import json import os from io import BytesIO from pathlib import Path from docling_core.types.doc import DoclingDocument from docling.datamodel.base_models import DocumentStream, InputFormat from docling.datamodel.document import ConversionResult from docling.document_converter import DocumentConverter GENERATE = False def get_pubmed_paths(): directory = Path(os.path.dirname(__file__) + f"/data/pubmed/") xml_files = sorted(directory.rglob("*.xml")) return xml_files def get_converter(): converter = DocumentConverter(allowed_formats=[InputFormat.XML_PUBMED]) return converter def verify_export(pred_text: str, gtfile: str): if not os.path.exists(gtfile) or GENERATE: with open(gtfile, "w") as fw: fw.write(pred_text) return True else: with open(gtfile, "r") as fr: true_text = fr.read() assert pred_text == true_text, f"pred_text!=true_text for {gtfile}" return pred_text == true_text def test_e2e_pubmed_conversions(use_stream=False): pubmed_paths = get_pubmed_paths() converter = get_converter() for pubmed_path in pubmed_paths: gt_path = ( pubmed_path.parent.parent / "groundtruth" / "docling_v2" / pubmed_path.name ) if use_stream: buf = BytesIO(pubmed_path.open("rb").read()) stream = DocumentStream(name=pubmed_path.name, stream=buf) conv_result: ConversionResult = converter.convert(stream) else: conv_result: ConversionResult = converter.convert(pubmed_path) doc: DoclingDocument = conv_result.document pred_md: str = doc.export_to_markdown() assert verify_export(pred_md, str(gt_path) + ".md"), "export to md" pred_itxt: str = doc._export_to_indented_text( max_text_len=70, explicit_tables=False ) assert verify_export( pred_itxt, str(gt_path) + ".itxt" ), "export to indented-text" pred_json: str = json.dumps(doc.export_to_dict(), indent=2) assert verify_export(pred_json, str(gt_path) + ".json"), "export to json" def test_e2e_pubmed_conversions_stream(): test_e2e_pubmed_conversions(use_stream=True) def test_e2e_pubmed_conversions_no_stream(): test_e2e_pubmed_conversions(use_stream=False)