From 23729cbd8849e7ba3cf0ca7aae56d76931758c26 Mon Sep 17 00:00:00 2001 From: Christoph Auer Date: Tue, 10 Feb 2026 11:26:17 +0100 Subject: [PATCH 1/3] Small bugfixes and deps updates Signed-off-by: Christoph Auer --- .gitignore | 1 + .../tableformer_provider.py | 4 +- pyproject.toml | 6 +- uv.lock | 5104 ++++++----------- 4 files changed, 1871 insertions(+), 3244 deletions(-) diff --git a/.gitignore b/.gitignore index 5b4c0dad..0a5e3d49 100644 --- a/.gitignore +++ b/.gitignore @@ -3,6 +3,7 @@ benchmarks/** model_artifacts/ scratch/ +.worktrees/ ds_convert_models/ # Created by https://www.toptal.com/developers/gitignore/api/python,macos,virtualenv,pycharm,visualstudiocode,emacs,vim,jupyternotebooks diff --git a/docling_eval/prediction_providers/tableformer_provider.py b/docling_eval/prediction_providers/tableformer_provider.py index 3b36cbdb..d4eaf006 100644 --- a/docling_eval/prediction_providers/tableformer_provider.py +++ b/docling_eval/prediction_providers/tableformer_provider.py @@ -19,7 +19,9 @@ TableFormerMode, TableStructureOptions, ) -from docling.models.table_structure_model import TableStructureModel +from docling.models.stages.table_structure.table_structure_model import ( + TableStructureModel, +) from docling_core.types import DoclingDocument from docling_core.types.doc import DocItemLabel, TableCell, TableData, TableItem from docling_core.types.io import DocumentStream diff --git a/pyproject.toml b/pyproject.toml index e1dd212d..ad68be7f 100644 --- a/pyproject.toml +++ b/pyproject.toml @@ -54,7 +54,8 @@ dependencies = [ "scipy-stubs>=1.15.3.0", "editdistance>=0.8.1", "reportlab>=4.4.3", - "docling-parse==4.7.1", + "docling-parse>=4.7.1", + "docling-cvat-tools", ] [project.urls] @@ -107,6 +108,9 @@ dev = [ [tool.uv] package = true +#[tool.uv.sources] +#docling-cvat-tools = { path = "../docling-cvat-tools" } + [tool.setuptools.packages.find] include = ["docling_eval*"] diff --git a/uv.lock b/uv.lock index 68fe012b..6c02249a 100644 --- a/uv.lock +++ 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-1304,7 +1304,7 @@ requires-dist = [ { name = "docling-core", specifier = ">=2.48.0,<3.0.0" }, { name = "docling-cvat-tools" }, { name = "docling-cvat-tools", marker = "extra == 'cvat-tools'", specifier = ">=0.0.1" }, - { name = "docling-parse", specifier = ">=4.7.1" }, + { name = "docling-parse", specifier = ">=4.7.1,<5" }, { name = "edit-distance", specifier = ">=1.0.6,<2.0.0" }, { name = "editdistance", specifier = ">=0.8.1" }, { name = "evaluate", specifier = ">=0.4.3,<0.5.0" }, From 6328c7a957ed1476a2de5f7f0e09c4d055ac242e Mon Sep 17 00:00:00 2001 From: Christoph Auer Date: Wed, 11 Feb 2026 10:33:24 +0100 Subject: [PATCH 3/3] Introduce support in CvatPreannotationBuilder for even/odd starting page in multi-page setups" Signed-off-by: Christoph Auer --- ...at_create_annotation_tasks_from_folders.py | 28 +- docling_eval/cli/main.py | 21 ++ .../cvat_preannotation_builder.py | 250 +++++++++++++++--- 3 files changed, 262 insertions(+), 37 deletions(-) diff --git a/docling_eval/campaign_tools/cvat_create_annotation_tasks_from_folders.py b/docling_eval/campaign_tools/cvat_create_annotation_tasks_from_folders.py index ada90c8a..0e4690c2 100644 --- a/docling_eval/campaign_tools/cvat_create_annotation_tasks_from_folders.py +++ b/docling_eval/campaign_tools/cvat_create_annotation_tasks_from_folders.py @@ -15,12 +15,14 @@ avoiding "too many files open" errors. Usage: - uv run python docling_eval/campaign_tools/cvat_create_annotation_tasks_from_folders.py batch-prepare --input-directory --output-directory [--sliding-window ] [--use-predictions/--no-use-predictions] [--max-files-per-chunk ] + uv run python docling_eval/campaign_tools/cvat_create_annotation_tasks_from_folders.py batch-prepare --input-directory --output-directory [--sliding-window ] [--window-mode ] [--slice-manifest ] [--use-predictions/--no-use-predictions] [--max-files-per-chunk ] Arguments: input_directory: Root directory containing subdirectories with files to process output_directory: Where to store the generated datasets (one subdir per input subdir, with chunk suffixes if needed) sliding_window: Number of pages per CVAT task (default: 1) + window_mode: Window selection mode for PDFs (rolling, parity_even, parity_odd) + slice_manifest: Optional path to recombined_slices_manifest.json use_predictions: Whether to create prediction dataset and use predictions in CVAT (default: True) max_files_per_chunk: Maximum number of files to process per chunk (default: 1000) """ @@ -41,6 +43,8 @@ def process_subdirectories( input_directory: Path, output_directory: Path, sliding_window: int = 1, + window_mode: str = "rolling", + slice_manifest: Optional[Path] = None, use_predictions: bool = True, max_files_per_chunk: int = 1000, ) -> None: @@ -53,6 +57,8 @@ def process_subdirectories( input_directory: Root directory with subdirectories to process output_directory: Where to store generated datasets sliding_window: Number of pages per CVAT task (default: 1) + window_mode: Window selection mode for PDF chunks (rolling, parity_even, parity_odd) + slice_manifest: Optional manifest for parity window modes use_predictions: Whether to create prediction dataset and use predictions in CVAT max_files_per_chunk: Maximum number of files to process per chunk (default: 1000) """ @@ -154,12 +160,19 @@ def process_subdirectories( source_dir = ( (eval_dir / "test") if use_predictions else (gt_dir / "test") ) + effective_manifest = slice_manifest + if effective_manifest is None: + candidate_manifest = subdir / "recombined_slices_manifest.json" + if candidate_manifest.exists(): + effective_manifest = candidate_manifest create_cvat( gt_dir=source_dir, output_dir=cvat_dir, bucket_size=100, use_predictions=use_predictions, sliding_window=sliding_window, + window_mode=window_mode, + slice_manifest=effective_manifest, ) else: typer.echo(f" CVAT dataset already exists, skipping.") @@ -190,6 +203,17 @@ def batch_prepare( sliding_window: int = typer.Option( 1, help="Number of pages per CVAT task (default: 1)" ), + window_mode: str = typer.Option( + "rolling", + help="Window selection mode for PDF chunks: rolling, parity_even, parity_odd.", + ), + slice_manifest: Optional[Path] = typer.Option( + None, + help=( + "Optional path to recombined_slices_manifest.json. " + "If omitted, each subdirectory is checked for a local manifest file." + ), + ), use_predictions: bool = typer.Option( True, help="Whether to create prediction dataset and use predictions in CVAT" ), @@ -204,6 +228,8 @@ def batch_prepare( input_directory, output_directory, sliding_window, + window_mode, + slice_manifest, use_predictions, max_files_per_chunk, ) diff --git a/docling_eval/cli/main.py b/docling_eval/cli/main.py index f898a40d..671e4a20 100644 --- a/docling_eval/cli/main.py +++ b/docling_eval/cli/main.py @@ -1261,6 +1261,25 @@ def create_cvat( help="Size of sliding window for page processing (1 for single pages, >1 for multi-page windows)" ), ] = 2, + window_mode: Annotated[ + str, + typer.Option( + help=( + "PDF window selection mode: " + "rolling (default), parity_even, or parity_odd. " + "Parity modes require --slice-manifest and sliding-window=2." + ) + ), + ] = "rolling", + slice_manifest: Annotated[ + Optional[Path], + typer.Option( + help=( + "Optional manifest from recombine_chunked_slice_pdfs.py. " + "Required for parity_even/parity_odd window modes." + ) + ), + ] = None, ): """Create dataset ready to upload to CVAT starting from (ground-truth) dataset. @@ -1272,6 +1291,8 @@ def create_cvat( bucket_size=bucket_size, use_predictions=use_predictions, sliding_window=sliding_window, + window_mode=window_mode, + slice_manifest=slice_manifest, ) builder.prepare_for_annotation() diff --git a/docling_eval/dataset_builders/cvat_preannotation_builder.py b/docling_eval/dataset_builders/cvat_preannotation_builder.py index 0284d4a1..3d75716e 100644 --- a/docling_eval/dataset_builders/cvat_preannotation_builder.py +++ b/docling_eval/dataset_builders/cvat_preannotation_builder.py @@ -3,8 +3,9 @@ import logging import os import shutil +from enum import Enum from pathlib import Path -from typing import Dict, List, Union +from typing import Dict, List, Optional, Union from datasets import load_dataset from docling_core.types.doc import DocItemLabel @@ -13,7 +14,7 @@ from docling_core.types.doc.labels import GraphCellLabel, TableCellLabel from docling_core.types.io import DocumentStream from PIL import Image -from pydantic import ValidationError +from pydantic import BaseModel, ValidationError # CVAT tools are optional - provided by docling-cvat-tools try: @@ -41,6 +42,72 @@ _log = logging.getLogger(__name__) +class WindowMode(str, Enum): + """Window selection mode for PDF page grouping.""" + + ROLLING = "rolling" + PARITY_EVEN = "parity_even" + PARITY_ODD = "parity_odd" + + +class RecombinedSliceManifestEntry(BaseModel): + """Manifest entry for one recombined slice PDF.""" + + output_doc_id: str + output_doc_hash: str + start_page: int + end_page_inclusive: int + end_page_exclusive: int + + +def build_rolling_windows(page_nos: List[int], window_size: int) -> List[List[int]]: + """Build rolling windows over sorted page numbers.""" + if window_size <= 1: + return [[page_no] for page_no in page_nos] + if len(page_nos) < window_size: + return [] + return [ + page_nos[idx : idx + window_size] + for idx in range(0, len(page_nos) - window_size + 1) + ] + + +def build_parity_windows( + page_nos: List[int], + *, + absolute_start_page: int, + parity: int, +) -> List[List[int]]: + """Build parity-based 2-page windows with mandatory edge singletons.""" + if not page_nos: + return [] + if len(page_nos) == 1: + return [[page_nos[0]]] + + windows: List[List[int]] = [] + covered_pages: set[int] = set() + + for idx in range(0, len(page_nos) - 1): + abs_window_start = absolute_start_page + idx + if abs_window_start % 2 != parity: + continue + window = [page_nos[idx], page_nos[idx + 1]] + windows.append(window) + covered_pages.update(window) + + ordered_windows: List[List[int]] = [] + first_page = page_nos[0] + last_page = page_nos[-1] + + if first_page not in covered_pages: + ordered_windows.append([first_page]) + ordered_windows.extend(windows) + if last_page not in covered_pages and last_page != first_page: + ordered_windows.append([last_page]) + + return ordered_windows + + class CvatPreannotationBuilder: """ Builder class for creating CVAT preannotations from a dataset. @@ -56,6 +123,8 @@ def __init__( bucket_size: int = 200, use_predictions: bool = False, sliding_window: int = 2, + window_mode: str = WindowMode.ROLLING.value, + slice_manifest: Optional[Path] = None, cleanup_json_groundtruth_after_creation: bool = True, ): """ @@ -67,21 +136,40 @@ def __init__( bucket_size: Number of documents per bucket for CVAT tasks use_predictions: Whether to use predictions instead of ground truth sliding_window: Size of sliding window for page processing (1 for single pages, >1 for multi-page windows) + window_mode: Page-window selection mode for PDFs + slice_manifest: Optional manifest to map recombined slices to absolute page numbers cleanup_json_groundtruth_after_creation: Whether to delete json_groundtruth/ after preannotation XML generation (default True) """ self.source_dir = dataset_source self.target_dir = target self.bucket_size = bucket_size self.sliding_window = sliding_window + self.window_mode = WindowMode(window_mode) + self.slice_manifest = ( + slice_manifest.expanduser().resolve() if slice_manifest else None + ) self.benchmark_dirs = BenchMarkDirs() self.benchmark_dirs.set_up_directory_structure( source=dataset_source, target=target ) self.overview = AnnotationOverview() self.use_predictions = use_predictions + self._slice_manifest_by_doc_id: Dict[str, RecombinedSliceManifestEntry] = {} + self._slice_manifest_by_doc_hash: Dict[str, RecombinedSliceManifestEntry] = {} + if self.slice_manifest is not None: + self._load_slice_manifest(self.slice_manifest) self.cleanup_json_groundtruth_after_creation = ( cleanup_json_groundtruth_after_creation ) + if self.window_mode in {WindowMode.PARITY_EVEN, WindowMode.PARITY_ODD}: + if self.sliding_window != 2: + raise ValueError( + "Parity window mode requires sliding_window=2 to build double-page chunks." + ) + if self.slice_manifest is None: + raise ValueError( + "window_mode parity_even/parity_odd requires --slice-manifest." + ) def _relative_to_target(self, path: Union[Path, str]) -> Path: """ @@ -189,6 +277,85 @@ def _absolute_from_target(self, path: Union[Path, str]) -> Path: target_dir = self.benchmark_dirs.target_dir.resolve() return target_dir / path_obj + def _load_slice_manifest(self, manifest_path: Path) -> None: + raw_payload = json.loads(manifest_path.read_text(encoding="utf-8")) + if not isinstance(raw_payload, list): + raise ValueError( + f"Invalid slice manifest {manifest_path}: expected a JSON list." + ) + + for idx, raw_entry in enumerate(raw_payload): + try: + entry = RecombinedSliceManifestEntry.model_validate(raw_entry) + except ValidationError as exc: + raise ValueError( + f"Invalid manifest entry at index {idx} in {manifest_path}: {exc}" + ) from exc + + existing_doc_id = self._slice_manifest_by_doc_id.get(entry.output_doc_id) + if ( + existing_doc_id is not None + and existing_doc_id.start_page != entry.start_page + ): + raise ValueError( + f"Conflicting start_page for output_doc_id={entry.output_doc_id} in {manifest_path}" + ) + + existing_doc_hash = self._slice_manifest_by_doc_hash.get( + entry.output_doc_hash + ) + if ( + existing_doc_hash is not None + and existing_doc_hash.start_page != entry.start_page + ): + raise ValueError( + f"Conflicting start_page for output_doc_hash={entry.output_doc_hash} in {manifest_path}" + ) + + self._slice_manifest_by_doc_id[entry.output_doc_id] = entry + self._slice_manifest_by_doc_hash[entry.output_doc_hash] = entry + + def _resolve_absolute_start_page(self, doc_overview: AnnotatedDoc) -> Optional[int]: + if not self._slice_manifest_by_doc_id and not self._slice_manifest_by_doc_hash: + return None + + by_hash = self._slice_manifest_by_doc_hash.get(doc_overview.doc_hash) + if by_hash is not None: + return by_hash.start_page + + by_doc_id = self._slice_manifest_by_doc_id.get(doc_overview.doc_name) + if by_doc_id is not None: + return by_doc_id.start_page + + return None + + def _build_page_windows( + self, + doc: DoclingDocument, + doc_overview: AnnotatedDoc, + sliding_window: int, + ) -> List[List[int]]: + page_nos = sorted(doc.pages.keys()) + if not page_nos: + return [] + + if self.window_mode == WindowMode.ROLLING: + return build_rolling_windows(page_nos, sliding_window) + + absolute_start_page = self._resolve_absolute_start_page(doc_overview) + if absolute_start_page is None: + raise ValueError( + "Could not resolve absolute start page for parity window mode. " + f"Document: doc_name={doc_overview.doc_name}, doc_hash={doc_overview.doc_hash}" + ) + + parity = 0 if self.window_mode == WindowMode.PARITY_EVEN else 1 + return build_parity_windows( + page_nos, + absolute_start_page=absolute_start_page, + parity=parity, + ) + def _export_from_dataset(self) -> AnnotationOverview: """ Export supplementary files from the dataset. @@ -203,6 +370,11 @@ def _export_from_dataset(self) -> AnnotationOverview: test_files = sorted( glob.glob(str(self.benchmark_dirs.source_dir / "*.parquet")) ) + if not test_files: + raise ValueError( + f"No parquet files found in {self.benchmark_dirs.source_dir}. " + "Expected one or more '*.parquet' files in the input dataset split." + ) ds = load_dataset("parquet", data_files={"test": test_files}) if ds is None: @@ -513,13 +685,17 @@ def _create_preannotation_files(self, sliding_window: int = 2) -> None: ) elif sliding_window > 1 and doc_overview.mime_type == "application/pdf": - img_id = self._process_pages_in_the_document_with_sliding_window( + page_windows = self._build_page_windows( + doc=doc, + doc_overview=doc_overview, + sliding_window=sliding_window, + ) + img_id = self._process_page_windows_in_the_document( img_id=img_id, bucket_annotations=bucket_annotations, doc=doc, doc_overview=doc_overview, - sliding_window=sliding_window, - overlap_window=sliding_window, + page_windows=page_windows, ) else: @@ -625,25 +801,24 @@ def _create_preannotation_files(self, sliding_window: int = 2) -> None: f"Saved annotation overview to {self.benchmark_dirs.overview_file} with {len(self.overview.img_annotations)} images" ) - def _process_pages_in_the_document_with_sliding_window( + # Drop empty page_imgs directory to avoid producing unused artifacts + # for single-page workflows (sliding_window=1). + page_imgs_dir = self.benchmark_dirs.page_imgs_dir + if page_imgs_dir.exists() and not any(page_imgs_dir.iterdir()): + page_imgs_dir.rmdir() + _log.info(f"Removed empty page images directory {page_imgs_dir}") + + def _process_page_windows_in_the_document( self, img_id: int, bucket_annotations: dict[int, list[str]], doc: DoclingDocument, doc_overview: AnnotatedDoc, - sliding_window: int, - overlap_window: int, + page_windows: List[List[int]], ) -> int: - page_nos: list[int] = list(doc.pages.keys()) - - # for start_page in range(0, total_pages, sliding_window-overlap_window): - for page_start in page_nos: - page_end = min(page_start + sliding_window, max(page_nos) + 1) - - # Skip if it is not of the correct size - if page_end - page_start != sliding_window: + for page_window in page_windows: + if not page_window: continue - img_id += 1 # Calculate bucket ID consistently for both folder and XML naming @@ -660,7 +835,10 @@ def _process_pages_in_the_document_with_sliding_window( doc_hash = doc_overview.doc_hash # Create unique filename for the page image - filename = f"doc_{doc_hash}_ps_{page_start:06}_pe_{page_end:06}.png" + if len(page_window) == 1: + filename = f"doc_{doc_hash}_page_{page_window[0]:06}.png" + else: + filename = f"doc_{doc_hash}_ps_{page_window[0]:06}_pe_{page_window[-1] + 1:06}.png" # Create annotated image record - using the SAME document file path annotated_image = AnnotatedImage( @@ -675,7 +853,7 @@ def _process_pages_in_the_document_with_sliding_window( ) page_imgs = {} - for page_no in range(page_start, page_end): + for page_no in page_window: # Extract and save page image page_image_ref = doc.pages[page_no].image if page_image_ref is not None: @@ -692,15 +870,15 @@ def _process_pages_in_the_document_with_sliding_window( f"Missing image reference for page {page_no}, skipping..." ) - if len(page_imgs) != page_end - page_start: + if len(page_imgs) != len(page_window): _log.error(f"Could not extract enough page-images, skipping ...") continue skip = False for page_no, img in page_imgs.items(): - if page_imgs[page_start].height != img.height: + if page_imgs[page_window[0]].height != img.height: _log.warning( - f"{page_imgs[page_start].width} != {img.width} or {page_imgs[page_start].height} != {img.height}" + f"{page_imgs[page_window[0]].width} != {img.width} or {page_imgs[page_window[0]].height} != {img.height}" ) skip = True @@ -713,7 +891,7 @@ def _process_pages_in_the_document_with_sliding_window( "RGB", ( sum(img.width for page_no, img in page_imgs.items()), - page_imgs[page_start].height, + page_imgs[page_window[0]].height, ), ) @@ -738,28 +916,28 @@ def _process_pages_in_the_document_with_sliding_window( annotated_image.img_w = combined_image.width annotated_image.img_h = combined_image.height - annotated_image.page_nos = [ - page_no for page_no in range(page_start, page_end) - ] + annotated_image.page_nos = page_window.copy() - # Save individual page images to cvat_tasks/ in PNG format (needed for CVAT uploader) - # This eliminates redundancy with page_imgs/ directory + # For multi-page windows, keep source page images in page_imgs/ so task_XX + # contains only actual CVAT task images referenced by preannotate XML. annotated_image.page_img_files = [] - for page_no in range(page_start, page_end): + for page_no in page_window: # Create unique filename for the page image page_filename = f"doc_{doc_hash}_page_{page_no:06}.png" - - # Save page image to task directory - page_img_file = bucket_dir / page_filename + if len(page_window) == 1: + # Singleton windows already use the page image as CVAT task image. + page_img_file = annotated_image.img_file + else: + page_img_file = self.benchmark_dirs.page_imgs_dir / page_filename + if not page_img_file.exists(): + _log.info(f"saving {page_img_file}") + page_imgs[page_no].save(str(page_img_file)) annotated_image.page_img_files.append(page_img_file) - _log.info(f"saving {page_img_file}") - page_imgs[page_no].save(str(page_img_file)) - # Extract bounding boxes for annotation page_bboxes = [] - for page_no in range(page_start, page_end): + for page_no in page_window: bboxs = self._extract_page_bounding_boxes( doc=doc, page_no=page_no,