def test_get_affiliations():
"""Test getting controlled affiliations."""
affiliation = '''
Institute for Research in Biomedicine (IRB), Faculty of Biomedical
Sciences, Università della Svizzera italiana, Switzerland - Graduate
School for Cellular and Biomedical Sciences, University of Bern, c/o
Theodor Kocher Institute, Freiestrasse 1, P.O. Box 938, CH-3000 Bern 9,
Switzerland
'''
affiliations = DocumentRecord.get_affiliations(affiliation)
assert affiliations == [
'Uni of Bern and Hospital', 'Uni of Italian Switzerland'
]
affiliations = DocumentRecord.get_affiliations(None)
assert not affiliations
def marc21_to_contribution_field_100(self, key, value):
"""Extract contribution from field 100."""
if not value.get('a'):
return None
contribution = self.get('contribution', [])
data = {
'agent': {
'type': 'bf:Person',
'preferred_name': value.get('a')
},
'role': ['cre']
}
# Affiliation
if value.get('u'):
data['affiliation'] = value.get('u')
affiliations = DocumentRecord.get_affiliations(value.get('u'))
if affiliations:
data['controlledAffiliation'] = affiliations
# Date of birth - date of death
date_of_birth, date_of_death = marc21tojson.extract_date(value.get('d'))
if date_of_birth:
data['agent']['date_of_birth'] = date_of_birth
if date_of_death:
data['agent']['date_of_death'] = date_of_death
contribution.append(data)
self['contribution'] = contribution
return None
def create_document(self):
"""Create document from deposit."""
metadata = {}
# Organisation
if current_user_record and current_user_record.get('organisation'):
metadata['organisation'] = current_user_record['organisation']
# Document type
metadata['documentType'] = self['metadata']['documentType']
# Language
language = self['metadata'].get('language', 'eng')
# Title
metadata['title'] = [{
'type':
'bf:Title',
'mainTitle': [{
'language': language,
'value': self['metadata']['title']
}]
}]
# Subtitle
if self['metadata'].get('subtitle'):
metadata['title'][0]['subtitle'] = [{
'language':
language,
'value':
self['metadata']['subtitle']
}]
# Other title
if self['metadata'].get('otherLanguageTitle', {}).get('title'):
metadata['title'][0]['mainTitle'].append({
'language':
self['metadata']['otherLanguageTitle'].get(
'language', language),
'value':
self['metadata']['otherLanguageTitle']['title']
})
# Languages
metadata['language'] = [{'value': language, 'type': 'bf:Language'}]
# Document date
if self['metadata'].get('documentDate'):
metadata['provisionActivity'] = [{
'type':
'bf:Publication',
'startDate':
self['metadata']['documentDate']
}]
# Published in
if self['metadata'].get('publication'):
part_of = {
'numberingYear': self['metadata']['publication']['year'],
'document': {
'title': self['metadata']['publication']['publishedIn']
}
}
if self['metadata']['publication'].get('pages'):
part_of['numberingPages'] = self['metadata']['publication'][
'pages']
if self['metadata']['publication'].get('volume'):
part_of['numberingVolume'] = self['metadata']['publication'][
'volume']
if self['metadata']['publication'].get('number'):
part_of['numberingIssue'] = self['metadata']['publication'][
'number']
if self['metadata']['publication'].get('editors'):
part_of['document']['contribution'] = self['metadata'][
'publication']['editors']
if self['metadata']['publication'].get('publisher'):
part_of['document']['publication'] = {
'statement': self['metadata']['publication']['publisher']
}
metadata['partOf'] = [part_of]
# Other electronic versions
if self['metadata'].get('otherElectronicVersions'):
metadata['otherEdition'] = [{
'document': {
'electronicLocator': link['url']
},
'publicNote': link['publicNote']
} for link in self['metadata']['otherElectronicVersions']]
# Specific collections
if self['metadata'].get('specificCollections'):
metadata['specificCollections'] = self['metadata'][
'specificCollections']
# Classification
if self['metadata'].get('classification'):
metadata['classification'] = [{
'type':
'bf:ClassificationUdc',
'classificationPortion':
self['metadata']['classification']
}]
# Abstracts
if self['metadata'].get('abstracts'):
metadata['abstracts'] = [{
'language':
abstract.get('language', language),
'value':
abstract['abstract']
} for abstract in self['metadata']['abstracts']]
# Subjects
if self['metadata'].get('subjects'):
metadata['subjects'] = [{
'label': {
'language': subject.get('language', language),
'value': subject['subjects']
}
} for subject in self['metadata']['subjects']]
# Contributors
contributors = []
for contributor in self['contributors']:
data = {
'agent': {
'type': 'bf:Person',
'preferred_name': contributor['name']
},
'role': [contributor['role']],
'affiliation': contributor.get('affiliation')
}
# ORCID for contributor
if contributor.get('orcid'):
data['agent']['identifiedBy'] = {
'type': 'bf:Doi',
'source': 'ORCID',
'value': contributor['orcid']
}
# Resolve controlled affiliations
if data.get('affiliation'):
affiliations = DocumentRecord.get_affiliations(
data['affiliation'])
if affiliations:
data['controlledAffiliation'] = affiliations
else:
data.pop('affiliation', None)
contributors.append(data)
if contributors:
metadata['contribution'] = contributors
document = DocumentRecord.create(metadata,
dbcommit=True,
with_bucket=True)
current_order = 2
for file in self.files:
with file.file.storage().open() as pdf_file:
content = pdf_file.read()
if file.get('category', 'main') == 'main':
order = 1
else:
order = current_order
current_order += 1
kwargs = {
'label': file.get('label', file['key']),
'order': order
}
if file.get('embargo', False) and file.get('embargoDate'):
kwargs['embargo_date'] = file['embargoDate']
if file.get('exceptInOrganisation'):
kwargs['restricted'] = 'organisation'
document.add_file(content, file['key'], **kwargs)
document.commit()
document.reindex()
self['document'] = {
'$ref': DocumentRecord.get_ref_link('documents', document['pid'])
}
return document
