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Ignoring duplicates on insert for supported DBs
- Adding rdf-schema.n3 so we don't have to go out to the web for a unit test - Adding conversion to str/unicode for namesace binding (fixes a problem with mysql-connector complaining about lacking a URIRef converter)
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8 files changed

+184
-19
lines changed

8 files changed

+184
-19
lines changed

rdflib_sqlalchemy/base.py

Lines changed: 1 addition & 0 deletions
Original file line numberDiff line numberDiff line change
@@ -35,6 +35,7 @@ def _build_literal_triple_sql_command(self, subject, predicate, obj, context):
3535
triple_pattern = int(
3636
statement_to_term_combination(subject, predicate, obj, context)
3737
)
38+
3839
command = self.tables["literal_statements"].insert()
3940
values = {
4041
"subject": subject,

rdflib_sqlalchemy/sql.py

Lines changed: 1 addition & 1 deletion
Original file line numberDiff line numberDiff line change
@@ -88,7 +88,7 @@ def union_select(select_components, distinct=False, select_type=TRIPLE_SELECT):
8888
expression.literal_column("predicate"),
8989
expression.literal_column("object"),
9090
]
91-
if distinct:
91+
if distinct and select_type != COUNT_SELECT:
9292
return expression.union(*selects, **{"order_by": order_statement})
9393
else:
9494
return expression.union_all(*selects, **{"order_by": order_statement})

rdflib_sqlalchemy/store.py

Lines changed: 22 additions & 9 deletions
Original file line numberDiff line numberDiff line change
@@ -16,7 +16,6 @@
1616
from six import text_type
1717
from six.moves import reduce
1818
from sqlalchemy import MetaData
19-
from sqlalchemy.engine import reflection
2019
from sqlalchemy.sql import expression, select
2120

2221
from rdflib_sqlalchemy.constants import (
@@ -221,7 +220,7 @@ def __len__(self, context=None):
221220
with self.engine.connect() as connection:
222221
res = connection.execute(q)
223222
rt = res.fetchall()
224-
return reduce(lambda x, y: x + y, [rtTuple[0] for rtTuple in rt])
223+
return sum(rtTuple[0] for rtTuple in rt)
225224

226225
@property
227226
def table_names(self):
@@ -325,6 +324,7 @@ def add(self, triple, context=None, quoted=False):
325324
context, quoted,
326325
)
327326

327+
statement = self._add_ignore_on_conflict(statement)
328328
with self.engine.connect() as connection:
329329
try:
330330
connection.execute(statement, params)
@@ -353,13 +353,24 @@ def addN(self, quads):
353353
trans = connection.begin()
354354
try:
355355
for command in commands_dict.values():
356-
connection.execute(command["statement"], command["params"])
356+
statement = self._add_ignore_on_conflict(command['statement'])
357+
connection.execute(statement, command["params"])
357358
trans.commit()
358359
except Exception:
359360
_logger.exception("AddN failed.")
360361
trans.rollback()
361362
raise
362363

364+
def _add_ignore_on_conflict(self, statement):
365+
if self.engine.name == 'sqlite':
366+
statement = statement.prefix_with('OR IGNORE')
367+
elif self.engine.name == 'mysql':
368+
statement = statement.prefix_with('IGNORE')
369+
elif self.engine.name == 'postgresql':
370+
from sqlalchemy.dialects.postgresql.dml import OnConflictDoNothing
371+
statement._post_values_clause = OnConflictDoNothing()
372+
return statement
373+
363374
def remove(self, triple, context):
364375
"""Remove a triple from the store."""
365376
subject, predicate, obj = triple
@@ -481,7 +492,7 @@ def _triples_helper(self, triple, context=None):
481492
return selects
482493

483494
def _do_triples_select(self, selects, context):
484-
q = union_select(selects, select_type=TRIPLE_SELECT_NO_ORDER)
495+
q = union_select(selects, distinct=True, select_type=TRIPLE_SELECT_NO_ORDER)
485496
with self.engine.connect() as connection:
486497
res = connection.execute(q)
487498
# TODO: False but it may have limitations on text column. Check
@@ -696,11 +707,13 @@ def value(self, subject,
696707

697708
def bind(self, prefix, namespace):
698709
"""Bind prefix for namespace."""
699-
with self.engine.connect() as connection:
710+
with self.engine.begin() as connection:
700711
try:
701-
ins = self.tables["namespace_binds"].insert().values(
702-
prefix=prefix, uri=namespace)
703-
connection.execute(ins)
712+
binds_table = self.tables["namespace_binds"]
713+
prefix = text_type(prefix)
714+
namespace = text_type(namespace)
715+
connection.execute(binds_table.delete().where(binds_table.c.prefix == prefix))
716+
connection.execute(binds_table.insert().values(prefix=prefix, uri=namespace))
704717
except Exception:
705718
_logger.exception("Namespace binding failed.")
706719

@@ -734,7 +747,7 @@ def namespace(self, prefix):
734747

735748
def namespaces(self):
736749
with self.engine.connect() as connection:
737-
res = connection.execute(self.tables["namespace_binds"].select())
750+
res = connection.execute(self.tables["namespace_binds"].select(distinct=True))
738751
for prefix, uri in res.fetchall():
739752
yield prefix, uri
740753

setup.cfg

Lines changed: 1 addition & 1 deletion
Original file line numberDiff line numberDiff line change
@@ -9,4 +9,4 @@ where = test
99
[flake8]
1010
max-line-length = 120
1111
max-complexity = 15
12-
ignore = E722
12+
ignore = E722

test/graph_case.py

Lines changed: 44 additions & 1 deletion
Original file line numberDiff line numberDiff line change
@@ -1,7 +1,7 @@
11
# -*- coding: utf-8 -*-
22
import unittest
33

4-
from rdflib import Graph, URIRef, Literal, plugin
4+
from rdflib import Graph, URIRef, Literal, plugin, RDF
55
from rdflib.parser import StringInputSource
66
from rdflib.py3compat import PY3
77
from rdflib.store import Store
@@ -334,6 +334,49 @@ def testTriplesChoices(self):
334334
(bob, likes, cheese)])
335335
)
336336

337+
def test_type_add(self):
338+
trip = (URIRef('http://example.org#type-add'), RDF.type, URIRef('http://example.org/cra'))
339+
self.graph.add(trip)
340+
self.graph.add(trip)
341+
342+
def test_type_addn(self):
343+
quad = (URIRef('http://example.org#type-addn'), RDF.type, URIRef('http://example.org/cra'), self.graph)
344+
self.graph.addN([quad, quad])
345+
346+
def test_add(self):
347+
trip = (URIRef('http://example.org#add'), URIRef('http://example.org/blah'), URIRef('http://example.org/cra'))
348+
self.graph.add(trip)
349+
self.graph.add(trip)
350+
351+
def test_addn(self):
352+
quad = (URIRef('http://example.org#addn'),
353+
URIRef('http://example.org/blah'),
354+
URIRef('http://example.org/cra'),
355+
self.graph)
356+
self.graph.addN([quad, quad])
357+
358+
def test_namespace_change_prefix_binding(self):
359+
nm = self.graph.namespace_manager
360+
nm.bind('change_binding', URIRef('http://example.org/change-binding-1#'),
361+
replace=True)
362+
nm.bind('change_binding', URIRef('http://example.org/change-binding-2#'),
363+
replace=True)
364+
assert ('change_binding',
365+
URIRef('http://example.org/change-binding-2#')) in list(nm.namespaces())
366+
367+
def test_namespace_rebind_prefix(self):
368+
nm = self.graph.namespace_manager
369+
nm.bind('rebind', URIRef('http://example.org/rebind#'))
370+
nm.bind('rebind', URIRef('http://example.org/rebind#'))
371+
372+
# additional tests
373+
# - add "duplicate" triples and query -- ensure the graph length counts only distinct
374+
# triples
375+
# - add duplicate triples and query -- ensure there are no duplicate entries in the
376+
# query result
377+
# - repeat the above two for type triples
378+
# - test with quoted graphs (not even sure how that works)
379+
337380

338381
xmltestdoc = """<?xml version="1.0" encoding="UTF-8"?>
339382
<rdf:RDF

test/rdf-schema.n3

Lines changed: 109 additions & 0 deletions
Original file line numberDiff line numberDiff line change
@@ -0,0 +1,109 @@
1+
@prefix rdf: <http://www.w3.org/1999/02/22-rdf-syntax-ns#> .
2+
@prefix rdfs: <http://www.w3.org/2000/01/rdf-schema#> .
3+
@prefix owl: <http://www.w3.org/2002/07/owl#> .
4+
@prefix dc: <http://purl.org/dc/elements/1.1/> .
5+
6+
<http://www.w3.org/2000/01/rdf-schema#> a owl:Ontology ;
7+
dc:title "The RDF Schema vocabulary (RDFS)" .
8+
9+
rdfs:Resource a rdfs:Class ;
10+
rdfs:isDefinedBy <http://www.w3.org/2000/01/rdf-schema#> ;
11+
rdfs:label "Resource" ;
12+
rdfs:comment "The class resource, everything." .
13+
14+
rdfs:Class a rdfs:Class ;
15+
rdfs:isDefinedBy <http://www.w3.org/2000/01/rdf-schema#> ;
16+
rdfs:label "Class" ;
17+
rdfs:comment "The class of classes." ;
18+
rdfs:subClassOf rdfs:Resource .
19+
20+
rdfs:subClassOf a rdf:Property ;
21+
rdfs:isDefinedBy <http://www.w3.org/2000/01/rdf-schema#> ;
22+
rdfs:label "subClassOf" ;
23+
rdfs:comment "The subject is a subclass of a class." ;
24+
rdfs:range rdfs:Class ;
25+
rdfs:domain rdfs:Class .
26+
27+
rdfs:subPropertyOf a rdf:Property ;
28+
rdfs:isDefinedBy <http://www.w3.org/2000/01/rdf-schema#> ;
29+
rdfs:label "subPropertyOf" ;
30+
rdfs:comment "The subject is a subproperty of a property." ;
31+
rdfs:range rdf:Property ;
32+
rdfs:domain rdf:Property .
33+
34+
rdfs:comment a rdf:Property ;
35+
rdfs:isDefinedBy <http://www.w3.org/2000/01/rdf-schema#> ;
36+
rdfs:label "comment" ;
37+
rdfs:comment "A description of the subject resource." ;
38+
rdfs:domain rdfs:Resource ;
39+
rdfs:range rdfs:Literal .
40+
41+
rdfs:label a rdf:Property ;
42+
rdfs:isDefinedBy <http://www.w3.org/2000/01/rdf-schema#> ;
43+
rdfs:label "label" ;
44+
rdfs:comment "A human-readable name for the subject." ;
45+
rdfs:domain rdfs:Resource ;
46+
rdfs:range rdfs:Literal .
47+
48+
rdfs:domain a rdf:Property ;
49+
rdfs:isDefinedBy <http://www.w3.org/2000/01/rdf-schema#> ;
50+
rdfs:label "domain" ;
51+
rdfs:comment "A domain of the subject property." ;
52+
rdfs:range rdfs:Class ;
53+
rdfs:domain rdf:Property .
54+
55+
rdfs:range a rdf:Property ;
56+
rdfs:isDefinedBy <http://www.w3.org/2000/01/rdf-schema#> ;
57+
rdfs:label "range" ;
58+
rdfs:comment "A range of the subject property." ;
59+
rdfs:range rdfs:Class ;
60+
rdfs:domain rdf:Property .
61+
62+
rdfs:seeAlso a rdf:Property ;
63+
rdfs:isDefinedBy <http://www.w3.org/2000/01/rdf-schema#> ;
64+
rdfs:label "seeAlso" ;
65+
rdfs:comment "Further information about the subject resource." ;
66+
rdfs:range rdfs:Resource ;
67+
rdfs:domain rdfs:Resource .
68+
69+
rdfs:isDefinedBy a rdf:Property ;
70+
rdfs:isDefinedBy <http://www.w3.org/2000/01/rdf-schema#> ;
71+
rdfs:subPropertyOf rdfs:seeAlso ;
72+
rdfs:label "isDefinedBy" ;
73+
rdfs:comment "The defininition of the subject resource." ;
74+
rdfs:range rdfs:Resource ;
75+
rdfs:domain rdfs:Resource .
76+
77+
rdfs:Literal a rdfs:Class ;
78+
rdfs:isDefinedBy <http://www.w3.org/2000/01/rdf-schema#> ;
79+
rdfs:label "Literal" ;
80+
rdfs:comment "The class of literal values, eg. textual strings and integers." ;
81+
rdfs:subClassOf rdfs:Resource .
82+
83+
rdfs:Container a rdfs:Class ;
84+
rdfs:isDefinedBy <http://www.w3.org/2000/01/rdf-schema#> ;
85+
rdfs:label "Container" ;
86+
rdfs:subClassOf rdfs:Resource ;
87+
rdfs:comment "The class of RDF containers." .
88+
89+
rdfs:ContainerMembershipProperty a rdfs:Class ;
90+
rdfs:isDefinedBy <http://www.w3.org/2000/01/rdf-schema#> ;
91+
rdfs:label "ContainerMembershipProperty" ;
92+
rdfs:comment """The class of container membership properties, rdf:_1, rdf:_2, ...,
93+
all of which are sub-properties of 'member'.""" ;
94+
rdfs:subClassOf rdf:Property .
95+
96+
rdfs:member a rdf:Property ;
97+
rdfs:isDefinedBy <http://www.w3.org/2000/01/rdf-schema#> ;
98+
rdfs:label "member" ;
99+
rdfs:comment "A member of the subject resource." ;
100+
rdfs:domain rdfs:Resource ;
101+
rdfs:range rdfs:Resource .
102+
103+
rdfs:Datatype a rdfs:Class ;
104+
rdfs:isDefinedBy <http://www.w3.org/2000/01/rdf-schema#> ;
105+
rdfs:label "Datatype" ;
106+
rdfs:comment "The class of RDF datatypes." ;
107+
rdfs:subClassOf rdfs:Class .
108+
109+
<http://www.w3.org/2000/01/rdf-schema#> rdfs:seeAlso <http://www.w3.org/2000/01/rdf-schema-more> .

test/test_aggregate_graphs.py

Lines changed: 1 addition & 1 deletion
Original file line numberDiff line numberDiff line change
@@ -136,7 +136,7 @@ def setUp(self):
136136
(testGraph3N3, self.graph3)]:
137137
graph.parse(StringIO(n3Str), format='n3')
138138
self.graph4 = Graph(memStore, RDFS.uri)
139-
self.graph4.parse(RDFS.uri)
139+
self.graph4.parse('test/rdf-schema.n3', format='n3')
140140
self.G = ConjunctiveGraph(memStore)
141141

142142
def testAggregateSPARQL(self):

test/test_sqlalchemy_mysql.py

Lines changed: 5 additions & 6 deletions
Original file line numberDiff line numberDiff line change
@@ -9,7 +9,6 @@
99
from rdflib.store import NO_STORE, VALID_STORE
1010
from rdflib.term import URIRef
1111

12-
1312
from . import context_case
1413
from . import graph_case
1514

@@ -48,8 +47,7 @@ class SQLAMySQLGraphTestCase(graph_case.GraphTestCase):
4847
create = True
4948

5049
def setUp(self):
51-
super(SQLAMySQLGraphTestCase, self).setUp(
52-
uri=self.uri, storename=self.storename)
50+
super(SQLAMySQLGraphTestCase, self).setUp(uri=self.uri, storename=self.storename)
5351

5452
def tearDown(self):
5553
super(SQLAMySQLGraphTestCase, self).tearDown(uri=self.uri)
@@ -84,12 +82,13 @@ def test_issue_4(self):
8482
if rt == NO_STORE:
8583
g.open(self.uri, create=True)
8684
else:
87-
assert rt == VALID_STORE, "The underlying store is corrupt"
85+
assert rt == VALID_STORE, "The underlying store is not valid: State: %s" % rt
8886
g.destroy(self.uri)
8987

9088

91-
SQLAMySQLGraphTestCase.storetest = True
92-
SQLAMySQLContextTestCase.storetest = True
89+
if False:
90+
SQLAMySQLGraphTestCase.storetest = True
91+
SQLAMySQLContextTestCase.storetest = True
9392
SQLAMySQLIssueTestCase.storetest = True
9493

9594
if __name__ == "__main__":

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