1 files changed, 0 insertions, 199 deletions
diff --git a/python/grobid2json.py b/python/grobid2json.py
deleted file mode 100755
index 39ab222..0000000
--- a/python/grobid2json.py
+++ /dev/null
@@ -1,199 +0,0 @@
-#!/usr/bin/env python3
-
-"""
-NB: adapted to work as a library for PDF extraction. Will probably be
-re-written eventually to be correct, complete, and robust; this is just a
-first iteration.
-
-This script tries to extract everything from a GROBID TEI XML fulltext dump:
-
-- header metadata
-- affiliations
-- references (with context)
-- abstract
-- fulltext
-- tables, figures, equations
-
-A flag can be specified to disable copyright encumbered bits (--no-emcumbered):
-
-- abstract
-- fulltext
-- tables, figures, equations
-
-Prints JSON to stdout, errors to stderr
-"""
-
-import io
-import json
-import argparse
-import xml.etree.ElementTree as ET
-
-xml_ns = "http://www.w3.org/XML/1998/namespace"
-ns = "http://www.tei-c.org/ns/1.0"
-
-def all_authors(elem):
-    names = []
-    for author in elem.findall('.//{%s}author' % ns):
-        pn = author.find('./{%s}persName' % ns)
-        if not pn:
-            continue
-        given_name = pn.findtext('./{%s}forename' % ns) or None
-        surname = pn.findtext('./{%s}surname' % ns) or None
-        full_name = ' '.join(pn.itertext())
-        obj = dict(name=full_name)
-        if given_name:
-            obj['given_name'] = given_name
-        if surname:
-            obj['surname'] = surname
-        ae = author.find('./{%s}affiliation' % ns)
-        if ae:
-            affiliation = dict()
-            for on in ae.findall('./{%s}orgName' % ns):
-                affiliation[on.get('type')] = on.text
-            addr_e = ae.find('./{%s}address' % ns)
-            if addr_e:
-                address = dict()
-                for t in addr_e.getchildren():
-                    address[t.tag.split('}')[-1]] = t.text
-                if address:
-                    affiliation['address'] = address
-                #affiliation['address'] = {
-                #    'post_code': addr.findtext('./{%s}postCode' % ns) or None,
-                #    'settlement': addr.findtext('./{%s}settlement' % ns) or None,
-                #    'country': addr.findtext('./{%s}country' % ns) or None,
-                #}
-            obj['affiliation'] = affiliation
-        names.append(obj)
-    return names
-
-
-def journal_info(elem):
-    journal = dict()
-    journal['name'] = elem.findtext('.//{%s}monogr/{%s}title' % (ns, ns))
-    journal['publisher'] = elem.findtext('.//{%s}publicationStmt/{%s}publisher' % (ns, ns))
-    if journal['publisher'] == '':
-        journal['publisher'] = None
-    journal['issn'] = elem.findtext('.//{%s}idno[@type="ISSN"]' % ns)
-    journal['eissn'] = elem.findtext('.//{%s}idno[@type="eISSN"]' % ns)
-    journal['volume'] = elem.findtext('.//{%s}biblScope[@unit="volume"]' % ns)
-    journal['issue'] = elem.findtext('.//{%s}biblScope[@unit="issue"]' % ns)
-    keys = list(journal.keys())
-
-    # remove empty/null keys
-    for k in keys:
-        if not journal[k]:
-            journal.pop(k)
-    return journal
-
-
-def biblio_info(elem):
-    ref = dict()
-    ref['id'] = elem.attrib.get('{http://www.w3.org/XML/1998/namespace}id')
-    # Title stuff is messy in references...
-    ref['title'] = elem.findtext('.//{%s}analytic/{%s}title' % (ns, ns))
-    other_title = elem.findtext('.//{%s}monogr/{%s}title' % (ns, ns))
-    if other_title:
-        if ref['title']:
-            ref['journal'] = other_title
-        else:
-            ref['journal'] = None
-            ref['title'] = other_title
-    ref['authors'] = all_authors(elem)
-    ref['publisher'] = elem.findtext('.//{%s}publicationStmt/{%s}publisher' % (ns, ns))
-    if ref['publisher'] == '':
-        ref['publisher'] = None
-    date = elem.find('.//{%s}date[@type="published"]' % ns)
-    ref['date'] = (date != None) and date.attrib.get('when')
-    ref['volume'] = elem.findtext('.//{%s}biblScope[@unit="volume"]' % ns)
-    ref['issue'] = elem.findtext('.//{%s}biblScope[@unit="issue"]' % ns)
-    el = elem.find('.//{%s}ptr[@target]' % ns)
-    if el is not None:
-        ref['url'] = el.attrib['target']
-        # Hand correction
-        if ref['url'].endswith(".Lastaccessed"):
-            ref['url'] = ref['url'].replace(".Lastaccessed", "")
-    else:
-        ref['url'] = None
-    return ref
-
-
-def teixml2json(content, encumbered=True):
-
-    if type(content) == str:
-        content = io.StringIO(content)
-    elif type(content) == bytes:
-        content = io.BytesIO(content)
-
-    info = dict()
-
-    #print(content)
-    #print(content.getvalue())
-    tree = ET.parse(content)
-    tei = tree.getroot()
-
-    header = tei.find('.//{%s}teiHeader' % ns)
-    if header is None:
-        raise ValueError("XML does not look like TEI format")
-    application_tag = header.findall('.//{%s}appInfo/{%s}application' % (ns, ns))[0]
-    info['grobid_version'] = application_tag.attrib['version'].strip()
-    info['grobid_timestamp'] = application_tag.attrib['when'].strip()
-    info['title'] = header.findtext('.//{%s}analytic/{%s}title' % (ns, ns))
-    info['authors'] = all_authors(header.find('.//{%s}sourceDesc/{%s}biblStruct' % (ns, ns)))
-    info['journal'] = journal_info(header)
-    date = header.find('.//{%s}date[@type="published"]' % ns)
-    info['date'] = (date != None) and date.attrib.get('when')
-    info['fatcat_release'] = header.findtext('.//{%s}idno[@type="fatcat"]' % ns)
-    info['doi'] = header.findtext('.//{%s}idno[@type="DOI"]' % ns)
-    if info['doi']:
-        info['doi'] = info['doi'].lower()
-
-    refs = []
-    for (i, bs) in enumerate(tei.findall('.//{%s}listBibl/{%s}biblStruct' % (ns, ns))):
-        ref = biblio_info(bs)
-        ref['index'] = i
-        refs.append(ref)
-    info['citations'] = refs
-
-    text = tei.find('.//{%s}text' % (ns))
-    #print(text.attrib)
-    if text.attrib.get('{%s}lang' % xml_ns):
-        info['language_code'] = text.attrib['{%s}lang' % xml_ns]  # xml:lang
-
-    if encumbered:
-        el = tei.find('.//{%s}profileDesc/{%s}abstract' % (ns, ns))
-        info['abstract'] = (el or None) and " ".join(el.itertext()).strip()
-        el = tei.find('.//{%s}text/{%s}body' % (ns, ns))
-        info['body'] = (el or None) and " ".join(el.itertext()).strip()
-        el = tei.find('.//{%s}back/{%s}div[@type="acknowledgement"]' % (ns, ns))
-        info['acknowledgement'] = (el or None) and " ".join(el.itertext()).strip()
-        el = tei.find('.//{%s}back/{%s}div[@type="annex"]' % (ns, ns))
-        info['annex'] = (el or None) and " ".join(el.itertext()).strip()
-
-    # remove empty/null keys
-    keys = list(info.keys())
-    for k in keys:
-        if not info[k]:
-            info.pop(k)
-    return info
-
-def main():   # pragma no cover
-    parser = argparse.ArgumentParser(
-        formatter_class=argparse.ArgumentDefaultsHelpFormatter,
-        description="GROBID TEI XML to JSON",
-        usage="%(prog)s [options] <teifile>...")
-    parser.add_argument("--no-encumbered",
-        action="store_true",
-        help="don't include ambiguously copyright encumbered fields (eg, abstract, body)")
-    parser.add_argument("teifiles", nargs='+')
-
-    args = parser.parse_args()
-
-    for filename in args.teifiles:
-        content = open(filename, 'r')
-        print(json.dumps(
-            teixml2json(content,
-               encumbered=(not args.no_encumbered)),
-            sort_keys=True))
-
-if __name__=='__main__':   # pragma no cover
-    main()