def test_get_title_prefix():
time.sleep(0.5)
title = pubmed_client.get_title('PMID27754804')
assert title
assert title.lower().startswith('targeting autophagy')
def test_get_title():
title = pubmed_client.get_title('27754804')
assert title
assert title.lower().startswith('targeting autophagy')
def test_get_title_prefix():
time.sleep(0.3)
title = pubmed_client.get_title('PMID27754804')
assert title
assert title.lower().startswith('targeting autophagy')
doi_cache[row[0]] = row[1]
with open('missing_dois.txt') as f:
missing_dois = [line.strip('\n') for line in f.readlines()]
def save(doi_cache, counter):
with open('doi_cache_%.5d.txt' % counter, 'w') as f:
print "Writing to doi cache"
csvwriter = csv.writer(f, delimiter='\t')
for k, v in doi_cache.iteritems():
csvwriter.writerow((k, v))
for counter, ref in enumerate(missing_dois):
if doi_cache.get(ref):
continue
title = pubmed_client.get_title(ref)
if not title:
print "No title, skipping", ref
continue
doi = crossref_client.doi_query(title)
if doi:
doi_cache[ref] = doi
print "%d: %s --> %s" % (counter, ref, doi)
else:
print "No DOI for %s: %s" % (ref, title)
continue
if counter % 100 == 0:
save(doi_cache, counter)
save(doi_cache, counter)
def test_get_complex_title():
time.sleep(0.5)
title = pubmed_client.get_title('33463523')
assert title
assert title.lower().startswith('atomic structures')
assert title.lower().endswith('vascular plants.')
def test_get_title_prefix():
title = pubmed_client.get_title('PMID27754804')
assert(title)
assert(title.startswith('Targeting autophagy'))
