Generate citations for the DOIs referenced in the selected cohort

[fedorov]

This script adopted from https://gist.github.com/dobrosketchkun/f14e1ab9ae817b00b28251f11786fbcf works.

#!/usr/bin/env python
#http://www.crosscite.org/cn/

import requests
import json
 
class CrossRefClient(object):
 
	def __init__(self, accept='text/x-bibliography; style=apa', timeout=3):
		"""
		# Defaults to APA biblio style
		
		# Usage:
		s = CrossRefClient()
		print s.doi2apa("10.1038/nature10414")		
		"""
		self.headers = {'accept': accept}
		self.timeout = timeout
 
	def query(self, doi, q={}):
		if doi.startswith("http://"):
			url = doi
		else:
			url = "http://dx.doi.org/" + doi
		
		r = requests.get(url, headers = self.headers)
		return r

	def doi2apa(self, doi):
		self.headers['accept'] = 'text/x-bibliography; style=apa'
		return self.query(doi).text
		
	def doi2turtle(self, doi):
		self.headers['accept'] = 'text/turtle' 
		return self.query(doi).text
		
	def doi2json(self, doi):
		self.headers['accept'] = 'application/vnd.citationstyles.csl+json' 
		return self.query(doi).json()
		
		

# keys = ['indexed', 'reference-count', 'publisher', 'issue', 'funder', 'content-domain', 'published-print', 'DOI', 'type', 'created', 'update-policy', 'source', 'is-referenced-by-count', 'title', 'prefix', 'volume', 'author', 'member', 'published-online', 'reference', 'container-title', 'original-title', 'language', 'link', 'deposited', 'score', 'subtitle', 'short-title', 'issued', 'references-count', 'journal-issue', 'alternative-id', 'URL', 'relation', 'ISSN', 'container-title-short', 'article-number']


doi = '10.1186/s13059-015-0796-9'

import sys

session = CrossRefClient()
out = session.doi2json(sys.argv[1])

apa = session.doi2apa(sys.argv[1])

print(apa)

import json
print(json.dumps(str(out),indent=2))