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namespace.py
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namespace.py
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# -*- coding: utf-8 -*-
# Owlready2
# Copyright (C) 2013-2019 Jean-Baptiste LAMY
# LIMICS (Laboratoire d'informatique médicale et d'ingénierie des connaissances en santé), UMR_S 1142
# University Paris 13, Sorbonne paris-Cité, Bobigny, France
# This program is free software: you can redistribute it and/or modify
# it under the terms of the GNU Lesser General Public License as published by
# the Free Software Foundation, either version 3 of the License, or
# (at your option) any later version.
# This program is distributed in the hope that it will be useful,
# but WITHOUT ANY WARRANTY; without even the implied warranty of
# MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the
# GNU Lesser General Public License for more details.
# You should have received a copy of the GNU Lesser General Public License
# along with this program. If not, see <http://www.gnu.org/licenses/>.
import importlib, urllib.request, urllib.parse
from owlready2.base import *
from owlready2.base import _universal_abbrev_2_iri, _universal_iri_2_abbrev, _universal_abbrev_2_datatype, _universal_datatype_2_abbrev
from owlready2.triplelite import *
CURRENT_NAMESPACES = ContextVar("CURRENT_NAMESPACES", default = None)
_LOG_LEVEL = 0
def set_log_level(x):
global _LOG_LEVEL
_LOG_LEVEL = x
class Namespace(object):
def __init__(self, world_or_ontology, base_iri, name = None):
if not(base_iri.endswith("#") or base_iri.endswith("/")): raise ValueError("base_iri must end with '#' or '/' !")
name = name or base_iri[:-1].rsplit("/", 1)[-1]
if name.endswith(".owl") or name.endswith(".rdf"): name = name[:-4]
if isinstance(world_or_ontology, Ontology):
self.ontology = world_or_ontology
self.world = world_or_ontology.world
self.ontology._namespaces[base_iri] = self
elif isinstance(world_or_ontology, World):
self.ontology = None
self.world = world_or_ontology
self.world._namespaces[base_iri] = self
else:
self.ontology = None
self.world = None
self.base_iri = base_iri
self.name = name
def __enter__(self):
if self.ontology is None: raise ValueError("Cannot assert facts in this namespace: it is not linked to an ontology! (it is probably a global namespace created by get_namespace(); please use your_ontology.get_namespace() instead)")
if self.world.graph: self.world.graph.acquire_write_lock()
#CURRENT_NAMESPACES.append(self)
l = CURRENT_NAMESPACES.get()
if l is None: CURRENT_NAMESPACES.set([self])
else: l.append(self)
return self
def __exit__(self, exc_type = None, exc_val = None, exc_tb = None):
#del CURRENT_NAMESPACES[-1]
del CURRENT_NAMESPACES.get()[-1]
if self.world.graph: self.world.graph.release_write_lock()
def __repr__(self): return """%s.get_namespace("%s")""" % (self.ontology, self.base_iri)
def __getattr__(self, attr): return self.world["%s%s" % (self.base_iri, attr)] #return self[attr]
def __getitem__(self, name): return self.world["%s%s" % (self.base_iri, name)]
class _GraphManager(object):
def _abbreviate (self, iri, create_if_missing = True):
return _universal_iri_2_abbrev.get(iri, iri)
def _unabbreviate(self, abb):
return _universal_abbrev_2_iri.get(abb, abb)
def _get_obj_triple_sp_o(self, subject, predicate): return None
def _get_obj_triple_po_s(self, predicate, object): return None
def _get_obj_triples_sp_o(self, subject, predicate): return []
def _get_obj_triples_po_s(self, predicate, object): return []
def _get_data_triples_sp_od(self, subject, predicate): return []
def _get_obj_triples_transitive_sp (self, subject, predicate, already = None): return set()
def _get_obj_triples_transitive_po (self, predicate, object, already = None): return set()
def _get_obj_triples_transitive_sym(self, subject, predicate): return set()
def _get_obj_triples_transitive_sp_indirect(self, subject, predicates_inverses, already = None): return set()
def _get_obj_triples_spo_spo(self, subject = None, predicate = None, object = None): return []
_get_triples_s_p = _get_obj_triples_spo_spo
def _has_data_triple_spod(self, subject = None, predicate = None, object = None, d = None): return False
_has_obj_triple_spo = _has_data_triple_spod
def _get_obj_triples_cspo(self, subject = None, predicate = None, object = None, ontology_graph = None): return []
def _get_obj_triples_sp_o(self, subject, predicate): return []
def _get_obj_triples_sp_co(self, s, p): return []
#def get_equivs_s_o(self, s): return [s]
def _get_triples_sp_od(self, s, p): return []
def get_triples(self, s = None, p = None, o = None):
if isinstance(o, int):
return self._get_obj_triples_spo_spo(s, p, o)
elif isinstance(o, str):
from owlready2.driver import INT_DATATYPES, FLOAT_DATATYPES
o, d = o.rsplit('"', 1)
o = o[1:]
if d.startswith("@"): pass
elif d.startswith("^"):
d = d[3:-1]
if d in INT_DATATYPES: o = int (o)
elif d in FLOAT_DATATYPES: o = float(o)
d = self._abbreviate(d)
else: d = 0
return self._get_data_triples_spod_spod(s, p, o, d)
else:
r = []
for s,p,o,d in self._get_triples_spod_spod(s, p, None, None):
if d == 0: o = '"%s"' % o
elif isinstance(d, int): o = '"%s"^^<%s>' % (o, self._unabbreviate(d))
elif isinstance(d, str): o = '"%s"%s' % (o, d)
r.append((s,p,o))
return r
# def get_triples_rdf(self, s = None, p = None, o = None, d = None):
# if s is None: s2 = None
# else: s2 = self.world._abbreviate(s)
# if p is None: p2 = None
# elif isinstance(p, int): p2 = p
# else: p2 = self.world._abbreviate(p)
# if o is None: o2, d2 = None, None
# else: o2, d2 = self.world._to_rdf(o)
# r = []
# for s3, p3, o3, d3 in self._get_triples_spod_spod(s2, p2, o2, d2):
# if not o is None:
# r.append((s or self.world._unabbreviate(s3),
# p or self.world._unabbreviate(p3),
# o, d))
# else:
# if d3 is None:
# r.append((s or self.world._unabbreviate(s3),
# p or self.world._unabbreviate(p3),
# self.world._unabbreviate(o3),
# None))
# else:
# r.append((s or self.world._unabbreviate(s3),
# p or self.world._unabbreviate(p3),
# from_literal(o3, d3),
# self.world._unabbreviate(d3) if isinstance(d3, int) else d3))
# return r
def _refactor(self, storid, new_iri): pass
def _get_annotation_axioms(self, source, property, target, target_d):
if target_d is None:
# r = self.graph.execute("""
# SELECT q1.s
# FROM objs q1, objs q2 INDEXED BY index_objs_sp, objs q3 INDEXED BY index_objs_sp, objs q4 INDEXED BY index_objs_sp
# WHERE q1.p=6 AND q1.o=?
# AND q2.s=q1.s AND q2.p=? AND q2.o=?
# AND q3.s=q1.s AND q3.p=? AND q3.o=?
# AND q4.s=q1.s AND q4.p=? AND q4.o=?""",
# (owl_axiom,
# owl_annotatedsource, source,
# owl_annotatedproperty, property,
# owl_annotatedtarget, target))
# for l in r.fetchall(): yield l[0]
r = self.graph.execute("""
SELECT q1.s
FROM objs q1, objs q2 INDEXED BY index_objs_sp, objs q3 INDEXED BY index_objs_sp, objs q4 INDEXED BY index_objs_sp
WHERE q1.p=? AND q1.o=?
AND q2.s=q1.s AND q2.p=6 AND q2.o=?
AND q3.s=q1.s AND q3.p=? AND q3.o=?
AND q4.s=q1.s AND q4.p=? AND q4.o=?""",
(owl_annotatedsource, source,
owl_axiom,
owl_annotatedproperty, property,
owl_annotatedtarget, target))
for l in r.fetchall(): yield l[0]
# for bnode in self._get_obj_triples_po_s(rdf_type, owl_axiom):
# for p, o in self._get_obj_triples_s_po(bnode):
# if p == owl_annotatedsource: # SIC! If on a single if, elif are not appropriate.
# if o != source: break
# elif p == owl_annotatedproperty:
# if o != property: break
# elif p == owl_annotatedtarget:
# if o != target: break
# else:
# yield bnode
else:
r = self.graph.execute("""
SELECT q1.s
FROM objs q1, objs q2 INDEXED BY index_objs_sp, objs q3 INDEXED BY index_objs_sp, datas q4 INDEXED BY index_datas_sp
WHERE q1.p=? AND q1.o=?
AND q2.s=q1.s AND q2.p=6 AND q2.o=?
AND q3.s=q1.s AND q3.p=? AND q3.o=?
AND q4.s=q1.s AND q4.p=? AND q4.o=?""",
(owl_annotatedsource, source,
owl_axiom,
owl_annotatedproperty, property,
owl_annotatedtarget, target))
for l in r.fetchall(): yield l[0]
# for bnode in self._get_obj_triples_po_s(rdf_type, owl_axiom):
# for p, o, d in self._get_triples_s_pod(bnode):
# if p == owl_annotatedsource: # SIC! If on a single if, elif are not appropriate.
# if o != source: break
# elif p == owl_annotatedproperty:
# if o != property: break
# elif p == owl_annotatedtarget:
# if o != target: break
# else:
# yield bnode
def _del_obj_triple_spo(self, s = None, p = None, o = None):
#onto = CURRENT_NAMESPACES.get() or self
#if CURRENT_NAMESPACES[-1] is None: self._del_obj_triple_raw_spo(s, p, o)
#else: CURRENT_NAMESPACES[-1].ontology._del_obj_triple_raw_spo(s, p, o)
l = CURRENT_NAMESPACES.get()
((l and l[-1].ontology) or self)._del_obj_triple_raw_spo(s, p, o)
if _LOG_LEVEL > 1:
if not s < 0: s = self._unabbreviate(s)
if p: p = self._unabbreviate(p)
if o and not ((isinstance(o, int) and (o < 0)) or (isinstance(o, str) and o.startswith('"'))): o = self._unabbreviate(o)
print("* Owlready2 * DEL TRIPLE", s, p, o, file = sys.stderr)
def _del_data_triple_spod(self, s = None, p = None, o = None, d = None):
#if CURRENT_NAMESPACES[-1] is None: self._del_data_triple_raw_spod(s, p, o, d)
#else: CURRENT_NAMESPACES[-1].ontology._del_data_triple_raw_spod(s, p, o, d)
l = CURRENT_NAMESPACES.get()
((l and l[-1].ontology) or self)._del_data_triple_raw_spod(s, p, o, d)
if _LOG_LEVEL > 1:
if not s < 0: s = self._unabbreviate(s)
if p: p = self._unabbreviate(p)
if d and (not d.startswith("@")): d = self._unabbreviate(d)
print("* Owlready2 * DEL TRIPLE", s, p, o, d, file = sys.stderr)
def _parse_list(self, bnode):
l = []
while bnode and (bnode != rdf_nil):
first, d = self._get_triple_sp_od(bnode, rdf_first)
if first != rdf_nil: l.append(self._to_python(first, d))
bnode = self._get_obj_triple_sp_o(bnode, rdf_rest)
return l
def _parse_list_as_rdf(self, bnode):
while bnode and (bnode != rdf_nil):
first, d = self._get_triple_sp_od(bnode, rdf_first)
if first != rdf_nil: yield first, d
bnode = self._get_obj_triple_sp_o(bnode, rdf_rest)
def _to_python(self, o, d = None, main_type = None, main_onto = None, default_to_none = False):
if d is None:
if o < 0: return self._parse_bnode(o)
if o in _universal_abbrev_2_datatype: return _universal_abbrev_2_datatype[o]
else: return self.world._get_by_storid(o, None, main_type, main_onto, None, default_to_none)
else: return from_literal(o, d)
raise ValueError
def _to_rdf(self, o):
if hasattr(o, "storid"): return o.storid, None
d = _universal_datatype_2_abbrev.get(o)
if not d is None: return d, None
return to_literal(o)
def classes(self):
for s in self._get_obj_triples_po_s(rdf_type, owl_class):
if not s < 0: yield self.world._get_by_storid(s)
def inconsistent_classes(self):
for s in self._get_obj_triples_transitive_sym(owl_nothing, owl_equivalentclass):
if not s < 0: yield self.world._get_by_storid(s)
def data_properties(self):
for s in self._get_obj_triples_po_s(rdf_type, owl_data_property):
if not s < 0: yield self.world._get_by_storid(s)
def object_properties(self):
for s in self._get_obj_triples_po_s(rdf_type, owl_object_property):
if not s < 0: yield self.world._get_by_storid(s)
def annotation_properties(self):
for s in self._get_obj_triples_po_s(rdf_type, owl_annotation_property):
if not s < 0: yield self.world._get_by_storid(s)
def properties(self): return itertools.chain(self.data_properties(), self.object_properties(), self.annotation_properties())
def individuals(self):
for s in self._get_obj_triples_po_s(rdf_type, owl_named_individual):
if not s < 0:
i = self.world._get_by_storid(s)
if isinstance(i, Thing):
yield i
def variables(self):
for s in self._get_obj_triples_po_s(rdf_type, swrl_variable):
if s < 0: i = self._parse_bnode(s)
else: i = self.world._get_by_storid(s)
yield i
def rules(self):
for s in self._get_obj_triples_po_s(rdf_type, swrl_imp):
if s < 0: i = self._parse_bnode(s)
else: i = self.world._get_by_storid(s)
yield i
def disjoint_classes(self):
for s in self._get_obj_triples_po_s(rdf_type, owl_alldisjointclasses):
yield self._parse_bnode(s)
for c,s,p,o in self._get_obj_triples_cspo_cspo(None, None, owl_disjointwith, None):
with LOADING: a = AllDisjoint((s, p, o), self.world.graph.context_2_user_context(c), None)
yield a # Must yield outside the with statement
def disjoint_properties(self):
for s in self._get_obj_triples_po_s(rdf_type, owl_alldisjointproperties):
yield self._parse_bnode(s)
for c,s,p,o in self._get_obj_triples_cspo_cspo(None, None, owl_propdisjointwith, None):
with LOADING: a = AllDisjoint((s, p, o), self.world.graph.context_2_user_context(c), None)
yield a # Must yield outside the with statement
def different_individuals(self):
for s in self._get_obj_triples_po_s(rdf_type, owl_alldifferent):
yield self._parse_bnode(s)
def disjoints(self): return itertools.chain(self.disjoint_classes(), self.disjoint_properties(), self.different_individuals())
def general_axioms(self):
for s in itertools.chain(self._get_obj_triples_po_s(rdf_type, owl_restriction),
self._get_obj_triples_po_s(rdf_type, owl_class),
):
if s < 0:
sub = self._get_obj_triple_po_s(rdfs_subclassof, s)
if sub is None: yield self._parse_bnode(s)
def search(self, _use_str_as_loc_str = True, _case_sensitive = True, _bm25 = False, **kargs):
from owlready2.triplelite import _SearchList, _SearchMixin
prop_vals = []
for k, v0 in kargs.items():
if isinstance(v0, _SearchMixin) or not isinstance(v0, list): v0 = (v0,)
for v in v0:
if k == "iri":
prop_vals.append((" iri", v, None))
elif (k == "is_a") or (k == "subclass_of") or (k == "type") or (k == "subproperty_of"):
if isinstance(v, (_SearchMixin, Or)): v2 = v
elif isinstance(v, int): v2 = v
else: v2 = v.storid
prop_vals.append((" %s" % k, v2, None))
else:
d = None
Prop = self.world._props.get(k)
if Prop is None:
k2 = _universal_iri_2_abbrev.get(k) or self.world._abbreviate(k, create_if_missing = False) or k
else:
if Prop.inverse_property:
k2 = (Prop.storid, Prop.inverse.storid)
else:
k2 = Prop.storid
if v is None:
v2 = None
else:
if isinstance(v, FTS): v2 = v; d = "*"
elif isinstance(v, NumS): v2 = v; d = "*"
elif isinstance(v, _SearchMixin): v2 = v
else:
v2, d = self.world._to_rdf(v)
if Prop and (Prop._owl_type == owl_object_property): # Use "*" as a jocker for object
d = None
elif Prop and (Prop._owl_type == owl_annotation_property) and (v2 == "*"): # Use "*" as a jocker for annotation
d = "quads"
elif ((not d is None) and (isinstance(v2, (int, float)))) or (_use_str_as_loc_str and (d == 60)): # A string, which can be associated to a language in RDF
d = "*"
prop_vals.append((k2, v2, d))
return _SearchList(self.world, prop_vals, None, _case_sensitive, _bm25)
def search_one(self, **kargs): return self.search(**kargs).first()
onto_path = []
owl_world = None
_cache = [None] * (2 ** 16)
_cache_index = 0
def _cache_entity(entity):
global _cache, _cache_index
_cache[_cache_index] = entity
_cache_index += 1
if _cache_index >= len(_cache): _cache_index = 0
return entity
def _clear_cache():
import gc
global _cache, _cache_index
d = weakref.WeakKeyDictionary()
for i in _cache:
if i is None: break
d[i] = 1
_cache.__init__([None] * len(_cache))
_cache_index = 0
gc.collect()
gc.collect()
gc.collect()
for i in d.keys():
pass
WORLDS = weakref.WeakSet()
class World(_GraphManager):
def __init__(self, backend = "sqlite", filename = ":memory:", dbname = "owlready2_quadstore", **kargs):
global owl_world
self.world = self
self.filename = filename
self.ontologies = {}
self._props = {}
self._reasoning_props = {}
self._entities = weakref.WeakValueDictionary()
self._namespaces = weakref.WeakValueDictionary()
self._rdflib_store = None
self.graph = None
if not owl_world is None:
self._entities.update(owl_world._entities) # add OWL entities in the world
self._props.update(owl_world._props)
WORLDS.add(self)
if filename:
self.set_backend(backend, filename, dbname, **kargs)
def set_backend(self, backend = "sqlite", filename = ":memory:", dbname = "owlready2_quadstore", **kargs):
if backend == "sqlite":
from owlready2.triplelite import Graph
if self.graph and len(self.graph):
self.graph = Graph(filename, world = self, clone = self.graph, **kargs)
else:
self.graph = Graph(filename, world = self, **kargs)
else:
raise ValueError("Unsupported backend type '%s'!" % backend)
for method in self.graph.__class__.BASE_METHODS + self.graph.__class__.WORLD_METHODS:
setattr(self, method, getattr(self.graph, method))
self.filename = filename
for ontology in self.ontologies.values():
ontology.graph, new_in_quadstore = self.graph.sub_graph(ontology)
for method in ontology.graph.__class__.BASE_METHODS + ontology.graph.__class__.ONTO_METHODS:
setattr(ontology, method, getattr(ontology.graph, method))
for iri in self.graph.ontologies_iris():
self.get_ontology(iri) # Create all possible ontologies if not yet done
self._full_text_search_properties = CallbackList([self._get_by_storid(storid, default_to_none = True) or storid for storid in self.graph.get_fts_prop_storid()], self, World._full_text_search_changed)
def close(self): self.graph.close()
def get_full_text_search_properties(self): return self._full_text_search_properties
def set_full_text_search_properties(self, l):
old = self._full_text_search_properties
self._full_text_search_properties = CallbackList(l, self, World._full_text_search_changed)
self._full_text_search_changed(old)
full_text_search_properties = property(get_full_text_search_properties, set_full_text_search_properties)
def _full_text_search_changed(self, old):
old = set(old)
new = set(self._full_text_search_properties)
for Prop in old - new:
self.graph.disable_full_text_search(Prop.storid)
for Prop in new - old:
self.graph.enable_full_text_search(Prop.storid)
def new_blank_node(self): return self.graph.new_blank_node()
def save(self, file = None, format = "rdfxml", **kargs):
if file is None:
self.graph.commit()
elif isinstance(file, str):
if _LOG_LEVEL: print("* Owlready2 * Saving world %s to %s..." % (self, file), file = sys.stderr)
file = open(file, "wb")
self.graph.save(file, format, **kargs)
file.close()
else:
if _LOG_LEVEL: print("* Owlready2 * Saving world %s to %s..." % (self, getattr(file, "name", "???")), file = sys.stderr)
self.graph.save(file, format, **kargs)
def as_rdflib_graph(self):
if self._rdflib_store is None:
import owlready2.rdflib_store
self._rdflib_store = owlready2.rdflib_store.TripleLiteRDFlibStore(self)
return self._rdflib_store.main_graph
def sparql_query(self, sparql, *args, **kargs):
yield from self.as_rdflib_graph().query_owlready(sparql, *args, **kargs)
def get_ontology(self, base_iri):
if (not base_iri.endswith("/")) and (not base_iri.endswith("#")):
if ("%s#" % base_iri) in self.ontologies: base_iri = base_iri = "%s#" % base_iri
elif ("%s/" % base_iri) in self.ontologies: base_iri = base_iri = "%s/" % base_iri
else: base_iri = base_iri = "%s#" % base_iri
if base_iri in self.ontologies: return self.ontologies[base_iri]
return Ontology(self, base_iri)
def get_namespace(self, base_iri, name = ""):
if (not base_iri.endswith("/")) and (not base_iri.endswith("#")):
if ("%s#" % base_iri) in self.ontologies: base_iri = base_iri = "%s#" % base_iri
elif ("%s/" % base_iri) in self.ontologies: base_iri = base_iri = "%s/" % base_iri
else: base_iri = base_iri = "%s#" % base_iri
if base_iri in self._namespaces: return self._namespaces[base_iri]
return Namespace(self, base_iri, name or base_iri[:-1].rsplit("/", 1)[-1])
def get(self, iri, default = None):
storid = self._abbreviate(iri, False)
if storid is None: return default
return self._get_by_storid(storid, iri)
def get_if_loaded(self, iri):
return self._entities.get(self._abbreviate(iri, False))
def __getitem__(self, iri):
storid = self._abbreviate(iri, False)
if storid is None: return None
return self._get_by_storid(storid, iri)
def _get_by_storid(self, storid, full_iri = None, main_type = None, main_onto = None, trace = None, default_to_none = True):
entity = self._entities.get(storid)
if not entity is None: return entity
try:
return self._load_by_storid(storid, full_iri, main_type, main_onto, default_to_none)
except RecursionError:
return self._load_by_storid(storid, full_iri, main_type, main_onto, default_to_none, ())
def _load_by_storid(self, storid, full_iri = None, main_type = None, main_onto = None, default_to_none = True, trace = None):
with LOADING:
types = []
is_a_bnodes = []
for graph, obj in self._get_obj_triples_sp_co(storid, rdf_type):
if main_onto is None: main_onto = self.graph.context_2_user_context(graph)
if obj == owl_class: main_type = ThingClass
elif obj == owl_object_property: main_type = ObjectPropertyClass; types.append(ObjectProperty)
elif obj == owl_data_property: main_type = DataPropertyClass; types.append(DataProperty)
elif obj == owl_annotation_property: main_type = AnnotationPropertyClass; types.append(AnnotationProperty)
elif (obj == owl_named_individual) or (obj == owl_thing):
if main_type is None: main_type = Thing
else:
if not main_type: main_type = Thing
if obj < 0: is_a_bnodes.append((self.graph.context_2_user_context(graph), obj))
else:
Class = self._get_by_storid(obj, None, ThingClass, main_onto)
if isinstance(Class, EntityClass): types.append(Class)
elif Class is None: raise ValueError("Cannot get '%s'!" % obj)
if main_type is None: # Try to guess it
if self._has_obj_triple_spo(None, rdf_type, storid) or self._has_obj_triple_spo(None, rdfs_subclassof, storid) or self._has_obj_triple_spo(storid, rdfs_subclassof, None): main_type = ThingClass
elif self._has_obj_triple_spo(storid, None, None) or self._has_data_triple_spod(storid, None, None, None): main_type = Thing
if main_type and (not main_type is Thing):
if not trace is None:
if storid in trace:
s = "\n ".join([(i if i < 0 else self._unabbreviate(i)) for i in trace[trace.index(storid):]])
print("* Owlready2 * Warning: ignoring cyclic subclass of/subproperty of, involving:\n %s\n" % s, file = sys.stderr)
return None
trace = (*trace, storid)
is_a_entities = []
for graph, obj in self._get_obj_triples_sp_co(storid, main_type._rdfs_is_a):
if obj < 0: is_a_bnodes.append((self.graph.context_2_user_context(graph), obj))
else:
obj2 = self._entities.get(obj)
if obj2 is None: obj2 = self._load_by_storid(obj, None, main_type, main_onto, default_to_none, trace)
if not obj2 is None: is_a_entities.append(obj2)
if main_onto is None:
main_onto = self.get_ontology("http://anonymous/")
full_iri = full_iri or self._unabbreviate(storid)
if full_iri.startswith(owl.base_iri) or full_iri.startswith(rdfs.base_iri) or full_iri.startswith("http://www.w3.org/1999/02/22-rdf-syntax-ns#"): return None
if main_onto:
if isinstance(storid, int) and (storid < 0):
full_iri = ""
namespace = main_onto
name = storid
else:
full_iri = full_iri or self._unabbreviate(storid)
splitted = full_iri.rsplit("#", 1)
if len(splitted) == 2:
namespace = main_onto.get_namespace("%s#" % splitted[0])
name = splitted[1]
else:
splitted = full_iri.rsplit("/", 1)
if len(splitted) == 2:
namespace = main_onto.get_namespace("%s/" % splitted[0])
name = splitted[1]
else:
namespace = main_onto.get_namespace("")
name = full_iri
# Read and create with classes first, but not construct, in order to break cycles.
if main_type is ThingClass:
types = tuple(is_a_entities) or (Thing,)
entity = ThingClass(name, types, { "namespace" : namespace, "storid" : storid } )
elif main_type is ObjectPropertyClass:
try:
types = tuple(t for t in types if t.iri != "http://www.w3.org/1999/02/22-rdf-syntax-ns#Property")
entity = ObjectPropertyClass(name, types or (ObjectProperty,), { "namespace" : namespace, "is_a" : is_a_entities, "storid" : storid } )
except TypeError as e:
if e.args[0].startswith("metaclass conflict"):
print("* Owlready2 * WARNING: ObjectProperty %s belongs to more than one entity types: %s; I'm trying to fix it..." % (full_iri, list(types) + is_a_entities), file = sys.stderr)
is_a_entities = [t for t in is_a_entities if issubclass_python(t, ObjectProperty)]
try:
entity = ObjectPropertyClass(name, types or (ObjectProperty,), { "namespace" : namespace, "is_a" : is_a_entities, "storid" : storid } )
except TypeError:
entity = ObjectPropertyClass(name, (ObjectProperty,), { "namespace" : namespace, "is_a" : is_a_entities, "storid" : storid } )
elif main_type is DataPropertyClass:
try:
types = tuple(t for t in types if t.iri != "http://www.w3.org/1999/02/22-rdf-syntax-ns#Property")
entity = DataPropertyClass(name, types or (DataProperty,), { "namespace" : namespace, "is_a" : is_a_entities, "storid" : storid } )
except TypeError as e:
if e.args[0].startswith("metaclass conflict"):
print("* Owlready2 * WARNING: DataProperty %s belongs to more than one entity types: %s; I'm trying to fix it..." % (full_iri, list(types) + is_a_entities), file = sys.stderr)
is_a_entities = [t for t in is_a_entities if issubclass_python(t, DataProperty)]
#entity = DataPropertyClass(name, types or (DataProperty,), { "namespace" : namespace, "is_a" : is_a_entities, "storid" : storid } )
entity = DataPropertyClass(name, (DataProperty,), { "namespace" : namespace, "is_a" : is_a_entities, "storid" : storid } )
elif main_type is AnnotationPropertyClass:
try:
types = tuple(t for t in types if t.iri != "http://www.w3.org/1999/02/22-rdf-syntax-ns#Property")
entity = AnnotationPropertyClass(name, types or (AnnotationProperty,), { "namespace" : namespace, "is_a" : is_a_entities, "storid" : storid } )
except TypeError as e:
if e.args[0].startswith("metaclass conflict"):
print("* Owlready2 * WARNING: AnnotationProperty %s belongs to more than one entity types: %s; I'm trying to fix it..." % (full_iri, list(types) + is_a_entities), file = sys.stderr)
is_a_entities = [t for t in is_a_entities if issubclass_python(t, AnnotationProperty)]
entity = AnnotationPropertyClass(name, (AnnotationProperty,), { "namespace" : namespace, "is_a" : is_a_entities, "storid" : storid } )
elif main_type is Thing:
if len(types) == 1: Class = types[0]
elif len(types) > 1: Class = FusionClass._get_fusion_class(types)
else: Class = Thing
entity = Class(name, namespace = namespace)
else:
if default_to_none: return None
return full_iri or self._unabbreviate(storid)
if is_a_bnodes:
list.extend(entity.is_a, (onto._parse_bnode(bnode) for onto, bnode in is_a_bnodes))
#_cache_entity(entity)
return entity
def _parse_bnode(self, bnode):
c = self.graph.db.execute("""SELECT c FROM objs WHERE s=? LIMIT 1""", (bnode,)).fetchone()
if c:
c = c[0]
for onto in self.ontologies.values():
if onto.graph.c == c: return onto._parse_bnode(bnode)
class Ontology(Namespace, _GraphManager):
def __init__(self, world, base_iri, name = None):
self.world = world # Those 2 attributes are required before calling Namespace.__init__
self._namespaces = weakref.WeakValueDictionary()
Namespace.__init__(self, self, base_iri, name)
self.loaded = False
self._bnodes = weakref.WeakValueDictionary()
self.storid = world._abbreviate(base_iri[:-1])
self._imported_ontologies = CallbackList([], self, Ontology._import_changed)
self.metadata = Metadata(self, self.storid)
if world.graph is None:
self.graph = None
else:
self.graph, new_in_quadstore = world.graph.sub_graph(self)
for method in self.graph.__class__.BASE_METHODS + self.graph.__class__.ONTO_METHODS:
setattr(self, method, getattr(self.graph, method))
if not new_in_quadstore:
self._load_properties()
world.ontologies[self.base_iri] = self
if _LOG_LEVEL: print("* Owlready2 * Creating new ontology %s <%s>." % (self.name, self.base_iri), file = sys.stderr)
if (not LOADING) and (not self.graph is None):
if not self._has_obj_triple_spo(self.storid, rdf_type, owl_ontology):
if self.world.graph: self.world.graph.acquire_write_lock()
self._add_obj_triple_spo(self.storid, rdf_type, owl_ontology)
if self.world.graph: self.world.graph.release_write_lock()
if not self.world._rdflib_store is None: self.world._rdflib_store._add_onto(self)
def destroy(self):
self.world.graph.acquire_write_lock()
del self.world.ontologies[self.base_iri]
self.graph.destroy()
for entity in list(self.world._entities.values()):
if entity.namespace.ontology is self: del self.world._entities[entity.storid]
self.world.graph.release_write_lock()
def _entity_destroyed(self, entity): pass
def get_imported_ontologies(self): return self._imported_ontologies
def set_imported_ontologies(self, l):
old = self._imported_ontologies
self._imported_ontologies = CallbackList(l, self, Ontology._import_changed)
self._import_changed(old)
imported_ontologies = property(get_imported_ontologies, set_imported_ontologies)
def get_python_module(self):
r = self._get_data_triple_sp_od(self.storid, owlready_python_module)
if r: return r[0]
return ""
def set_python_module(self, module_name):
self._set_data_triple_spod(self.storid, owlready_python_module, module_name, 0)
python_module = property(get_python_module, set_python_module)
def _import_changed(self, old):
old = set(old)
new = set(self._imported_ontologies)
for ontology in old - new:
self._del_obj_triple_spo(self.storid, owl_imports, ontology.storid)
for ontology in new - old:
self._add_obj_triple_spo(self.storid, owl_imports, ontology.storid)
def get_namespace(self, base_iri, name = ""):
if (not base_iri.endswith("/")) and (not base_iri.endswith("#")): base_iri = "%s#" % base_iri
r = self._namespaces.get(base_iri)
if not r is None: return r
return Namespace(self, base_iri, name or base_iri[:-1].rsplit("/", 1)[-1])
def __exit__(self, exc_type = None, exc_val = None, exc_tb = None):
Namespace.__exit__(self, exc_type, exc_val, exc_tb)
if not self.loaded:
self.loaded = True
if self.graph: self.graph.set_last_update_time(time.time())
def _destroy_cached_entities(self):
_entities = self.world._entities
for i, cached in enumerate(_cache):
if (not cached is None) and (cached.namespace.ontology is self):
if cached.storid in _entities: del _entities[cached.storid]
_cache[i] = None
def load(self, only_local = False, fileobj = None, reload = False, reload_if_newer = False, **args):
if self.loaded and (not reload): return self
if self.base_iri == "http://www.lesfleursdunormal.fr/static/_downloads/owlready_ontology.owl#":
f = os.path.join(os.path.dirname(__file__), "owlready_ontology.owl")
elif not fileobj:
f = fileobj or _get_onto_file(self.base_iri, self.name, "r", only_local)
else:
f = ""
self.world.graph.acquire_write_lock()
if reload: self._destroy_cached_entities()
new_base_iri = None
if f.startswith("http:") or f.startswith("https:"):
if reload or (self.graph.get_last_update_time() == 0.0): # Never loaded
if _LOG_LEVEL: print("* Owlready2 * ...loading ontology %s from %s..." % (self.name, f), file = sys.stderr)
try: fileobj = urllib.request.urlopen(f)
except: raise OwlReadyOntologyParsingError("Cannot download '%s'!" % f)
try: new_base_iri = self.graph.parse(fileobj, default_base = self.base_iri, **args)
finally: fileobj.close()
elif fileobj:
if _LOG_LEVEL: print("* Owlready2 * ...loading ontology %s from %s..." % (self.name, getattr(fileobj, "name", "") or getattr(fileobj, "url", "???")), file = sys.stderr)
try: new_base_iri = self.graph.parse(fileobj, default_base = self.base_iri, **args)
finally: fileobj.close()
else:
if reload or (reload_if_newer and (os.path.getmtime(f) > self.graph.get_last_update_time())) or (self.graph.get_last_update_time() == 0.0):
if _LOG_LEVEL: print("* Owlready2 * ...loading ontology %s from %s..." % (self.name, f), file = sys.stderr)
fileobj = open(f, "rb")
try: new_base_iri = self.graph.parse(fileobj, default_base = self.base_iri, **args)
finally: fileobj.close()
else:
if _LOG_LEVEL: print("* Owlready2 * ...loading ontology %s (cached)..." % self.name, file = sys.stderr)
self.loaded = True
if new_base_iri and (new_base_iri != self.base_iri):
self.graph.add_ontology_alias(new_base_iri, self.base_iri)
self.base_iri = new_base_iri
self._namespaces[self.base_iri] = self.world.ontologies[self.base_iri] = self
#if new_base_iri.endswith("#"):
if new_base_iri.endswith("#") or new_base_iri.endswith("/"):
self.storid = self.world._abbreviate(new_base_iri[:-1])
else:
self.storid = self.world._abbreviate(new_base_iri)
self.metadata = Metadata(self, self.storid) # Metadata depends on storid
elif not self.graph._has_obj_triple_spo(self.storid, rdf_type, owl_ontology): # Not always present (e.g. not in dbpedia)
if self.world.graph: self.world.graph.acquire_write_lock()
self._add_obj_triple_raw_spo(self.storid, rdf_type, owl_ontology)
if self.world.graph: self.world.graph.release_write_lock()
self.world.graph.release_write_lock()
# Search for property names
if self.world.graph.indexed: self._load_properties()
# Load imported ontologies
imported_ontologies = [self.world.get_ontology(self._unabbreviate(abbrev_iri)).load() for abbrev_iri in self.world._get_obj_triples_sp_o(self.storid, owl_imports)]
self._imported_ontologies._set(imported_ontologies)
# Import Python module
global default_world, IRIS, get_ontology
for module, d in self._get_data_triples_sp_od(self.storid, owlready_python_module):
module = from_literal(module, d)
if _LOG_LEVEL: print("* Owlready2 * ...importing Python module %s required by ontology %s..." % (module, self.name), file = sys.stderr)
import owlready2
saved = owlready2.default_world, owlready2.IRIS, owlready2.get_ontology, owlready2.get_namespace
try:
owlready2.default_world, owlready2.IRIS, owlready2.get_ontology = self.world, self.world, self.world.get_ontology
importlib.__import__(module)
except ImportError:
print("\n* Owlready2 * ERROR: cannot import Python module %s!\n" % module, file = sys.stderr)
print("\n\n\n", file = sys.stderr)
raise
finally:
owlready2.default_world, owlready2.IRIS, owlready2.get_ontology, owlready2.get_namespace = saved
return self
def _load_properties(self):
# Update props from other ontologies, if needed
for prop in list(self.world._props.values()):
if prop.namespace.world is owl_world: continue
if prop._check_update(self) and _LOG_LEVEL:
print("* Owlready2 * Reseting property %s: new triples are now available." % prop)
# Loads new props
props = []
for prop_storid in itertools.chain(self._get_obj_triples_po_s(rdf_type, owl_object_property), self._get_obj_triples_po_s(rdf_type, owl_data_property), self._get_obj_triples_po_s(rdf_type, owl_annotation_property)):
Prop = self.world._get_by_storid(prop_storid)
python_name_d = self.world._get_data_triple_sp_od(prop_storid, owlready_python_name)
if not isinstance(Prop, PropertyClass):
raise TypeError("'%s' belongs to more than one entity types (cannot be both a property and a class/an individual)!" % Prop.iri)
if python_name_d is None:
props.append(Prop.python_name)
else:
with LOADING: Prop.python_name = python_name_d[0]
props.append("%s (%s)" % (Prop.python_name, Prop.name))
if _LOG_LEVEL:
print("* Owlready2 * ...%s properties found: %s" % (len(props), ", ".join(props)), file = sys.stderr)
def indirectly_imported_ontologies(self, already = None):
already = already or set()
if not self in already:
already.add(self)
yield self
for ontology in self._imported_ontologies: yield from ontology.indirectly_imported_ontologies(already)
def save(self, file = None, format = "rdfxml", **kargs):
if file is None:
file = _open_onto_file(self.base_iri, self.name, "wb")
if _LOG_LEVEL: print("* Owlready2 * Saving ontology %s to %s..." % (self.name, getattr(file, "name", "???")), file = sys.stderr)
self.graph.save(file, format, **kargs)
file.close()
elif isinstance(file, str):
if _LOG_LEVEL: print("* Owlready2 * Saving ontology %s to %s..." % (self.name, file), file = sys.stderr)
file = open(file, "wb")
self.graph.save(file, format, **kargs)
file.close()
else:
if _LOG_LEVEL: print("* Owlready2 * Saving ontology %s to %s..." % (self.name, getattr(file, "name", "???")), file = sys.stderr)
self.graph.save(file, format, **kargs)
def _add_obj_triple_spo(self, s, p, o):
#if CURRENT_NAMESPACES[-1] is None: self._add_obj_triple_raw_spo(s, p, o)
#else: CURRENT_NAMESPACES[-1].ontology._add_obj_triple_raw_spo(s, p, o)
#l = CURRENT_NAMESPACES.get()
#if l: onto = l[-1].ontology
#else: onto = self
l = CURRENT_NAMESPACES.get()
((l and l[-1].ontology) or self)._add_obj_triple_raw_spo(s, p, o)
if _LOG_LEVEL > 1:
if not s < 0: s = self._unabbreviate(s)
if p: p = self._unabbreviate(p)
if o > 0: o = self._unabbreviate(o)
print("* Owlready2 * ADD TRIPLE", s, p, o, file = sys.stderr)
def _set_obj_triple_spo(self, s, p, o):
#if CURRENT_NAMESPACES[-1] is None: self._set_obj_triple_raw_spo(s, p, o)
#else: CURRENT_NAMESPACES[-1].ontology._set_obj_triple_raw_spo(s, p, o)
l = CURRENT_NAMESPACES.get()
((l and l[-1].ontology) or self)._set_obj_triple_raw_spo(s, p, o)
if _LOG_LEVEL > 1:
if not s < 0: s = self._unabbreviate(s)
if p: p = self._unabbreviate(p)
if o > 0: o = self._unabbreviate(o)
print("* Owlready2 * SET TRIPLE", s, p, o, file = sys.stderr)
def _add_data_triple_spod(self, s, p, o, d):
#if CURRENT_NAMESPACES[-1] is None: self._add_data_triple_raw_spod(s, p, o, d)
#else: CURRENT_NAMESPACES[-1].ontology._add_data_triple_raw_spod(s, p, o, d)
l = CURRENT_NAMESPACES.get()
((l and l[-1].ontology) or self)._add_data_triple_raw_spod(s, p, o, d)
if _LOG_LEVEL > 1:
if not s < 0: s = self._unabbreviate(s)
if p: p = self._unabbreviate(p)
if isinstance(d, str) and (not d.startswith("@")): d = self._unabbreviate(d)
print("* Owlready2 * ADD TRIPLE", s, p, o, d, file = sys.stderr)
def _set_data_triple_spod(self, s, p, o, d):
#if CURRENT_NAMESPACES[-1] is None: self._set_data_triple_raw_spod(s, p, o, d)
#else: CURRENT_NAMESPACES[-1].ontology._set_data_triple_raw_spod(s, p, o, d)
l = CURRENT_NAMESPACES.get()
((l and l[-1].ontology) or self)._set_data_triple_raw_spod(s, p, o, d)
if _LOG_LEVEL > 1:
if not s < 0: s = self._unabbreviate(s)
if p: p = self._unabbreviate(p)
if isinstance(d, str) and (not d.startswith("@")): d = self._unabbreviate(d)
print("* Owlready2 * SET TRIPLE", s, p, o, d, file = sys.stderr)
# Will be replaced by the graph methods
def _add_obj_triple_raw_spo(self, subject, predicate, object): pass
def _set_obj_triple_raw_spo(self, subject, predicate, object): pass
def _del_obj_triple_raw_spo(self, subject, predicate, object): pass
def _add_data_triple_raw_spodsd(self, subject, predicate, object, d): pass
def _set_data_triple_raw_spodsd(self, subject, predicate, object, d): pass
def _del_data_triple_raw_spodsd(self, subject, predicate, object, d): pass
def _add_annotation_axiom(self, source, property, target, target_d, annot, value, d):
for bnode in self.world._get_annotation_axioms(source, property, target, target_d):
break # Take first
else:
bnode = self.world.new_blank_node() # Not found => new axiom
self._add_obj_triple_spo(bnode, rdf_type, owl_axiom)
self._add_obj_triple_spo(bnode, owl_annotatedsource , source)
self._add_obj_triple_spo(bnode, owl_annotatedproperty, property)
if target_d is None:
self._add_obj_triple_spo(bnode, owl_annotatedtarget, target)
else:
self._add_data_triple_spod(bnode, owl_annotatedtarget, target, target_d)
if d is None: self._add_obj_triple_spo (bnode, annot, value)
else: self._add_data_triple_spod(bnode, annot, value, d)
return bnode
def _del_annotation_axiom(self, source, property, target, target_d, annot, value, d):
for bnode in self._get_obj_triples_po_s(rdf_type, owl_axiom):
ok = False
other = False
for p, o, d in self._get_triples_s_pod(bnode):
if p == owl_annotatedsource: # SIC! If on a single if, elif are not appropriate.
if o != source: break
elif p == owl_annotatedproperty:
if o != property: break
elif p == owl_annotatedtarget:
if o != target: break
elif p == rdf_type: pass
elif (p == annot) and (o == value): ok = True
else: other = True
else:
if ok:
if other:
if d is None: self._del_obj_triple_spo(bnode, annot, value)
else: self._del_data_triple_spod(bnode, annot, value, None)
else:
self._del_obj_triple_spo (bnode, None, None)
self._del_data_triple_spod(bnode, None, None, None)
return bnode
def _reload_bnode(self, bnode):
if bnode in self._bnodes:
old = self._bnodes[bnode]
subclasses = set(old.subclasses(only_loaded = True))
equivalentclasses = { entity for entity in subclasses if old in entity.equivalent_to }
subclasses = subclasses - equivalentclasses
del self._bnodes[bnode]
new = self._parse_bnode(bnode)
for e in subclasses: e.is_a ._replace(old, new)
for e in equivalentclasses: e.equivalent_to._replace(old, new)
def _parse_bnode(self, bnode):
r = self._bnodes.get(bnode)
if not r is None: return r
with LOADING:
restriction_property = restriction_type = restriction_cardinality = Disjoint = members = on_datatype = with_restriction = None
preds_objs = self._get_obj_triples_s_po(bnode)
if not preds_objs: # Probably a blank node from another ontology
return self.world._parse_bnode(bnode)