scan a file to parse out the dois

matchdoi.py

#!/usr/bin/env python
# -*- coding: utf-8 -*-

import re

def match_doi(query):
    """ match doi from query """
    # pattern is from a very helpful SO question. I <3 SO
    # http://stackoverflow.com/questions/27910/finding-a-doi-in-a-document-or-page
    match = re.search(r'\b(10[.][0-9]{4,}(?:[.][0-9]+)*/(?:(?!["&\'<>])\S)+)\b', query)
    if match is None:
        return
    result = match.group(0)
    print(result)
    return result

if __name__ == '__main__':
    import fileinput
    for line in fileinput.input():
        match_doi(line)

If you have a pdf, run pdftotext <filename>, then ./matchdoi.py <filename>, which will print dois to stdout. I pasted them in to the zotero add-by-id GUI because I was lazy.