diff --git a/extract-core/extract_core/__init__.py b/extract-core/extract_core/__init__.py index 537f69b..3fdfa50 100644 --- a/extract-core/extract_core/__init__.py +++ b/extract-core/extract_core/__init__.py @@ -13,6 +13,7 @@ MarkdownDoc, OutputFormat, Pages, + PipelineSize, Ranges, Result, Status, @@ -77,6 +78,7 @@ "Ranges", "Pages", "Pipeline", + "PipelineSize", "PipelineType", "Result", "Status", diff --git a/extract-core/extract_core/__main__.py b/extract-core/extract_core/__main__.py new file mode 100644 index 0000000..372d863 --- /dev/null +++ b/extract-core/extract_core/__main__.py @@ -0,0 +1,9 @@ +from .cli import cli_app + + +def main() -> None: + cli_app() + + +if __name__ == "__main__": + main() diff --git a/extract-core/extract_core/cli/__init__.py b/extract-core/extract_core/cli/__init__.py new file mode 100644 index 0000000..4077ae0 --- /dev/null +++ b/extract-core/extract_core/cli/__init__.py @@ -0,0 +1,46 @@ +import importlib +import os +from typing import Annotated + +import typer +from icij_common.logging_utils import setup_loggers + +import extract_core + +from .configs import configs_app +from .utils import AsyncTyper + +cli_app = AsyncTyper( + context_settings={"help_option_names": ["-h", "--help"]}, + pretty_exceptions_enable=False, +) +cli_app.add_typer(configs_app) + + +def version_callback(value: bool) -> None: # noqa: FBT001 + if value: + package_version = importlib.metadata.version(extract_core.__name__) + print(package_version) + raise typer.Exit() + + +def pretty_exc_callback(value: bool) -> None: # noqa: FBT001 + if not value: + os.environ["TYPER_STANDARD_TRACEBACK"] = "1" + + +@cli_app.callback() +def main( + version: Annotated[ # noqa: ARG001 + bool | None, + typer.Option("--version", callback=version_callback, is_eager=True), + ] = None, + *, + pretty_exceptions: Annotated[ # noqa: ARG001 + bool, + typer.Option( + "--pretty-exceptions", callback=pretty_exc_callback, is_eager=True + ), + ] = False, +) -> None: + setup_loggers(["__main__", extract_core.__name__]) diff --git a/extract-core/extract_core/cli/configs.py b/extract-core/extract_core/cli/configs.py new file mode 100644 index 0000000..c066dd0 --- /dev/null +++ b/extract-core/extract_core/cli/configs.py @@ -0,0 +1,37 @@ +from typing import Annotated + +import typer + +from extract_core import PipelineSize + +from ..configs import PipelineType +from ..default_config import default_config +from ..objects import Device +from .utils import AsyncTyper + +_CONFIGS = "config" + +_DEFAULT_CONFIG_HELP = ( + "display default configuration for a given pipeline type," + " device and computing power" +) +_DEFAULT_CONFIG_DEVICE_HELP = "device for which the default config should be displayed" +_DEFAULT_CONFIG_SIZE_HELP = "pipeline size, smaller is faster" + +configs_app = AsyncTyper(name=_CONFIGS) + + +@configs_app.async_command(name="get-default", help=_DEFAULT_CONFIG_HELP) +async def display_default_config( + pipeline_type: PipelineType, + device: Annotated[ + Device, + typer.Option("-d", "--device", help=_DEFAULT_CONFIG_DEVICE_HELP), + ] = Device.CUDA, + size: Annotated[ + PipelineSize, + typer.Option("-s", "--size", help=_DEFAULT_CONFIG_SIZE_HELP), + ] = PipelineSize.SMALL, +) -> None: + config = default_config(pipeline_type=pipeline_type, device=device, size=size) + print(config.model_dump_json(indent=2)) diff --git a/extract-core/extract_core/cli/utils.py b/extract-core/extract_core/cli/utils.py new file mode 100644 index 0000000..34ac2e7 --- /dev/null +++ b/extract-core/extract_core/cli/utils.py @@ -0,0 +1,25 @@ +import asyncio +import sys +from collections.abc import Callable +from functools import wraps +from typing import Any + +import typer + + +class AsyncTyper(typer.Typer): + def async_command(self, *args, **kwargs) -> Callable[[Callable], Callable]: + def decorator(async_func: Callable) -> Callable: + @wraps(async_func) + def sync_func(*_args, **_kwargs) -> Any: + res = asyncio.run(async_func(*_args, **_kwargs)) + return res + + self.command(*args, **kwargs)(sync_func) + return async_func + + return decorator + + +def eprint(*args, **kwargs) -> None: + print(*args, file=sys.stderr, **kwargs) diff --git a/extract-core/extract_core/default_config.py b/extract-core/extract_core/default_config.py new file mode 100644 index 0000000..b551a04 --- /dev/null +++ b/extract-core/extract_core/default_config.py @@ -0,0 +1,48 @@ +from .configs import BasePipelineConfig, Device, PipelineType +from .objects import PipelineSize + + +def default_config( + *, pipeline_type: PipelineType, device: Device, size: PipelineSize +) -> BasePipelineConfig: + match pipeline_type: + case PipelineType.DOCLING: + return _default_docling_config(device=device, size=size) + case PipelineType.MARKER: + return _default_marker_config(size) + case PipelineType.MINER_U: + return _default_mineru_config(size) + case _: + raise NotImplementedError(f"unsupported pipeline type {pipeline_type}") + + +def _default_docling_config( + *, device: Device, size: PipelineSize +) -> BasePipelineConfig: + from .docling_ import DoclingPipelineConfig, default_format_opts # noqa: PLC0415 + + format_opts = default_format_opts(device=device, size=size) + pipeline_cfg = DoclingPipelineConfig(format_options=format_opts) + return pipeline_cfg + + +def _default_marker_config(size: PipelineSize) -> BasePipelineConfig: + from .marker_ import MarkerPipelineConfig # noqa: PLC0415 + + mode = "balanced" if size is PipelineSize.LARGE else "fast" + return MarkerPipelineConfig(config={"mode": mode}) + + +def _default_mineru_config(size: PipelineSize) -> BasePipelineConfig: + from .miner_u import MinerUConfig, MinerUPipelineConfig # noqa: PLC0415 + + match size: + case PipelineSize.SMALL: + tier = "basic" + case PipelineSize.MEDIUM: + tier = "standard" + case PipelineSize.LARGE: + tier = "advanced" + case _: + raise TypeError(f"unsupported pipeline size {size}") + return MinerUPipelineConfig(config=MinerUConfig(tier=tier)) diff --git a/extract-core/extract_core/docling_.py b/extract-core/extract_core/docling_.py index bbd12c0..e04f597 100644 --- a/extract-core/extract_core/docling_.py +++ b/extract-core/extract_core/docling_.py @@ -1,7 +1,9 @@ import importlib +from copy import deepcopy from functools import cache from typing import TYPE_CHECKING, Annotated, Any, ClassVar, get_type_hints +from docling.backend.image_backend import ImageDocumentBackend from docling.datamodel.backend_options import BackendOptions, BaseBackendOptions from docling.datamodel.base_models import ( BaseFormatOption, @@ -20,6 +22,15 @@ ) from docling.datamodel.settings import DebugSettings from docling.datamodel.settings import InferenceSettings as DoclingInferenceSettings +from docling.document_converter import ( + BoxNoteFormatOption, + CsvFormatOption, + ExcelFormatOption, + OdsFormatOption, + OdtFormatOption, + PowerpointFormatOption, + WordFormatOption, +) from icij_common.pydantic_utils import ( merge_configs, safe_copy, @@ -31,7 +42,7 @@ from pydantic_core.core_schema import SerializerFunctionWrapHandler from .configs import BasePipelineConfig, PipelineType, ResultBufferConfig -from .objects import BaseModel, Device, SupportedExt +from .objects import BaseModel, Device, PipelineSize, SupportedExt from .utils import all_subclasses if TYPE_CHECKING: @@ -233,7 +244,48 @@ def to_docling(self, device: Device) -> BaseFormatOption: # noqa: ANN201 ) -def _default_format_opts() -> dict[InputFormat, DoclingFormatOption]: +def default_format_opts( + *, size: PipelineSize = PipelineSize.SMALL, device: Device = Device.CPU +) -> dict[InputFormat, DoclingFormatOption]: + from docling.backend.docling_parse_backend import ( # noqa: PLC0415 + ThreadedDoclingParseDocumentBackend, + ) + from docling.pipeline.threaded_standard_pdf_pipeline import ( # noqa: PLC0415 + ThreadedStandardPdfPipeline, + ) + from docling.pipeline.vlm_pipeline import VlmPipeline # noqa: PLC0415 + + default = _default_format_options() + accelerator_opts = deepcopy(default[InputFormat.PDF].pipeline_options)[ + "accelerator_options" + ] + accelerator_opts["device"] = device.to_docling() + pdf_pipeline_opts = default[InputFormat.PDF].pipeline_options + pdf_pipeline_opts["accelerator_options"] = accelerator_opts + match size: + case PipelineSize.LARGE: + pipeline = VlmPipeline.__name__ + case _: + pipeline = ThreadedStandardPdfPipeline.__name__ + backend_opts = default[InputFormat.PDF].backend_options + pdf_fmt_opts = DoclingFormatOption( + pipeline_options=pdf_pipeline_opts, + pipeline_cls=pipeline, + backend=ThreadedDoclingParseDocumentBackend.__name__, + backend_options=backend_opts, + ) + default[InputFormat.PDF] = pdf_fmt_opts + image_fmt_opts = DoclingFormatOption( + pipeline_options=deepcopy(pdf_pipeline_opts), + pipeline_cls=pipeline, + backend=ImageDocumentBackend.__name__, + backend_options=deepcopy(backend_opts), + ) + default[InputFormat.IMAGE] = image_fmt_opts + return default + + +def _default_format_options() -> dict[InputFormat, DoclingFormatOption]: from docling.backend.json.docling_json_backend import ( # noqa: PLC0415 DoclingJSONBackend, ) @@ -242,13 +294,10 @@ def _default_format_opts() -> dict[InputFormat, DoclingFormatOption]: from docling.document_converter import ( # noqa: PLC0415 # noqa: PLC0415 AsciiDocFormatOption, AudioFormatOption, - BoxNoteFormatOption, - CsvFormatOption, DclxFormatOption, EbcdicFormatOption, EmailFormatOption, EpubFormatOption, - ExcelFormatOption, FormatOption, HTMLFormatOption, ImageFormatOption, @@ -256,13 +305,9 @@ def _default_format_opts() -> dict[InputFormat, DoclingFormatOption]: LatexFormatOption, MarkdownFormatOption, OdpFormatOption, - OdsFormatOption, - OdtFormatOption, PatentUsptoFormatOption, PdfFormatOption, - PowerpointFormatOption, VideoFormatOption, - WordFormatOption, XBRLFormatOption, XMLDocLangFormatOption, XMLJatsFormatOption, @@ -361,7 +406,7 @@ class DoclingPipelineConfig(BasePipelineConfig): pipeline: ClassVar[PipelineType] = Field(frozen=True, default=PipelineType.DOCLING) format_options: dict[InputFormat, DoclingFormatOption] = Field( - default_factory=_default_format_opts + default_factory=default_format_opts ) settings: DoclingSettings = Field(default_factory=DoclingSettings) diff --git a/extract-core/extract_core/miner_u.py b/extract-core/extract_core/miner_u.py index 3ebeb5d..d66b33d 100644 --- a/extract-core/extract_core/miner_u.py +++ b/extract-core/extract_core/miner_u.py @@ -1,9 +1,10 @@ from collections.abc import Callable -from copy import copy from enum import StrEnum from functools import cache -from typing import Any, ClassVar +from typing import ClassVar, Literal +from mineru.config import VlmConfig +from mineru.types import Tier from pydantic import Field from pydantic_extra_types.language_code import LanguageAlpha2 @@ -21,48 +22,17 @@ class MinerUBackend(StrEnum): class MinerUConfig(BaseModel): backend: MinerUBackend = MinerUBackend.PIPELINE - enable_formula_extraction: bool = True - enable_table_extraction: bool = True - # TODO: use enum or literal here - parse_method: str = "auto" - def as_parse_kwargs(self) -> dict[str, Any]: - kwargs = copy(self._get_default_kwargs()) - kwargs["backend"] = self.backend - kwargs["parse_method"] = self.parse_method - kwargs["formula_enable"] = self.enable_formula_extraction - kwargs["table_enable"] = self.enable_table_extraction - return kwargs - - @classmethod - @cache - def _get_default_kwargs(cls) -> dict[str, Any]: - from mineru.utils.enum_class import MakeMode # noqa: PLC0415 - - return { - "server_url": None, - # We don't dump md directly we process, we dump the middle json in order - # to be able to get page indexes - "parse_method": "auto", - "dump_md": False, - "dump_middle_json": True, - "f_draw_layout_bbox": False, - "f_draw_span_bbox": False, - "f_dump_model_output": False, # might be useful for debug though - "f_dump_orig_pdf": False, - "f_dump_content_list": False, # might be useful for debug though - "start_page_id": 0, - "f_make_md_mode": MakeMode.MM_MD, - "image_analysis": True, - "end_page_id": None, - "client_side_output_generation": False, - } + tier: Tier = "basic" + parse_mode: Literal["auto", "txt", "ocr"] = "auto" + image_analysis: bool = True + vlm_config: VlmConfig | None = None class MinerUPipelineConfig(BasePipelineConfig): # noqa: F821 pipeline: ClassVar[PipelineType] = Field(frozen=True, default=PipelineType.MINER_U) - config: MinerUConfig = Field(frozen=True, default=MinerUConfig()) + config: MinerUConfig = Field(frozen=True, default_factory=MinerUConfig) language: LanguageAlpha2 = Field(frozen=True, default="en") @classmethod diff --git a/extract-core/extract_core/objects.py b/extract-core/extract_core/objects.py index 48c01a3..c0ba066 100644 --- a/extract-core/extract_core/objects.py +++ b/extract-core/extract_core/objects.py @@ -43,6 +43,12 @@ def to_docling(self) -> AcceleratorDevice: raise ValueError(f"unsupported device {self}") +class PipelineSize(StrEnum): + SMALL = "small" + MEDIUM = "medium" + LARGE = "large" + + class SupportedExt(StrEnum): ADOC = ".adoc" AFP = ".afp" diff --git a/extract-core/pyproject.toml b/extract-core/pyproject.toml index 2fe5900..e40934b 100644 --- a/extract-core/pyproject.toml +++ b/extract-core/pyproject.toml @@ -14,6 +14,14 @@ dependencies = [ "pydantic-extra-types[pycountry]~=2.11.1", ] +[project.optional-dependencies] +cli = [ + "typer~=0.21.2", +] + +[project.scripts] +extract-core = "extract_core.__main__:main" + [tool.uv] package = true override-dependencies = [ @@ -83,6 +91,7 @@ dev = [ "ruff==0.15.2", "torch==2.12.0", "torchvision==0.27.0", + "nest-asyncio>=1.6.0", ] [project.urls] diff --git a/extract-core/tests/cli/test_cli.py b/extract-core/tests/cli/test_cli.py new file mode 100644 index 0000000..82178f0 --- /dev/null +++ b/extract-core/tests/cli/test_cli.py @@ -0,0 +1,24 @@ +import pytest +from extract_core.cli import cli_app +from typer.testing import CliRunner + + +@pytest.fixture # noqa: F405 +def typer_asyncio_patch() -> None: + import nest_asyncio # noqa: PLC0415 + + nest_asyncio.apply() + + +async def test_get_models( + typer_asyncio_patch, # noqa: ANN001, ARG001 +) -> None: + # Given + runner = CliRunner() + cmd = ["config", "get-default", "--size", "small", "-d", "cuda", "docling"] + # When + result = runner.invoke(cli_app, cmd, catch_exceptions=False) + # Then + assert int(result.exit_code) == 0 + assert '"device": "cuda"' in result.output + assert '"pipeline": "docling"' in result.output diff --git a/extract-core/uv.lock b/extract-core/uv.lock index 29922d2..8cb1d1e 100644 --- a/extract-core/uv.lock +++ b/extract-core/uv.lock @@ -500,11 +500,17 @@ dependencies = [ { name = "pydantic-extra-types", extra = ["pycountry"] }, ] +[package.optional-dependencies] +cli = [ + { name = "typer" }, +] + [package.dev-dependencies] dev = [ { name = "docling" }, { name = "docling-slim", extra = ["models-vlm-inline"] }, { name = "mpmath" }, + { name = "nest-asyncio" }, { name = "pytest" }, { name = "pytest-asyncio" }, { name = "ruff" }, @@ -521,13 +527,16 @@ requires-dist = [ { name = "icij-common", specifier = "~=0.8.2" }, { name = "pydantic", specifier = "~=2.13" }, { name = "pydantic-extra-types", extras = ["pycountry"], specifier = "~=2.11.1" }, + { name = "typer", marker = "extra == 'cli'", specifier = "~=0.21.2" }, ] +provides-extras = ["cli"] [package.metadata.requires-dev] dev = [ { name = "docling", specifier = "~=2.127" }, { name = "docling-slim", extras = ["models-vlm-inline"], specifier = "~=2.127" }, { name = "mpmath", specifier = "~=1.3.0" }, + { name = "nest-asyncio", specifier = ">=1.6.0" }, { name = "pytest", specifier = "~=8.3.5" }, { name = "pytest-asyncio", specifier = "~=0.25.3" }, { name = "ruff", specifier = "==0.15.2" }, @@ -997,6 +1006,15 @@ wheels = [ { url = "https://files.pythonhosted.org/packages/7e/82/69e539c4c2027f1e1697e09aaa2449243085a0edf81ae2c6341e84d769b6/multiprocess-0.70.19-py39-none-any.whl", hash = "sha256:0d4b4397ed669d371c81dcd1ef33fd384a44d6c3de1bd0ca7ac06d837720d3c5", size = 133477, upload-time = "2026-01-19T06:47:38.619Z" }, ] +[[package]] +name = "nest-asyncio" +version = "1.6.0" +source = { registry = "https://pypi.org/simple" } +sdist = { url = "https://files.pythonhosted.org/packages/83/f8/51569ac65d696c8ecbee95938f89d4abf00f47d58d48f6fbabfe8f0baefe/nest_asyncio-1.6.0.tar.gz", hash = "sha256:6f172d5449aca15afd6c646851f4e31e02c598d553a667e38cafa997cfec55fe", size = 7418, upload-time = "2024-01-21T14:25:19.227Z" } +wheels = [ + { url = "https://files.pythonhosted.org/packages/a0/c4/c2971a3ba4c6103a3d10c4b0f24f461ddc027f0f09763220cf35ca1401b3/nest_asyncio-1.6.0-py3-none-any.whl", hash = "sha256:87af6efd6b5e897c81050477ef65c62e2b2f35d51703cae01aff2905b1852e1c", size = 5195, upload-time = "2024-01-21T14:25:17.223Z" }, +] + [[package]] name = "numpy" version = "2.4.6" diff --git a/extract-python/extract_python/miner_u.py b/extract-python/extract_python/miner_u.py index 5a83c71..6bedf6e 100644 --- a/extract-python/extract_python/miner_u.py +++ b/extract-python/extract_python/miner_u.py @@ -1,15 +1,14 @@ -import json import os -import shutil from collections.abc import AsyncIterable, Callable, Iterable -from functools import partial +from functools import cache, partial from pathlib import Path -from tempfile import TemporaryDirectory +from docvortex.export import materialize_middle, validate_materialized_assets +from docvortex.render import RenderMode, render_markdown +from docvortex.schema import DocumentMetadata, PageInfo, Producer from extract_core import ( ConversionOutput, InputDoc, - MinerUBackend, MinerUPipelineConfig, OutputFormat, Pipeline, @@ -17,6 +16,7 @@ Result, Status, ) +from mineru import MiddleJson, ParseResult from .constants import ARTIFACTS, DEFAULT_MD_PAGE_SEP from .utils import path_to_artifacts_dirname, reset_env, write_pages @@ -30,185 +30,85 @@ class MinerUPipeline(Pipeline): def __init__(self, config: MinerUPipelineConfig): super().__init__(config) self._language = self._config.language - self._md_make_fn = _parse_md_make_fn(self._config.config.backend) async def extract_content( self, docs: Iterable[InputDoc], output_format: OutputFormat, output_path: Path ) -> AsyncIterable[Result]: - from mineru.cli.common import aio_do_parse # noqa: PLC0415 + from mineru import MinerUParser # noqa: PLC0415 with reset_env(): os.environ["MINERU_DEVICE_MODE"] = self._device - docs = list(docs) # TODO: exclude files which are not pdf and return an error - pdfs_bytes = [d.path.read_bytes() for d in docs] - pdfs_names = [d.path.name for d in docs] - p_lang_list = [self._language for _ in pdfs_names] # TODO: we should only process valid PDFs - with TemporaryDirectory(prefix="mineru-") as workdir: - workdir = Path(workdir) # noqa: PLW2901 - await aio_do_parse( - output_dir=workdir, - pdf_file_names=pdfs_names, - pdf_bytes_list=pdfs_bytes, - p_lang_list=p_lang_list, - **self._config.config.as_parse_kwargs(), - ) - res_paths = [ - _revert_mineru_output(workdir, pdf_filename=p) for p in pdfs_names - ] - for doc, res_path in zip(docs, res_paths, strict=True): - yield _process_doc( - doc, - md_make_fn=self._md_make_fn, - res_path=res_path, - output_format=output_format, - output_path=output_path, - ) - - -def _revert_mineru_output(output_dir: Path, *, pdf_filename: str) -> Path: - output_path = output_dir / pdf_filename - if not output_path.exists(): - msg = f"couldn't find result for {pdf_filename}" - raise FileNotFoundError(msg) - dirs = [p for p in output_path.iterdir() if p.is_dir()] - if len(dirs) != 1: - msg = f"expected exactly one result directory, found: {dirs}" - raise ValueError(msg) - return output_dir / dirs[0] - - -def _parse_md_make_fn(backend: MinerUBackend) -> MDMakeFunction: - - match backend: - case MinerUBackend.PIPELINE: - from mineru.backend.pipeline.pipeline_middle_json_mkcontent import ( # noqa: PLC0415 - union_make, + config = self._config.config + parser = MinerUParser( + tier=config.tier, + parse_mode=config.parse_mode, + image_analysis=config.image_analysis, + vlm_config=config.vlm_config, ) - - return union_make - case MinerUBackend.VLM: - from mineru.backend.vlm.vlm_middle_json_mkcontent import ( # noqa: PLC0415 - union_make, - ) - - return union_make - case _: - raise ValueError(f"Unsupported backend: {backend}") + for doc in docs: + res = await parser.parse_async(doc.path) + yield _process_doc( + doc, res, output_format=output_format, output_path=output_path + ) def _process_doc( doc: InputDoc, + result: ParseResult, *, - md_make_fn: MDMakeFunction, - res_path: Path, output_format: OutputFormat, output_path: Path, ) -> Result: - md_dir_name = path_to_artifacts_dirname(doc.path) - md_dir = Path(output_path) / md_dir_name - md_dir.mkdir(parents=True, exist_ok=False) - artifacts_dir = md_dir / ARTIFACTS - md_path = (md_dir / md_dir_name).with_suffix(OutputFormat.MARKDOWN.value) + output_path_dir_name = path_to_artifacts_dirname(doc.path) + output_dir = Path(output_path) / output_path_dir_name + output_dir.mkdir(parents=True) # Fail early match output_format: case OutputFormat.MARKDOWN: - im_rel_dir = artifacts_dir.relative_to(md_dir) dump_content_fn = partial( - _dump_md_content, - md_make_fn=md_make_fn, - output_path=output_path, - md_path=md_path, - im_dir=im_rel_dir, + _dump_md_content, output_path=output_path, md_path=output_dir ) case _: raise NotImplementedError(f"unsupported output format {output_format}") - middle_json_path = res_path / f"{doc.path.name}_middle.json" - middle_json = json.loads(middle_json_path.read_text()) - shutil.move(res_path / "images", artifacts_dir) - output = dump_content_fn(middle_json) + output = dump_content_fn(result.middle_json) return Result(input=doc, status=Status.SUCCESS, output=output) +@cache +def _mineru_md_page_sep() -> str: + dummy_json = MiddleJson( + pages=[PageInfo(page_idx=0), PageInfo(page_idx=1)], + is_full_document=True, + metadata=DocumentMetadata( + file_suffix="pdf", producer=Producer(name="dummy", version="1.0") + ), + ) + md = render_markdown(dummy_json, mode=RenderMode.FULL) + return md.replace(" ", "") + + def _dump_md_content( - middle_json: dict, + middle_json: MiddleJson, *, - md_make_fn: MDMakeFunction, page_sep: str = DEFAULT_MD_PAGE_SEP, output_path: Path, md_path: Path, - im_dir: Path, - md_make_mode: str | None = None, ) -> ConversionOutput: - from mineru.utils.enum_class import MakeMode # noqa: PLC0415 - - pdf_info = middle_json["pdf_info"] - if md_make_mode is None: - md_make_mode = MakeMode.MM_MD - pages = (md_make_fn([p], md_make_mode, str(im_dir)) for p in pdf_info) - with md_path.open("wb") as f: + middle_json, assets = materialize_middle(middle_json) + exported = ParseResult(middle_json=middle_json) + validate_materialized_assets(middle_json, assets) + md = exported.markdown(mode=RenderMode.FULL) + for path, im_bytes in assets.items(): + im_path = md_path / ARTIFACTS / path + im_path.parent.mkdir(parents=True, exist_ok=True) + im_path.write_bytes(im_bytes) + md = md.replace(path, str(im_path.relative_to(md_path))) + pages = md.split(_mineru_md_page_sep()) + md_content_path = (md_path / md_path.name).with_suffix(OutputFormat.MARKDOWN) + with open(md_content_path, "wb") as f: pages = write_pages(pages, page_sep, f) - output_path = md_path.parent.relative_to(output_path) - confidence = _mineru_confidence(pdf_info) - output = ConversionOutput(path=output_path, pages=pages, confidence=confidence) + path = md_path.relative_to(output_path) + output = ConversionOutput(path=path, pages=pages, confidence=None) return output - - -def _mineru_confidence(pdf_info: list[dict]) -> float: - if not pdf_info: - return 1.0 - block_conf = _mineru_block_confidence(pdf_info) - line_config = _mineru_line_confidence(pdf_info) - return (block_conf + line_config) / 2.0 - - -def _mineru_block_confidence(pdf_info: list[dict]) -> float: - import numpy as np # noqa: PLC0415 - - scores = [] - for info in pdf_info: - for block in info["para_blocks"]: - score = block.get("score") - if score is not None: - scores.append(score) - if scores: - return np.average(scores) - return 1.0 - - -def _mineru_line_confidence(pdf_info: list[dict]) -> float: - import numpy as np # noqa: PLC0415 - - scores = [] - lengths = [] - for info in pdf_info: - for block in info["para_blocks"]: - for line in block.get("lines", []): - for span in line["spans"]: - score = span.get("score") - if score is not None: - scores.append(score) - lengths.append(len(span["content"])) - if scores: - return np.average(scores, weights=lengths) - return 1.0 - - -def _parse_block(block: dict) -> tuple[list[float], list[float]]: - if "lines" in block: - scores = [] - lengths = [] - for line in block.get("lines", []): - for span in line["spans"]: - score = span.get("score") - if score is not None: - scores.append(score) - lengths.append(len(span["content"])) - return scores, lengths - if "blocs" in block: - scores, lengths = (_parse_block(b) for b in block["blocs"]) - scores = sum(*scores, start=[]) - lengths = sum(*lengths, start=[]) - return scores, lengths - raise NotImplementedError(f"unsupported block: {block}") diff --git a/extract-python/pyproject.toml b/extract-python/pyproject.toml index 14b972e..e56fc74 100644 --- a/extract-python/pyproject.toml +++ b/extract-python/pyproject.toml @@ -30,8 +30,7 @@ marker = [ ] mineru = [ - "mineru[pipeline,vlm]~=3.2", - "mineru[mlx]~=3.2; sys_platform == 'darwin'", + "mineru[vlm,torch]~=4.0", "pydantic-extra-types[pycountry]~=2.11", "python-pptx~=1.0", "six~=1.17", diff --git a/extract-python/tests/test_default_config.py b/extract-python/tests/test_default_config.py new file mode 100644 index 0000000..e371221 --- /dev/null +++ b/extract-python/tests/test_default_config.py @@ -0,0 +1,36 @@ +from itertools import product + +import pytest +from extract_core import BasePipelineConfig, Device, PipelineSize, PipelineType +from extract_core.default_config import default_config + + +# This test should belong to the core but the core has no split test between +# conflicting miner_u/marker +@pytest.mark.parametrize( + ("pipeline_type", "device", "size"), + list(product([PipelineType.DOCLING, PipelineType.MARKER], Device, PipelineSize)), +) +def test_default_config_should_be_define_for_all_input_parameters( + pipeline_type: PipelineType, device: Device, size: PipelineSize +) -> None: + # When + config = default_config(pipeline_type=pipeline_type, device=device, size=size) + # Then + assert isinstance(config, BasePipelineConfig) + + +@pytest.mark.miner_u +@pytest.mark.parametrize( + ("device", "size"), + list(product(Device, PipelineSize)), +) +def test_default_config_should_be_define_for_all_input_parameters_mineru( + device: Device, size: PipelineSize +) -> None: + # When + config = default_config( + pipeline_type=PipelineType.MINER_U, device=device, size=size + ) + # Then + assert isinstance(config, BasePipelineConfig) diff --git a/extract-python/tests/test_docling.py b/extract-python/tests/test_docling.py index 97032d4..fb8c12e 100644 --- a/extract-python/tests/test_docling.py +++ b/extract-python/tests/test_docling.py @@ -14,27 +14,32 @@ InputDoc, OutputFormat, Pipeline, + PipelineType, ResultBufferConfig, Status, ) -from extract_core.objects import Device +from extract_core.default_config import default_config +from extract_core.objects import Device, PipelineSize from extract_python import DoclingPipeline +from icij_common.pydantic_utils import safe_copy from . import TEST_DATA_DIR @pytest.fixture(scope="session") -def config(device: Device, tmpdir_factory: TempdirFactory) -> DoclingPipelineConfig: +def config(tmpdir_factory: TempdirFactory) -> DoclingPipelineConfig: # TODO: for testing add a lightweight configuration + device = Device.CPU fs_buffer_root = Path(tmpdir_factory.mktemp("fs_buffer_root")) settings = DoclingSettings( perf=BatchConcurrencySettings(page_batch_size=2, max_page_batches=1) ) - config = DoclingPipelineConfig( - device=device, - settings=settings, - result_buffer=ResultBufferConfig(root=fs_buffer_root, max_size="0MB"), + config = default_config( + pipeline_type=PipelineType.DOCLING, device=device, size=PipelineSize.SMALL ) + results_buffer = ResultBufferConfig(root=fs_buffer_root, max_size="0MB") + update = {"device": device, "settings": settings, "result_buffer": results_buffer} + config = safe_copy(config, update=update) return config diff --git a/extract-python/tests/test_miner_u.py b/extract-python/tests/test_miner_u.py index 2a71ce7..ad97c4d 100644 --- a/extract-python/tests/test_miner_u.py +++ b/extract-python/tests/test_miner_u.py @@ -5,6 +5,7 @@ from extract_core import ( Device, InputDoc, + MinerUConfig, MinerUPipelineConfig, OutputFormat, Pipeline, @@ -17,7 +18,7 @@ @pytest.fixture(scope="session") def config(device: Device) -> MinerUPipelineConfig: - return MinerUPipelineConfig(device=device) + return MinerUPipelineConfig(device=device, config=MinerUConfig(tier="basic")) @pytest.fixture(scope="session") @@ -45,7 +46,7 @@ async def test_miner_u_pdf_to_markdown( assert (output_path / p).exists() assert (output_path / p).is_dir() assert (output_path / p / p.name).with_suffix(".md").exists() - assert any((output_path / p).glob("artifacts/*.jpg")) + assert any((output_path / p).glob("artifacts/**/*.jpg")) assert all(r.output.pages.byte_ranges for r in res) assert not any(r.errors for r in res) input_path = [r.input.path for r in res] diff --git a/extract-python/uv.lock b/extract-python/uv.lock index b54cfe5..175d764 100644 --- a/extract-python/uv.lock +++ b/extract-python/uv.lock @@ -2,18 +2,18 @@ version = 1 revision = 3 requires-python = ">=3.13, <3.15" resolution-markers = [ - "python_full_version >= '3.14' and platform_machine != 'arm64' and sys_platform == 'darwin'", - "python_full_version < '3.14' and platform_machine != 'arm64' and sys_platform == 'darwin'", - "python_full_version >= '3.14' and platform_machine == 'arm64' and sys_platform == 'darwin'", - "python_full_version < '3.14' and platform_machine == 'arm64' and sys_platform == 'darwin'", "python_full_version >= '3.14' and sys_platform == 'win32'", "python_full_version >= '3.14' and sys_platform == 'emscripten'", + "python_full_version >= '3.14' and platform_machine != 'arm64' and sys_platform == 'darwin'", "python_full_version >= '3.14' and platform_machine == 'aarch64' and sys_platform == 'linux'", "(python_full_version >= '3.14' and platform_machine != 'aarch64' and sys_platform == 'linux') or (python_full_version >= '3.14' and sys_platform != 'darwin' and sys_platform != 'emscripten' and sys_platform != 'linux' and sys_platform != 'win32')", "python_full_version < '3.14' and sys_platform == 'win32'", "python_full_version < '3.14' and sys_platform == 'emscripten'", + "python_full_version < '3.14' and platform_machine != 'arm64' and sys_platform == 'darwin'", "python_full_version < '3.14' and platform_machine == 'aarch64' and sys_platform == 'linux'", 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