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elsevier.py
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elsevier.py
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import os
import dill
import urllib2
from collections import defaultdict
from urlparse import urljoin
from bs4 import BeautifulSoup
ROOT = 'http://www.sciencedirect.com/science/journal/'
JOURNALS = dict()
# Starting 2007
JOURNALS['Elsevier_PR'] = ('00313203', ['60', '58', '57', '56', '55', '54', '53', '52', '51', '50', '49'] +\
['48/{0}'.format(issue) for issue in range(1, 13)] +\
['47/{0}'.format(issue) for issue in range(1, 13)] +\
['46/{0}'.format(issue) for issue in range(1, 13)] +\
['45/{0}'.format(issue) for issue in range(1, 13)] +\
['44/{0}'.format(issue) for issue in range(1, 9)] + ['44/10-11', '44/12'] +\
['43/{0}'.format(issue) for issue in range(1, 13)] +\
['42/{0}'.format(issue) for issue in range(1, 13)] +\
['41/{0}'.format(issue) for issue in range(1, 13)] +\
['40/{0}'.format(issue) for issue in range(1, 13)]
)
JOURNALS['Elsevier_KBS'] = ('09507051', range(26, 107) +\
['25/1'] +\
['24/{0}'.format(issue) for issue in range(1, 9)] +\
['23/{0}'.format(issue) for issue in range(1, 9)] +\
['22/{0}'.format(issue) for issue in range(1, 9)] +\
['21/{0}'.format(issue) for issue in range(1, 9)] +\
['20/{0}'.format(issue) for issue in range(1, 9)]
)
JOURNALS['Elsevier_NN'] = ('08936080', range(31, 82) +\
['29-30', 28, 27, 26, 25] +\
['24/{0}'.format(issue) for issue in range(1, 11)] +\
['23/{0}'.format(issue) for issue in range(1, 8)] + ['23/8-9'] + ['23/10'] +\
['22/{0}'.format(issue) for issue in range(1, 5)] + ['22/5-6'] + ['22/{0}'.format(issue) for issue in range(7, 11)] +\
['21/1'] + ['21/2-3'] + ['21/{0}'.format(issue) for issue in range(4, 11)] +\
['20/{0}'.format(issue) for issue in range(1, 11)]
)
JOURNALS['Elsevier_Neuro'] = ('09252312', range(176, 206) +\
['175/part/PB', '175/part/PA', '174/part/PB', '174/part/PA'] +\
['173/part/P1', '173/part/P2', '173/part/P3'] +\
range(152, 172) +\
['151/part/P1', '151/part/P2', '151/part/P3'] +\
['150/part/PB', '150/part/PA'] +\
['149/part/PC', '149/part/PB', '149/part/PA'] +\
range(79, 149) +\
['78/1', '77/1', '76/1', '75/1'] +\
['74/{0}'.format(issue) for issue in range(16, 19)] + ['74/12-13', '74/14-15'] + ['74/{0}'.format(issue) for issue in range(4, 12)] + ['74/1-3'] +\
['73/16-18', '73/13-15', '73/10-12', '73/7-9', '73/4-6', '73/1-3'] +\
['72/16-18', '72/13-15', '72/10-12', '72/7-9', '72/4-6', '72/1-3'] +\
['71/16-18', '71/13-15', '71/10-12', '71/7-9', '71/4-6', '71/1-3'] +\
['70/16-18', '70/13-15', '70/10-12', '70/7-9', '70/4-6']
)
JOURNALS['Elsevier_AI'] = ('00043702', range(201, 239) + ['199-200'] + range(193, 199) + ['191-192', '190', '189', '187-188', '186', '184-185', '182-183', '188-181', '177-179'] +\
['176/1', '175/18', '175/16-17', '175/14-15', '175/12-13', '175/11', '175/9-10', '175/7-8', '175/5-6', '175/3-4', '175/2', '175/1'] +\
['174/18', '174/16-17', '174/15', '174/14', '174/12-13', '174/11', '174/9-10', '174/7-8', '174/5-6', '174/3-4', '174/2', '174/1'] +\
['173/18', '173/16-17', '173/15', '173/14', '173/12-13', '173/11', '173/9-10', '173/7-8', '173/5-6', '173/3-4', '173/2', '173/1'] +\
['172/18', '172/16-17', '172/15', '172/14', '172/12-13', '173/11', '172/10', '172/8-9', '172/7-8', '172/6-7', '172/4-5', '172/2-3', '172/1'] +\
['171/18', '171/16-17', '171/10-15', '171/8-9', '171/7', '171/5-6', '171/4', '171/2-3', '171/1']
)
JOURNALS['Elsevier_CSL'] = ('08852308', range(35, 42) + ['34/1', '33/1', '32/1', '31/1', '30/1', '29/1'] +\
['28/{0}'.format(issue) for issue in range(1, 7)] +\
['27/{0}'.format(issue) for issue in range(1, 7)] +\
['26/{0}'.format(issue) for issue in range(1, 6)] +\
['25/{0}'.format(issue) for issue in range(1, 5)] +\
['24/{0}'.format(issue) for issue in range(1, 5)] +\
['23/{0}'.format(issue) for issue in range(1, 5)] +\
['22/{0}'.format(issue) for issue in range(1, 5)] +\
['21/{0}'.format(issue) for issue in range(1, 5)]
)
JOURNALS['Elsevier_PRL'] = ('01678655', range(69, 81) + ['68/part/P2' + '68/part/P1' + '67/part/P2' + '67/part/P1'] +\
range(62, 67) + ['60-61'] + range(35, 60) +\
['34/{0}'.format(issue) for issue in range(1, 17)] +\
['33/{0}'.format(issue) for issue in range(1, 17)] +\
['32/{0}'.format(issue) for issue in range(1, 17)] +\
['31/{0}'.format(issue) for issue in range(1, 17)] +\
['30/{0}'.format(issue) for issue in range(1, 17)] +\
['29/{0}'.format(issue) for issue in range(1, 17)] +\
['28/{0}'.format(issue) for issue in range(1, 17)]
)
JOURNALS['Elsevier_CSDA'] = ('01679473', range(58, 104) + ['57/1'] +\
['56/{0}'.format(issue) for issue in range(1, 13)] +\
['55/{0}'.format(issue) for issue in range(1, 13)] +\
['54/{0}'.format(issue) for issue in range(1, 13)] +\
['53/{0}'.format(issue) for issue in range(1, 13)] +\
['52/{0}'.format(issue) for issue in range(1, 13)] +\
['51/{0}'.format(issue) for issue in range(1, 13)]
)
JOURNALS['Elsevier_IPM'] = ('03064573', ['52/{0}'.format(issue) for issue in range(1, 5)] +\
['51/{0}'.format(issue) for issue in range(1, 7)] +\
['50/{0}'.format(issue) for issue in range(1, 7)] +\
['49/{0}'.format(issue) for issue in range(1, 7)] +\
['48/{0}'.format(issue) for issue in range(1, 7)] +\
['47/{0}'.format(issue) for issue in range(1, 7)] +\
['46/{0}'.format(issue) for issue in range(1, 7)] +\
['45/{0}'.format(issue) for issue in range(1, 7)] +\
['44/{0}'.format(issue) for issue in range(1, 7)] +\
['43/{0}'.format(issue) for issue in range(1, 7)]
)
JOURNALS['Elsevier_DKE'] = ('0169023X', range(101, 104) + ['100/part/PB', '100/part/PA', 99, 98, '96-97', 95, '94/part/PB', '94/part/PA'] +\
range(83, 94) + ['81-82', '79-80', '76-78'] + range(72, 76) + ['71/1'] +\
['70/{0}'.format(issue) for issue in range(1, 13)] +\
['69/{0}'.format(issue) for issue in range(1, 13)] +\
['68/{0}'.format(issue) for issue in range(1, 13)] +\
['67/{0}'.format(issue) for issue in range(1, 4)] +\
['66/{0}'.format(issue) for issue in range(1, 4)] +\
['65/{0}'.format(issue) for issue in range(1, 4)] +\
['64/{0}'.format(issue) for issue in range(1, 4)] +\
['64/{0}'.format(issue) for issue in range(1, 4)] +\
['63/{0}'.format(issue) for issue in range(1, 4)] +\
['62/{0}'.format(issue) for issue in range(1, 4)] +\
['61/{0}'.format(issue) for issue in range(1, 4)] +\
['60/{0}'.format(issue) for issue in range(1, 4)]
)
def maybe_pickle_abstracts(name, force=False):
file_name = '{0}_abstracts'.format(name)
set_filename = '{0}.dill'.format(file_name)
if os.path.exists(set_filename) and not force:
print '{0} already present - Loading dill.'.format(set_filename)
abstracts = dill.load(open(set_filename, 'rb'))
else:
_, volumes = JOURNALS[name]
abstracts = get_abstracts(name)
abstracts = [abstracts[v][k] for v in volumes for k in abstracts[v]]
try:
print 'Dilling {0}'.format(set_filename)
dill.dump(abstracts, open(set_filename, 'wb'))
except Exception as e:
print('Unable to save data to', set_filename, ':', e)
return abstracts
def get_abstracts(name):
res = defaultdict(lambda: defaultdict(set))
total = 0
id, volumes = JOURNALS[name]
for volume in volumes:
volume_url = urljoin(ROOT, '{0}/{1}'.format(id, volume))
print 'Starting volume {0}'.format(volume)
pub_req = urllib2.Request(volume_url, headers={'User-Agent': "Magic Browser"})
pub_page = urllib2.urlopen(pub_req).read()
soup = BeautifulSoup(pub_page, 'html.parser')
count = 0
for link in soup.find_all('a'):
abstract_url = link.get('data-url')
# Only abstracts
if abstract_url and 'abstract' in abstract_url:
publication = abstract_url[abstract_url.find('pii') + 4:abstract_url.find('&_issn')]
print 'Reading {0}'.format(publication)
abstract_req = urllib2.Request(abstract_url, headers={'User-Agent': "Magic Browser"})
abstract_page = urllib2.urlopen(abstract_req).read()
abstract_soup = BeautifulSoup(abstract_page, 'html.parser')
raw_abstract = abstract_soup.getText()
start_idx = raw_abstract.find('Abstract')
end_idx = raw_abstract.rfind('Citing articles')
abstract = raw_abstract[start_idx + len('Abstract'):end_idx-1]
res[volume][abstract_url] = abstract
count += 1
print 'COUNT={0}'.format(count)
total += count
print 'TOTAL={0}'.format(total)
return res