Spaces:
Sleeping
Sleeping
File size: 4,764 Bytes
9ee83a7 |
1 2 3 4 5 6 7 8 9 10 11 12 13 14 15 16 17 18 19 20 21 22 23 24 25 26 27 28 29 30 31 32 33 34 35 36 37 38 39 40 41 42 43 44 45 46 47 48 49 50 51 52 53 54 55 56 57 58 59 60 61 62 63 64 65 66 67 68 69 70 71 72 73 74 75 76 77 78 79 80 81 82 83 84 85 86 87 88 89 90 91 92 93 94 95 96 97 98 99 100 101 102 103 104 105 106 107 108 109 110 111 112 113 114 115 116 117 118 119 120 121 122 123 124 125 126 127 128 129 130 131 132 133 134 135 136 137 138 139 140 141 142 143 144 145 146 |
# code modified from https://github.com/IBM/document2slides/blob/main/sciduet-build/extract_papers.py
import os
from os import path
import json
from dataclasses import dataclass
from multiprocessing.pool import Pool
import pandas as pd
from pathlib import Path
from bs4 import BeautifulSoup
import nltk
from dataclasses import dataclass
@dataclass
class Person:
firstname: str
middlename: str
surname: str
def read_tei(tei_file):
with open(tei_file, 'r', encoding='utf-8') as tei:
soup = BeautifulSoup(tei, 'xml')
return soup
def elem_to_text(elem, default=''):
if elem:
return elem.getText()
else:
return default
class TEIFile(object):
def __init__(self, xml_pth: str = None, fig_json_pth: str = ''):
# self.filename = filename
# self.dir = os.path.abspath(paper_dir)
self.xml_pth = os.path.abspath(xml_pth)
self.fig_json_pth = os.path.abspath(fig_json_pth)
# self.soup = read_tei(os.path.join(self.dir, 'paper.tei.xml'))
self.soup = read_tei(self.xml_pth)
self._text = None
self._title = ''
self._abstract = ''
self._headers = None
self._figures = None
@property
def doi(self):
idno_elem = self.soup.find('idno', type='DOI')
if not idno_elem:
return ''
else:
return idno_elem.getText()
@property
def title(self):
if not self._title:
self._title = self.soup.title.getText()
return self._title
@property
def abstract(self):
if not self._abstract:
abstract = self.soup.abstract.getText(separator=' ', strip=True)
self._abstract = abstract
return self._abstract
@property
def authors(self):
authors_in_header = self.soup.analytic.find_all('author')
# print(authors_in_header)
result = []
for author in authors_in_header:
persname = author.persName
if not persname:
persname = author.persname
if not persname:
continue
firstname = elem_to_text(persname.find("forename", type="first"))
middlename = elem_to_text(persname.find("forename", type="middle"))
surname = elem_to_text(persname.surname)
person = Person(firstname, middlename, surname)
result.append(person)
return result
@property
def text(self):
if not self._text:
self._headers = []
headerlist = self.soup.body.find_all("head")
sections = []
print(headerlist)
for head in headerlist:
if head.parent.name == 'div':
txt = head.parent.get_text(separator=' ', strip=True)
# the following is only valid for arabic numerals...
if head.get("n"):
sections.append([head.text, head.get('n'), txt])
else:
if len(sections) == 0:
print("Grobid processing error.")
sections[-1][2] += txt
# sections.append([head.text, 'invalid n', txt])
start = 0
for i in sections:
sent = nltk.tokenize.sent_tokenize(i[2])
sec_dic = {'section': i[0], 'n': i[1], 'start': start, 'end': start + len(sent) - 1}
self._headers.append(sec_dic)
start += len(sent)
plain_text = " ".join([i[2] for i in sections])
self._text = [{'id': i, 'string': s} for i, s in enumerate(nltk.tokenize.sent_tokenize(plain_text))]
return self._text
@property
def headers(self):
if not self._headers:
self.text()
return self._headers
@property
def figures(self):
if not self._figures:
# base_name = basename_without_ext(self.filename)
self._figures = []
# fn = 'figures/{}.json'.format(base_name) # link to figures dir
# fn = os.path.join(self.dir, 'paper_figure/paper.json')
fn = self.fig_json_pth
if not path.isfile(fn):
return []
with open(fn) as f:
data = json.load(f)
for i in data:
elem = {'filename': i['renderURL'], 'caption': i['caption'], 'page': i['page'], 'bbox': i['regionBoundary']}
self._figures.append(elem)
return self._figures
def single_entry(uuid: str, xml_pth: str, fig_json_pth: str):
tei = TEIFile(xml_pth=xml_pth, fig_json_pth=fig_json_pth)
return uuid, tei.title, tei.abstract, tei.text, tei.headers, tei.figures
|