def load_publications():
try:
with open(app.config['PUBLICATIONS_FILE'],
'r') as publication_data_file:
publications = Publications.from_yaml(publication_data_file.read())
logging.info("Loaded publications from %s" %
app.config['PUBLICATIONS_FILE'])
except IOError:
logging.warning("Could not open %s to read publications" %
app.config['PUBLICATIONS_FILE'])
publications = Publications([])
except Exception as e:
logging.error("There was a problem parsing publications from %s" %
app.config['PUBLICATIONS_FILE'],
exc_info=e)
publications = Publications([])
return publications
def user_page(user_id):
if not user_id in users:
return render_template('affiliated.html',
publications=Publications(),
users=users,
user_title="Unknown user",
download_link='#'), 404
return render_template(
'affiliated.html',
publications=publications.filter_by_user_id(user_id),
users=users,
user_title="Publications for %s" % users[user_id].full_name(),
download_link=url_for('download', user_id=user_id))
def missing():
"""Hidden URL for missing publications
I've intentionally not publicised this feature because it makes lots of HTTP
requests to the Sanger website and I probably only want me / administrators to
use it on an infrequent basis.
This endpoint lists all of the publicatons which are currently not in the
Sanger Library's dataset"""
library_pubmed_ids = set(LibrarySearcher.get_pubmed_ids())
possible_pubmed_ids = set(publications.not_denied().keys())
missing_pubmed_ids = possible_pubmed_ids.difference(library_pubmed_ids)
missing_publications = Publications(
[publications[pubmed_id] for pubmed_id in missing_pubmed_ids])
return render_template('affiliated.html',
publications=missing_publications,
users=users,
user_title="Publications not in the Sanger Library")
