def test_large_case(self):
from testgraph import TestGraph
p = Pump("data/person_def.json")
p.original_graph = TestGraph()
p.update_data = {1: {u'uri': u'http://vivo.school.edu/individual/n25674',
u'action': u'REMOVE'}}
[add, sub] = p.update()
self.assertTrue(len(add) == 0 and len(sub) == 8)
def test_not_found(self):
from rdflib import Graph
p = Pump("data/person_def.json")
p.original_graph = Graph() # empty graph
p.update_data = {1: {u'uri': u'http://vivo.school.edu/individual/n12345678',
u'action': u'Remove'}}
[add, sub] = p.update()
self.assertTrue(len(add) == 0 and len(sub) == 0)
def test_summarize(self):
from testgraph import TestGraph
p = Pump("data/person_def.json")
p.original_graph = TestGraph()
print p.update_def
p.update_data = {1: {u'uri': u'http://vivo.school.edu/individual/n1723097935',
u'any1': u'1'}}
print p.summarize() # No exception thrown by summarize
def test_single_uri_case(self):
from testgraph import TestGraph
p = Pump("data/person_def.json")
p.original_graph = TestGraph()
p.update_data = {1: {u'uri': u'http://vivo.school.edu/individual/n2084211328',
u'action': u'Remove'}}
[add, sub] = p.update()
self.assertTrue(len(add) == 0 and len(sub) == 1)
def test_add_one_new_to_two(self):
from testgraph import TestGraph
p = Pump("data/grant_pi_def.json")
p.original_graph = TestGraph()
p.update_data = {1: {u'uri': u'http://vivo.school.edu/individual/n45',
u'pis': u'http://vivo.school.edu/individual/n1134'}}
[add, sub] = p.update()
self.assertTrue(
len(add) == 3 and len(sub) == 6)
def test_none_to_empty(self):
from testgraph import TestGraph
p = Pump("data/grant_pi_def.json")
p.original_graph = TestGraph()
p.update_data = {1: {u'uri': u'http://vivo.school.edu/individual/n44',
u'pis': u'None'}}
[add, sub] = p.update()
self.assertTrue(
len(add) == 0 and len(sub) == 0)
def test_inject_empty_original_graph(self):
from rdflib import Graph, URIRef
p = Pump()
p.original_graph = Graph()
p.update_data = {1: {u'uri': u'http://vivo.school.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_no_secondary_merge(self):
from testgraph import TestGraph
p = Pump("data/person_def.json")
p.original_graph = TestGraph()
p.update_data = {3: {u'uri': u'http://vivo.school.edu/individual/n710', u'action': u''},
4: {u'uri': u'http://vivo.school.edu/individual/n1723097935', u'action': u'a'},
7: {u'uri': u'http://vivo.school.edu/individual/n711', u'action': u'a'},
}
[add, sub] = p.update()
self.assertTrue(len(add) == 0 and len(sub) == 0)
def test_unique_three_delete_not_found(self):
from testgraph import TestGraph
# Delete the zip code from an existing address that doesn't have a zip code.
p = Pump("data/org_def.json")
p.original_graph = TestGraph()
p.update_data = {1: {u'uri': u'http://vivo.school.edu/individual/n3535', u'zip': u'None'}}
[add, sub] = p.update()
self.assertTrue(len(add) == 0 and len(sub) == 0)
def test_change_without_lang(self):
from rdflib import URIRef, Literal
from testgraph import TestGraph
p = Pump("data/org_def.json")
p.update_data = {1: {u'uri': u'http://vivo.school.edu/individual/n2525', u'name': u'Ad ver tising'}}
p.original_graph = TestGraph()
[add, sub] = p.update()
self.assertTrue(
len(add) == 1 and len(sub) == 1 and (URIRef("http://vivo.school.edu/individual/n2525"),
URIRef("http://www.w3.org/2000/01/rdf-schema#label"),
Literal("Ad ver tising")) in add)
def test_add_without_datatype(self):
from rdflib import URIRef, Literal
from testgraph import TestGraph
p = Pump("data/building_def.json")
p.update_data = {1: {u'uri': u'http://vivo.school.edu/individual/n1001011525', u'url': u'http://a'}}
p.original_graph = TestGraph()
[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_change_with_datatype(self):
from rdflib import URIRef, Literal, XSD
from testgraph import TestGraph
p = Pump("data/building_def.json")
p.update_data = {1: {u'uri': u'http://vivo.school.edu/individual/n1001011525', u'abbreviation': u'PH9'}}
p.original_graph = TestGraph()
[add, sub] = p.update()
self.assertTrue(
len(add) == 1 and len(sub) == 1 and (URIRef("http://vivo.school.edu/individual/n1001011525"),
URIRef("http://vivoweb.org/ontology/core#abbreviation"),
Literal("PH9", datatype=XSD.string)) in add)
def test_delete_unicode(self):
from rdflib import URIRef, Literal
from testgraph import TestGraph
p = Pump("data/person_def.json")
p.update_data = {1: {u'uri': u'http://vivo.school.edu/individual/n711', u'name': u'None'}}
p.original_graph = TestGraph()
[add, sub] = p.update()
self.assertTrue(
len(add) == 0 and len(sub) == 1 and (URIRef("http://vivo.school.edu/individual/n711"),
URIRef("http://www.w3.org/2000/01/rdf-schema#label"),
Literal("Ελληνικά")) in sub)
def test_uri_not_found(self):
from testgraph import TestGraph
# Use the URI when not found
p = Pump("data/person_def.json")
p.update_data = {1: {u'uri': u'http://vivo.school.edu/individual/n1723097936',
u'types': u'fac;person'}}
p.original_graph = TestGraph()
[add, sub] = p.update()
self.assertTrue(len(add) == 2 and len(sub) == 0)
def test_uri_is_blank(self):
from testgraph import TestGraph
# Use the URI when not found
p = Pump("data/person_def.json")
p.update_data = {1: {u'uri': u' ',
u'types': u'fac;person'}}
p.original_graph = TestGraph()
[add, sub] = p.update()
self.assertTrue(len(add) == 2 and len(sub) == 0)
def test_multiple_one_delete(self):
from testgraph import TestGraph
# Empty the set of values
p = Pump("data/person_def.json")
p.original_graph = TestGraph()
p.update_data = {1: {u'uri': u'http://vivo.school.edu/individual/n25674',
u'research_areas': u'None'}}
[add, sub] = p.update()
self.assertTrue(len(add) == 0 and len(sub) == 4)
def test_unique_one_delete(self):
from rdflib import URIRef, Literal, XSD
from testgraph import TestGraph
p = Pump()
p.original_graph = TestGraph()
p.update_data = {1: {u'uri': u'http://vivo.school.edu/individual/n1001011525', u'abbreviation': u'None'}}
[add, sub] = p.update()
self.assertTrue(
len(add) == 0 and len(sub) == 1 and (URIRef("http://vivo.school.edu/individual/n1001011525"),
URIRef("http://vivoweb.org/ontology/core#abbreviation"),
Literal("JWRU", datatype=XSD.string)) in sub)
def test_multiple_one_change_nothing(self):
from testgraph import TestGraph
# Do nothing if the multiple values specified match those in VIVO
p = Pump("data/person_def.json")
p.update_data = {1: {u'uri': u'http://vivo.school.edu/individual/n1723097935',
u'types': u'fac;person'}}
p.original_graph = TestGraph()
[add, sub] = p.update()
self.assertTrue(len(add) == 0 and len(sub) == 0)
def test_unique_one_add(self):
from rdflib import URIRef, Literal
from testgraph import TestGraph
p = Pump()
p.original_graph = TestGraph()
p.update_data = {1: {u'uri': u'http://vivo.school.edu/individual/n2525', u'abbreviation': u'PH9'}}
[add, sub] = p.update()
self.assertTrue(
len(add) == 1 and len(sub) == 0 and (URIRef("http://vivo.school.edu/individual/n2525"),
URIRef("http://vivoweb.org/ontology/core#abbreviation"),
Literal("PH9")) in add)
def test_add_two_to_empty(self):
from rdflib import URIRef
from testgraph import TestGraph
p = Pump("data/grant_pi_def.json")
p.original_graph = TestGraph()
p.update_data = {1: {u'uri': u'http://vivo.school.edu/individual/n44',
u'pis': u'http://vivo.school.edu/individual/n1133;http://vivo.school.edu/individual/n3413'}}
[add, sub] = p.update()
self.assertTrue(
len(add) == 6 and len(sub) == 0 and (URIRef("http://vivo.school.edu/individual/n44"),
URIRef("http://vivoweb.org/ontology/core#relates"),
None) in add)
def test_unique_three_add_partial_path(self):
from rdflib import URIRef, Literal, XSD
from testgraph import TestGraph
p = Pump("data/grant_def.json")
p.original_graph = TestGraph()
p.update_data = {1: {u'uri': u'http://vivo.school.edu/individual/n55', u'start_date': u'2006-03-01'}}
[add, sub] = p.update()
self.assertTrue(
len(add) == 3 and len(sub) == 0 and (None,
URIRef("http://vivoweb.org/ontology/core#dateTime"),
Literal("2006-03-01", datatype=XSD.datetime)) in add)
def test_remove(self):
from testgraph import TestGraph
from rdflib import URIRef
p = Pump("data/person_def.json")
p.original_graph = TestGraph()
p.update_data = {1: {u'uri': u'http://vivo.school.edu/individual/n25674',
u'any1': u'n'}}
[add, sub] = p.update()
self.assertTrue(len(add) == 0 and len(sub) == 1 and
(URIRef("http://vivo.school.edu/individual/n25674"),
URIRef("http://vivoweb.org/ontology/core#hasResearchArea"),
URIRef("http://any1")) in sub)
def test_uri_is_invalid(self):
from testgraph import TestGraph
# Use the URI when not found
p = Pump("data/person_def.json")
p.update_data = {1: {u'uri': u'not a uri',
u'types': u'fac;person'}}
p.original_graph = TestGraph()
with self.assertRaises(Exception):
[add, sub] = p.update()
print add, sub
def test_unique_three_add(self):
from rdflib import URIRef, Literal, XSD
from testgraph import TestGraph
# Add a start date to a grant. There is no date time interval, so a full path will need to be created
p = Pump("data/grant_def.json")
p.original_graph = TestGraph()
p.update_data = {1: {u'uri': u'http://vivo.school.edu/individual/n44', 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", datatype=XSD.datetime)) in add)
def test_unique_three_delete(self):
from rdflib import URIRef, Literal, XSD
from testgraph import TestGraph
# Delete the zip code on an existing address
p = Pump("data/org_def.json")
p.original_graph = TestGraph()
p.update_data = {1: {u'uri': u'http://vivo.school.edu/individual/n4545', u'zip': u'None'}}
[add, sub] = p.update()
self.assertTrue(
len(add) == 0 and len(sub) == 1 and (None,
URIRef("http://www.w3.org/2006/vcard/ns#postalCode"),
Literal("32604", datatype=XSD.string)) in sub)
def test_show_merge(self):
from testgraph import TestGraph
p = Pump("data/person_def.json")
p.original_graph = TestGraph()
p.update_data = {1: {u'uri': u'http://vivo.school.edu/individual/n25674', u'action': u'b'},
2: {u'uri': u'http://vivo.school.edu/individual/n709', u'action': u'a1'},
3: {u'uri': u'http://vivo.school.edu/individual/n710', u'action': u''},
4: {u'uri': u'http://vivo.school.edu/individual/n1723097935', u'action': u'a1'},
5: {u'uri': u'http://vivo.school.edu/individual/n2084211328', u'action': u'a'},
6: {u'uri': u'http://vivo.school.edu/individual/n708', u'action': u'b1'},
7: {u'uri': u'http://vivo.school.edu/individual/n711', u'action': u'a1'},
}
[add, sub] = p.update()
self.assertTrue(len(add) == 2 and len(sub) == 6)
def test_unique_three_delete_datetime(self):
from rdflib import URIRef, Literal, XSD
from testgraph import TestGraph
# WARNING: Delete start date value from existing datetime interval. This may not be the desirable data
# management action
p = Pump("data/grant_def.json")
p.original_graph = TestGraph()
p.update_data = {1: {u'uri': u'http://vivo.school.edu/individual/n125', 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("2010-04-01", datatype=XSD.datetime)) in sub)
def test_unique_three_add_to_existing(self):
from rdflib import URIRef, Literal, XSD
from testgraph import TestGraph
# Add a zip code to an address already exists, the zip needs to be
# added to the existing address
p = Pump("data/org_def.json")
p.original_graph = TestGraph()
p.update_data = {1: {u'uri': u'http://vivo.school.edu/individual/n3535', u'zip': u'32653'}}
[add, sub] = p.update()
self.assertTrue(
len(add) == 1 and len(sub) == 0 and (None,
URIRef("http://www.w3.org/2006/vcard/ns#postalCode"),
Literal("32653", datatype=XSD.string)) in add)
def test_unique_two_delete(self):
from rdflib import URIRef
from testgraph import TestGraph
p = Pump("data/grant_dates_def.json")
p.original_graph = TestGraph()
# In this example, dates are enumerated
p.update_data = {1: {u'uri': u'http://vivo.school.edu/individual/n125', u'end_date': u'None'}}
[add, sub] = p.update()
self.assertTrue(
len(add) == 0 and len(sub) == 1 and (URIRef("http://vivo.school.edu/individual/n126"),
URIRef("http://vivoweb.org/ontology/core#end"),
None) in sub)
def test_unique_two_add(self):
from rdflib import URIRef
from testgraph import TestGraph
p = Pump("data/grant_dates_def.json")
p.original_graph = TestGraph()
# In this example, dates are enumerated
p.update_data = {1: {u'uri': u'http://vivo.school.edu/individual/n44', u'start_date': u'2006'}}
[add, sub] = p.update()
self.assertTrue(
len(add) == 3 and len(sub) == 0 and (URIRef("http://vivo.school.edu/individual/n44"),
URIRef("http://vivoweb.org/ontology/core#dateTimeInterval"),
None) in add)