def __init__(self, session, pubmed_id):
self.pubmed_id = pubmed_id
self.pdf_status='N'
self.source='PubMed script'
self.created_by = session.user
self.date_created = datetime.datetime.now()
pubmed = get_medline_data(pubmed_id)
#Set basic information for the reference.
self.status = pubmed.publish_status
self.citation = pubmed.citation
self.year = pubmed.year
self.pdf_status = pubmed.pdf_status
self.pages = pubmed.pages
self.volume = pubmed.volume
self.title = pubmed.title
self.issue = pubmed.issue
pubmed = get_medline_data(self.pubmed_id)
#Add the journal.
self.journal = Journal.as_unique(session, abbreviation=pubmed.journal_abbrev)
#Add the abstract.
self.abst = Abstract.as_unique(session, reference_id = self.id, text = pubmed.abstract_txt)
#Add the authors.
order = 0
for author_name in pubmed.authors:
order += 1
self.authors[order] = Author.as_unique(session, name=author_name)
#Add the ref_type
self.refType = RefType.as_unique(session, name=pubmed.pub_type)
def __init__(self, session, pubmed_id):
self.pubmed_id = pubmed_id
pubmed = get_medline_data(pubmed_id)
self.citation = pubmed.citation
self.abstract = pubmed.abstract_txt
self.created_by = session.user
self.date_created = datetime.datetime.now()
def __init__(self, session, pubmed_id):
self.pubmed_id = pubmed_id
self.pdf_status='N'
self.source='Curator Triage'
self.created_by = session.user
self.date_created = datetime.datetime.now()
pubmed = get_medline_data(pubmed_id)
log_it('Got medline data', 'SUCCESS')
#Set basic information for the reference.
self.status = pubmed.publish_status
self.citation = pubmed.citation
self.year = pubmed.year
self.pdf_status = pubmed.pdf_status
self.page = pubmed.pages
self.volume = pubmed.volume
self.title = pubmed.title
self.issue = pubmed.issue
self.date_published = pubmed.date_published
self.date_revised = pubmed.last_revised
log_it('Basic info', 'SUCCESS')
#Add the journal.
self.journal = Journal.as_unique(session, abbreviation=pubmed.journal_abbrev)
log_it('Got journal', 'SUCCESS')
#Add the abstract.
if pubmed.abstract_txt is not None and not pubmed.abstract_txt == "":
self.abst = Abstract.as_unique(session, reference_id = self.id, text = pubmed.abstract_txt)
log_it('Add abstract', 'SUCCESS')
#Add the authors.
order = 0
for author_name in pubmed.authors:
order += 1
self.authors[order] = Author.as_unique(session, name=author_name)
log_it('Add authors', 'SUCCESS')
#Add the ref_type
for name in pubmed.pub_types:
self.refTypes.append(RefType.as_unique(session, name=name))
log_it('Add reftype', 'SUCCESS')