for idx, coord in enumerate(left) if idx not in irrelevant_indices]
top = [coord for idx, coord in enumerate(top) if idx not in irrelevant_indices]
width = [coord for idx, coord in enumerate(width) if idx not in irrelevant_indices]
height = [coord for idx, coord in enumerate(height) if idx not in irrelevant_indices]
# turn coordinates into (left, top, left+width, top+height) format
actual_boxes = []
for x, y, w, h in zip(left, top, width, height):
actual_box = [x, y, x + w, y + h]
actual_boxes.append(actual_box)
image_width, image_height = image.size
# finally, normalize the bounding boxes
normalized_boxes = []
for box in actual_boxes:
normalized_boxes.append(normalize_box(box, image_width, image_height))
assert len(words) == len(normalized_boxes), "Not as many words as there are bounding boxes"
return words, normalized_boxes
@add_end_docstrings(PIPELINE_INIT_ARGS)
class DocumentQuestionAnsweringPipeline(Pipeline):
# TODO: Update task_summary docs to include an example with document QA and then update the first sentence
"""
Document Question Answering pipeline using any `AutoModelForDocumentQuestionAnswering`. See the [question answering
examples](../task_summary#question-answering) for more information.
This document question answering pipeline can currently be loaded from [`pipeline`] using the following task
identifier: `"document-question-answering"`.
The models that this pipeline can use are models that have been fine-tuned on a document question answering task.
See the up-to-date list of available models on
[huggingface.co/models](https://huggingface.co/models?filter=document-question-answering).
"""
def __init__(self, *args, **kwargs):
super().__init__(*args, **kwargs)
# self.check_model_type(MODEL_FOR_DOCUMENT_QUESTION_ANSWERING_MAPPING)
def _sanitize_parameters(
self,
padding=None,
doc_stride=None,
max_question_len=None,
lang: Optional[str] = None,
tesseract_config: Optional[str] = None,
max_answer_len=None,
max_seq_len=None,
top_k=None,
handle_impossible_answer=None,
**kwargs,
):
preprocess_params, postprocess_params = {}, {}
if padding is not None:
preprocess_params["padding"] = padding
if doc_stride is not None:
preprocess_params["doc_stride"] = doc_stride
if max_question_len is not None:
preprocess_params["max_question_len"] = max_question_len
if max_seq_len is not None:
preprocess_params["max_seq_len"] = max_seq_len
if lang is not None:
preprocess_params["lang"] = lang
if tesseract_config is not None:
preprocess_params["tesseract_config"] = tesseract_config
if top_k is not None:
if top_k < 1:
raise ValueError(f"top_k parameter should be >= 1 (got {top_k})")
postprocess_params["top_k"] = top_k
if max_answer_len is not None:
if max_answer_len < 1:
raise ValueError(f"max_answer_len parameter should be >= 1 (got {max_answer_len}")
postprocess_params["max_answer_len"] = max_answer_len
if handle_impossible_answer is not None:
postprocess_params["handle_impossible_answer"] = handle_impossible_answer
return preprocess_params, {}, postprocess_params
def __call__(
self,
image: Union["Image.Image", str],
question: Optional[str] = None,
word_boxes: Tuple[str, List[float]] = None,
**kwargs,
):
"""
Answer the question(s) given as inputs by using the document(s). A document is defined as an image and an
optional list of (word, box) tuples which represent the text in the document. If the `word_boxes` are not
provided, it will use the Tesseract OCR engine (if available) to extract the words and boxes automatically.
You can invoke the pipeline several ways:
- `pipeline(image=image, question=question)`
- `pipeline(image=image, question=question, word_boxes=word_boxes)`
- `pipeline([{"image": image, "question": question}])`
- `pipeline([{"image": image, "question": question, "word_boxes": word_boxes}])`
Args:
image (`str` or `PIL.Image`):
The pipeline handles three types of images:
- A string containing a http link pointing to an image
- A string containing a local path to an image
- An image loaded in PIL directly
The pipeline accepts either a single image or a batch of images. If given a single image, it can be
broadcasted to multiple questions.
question (`str`):
A question to ask of the document.
word_boxes (`List[str, Tuple[float, float, float, float]]`, *optional*):
A list of words and bounding boxes (normalized 0->1000). If you provide this optional input, then the
pipeline will use these words and boxes instead of running OCR on the image to derive them. This allows
you to reuse OCR'd results across many invocations of the pipeline without having to re-run it each
time.
top_k (`int`, *optional*, defaults to 1):
The number of answers to return (will be chosen by order of likelihood). Note that we return less than
top_k answers if there are not enough options available within the context.
doc_stride (`int`, *optional*, defaults to 128):
If the words in the document are too long to fit with the question for the model, it will be split in
several chunks with some overlap. This argument controls the size of that overlap.
max_answer_len (`int`, *optional*, defaults to 15):
The maximum length of predicted answers (e.g., only answers with a shorter length are considered).
max_seq_len (`int`, *optional*, defaults to 384):
The maximum length of the total sentence (context + question) in tokens of each chunk passed to the
model. The context will be split in several chunks (using `doc_stride` as overlap) if needed.
max_question_len (`int`, *optional*, defaults to 64):
The maximum length of the question after tokenization. It will be truncated if needed.
handle_impossible_answer (`bool`, *optional*, defaults to `False`):
Whether or not we accept impossible as an answer.
lang (`str`, *optional*):
Language to use while running OCR. Defaults to english.
tesseract_config (`str`, *optional*):
Additional flags to pass to tesseract while running OCR.
Return:
A `dict` or a list of `dict`: Each result comes as a dictionary with the following keys:
- **score** (`float`) -- The probability associated to the answer.
- **start** (`int`) -- The start word index of the answer (in the OCR'd version of the input or provided
`word_boxes`).
- **end** (`int`) -- The end word index of the answer (in the OCR'd version of the input or provided
`word_boxes`).
- **answer** (`str`) -- The answer to the question.
"""
if isinstance(question, str):
inputs = {"question": question, "image": image}
if word_boxes is not None:
inputs["word_boxes"] = word_boxes
else:
inputs = image
return super().__call__(inputs, **kwargs)
def preprocess(
self,
input,
padding="do_not_pad",
doc_stride=None,
max_question_len=64,
max_seq_len=None,
word_boxes: Tuple[str, List[float]] = None,
lang=None,
tesseract_config="",
):
# NOTE: This code mirrors the code in question answering and will be implemented in a follow up PR
# to support documents with enough tokens that overflow the model's window
# if max_seq_len is None:
# # TODO: LayoutLM's stride is 512 by default. Is it ok to use that as the min
# # instead of 384 (which the QA model uses)?
# max_seq_len = min(self.tokenizer.model_max_length, 512)
if doc_stride is not None:
# TODO implement
# doc_stride = min(max_seq_len // 2, 128)
raise ValueError("Unsupported: striding inputs")
image = None
image_features = {}
if input.get("image", None) is not None:
if not VISION_LOADED:
raise ValueError(
"If you provide an image, then the pipeline will run process it with PIL (Pillow), but"
" PIL is not available. Install it with pip install Pillow."
)
image = load_image(input["image"])
if self.feature_extractor is not None:
image_features.update(self.feature_extractor(images=image, return_tensors=self.framework))
words, boxes = None, None
if "word_boxes" in input:
words = [x[0] for x in input["word_boxes"]]
boxes = [x[1] for x in input["word_boxes"]]
elif "words" in image_features and "boxes" in image_features:
words = image_features.pop("words")
boxes = image_features.pop("boxes")
elif image is not None:
if not TESSERACT_LOADED:
raise ValueError(
"If you provide an image without word_boxes, then the pipeline will run OCR using Tesseract, but"
" pytesseract is not available. Install it with pip install pytesseract."
)
words, boxes = apply_tesseract(image, lang=lang, tesseract_config=tesseract_config)
else:
raise ValueError(
"You must provide an image or word_boxes. If you provide an image, the pipeline will automatically run"
" OCR to derive words and boxes"
)
if self.tokenizer.padding_side != "right":
raise ValueError(
"Document question answering only supports tokenizers whose padding side is 'right', not"
f" {self.tokenizer.padding_side}"
)
encoding = self.tokenizer(
text=input["question"].split(),
text_pair=words,
padding=padding,
max_length=max_seq_len,
stride=doc_stride,
return_token_type_ids=True,
is_split_into_words=True,
return_tensors=self.framework,
# TODO: In a future PR, use these feature to handle sequences whose length is longer than
# the maximum allowed by the model. Currently, the tokenizer will produce a sequence that
# may be too long for the model to handle.
# truncation="only_second",
# return_overflowing_tokens=True,
)
encoding.update(image_features)
# TODO: For now, this should always be num_spans == 1 given the flags we've passed in above, but the
# code is written to naturally handle multiple spans at the right time.
num_spans = len(encoding["input_ids"])
# p_mask: mask with 1 for token than cannot be in the answer (0 for token which can be in an answer)
# We put 0 on the tokens from the context and 1 everywhere else (question and special tokens)
# This logic mirrors the logic in the question_answering pipeline
p_mask = [[tok != 1 for tok in encoding.sequence_ids(span_id)] for span_id in range(num_spans)]
for span_idx in range(num_spans):
input_ids_span_idx = encoding["input_ids"][span_idx]
# keep the cls_token unmasked (some models use it to indicate unanswerable questions)
if self.tokenizer.cls_token_id is not None:
cls_indices = np.nonzero(np.array(input_ids_span_idx) == self.tokenizer.cls_token_id)[0]
for cls_index in cls_indices:
p_mask[span_idx][cls_index] = 0
# For each span, place a bounding box [0,0,0,0] for question and CLS tokens, [1000,1000,1000,1000]
# for SEP tokens, and the word's bounding box for words in the original document.
bbox = []
for batch_index in range(num_spans):
for i, s, w in zip(
encoding.input_ids[batch_index],
encoding.sequence_ids(batch_index),
encoding.word_ids(batch_index),
):
if s == 1:
bbox.append(boxes[w])
elif i == self.tokenizer.sep_token_id:
bbox.append([1000] * 4)
else:
bbox.append([0] * 4)
if self.framework == "tf":
raise ValueError("Unsupported: Tensorflow preprocessing for DocumentQuestionAnsweringPipeline")
elif self.framework == "pt":
encoding["bbox"] = torch.tensor([bbox])
word_ids = [encoding.word_ids(i) for i in range(num_spans)]
# TODO This will be necessary when we implement overflow support
# encoding.pop("overflow_to_sample_mapping", None)
return {
**encoding,
"p_mask": p_mask,
"word_ids": word_ids,
"words": words,
}
def _forward(self, model_inputs):
p_mask = model_inputs.pop("p_mask", None)
word_ids = model_inputs.pop("word_ids", None)
words = model_inputs.pop("words", None)
model_outputs = self.model(**model_inputs)
model_outputs["p_mask"] = p_mask
model_outputs["word_ids"] = word_ids
model_outputs["words"] = words
model_outputs["attention_mask"] = model_inputs["attention_mask"]
return model_outputs
def postprocess(self, model_outputs, top_k=1, handle_impossible_answer=False, max_answer_len=15):
min_null_score = 1000000 # large and positive
answers = []
words = model_outputs["words"]
# TODO: Currently, we expect the length of model_outputs to be 1, because we do not stride
# in the preprocessor code. When we implement that, we'll either need to handle tensors of size
# > 1 or use the ChunkPipeline and handle multiple outputs (each of size = 1).
starts, ends, scores, min_null_score = select_starts_ends(
model_outputs["start_logits"],
model_outputs["end_logits"],
model_outputs["p_mask"],
model_outputs["attention_mask"].numpy() if model_outputs.get("attention_mask", None) is not None else None,
min_null_score,
top_k,
handle_impossible_answer,
max_answer_len,
)
word_ids = model_outputs["word_ids"][0]
for s, e, score in zip(starts, ends, scores):
word_start, word_end = word_ids[s], word_ids[e]
if word_start is not None and word_end is not None:
answers.append(
{
"score": score,
"answer": " ".join(words[word_start : word_end + 1]),
"start": word_start,
"end": word_end,
}
)
if handle_impossible_answer:
answers.append({"score": min_null_score, "answer": "", "start": 0, "end": 0})
answers = sorted(answers, key=lambda x: x["score"], reverse=True)[:top_k]
if len(answers) == 1:
return answers[0]
return answers

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qa_helpers.py
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# NOTE: This code is currently under review for inclusion in the main
# huggingface/transformers repository:
# https://github.com/huggingface/transformers/pull/18414
import warnings
from collections.abc import Iterable
from typing import TYPE_CHECKING, Dict, List, Optional, Tuple, Union
import numpy as np
from transformers.utils import is_pytesseract_available, is_vision_available
VISION_LOADED = False
if is_vision_available():
from PIL import Image
from transformers.image_utils import load_image
VISION_LOADED = True
else:
Image = None
load_image = None
TESSERACT_LOADED = False
if is_pytesseract_available():
import pytesseract
TESSERACT_LOADED = True
else:
pytesseract = None
def decode_spans(
start: np.ndarray, end: np.ndarray, topk: int, max_answer_len: int, undesired_tokens: np.ndarray
) -> Tuple:
"""
Take the output of any `ModelForQuestionAnswering` and will generate probabilities for each span to be the actual
answer.
In addition, it filters out some unwanted/impossible cases like answer len being greater than max_answer_len or
answer end position being before the starting position. The method supports output the k-best answer through the
topk argument.
Args:
start (`np.ndarray`): Individual start probabilities for each token.
end (`np.ndarray`): Individual end probabilities for each token.
topk (`int`): Indicates how many possible answer span(s) to extract from the model output.
max_answer_len (`int`): Maximum size of the answer to extract from the model's output.
undesired_tokens (`np.ndarray`): Mask determining tokens that can be part of the answer
"""
# Ensure we have batch axis
if start.ndim == 1:
start = start[None]
if end.ndim == 1:
end = end[None]
# Compute the score of each tuple(start, end) to be the real answer
outer = np.matmul(np.expand_dims(start, -1), np.expand_dims(end, 1))
# Remove candidate with end < start and end - start > max_answer_len
candidates = np.tril(np.triu(outer), max_answer_len - 1)
# Inspired by Chen & al. (https://github.com/facebookresearch/DrQA)
scores_flat = candidates.flatten()
if topk == 1:
idx_sort = [np.argmax(scores_flat)]
elif len(scores_flat) < topk:
idx_sort = np.argsort(-scores_flat)
else:
idx = np.argpartition(-scores_flat, topk)[0:topk]
idx_sort = idx[np.argsort(-scores_flat[idx])]
starts, ends = np.unravel_index(idx_sort, candidates.shape)[1:]
desired_spans = np.isin(starts, undesired_tokens.nonzero()) & np.isin(ends, undesired_tokens.nonzero())
starts = starts[desired_spans]
ends = ends[desired_spans]
scores = candidates[0, starts, ends]
return starts, ends, scores
def select_starts_ends(
start,
end,
p_mask,
attention_mask,
min_null_score=1000000,
top_k=1,
handle_impossible_answer=False,
max_answer_len=15,
):
"""
Takes the raw output of any `ModelForQuestionAnswering` and first normalizes its outputs and then uses
`decode_spans()` to generate probabilities for each span to be the actual answer.
Args:
start (`np.ndarray`): Individual start probabilities for each token.
end (`np.ndarray`): Individual end probabilities for each token.
p_mask (`np.ndarray`): A mask with 1 for values that cannot be in the answer
attention_mask (`np.ndarray`): The attention mask generated by the tokenizer
min_null_score(`float`): The minimum null (empty) answer score seen so far.
topk (`int`): Indicates how many possible answer span(s) to extract from the model output.
handle_impossible_answer(`bool`): Whether to allow null (empty) answers
max_answer_len (`int`): Maximum size of the answer to extract from the model's output.
"""
# Ensure padded tokens & question tokens cannot belong to the set of candidate answers.
undesired_tokens = np.abs(np.array(p_mask) - 1)
if attention_mask is not None:
undesired_tokens = undesired_tokens & attention_mask
# Generate mask
undesired_tokens_mask = undesired_tokens == 0.0
# Make sure non-context indexes in the tensor cannot contribute to the softmax
start = np.where(undesired_tokens_mask, -10000.0, start)
end = np.where(undesired_tokens_mask, -10000.0, end)
# Normalize logits and spans to retrieve the answer
start = np.exp(start - start.max(axis=-1, keepdims=True))
start = start / start.sum()
end = np.exp(end - end.max(axis=-1, keepdims=True))
end = end / end.sum()
if handle_impossible_answer:
min_null_score = min(min_null_score, (start[0, 0] * end[0, 0]).item())
# Mask CLS
start[0, 0] = end[0, 0] = 0.0
starts, ends, scores = decode_spans(start, end, top_k, max_answer_len, undesired_tokens)
return starts, ends, scores, min_null_score