def test_unique_two_delete_not_found(self):
# Delete the zip code from an existing address that doesn't have a zip code.
p = Pump("data/org_def.json")
p.update_data = {1: {u'uri': u'http://vivo.ufl.edu/individual/n765319', u'zip': u'None'}}
[add, sub] = p.update()
self.assertTrue(len(add) == 0 and len(sub) == 0)
def test_multiple_one_change_nothing(self):
# Do nothing if the multiple values specified match those in VIVO
p = Pump("data/person_def.json", verbose=True)
p.update_data = {1: {u'uri': u'http://vivo.ufl.edu/individual/n1723097935',
u'types': u'person;thing;agent;fac;uf;ufc'}}
[add, sub] = p.update()
self.assertTrue(len(add) == 0 and len(sub) == 0)
def test_unique_one_delete(self):
from rdflib import URIRef, Literal, XSD
p = Pump()
p.update_data = {1: {u'uri': u'http://vivo.ufl.edu/individual/n111669', u'abbreviation': u'None'}}
[add, sub] = p.update()
self.assertTrue(
len(add) == 0 and len(sub) == 1 and (URIRef("http://vivo.ufl.edu/individual/n111669"),
URIRef("http://vivoweb.org/ontology/core#abbreviation"),
Literal("JWRU", datatype=XSD.string)) in sub)
def test_unique_one_add(self):
from rdflib import URIRef, Literal
p = Pump()
p.update_data = {1: {u'uri': u'http://vivo.ufl.edu/individual/n1001011525', u'abbreviation': u'PH9'}}
[add, sub] = p.update()
self.assertTrue(
len(add) == 1 and len(sub) == 0 and (URIRef("http://vivo.ufl.edu/individual/n1001011525"),
URIRef("http://vivoweb.org/ontology/core#abbreviation"),
Literal("PH9")) in add)
def test_without_lang(self):
from rdflib import URIRef, Literal
p = Pump("data/org_def.json", verbose=True)
p.update_data = {1: {u'uri': u'http://vivo.ufl.edu/individual/n928712', u'name': u'Ad ver tising'}}
[add, sub] = p.update()
self.assertTrue(
len(add) == 1 and len(sub) == 1 and (URIRef("http://vivo.ufl.edu/individual/n928712"),
URIRef("http://www.w3.org/2000/01/rdf-schema#label"),
Literal("Ad ver tising")) in add)
def test_without_datatype(self):
from rdflib import URIRef, Literal
p = Pump("data/building_def.json", verbose=True)
p.update_data = {1: {u'uri': u'http://vivo.ufl.edu/individual/n1001011525', u'url': u'http://a'}}
[add, sub] = p.update()
self.assertTrue(
len(add) == 4 and len(sub) == 0 and (None,
URIRef("http://vivoweb.org/ontology/core#linkURI"),
Literal("http://a")) in add)
def test_with_lang(self):
from rdflib import URIRef, Literal
p = Pump("data/building_def.json", verbose=True)
p.update_data = {1: {u'uri': u'http://vivo.ufl.edu/individual/n1001011525', u'name': u'Building 42'}}
[add, sub] = p.update()
self.assertTrue(
len(add) == 1 and len(sub) == 1 and (URIRef("http://vivo.ufl.edu/individual/n1001011525"),
URIRef("http://www.w3.org/2000/01/rdf-schema#label"),
Literal("Building 42", lang="en-US")) in add)
def test_with_datatype(self):
from rdflib import URIRef, Literal, XSD
p = Pump("data/building_def.json", verbose=True)
p.update_data = {1: {u'uri': u'http://vivo.ufl.edu/individual/n1001011525', u'abbreviation': u'PH9'}}
[add, sub] = p.update()
self.assertTrue(
len(add) == 1 and len(sub) == 0 and (URIRef("http://vivo.ufl.edu/individual/n1001011525"),
URIRef("http://vivoweb.org/ontology/core#abbreviation"),
Literal("PH9", datatype=XSD.string)) in add)
def test_multiple_one_delete(self):
# Empty the set of values
p = Pump("data/person_def.json", verbose=True)
p.update_data = {1: {u'uri': u'http://vivo.ufl.edu/individual/n25674',
u'research_areas': u'None'}}
[add, sub] = p.update()
self.assertTrue(len(add) == 0 and len(sub) == 4)
def test_inject_empty_original_graph(self):
from rdflib import Graph, URIRef
p = Pump(verbose=True)
p.original_graph = Graph()
p.update_data = {1: {u'uri': u'http://vivo.ufl.edu/individual/n8984374104', u'abbreviation': u'None'}}
[add, sub] = p.update()
self.assertTrue(
len(add) == 1 and len(sub) == 0 and (None,
URIRef("http://www.w3.org/1999/02/22-rdf-syntax-ns#type"),
URIRef("http://vivoweb.org/ontology/core#Building")) in add)
def test_unique_two_delete(self):
from rdflib import URIRef, Literal, XSD
# Delete the zip code on an existing address
p = Pump("data/org_def.json")
p.update_data = {1: {u'uri': u'http://vivo.ufl.edu/individual/n87597', u'zip': u'None'}}
[add, sub] = p.update()
self.assertTrue(
len(add) == 0 and len(sub) == 1 and (URIRef("http://vivo.ufl.edu/individual/n994294"),
URIRef("http://vivoweb.org/ontology/core#addressPostalCode"),
Literal("32611", datatype=XSD.string)) in sub)
def test_unique_three_add_partial_path(self):
from rdflib import URIRef, Literal
p = Pump("data/grant_def.json", verbose=True)
# WARNING. This test passes by constructing a new datetime interval. Not clear if this is the desired result.
p.update_data = {1: {u'uri': u'http://vivo.ufl.edu/individual/n42774', u'start_date': u'2006-03-01'}}
[add, sub] = p.update()
self.assertTrue(
len(add) == 5 and len(sub) == 0 and (None,
URIRef("http://vivoweb.org/ontology/core#dateTime"),
Literal("2006-03-01")) in add)
def test_unique_three_add_fullpath(self):
from rdflib import URIRef, Literal
p = Pump("data/grant_def.json")
# Add a start date to a grant. There is no date time interval, so a full path will need to be created
p.update_data = {1: {u'uri': u'http://vivo.ufl.edu/individual/n51914', u'start_date': u'2015-03-01'}}
[add, sub] = p.update()
self.assertTrue(
len(add) == 5 and len(sub) == 0 and (None,
URIRef("http://vivoweb.org/ontology/core#dateTime"),
Literal("2015-03-01")) in add)
def test_unique_two_add_to_existing(self):
from rdflib import URIRef, Literal
# Add a zip code to the provost's office at UF. An address already exists, the zip needs to be
# added to the existing address
p = Pump("data/org_def.json")
p.update_data = {1: {u'uri': u'http://vivo.ufl.edu/individual/n765319', u'zip': u'32653'}}
[add, sub] = p.update()
self.assertTrue(
len(add) == 1 and len(sub) == 0 and (URIRef("http://vivo.ufl.edu/individual/n119803"),
URIRef("http://vivoweb.org/ontology/core#addressPostalCode"),
Literal("32653")) in add)
def test_unique_two_add_fullpath(self):
from rdflib import URIRef, Literal
p = Pump("data/org_def.json")
# Add a zip code to Lee County Extension Office. There is no address, so a full path will need
# to be created
p.update_data = {1: {u'uri': u'http://vivo.ufl.edu/individual/n7023301', u'zip': u'32653'}}
[add, sub] = p.update()
self.assertTrue(
len(add) == 4 and len(sub) == 0 and (None,
URIRef("http://vivoweb.org/ontology/core#addressPostalCode"),
Literal("32653")) in add)
def test_unique_three_delete(self):
from rdflib import URIRef, Literal, XSD
# WARNING: Delete start date value from existing datetime interval. This may not be the desirable data
# management action
p = Pump("data/grant_def.json", verbose=True)
p.update_data = {1: {u'uri': u'http://vivo.ufl.edu/individual/n650082272', u'start_date': u'None'}}
[add, sub] = p.update()
self.assertTrue(
len(add) == 0 and len(sub) == 1 and (None,
URIRef("http://vivoweb.org/ontology/core#dateTime"),
Literal("2006-07-01T00:00:00", datatype=XSD.dateTime)) in sub)
def test_multiple_one_change(self):
from rdflib import URIRef
# Change the set of values adding one and removing another
p = Pump("data/person_def.json", verbose=True)
p.update_data = {1: {u'uri': u'http://vivo.ufl.edu/individual/n1723097935',
u'types': u'person;thing;agent;fac;uf;pd'}}
[add, sub] = p.update()
self.assertTrue(len(add) == 1 and len(sub) == 1 and
(URIRef("http://vivo.ufl.edu/individual/n1723097935"),
URIRef("http://www.w3.org/1999/02/22-rdf-syntax-ns#type"),
URIRef("http://vivoweb.org/ontology/core#Postdoc")) in add and
(URIRef("http://vivo.ufl.edu/individual/n1723097935"),
URIRef("http://www.w3.org/1999/02/22-rdf-syntax-ns#type"),
URIRef("http://vivo.ufl.edu/ontology/vivo-ufl/UFCurrentEntity")) in sub)
def test_multiple_one_add(self):
from rdflib import URIRef
# Add multiple values for an attribute to an entity that has no values for the attribute
p = Pump("data/person_def.json", verbose=True)
p.update_data = {1: {u'uri': u'http://vivo.ufl.edu/individual/n1723097935',
u'research_areas': u'http://vivo.ufl.edu/individual/n2551317090;http://vivo.ufl.edu/individual/n157098'}}
[add, sub] = p.update()
self.assertTrue(
len(add) == 2 and len(sub) == 0 and (URIRef("http://vivo.ufl.edu/individual/n1723097935"),
URIRef("http://vivoweb.org/ontology/core#hasResearchArea"),
URIRef("http://vivo.ufl.edu/individual/n2551317090")) in add and
(URIRef("http://vivo.ufl.edu/individual/n1723097935"),
URIRef("http://vivoweb.org/ontology/core#hasResearchArea"),
URIRef("http://vivo.ufl.edu/individual/n157098")) in add)
def test_unique_three_change_xsd(self):
from rdflib import URIRef, Literal, XSD
p = Pump("data/grant_def.json", verbose=True)
# WARNING. This test passes by changing the start date value on an existing datetime interval. Not sure
# if this is the desired behavior.
p.update_data = {1: {u'uri': u'http://vivo.ufl.edu/individual/n650082272', u'start_date': u'2006-03-02'}}
[add, sub] = p.update()
self.assertTrue(
len(add) == 1 and len(sub) == 1 and (None,
URIRef("http://vivoweb.org/ontology/core#dateTime"),
Literal("2006-03-02")) in add and
(None,
URIRef("http://vivoweb.org/ontology/core#dateTime"),
Literal("2006-07-01T00:00:00", datatype=XSD.dateTime)) in sub)
def test_small_case(self):
p = Pump("data/person_def.json", verbose=True)
p.update_data = {1: {u'uri': u'http://vivo.ufl.edu/individual/n2084211328',
u'remove': u'True'}}
[add, sub] = p.update()
self.assertTrue(len(add) == 0 and len(sub) == 1)
def test_missing_uri_column_inject(self):
p = Pump()
p.update_data = {1: {u'overview': u'None'}}
with self.assertRaises(KeyError):
p.update()
def test_not_found(self):
p = Pump("data/person_def.json", verbose=True)
p.update_data = {1: {u'uri': u'http://vivo.ufl.edu/individual/n12345678',
u'remove': u'True'}}
[add, sub] = p.update()
self.assertTrue(len(add) == 0 and len(sub) == 0)
def test_normal_inject(self):
p = Pump()
p.update_data = {1: {u'uri': u'http://vivo.ufl.edu/individual/n8984374104', u'abbreviation': u'None'}}
p.update()
self.assertTrue("8984374104" in str(p.update_data)) # Using the injected data, not default
