def aliases(self,
aliases,
provider_url_template=None,
cache_enabled=True):
# have reported all of these to mendeley, ie http://support.mendeley.com/customer/en/portal/questions/11307109-wrong-pmid?new=11307109
bad_mendeley_aliases = [
("pmid", "19016882"), # http://www.mendeley.com/catalog/scientific-workflow-management-kepler-system-1/
("pmid", "22170219"), #http://www.mendeley.com/catalog/social-network-analysis-animal-behaviour-promising-tool-study-sociality-1/
("pmid", "20433197") #http://support.mendeley.com/customer/en/portal/questions/11494864-wrong-pmid?new=11494864
]
doc = self._get_doc(aliases)
new_aliases = []
if doc:
if doc.identifiers:
from totalimpactwebapp.aliases import alias_dict_from_tuples
aliases_dict = alias_dict_from_tuples(aliases)
for namespace in doc.identifiers:
if namespace in ["doi", "arxiv", "pmid", "scopus"] and (namespace not in aliases_dict):
new_alias = normalize_alias_tuple(namespace, doc.identifiers[namespace])
if new_alias and new_alias not in bad_mendeley_aliases:
new_aliases += [new_alias]
new_aliases += [("url", doc.link)]
new_aliases += [("mendeley_uuid", doc.id)]
new_aliases = [alias for alias in new_aliases if alias not in aliases]
return new_aliases
def metrics(self,
aliases,
provider_url_template=None, # ignore this because multiple url steps
cache_enabled=True):
# if haven't loaded batch_data, return no metrics
global batch_data
if not batch_data:
batch_data = self.build_batch_data_dict()
pass
metrics_and_drilldown = {}
# Only lookup metrics for items with appropriate ids
from totalimpactwebapp.aliases import alias_dict_from_tuples
aliases_dict = alias_dict_from_tuples(aliases)
try:
pmid = aliases_dict["pmid"][0]
except KeyError:
return {}
pmid_alias = ("pmid", pmid)
page = ""
if pmid_alias in batch_data:
pages = [page["raw"] for page in batch_data[pmid_alias]]
if page:
metrics_and_drilldown = self._get_metrics_and_drilldown(pages, pmid)
return metrics_and_drilldown
def get_best_url(self, aliases):
filtered = self.relevant_aliases(aliases)
if filtered:
from totalimpactwebapp.aliases import alias_dict_from_tuples
aliases_dict = alias_dict_from_tuples(aliases)
if "doi" in aliases_dict:
return u"http://doi.org/" + aliases_dict["doi"][0]
if "pmid" in aliases_dict:
return u"http://www.ncbi.nlm.nih.gov/pubmed/" + aliases_dict["pmid"][0]
if "pmc" in aliases_dict:
return u"http://www.ncbi.nlm.nih.gov/pmc/articles/" + aliases_dict["pmc"][0]
if "url" in aliases_dict:
return aliases_dict["url"][0]
return None
def _get_doc(self, aliases):
from totalimpactwebapp.aliases import alias_dict_from_tuples
aliases_dict = alias_dict_from_tuples(aliases)
if not self.session:
self.session = self._connect()
doc = None
lookup_by = [namespace for namespace in aliases_dict.keys() if namespace in ["doi", "pmid", "arxiv"]]
if lookup_by:
doc = self._get_doc_by_id(lookup_by[0], aliases_dict)
if not doc and ("biblio" in aliases_dict):
doc = self._get_doc_by_title(aliases_dict)
return doc