def fetch_everything_for_researcher(pk):
orcid_paper_source = OrcidPaperSource(max_results=1000)
r = Researcher.objects.get(pk=pk)
# If it is the first time we fetch this researcher
# if r.stats is None:
# make sure publications already known are also considered
update_researcher_task(r, 'orcid')
try:
orcid_paper_source.link_existing_papers(r)
orcid_paper_source.fetch_and_save(r)
update_researcher_task(r, None)
except MetadataSourceException as e:
raise e
finally:
r = Researcher.objects.get(pk=pk)
update_researcher_task(r, 'stats')
r.update_stats()
r.harvester = None
update_researcher_task(r, None)
class OrcidIntegrationTest(PaperSourceTest):
def setUp(self):
super(OrcidIntegrationTest, self).setUp()
self.source = OrcidPaperSource()
def test_fetch(self):
profile = OrcidProfileStub('0000-0002-8612-8827', instance='orcid.org')
papers = list(
self.source.fetch_papers(self.researcher, profile=profile))
for paper in papers:
paper = Paper.from_bare(paper)
self.assertTrue(len(papers) > 1)
self.check_papers(papers)
def check_papers(self, papers):
p = Paper.objects.get(
title='From Natural Language to RDF Graphs with Pregroups')
p.check_authors()
author = p.authors[0]
self.assertEqual(author.orcid, self.r4.orcid)
p = Paper.objects.get(
title='Complexity of Grammar Induction for Quantum Types')
p.check_authors()
author = p.authors[0]
self.assertEqual(author.orcid, self.r4.orcid)
def test_previously_present_papers_are_attributed(self):
# Fetch papers from a researcher
profile_pablo = OrcidProfileStub('0000-0002-6293-3231',
instance='orcid.org')
pablo = Researcher.get_or_create_by_orcid('0000-0002-6293-3231',
profile=profile_pablo)
self.source.fetch_and_save(pablo, profile=profile_pablo)
p = Paper.objects.get(oairecord__doi='10.1007/978-3-642-25516-8_1')
self.assertEqual(p.authors[2].orcid, pablo.orcid)
# Now fetch a coauthor of him
profile_antoine = OrcidProfileStub('0000-0002-7977-4441',
instance='orcid.org')
antoine = Researcher.get_or_create_by_orcid('0000-0002-7977-4441',
profile=profile_antoine)
self.source.fetch_and_save(antoine, profile=profile_antoine)
# This paper should be attributed to both ORCID ids
p = Paper.objects.get(oairecord__doi='10.1007/978-3-642-25516-8_1')
self.assertEqual(p.authors[0].orcid, antoine.orcid)
self.assertEqual(p.authors[2].orcid, pablo.orcid)
def test_fetch_dois(self):
profile = OrcidProfileStub('0000-0001-6723-6833', instance='orcid.org')
pboesu = Researcher.get_or_create_by_orcid('0000-0001-6723-6833',
profile=profile)
self.source.fetch_and_save(pboesu, profile=profile)
doi = '10.3354/meps09890'
p = Paper.get_by_doi(doi)
dois_in_paper = [r.doi for r in p.oairecords]
self.assertTrue(doi in dois_in_paper)
def test_orcid_affiliation(self):
# this used to raise an error.
# a more focused test might be preferable (focused on the said
# paper)
papers = list(
self.source.fetch_orcid_records(
'0000-0002-9658-1473',
OrcidProfileStub('0000-0002-9658-1473')))
self.assertTrue(len(papers) > 30)
def test_bibtex_fallback(self):
papers = list(
self.source.fetch_orcid_records(
'0000-0002-1900-3901',
profile=OrcidProfileStub('0000-0002-1900-3901')))
titles = [paper.title for paper in papers]
self.assertTrue(
'Company-Coq: Taking Proof General one step closer to a real IDE'
in titles)
def test_import_with_crossref_error(self):
profile = OrcidProfileStub('0000-0001-9232-4042', instance='orcid.org')
stergios = Researcher.get_or_create_by_orcid('0000-0001-9232-4042',
profile=profile)
self.source.fetch_and_save(stergios, profile=profile)
p = Paper.objects.get(oairecord__doi='10.1016/j.metabol.2017.10.007')
# crossref claims that the ORCID should be associated to author 2
# but it should actually be associated to author 0
self.assertEqual(p.authors[0].orcid, '0000-0001-9232-4042')
self.assertEqual(p.authors[2].orcid, None)
self.assertEqual(p.authors[0].researcher_id, stergios.id)
self.assertEqual(p.authors[2].researcher_id, None)
def test_bibtex_not_ignored(self):
profile = OrcidProfileStub('0000-0003-2888-1770', instance='orcid.org')
adrien = Researcher.get_or_create_by_orcid('0000-0003-2888-1770',
profile=profile)
self.source.fetch_and_save(adrien, profile=profile)
p1 = Paper.objects.get(title='A Fuzzy Take on Graded Beliefs')
p2 = Paper.objects.get(title='Information quality and uncertainty')
self.assertTrue(p1 != p2)
def test_link_existing_papers(self):
# Fetch papers from a researcher
profile_pablo = OrcidProfileStub('0000-0002-6293-3231',
instance='orcid.org')
pablo = Researcher.get_or_create_by_orcid('0000-0002-6293-3231',
profile=profile_pablo)
self.source.fetch_and_save(pablo, profile=profile_pablo)
papers = list(pablo.papers)
nb_papers = len(papers)
self.assertEqual(nb_papers, 9)
# Remove the researcher_ids from the papers
for paper in papers:
for author in paper.authors_list:
if author.get('researcher_id') == pablo.id:
del author['researcher_id']
paper.save()
# Now the profile has no papers anymore
self.assertEqual(pablo.papers.count(), 0)
# Let's fix that!
self.source.link_existing_papers(pablo)
# Now it's fine!!
self.assertEqual(Researcher.objects.get(id=pablo.id).papers.count(), 9)