def get_journals():
# Let's try to match on ORCIDs
query = ("PREFIX vivo: <" + VIVO + "> "
"PREFIX bibo: <" + BIBO + "> "
"SELECT ?journal ?issn ?eissn "
"WHERE {{ "
"?journal a bibo:Journal . } "
"UNION {?journal a bibo:Journal . "
"?journal bibo:issn ?issn . } "
"UNION {?journal a bibo:Journal . "
"?journal bibo:eissn ?eissn . } "
"} ")
bindings = vivo_api_query(query)
journals = {}
if bindings:
for rec in bindings:
if 'journal' in rec:
uri = rec['journal']['value']
if 'issn' in rec:
issn = rec['issn']['value']
journals[issn] = uri
if 'eissn' in rec:
eissn = rec['eissn']['value']
journals[eissn] = uri
log.debug(journals)
return journals
def get_people():
# Let's try to match on ORCIDs
query = ("PREFIX vivo: <" + VIVO + "> "
"PREFIX foaf: <" + FOAF + "> "
"PREFIX pub: <" + PUB + "> "
"SELECT ?per ?orcid "
"WHERE { "
"{ ?per a foaf:Person . "
"?per vivo:orcidId ?orcid . } "
"UNION { ?per a foaf:Person . "
"?per pub:publonsId ?orcid . } "
"} ")
bindings = vivo_api_query(query)
people = {}
if bindings:
for rec in bindings:
if 'per' and 'orcid' in rec:
uri = rec['per']['value']
orcid = rec['orcid']['value'].replace(
'http://orcid.org/',
'').replace('https://orcid.org/',
'').replace('https://publons.com/a/',
'').replace('/', '')
people[orcid] = uri
log.debug(people)
return people
def get_techniques():
query = ("PREFIX rdf: <http://www.w3.org/1999/02/22-rdf-syntax-ns#> "
"PREFIX rdfs: <http://www.w3.org/2000/01/rdf-schema#> "
"PREFIX obo: <http://purl.obolibrary.org/obo/> "
"SELECT ?uri ?label "
"WHERE { "
"GRAPH <http://vitro.mannlib.cornell.edu/default/vitro-kb-2> "
"{ "
"?uri rdf:type obo:ERO_0000007 . "
"?uri rdfs:label ?label "
"}}")
techniques = [[], []]
bindings = vivo_api_query(query)
if bindings:
for idx, concept in enumerate(bindings):
uri = bindings[idx]["uri"]["value"]
label = bindings[idx]["label"]["value"].lower()
techniques[0].append(label)
techniques[1].append(uri)
return techniques
def get_techniques():
query = ("PREFIX rdf: <http://www.w3.org/1999/02/22-rdf-syntax-ns#> "
"PREFIX rdfs: <http://www.w3.org/2000/01/rdf-schema#> "
"PREFIX obo: <http://purl.obolibrary.org/obo/> "
"SELECT ?uri ?label "
"WHERE { "
"GRAPH <http://vitro.mannlib.cornell.edu/default/vitro-kb-2> "
"{ "
"?uri rdf:type obo:ERO_0000007 . "
"?uri rdfs:label ?label "
"}}")
techniques = [[], []]
bindings = vivo_api_query(query)
if bindings:
for idx, concept in enumerate(bindings):
uri = bindings[idx]["uri"]["value"]
label = bindings[idx]["label"]["value"].lower()
techniques[0].append(label)
techniques[1].append(uri)
return techniques
def get_concepts():
query = ("PREFIX rdf: <http://www.w3.org/1999/02/22-rdf-syntax-ns#> "
"PREFIX rdfs: <http://www.w3.org/2000/01/rdf-schema#> "
"PREFIX skos: <http://www.w3.org/2004/02/skos/core#> "
"SELECT ?uri ?label "
"WHERE { "
"GRAPH <http://vitro.mannlib.cornell.edu/default/vitro-kb-2> "
"{ "
"?uri rdf:type skos:Concept . "
"?uri rdfs:label ?label "
"}}")
concepts = [[], []]
bindings = vivo_api_query(query)
if bindings:
for idx, concept in enumerate(bindings):
uri = bindings[idx]["uri"]["value"]
label = bindings[idx]["label"]["value"].lower()
concepts[0].append(label)
concepts[1].append(uri)
return concepts
def get_concepts():
query = ("PREFIX rdf: <http://www.w3.org/1999/02/22-rdf-syntax-ns#> "
"PREFIX rdfs: <http://www.w3.org/2000/01/rdf-schema#> "
"PREFIX skos: <http://www.w3.org/2004/02/skos/core#> "
"SELECT ?uri ?label "
"WHERE { "
"GRAPH <http://vitro.mannlib.cornell.edu/default/vitro-kb-2> "
"{ "
"?uri rdf:type skos:Concept . "
"?uri rdfs:label ?label "
"}}")
concepts = [[], []]
bindings = vivo_api_query(query)
if bindings:
for idx, concept in enumerate(bindings):
uri = bindings[idx]["uri"]["value"]
label = bindings[idx]["label"]["value"].lower()
concepts[0].append(label)
concepts[1].append(uri)
return concepts