-
Notifications
You must be signed in to change notification settings - Fork 0
/
get_bibtex.py
50 lines (40 loc) · 1.69 KB
/
get_bibtex.py
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
import re
from bibtexparser import load as load_bib
from bibtexparser.bwriter import BibTexWriter
from bibtexparser.bibdatabase import BibDatabase
import click
species_name_pattern = re.compile(
r"^(.*?)\{\\textless\}i\{\\textgreater\}(.*?)\{\\textless\}\/i\{\\textgreater\}(.*?)$")
@click.command()
@click.argument('keys_filename', type=click.Path(exists=True, file_okay=True, dir_okay=False, readable=True))
@click.argument('bibtex_filename', type=click.Path(exists=True, file_okay=True, dir_okay=False, readable=True))
@click.argument('output_filename', type=click.Path(file_okay=True, dir_okay=False, writable=True))
@click.option('-v/-V', '--verbose/--no-verbose', default=False)
def main(keys_filename, bibtex_filename, output_filename, verbose):
with open(keys_filename) as f:
citation_keys = [line.strip() for line in f.readlines()]
if verbose:
print("Read {} keys from {}".format(len(citation_keys), keys_filename))
with open(bibtex_filename) as f:
main_bib = load_bib(f)
if verbose:
print("Read {} entries from {}".format(len(main_bib.entries), bibtex_filename))
out_bib = BibDatabase()
for key in citation_keys:
e = main_bib.entries_dict[key]
out_bib.entries.append(e)
if verbose:
print("Writing {} entries to {}".format(len(out_bib.entries), output_filename))
for ent in out_bib.entries:
m = species_name_pattern.match(ent['title'])
if m:
prefix, species, postfix = m.groups()
ent['title'] = prefix + r"\emph{" + species + r"}" + postfix
for key in ['file', 'abstract', 'mendeley-tags', 'keyword']:
if key in ent:
ent.pop(key)
writer = BibTexWriter()
with open(output_filename, 'w') as f:
f.write(writer.write(out_bib))
if __name__ == '__main__':
main()