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feat(xml-jats): parse XML JATS documents (#967)

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* chore(xml-jats): separate authors and affiliations

In XML PubMed (JATS) backend, convert authors and affiliations as they
are typically rendered on PDFs.

Signed-off-by: Cesar Berrospi Ramis <75900930+ceberam@users.noreply.github.com>

* fix(xml-jats): replace new line character by a space

Instead of removing new line character from text, replace it by a space character.

Signed-off-by: Cesar Berrospi Ramis <75900930+ceberam@users.noreply.github.com>

* feat(xml-jats): improve existing parser and extend features

Partially support lists, respect reading order, parse more sections, support equations, better text formatting.

Signed-off-by: Cesar Berrospi Ramis <75900930+ceberam@users.noreply.github.com>

* chore(xml-jats): rename PubMed objects to JATS

Signed-off-by: Cesar Berrospi Ramis <75900930+ceberam@users.noreply.github.com>

---------

Signed-off-by: Cesar Berrospi Ramis <75900930+ceberam@users.noreply.github.com>
This commit is contained in:
Cesar Berrospi Ramis
2025-02-17 10:43:31 +01:00
committed by GitHub
parent e1436a8b05
commit 428b656793
35 changed files with 13688 additions and 30671 deletions
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6
docling/datamodel/base_models.py
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@@ -34,7 +34,6 @@ class InputFormat(str, Enum):
DOCX = "docx"
PPTX = "pptx"
HTML = "html"
XML_PUBMED = "xml_pubmed"
IMAGE = "image"
PDF = "pdf"
ASCIIDOC = "asciidoc"
@@ -42,6 +41,7 @@ class InputFormat(str, Enum):
CSV = "csv"
XLSX = "xlsx"
XML_USPTO = "xml_uspto"
XML_JATS = "xml_jats"
JSON_DOCLING = "json_docling"
@@ -59,7 +59,7 @@ FormatToExtensions: Dict[InputFormat, List[str]] = {
InputFormat.PDF: ["pdf"],
InputFormat.MD: ["md"],
InputFormat.HTML: ["html", "htm", "xhtml"],
InputFormat.XML_PUBMED: ["xml", "nxml"],
InputFormat.XML_JATS: ["xml", "nxml"],
InputFormat.IMAGE: ["jpg", "jpeg", "png", "tif", "tiff", "bmp"],
InputFormat.ASCIIDOC: ["adoc", "asciidoc", "asc"],
InputFormat.CSV: ["csv"],
@@ -79,7 +79,7 @@ FormatToMimeType: Dict[InputFormat, List[str]] = {
"application/vnd.openxmlformats-officedocument.presentationml.presentation",
],
InputFormat.HTML: ["text/html", "application/xhtml+xml"],
InputFormat.XML_PUBMED: ["application/xml"],
InputFormat.XML_JATS: ["application/xml"],
InputFormat.IMAGE: [
"image/png",
"image/jpeg",