def manage_parents(request, conceptid):
if request.method == 'POST':
json = request.body
if json != None:
data = JSONDeserializer().deserialize(json)
with transaction.atomic():
if len(data['deleted']) > 0:
concept = Concept().get(id=conceptid, include=None)
for deleted in data['deleted']:
concept.addparent(deleted)
concept.delete()
concept.bulk_index()
if len(data['added']) > 0:
concept = Concept().get(id=conceptid)
for added in data['added']:
concept.addparent(added)
concept.save()
concept.bulk_index()
return JSONResponse(data)
else:
return HttpResponseNotAllowed(['POST'])
return HttpResponseNotFound()
def manage_parents(request, conceptid):
if request.method == 'POST':
json = request.body
if json != None:
data = JSONDeserializer().deserialize(json)
with transaction.atomic():
if len(data['deleted']) > 0:
concept = Concept().get(id=conceptid, include=None)
for deleted in data['deleted']:
concept.addparent(deleted)
concept.delete()
concept.bulk_index()
if len(data['added']) > 0:
concept = Concept().get(id=conceptid)
for added in data['added']:
concept.addparent(added)
concept.save()
concept.bulk_index()
return JSONResponse(data)
else:
return HttpResponseNotAllowed(['POST'])
return HttpResponseNotFound()
def save_concepts_from_skos(self,
graph,
overwrite_options="overwrite",
staging_options="keep",
bulk_load=False,
path=""):
"""
given an RDF graph, tries to save the concpets to the system
Keyword arguments:
overwrite_options -- 'overwrite', 'ignore'
staging_options -- 'stage', 'keep'
"""
baseuuid = uuid.uuid4()
allowed_languages = models.DLanguage.objects.values_list("pk",
flat=True)
default_lang = settings.LANGUAGE_CODE
if bulk_load is True:
self.logger.setLevel(logging.ERROR)
value_types = models.DValueType.objects.all()
skos_value_types = value_types.filter(
Q(namespace="skos") | Q(namespace="arches"))
skos_value_types_list = list(
skos_value_types.values_list("valuetype", flat=True))
skos_value_types = {
valuetype.valuetype: valuetype
for valuetype in skos_value_types
}
dcterms_value_types = value_types.filter(namespace="dcterms")
dcterms_identifier_type = dcterms_value_types.get(
valuetype=str(DCTERMS.identifier).replace(str(DCTERMS), ""))
# if the graph is of the type rdflib.graph.Graph
if isinstance(graph, Graph):
values = []
# Search for ConceptSchemes first
for scheme, v, o in graph.triples(
(None, RDF.type, SKOS.ConceptScheme)):
identifier = self.unwrapJsonLiteral(str(scheme))
scheme_id = self.generate_uuid_from_subject(baseuuid, scheme)
if bulk_load is True:
concept_scheme = models.Concept(
pk=scheme_id,
legacyoid=str(scheme),
nodetype_id="ConceptScheme")
else:
concept_scheme = Concept({
'id': scheme_id,
'legacyoid': str(scheme),
'nodetype': 'ConceptScheme'
})
for predicate, object in graph.predicate_objects(
subject=scheme):
if str(DCTERMS) in predicate and predicate.replace(
DCTERMS, "") in dcterms_value_types.values_list(
"valuetype", flat=True):
if not self.language_exists(object, allowed_languages):
allowed_languages = models.DLanguage.objects.values_list(
"pk", flat=True)
try:
# first try and get any values associated with the concept_scheme
# predicate.replace(SKOS, '') should yield something like 'prefLabel' or 'scopeNote', etc..
value_type = dcterms_value_types.get(
valuetype=predicate.replace(DCTERMS, ""))
val = self.unwrapJsonLiteral(object)
if predicate == DCTERMS.title:
if bulk_load is True:
values.append(
models.Value(
pk=val["value_id"] if
(val["value_id"] != ""
and val["value_id"] is not None)
else str(uuid.uuid4()),
concept_id=concept_scheme.pk,
value=val["value"],
language_id=object.language
or default_lang,
valuetype_id="prefLabel",
))
else:
concept_scheme.addvalue({
'id':
val['value_id'],
'value':
val['value'],
'language':
object.language or default_lang,
'type':
'prefLabel',
'category':
value_type.category
})
# print('Casting dcterms:title to skos:prefLabel')
elif predicate == DCTERMS.description:
if bulk_load is True:
values.append(
models.Value(
pk=val["value_id"] if
(val["value_id"] != ""
and val["value_id"] is not None)
else str(uuid.uuid4()),
concept_id=concept_scheme.pk,
value=val["value"],
language_id=object.language
or default_lang,
valuetype_id="scopeNote",
))
else:
concept_scheme.addvalue({
'id':
val['value_id'],
'value':
val['value'],
'language':
object.language or default_lang,
'type':
'scopeNote',
'category':
value_type.category
})
# print('Casting dcterms:description to skos:scopeNote')
elif predicate == DCTERMS.identifier:
identifier = self.unwrapJsonLiteral(
str(object))
except:
pass
if str(SKOS) in predicate:
# print predicate
if predicate == SKOS.hasTopConcept:
top_concept_id = self.generate_uuid_from_subject(
baseuuid, object)
self.relations.append({
"source": scheme_id,
"type": "hasTopConcept",
"target": top_concept_id,
})
if bulk_load is True:
values.append(
models.Value(
pk=identifier["value_id"] if
(identifier["value_id"] != ""
and identifier["value_id"] is not None) else str(
uuid.uuid4()),
concept_id=concept_scheme.pk,
value=identifier["value"],
language_id=default_lang,
valuetype_id=dcterms_identifier_type.valuetype,
))
else:
concept_scheme.addvalue({
'id':
identifier['value_id'],
'value':
identifier['value'],
'language':
default_lang,
'type':
dcterms_identifier_type.valuetype,
'category':
dcterms_identifier_type.category
})
self.nodes.append(concept_scheme)
# Search for Concepts
for s, v, o in graph.triples((None, SKOS.inScheme, scheme)):
identifier = self.unwrapJsonLiteral(str(s))
if bulk_load is True:
concept = models.Concept(
pk=self.generate_uuid_from_subject(baseuuid, s),
legacyoid=str(s),
nodetype_id="Concept",
)
else:
concept = Concept({
'id':
self.generate_uuid_from_subject(baseuuid, s),
'legacyoid':
str(s),
'nodetype':
'Concept'
})
# loop through all the elements within a <skos:Concept> element
for predicate, object in graph.predicate_objects(
subject=s):
if str(SKOS) in predicate or str(ARCHES) in predicate:
if not self.language_exists(
object, allowed_languages):
allowed_languages = models.DLanguage.objects.values_list(
"pk", flat=True)
# this is essentially the skos element type within a <skos:Concept>
# element (eg: prefLabel, broader, etc...)
relation_or_value_type = predicate.replace(
SKOS, "").replace(ARCHES, "")
if relation_or_value_type in skos_value_types_list:
value_type = skos_value_types[
relation_or_value_type]
val = self.unwrapJsonLiteral(object)
if bulk_load is True:
values.append(
models.Value(
pk=val["value_id"] if
(val["value_id"] != ""
and val["value_id"] is not None)
else str(uuid.uuid4()),
concept_id=concept.pk,
value=val["value"],
language_id=object.language
or default_lang,
valuetype_id=value_type.valuetype,
))
else:
concept.addvalue({
'id':
val['value_id'],
'value':
val['value'],
'language':
object.language or default_lang,
'type':
value_type.valuetype,
'category':
value_type.category
})
elif predicate == SKOS.broader:
self.relations.append({
"source":
self.generate_uuid_from_subject(
baseuuid, object),
"type":
"narrower",
"target":
self.generate_uuid_from_subject(
baseuuid, s),
})
elif predicate == SKOS.narrower:
self.relations.append({
"source":
self.generate_uuid_from_subject(
baseuuid, s),
"type":
relation_or_value_type,
"target":
self.generate_uuid_from_subject(
baseuuid, object),
})
elif predicate == SKOS.related:
self.relations.append({
"source":
self.generate_uuid_from_subject(
baseuuid, s),
"type":
relation_or_value_type,
"target":
self.generate_uuid_from_subject(
baseuuid, object),
})
elif predicate == DCTERMS.identifier:
identifier = self.unwrapJsonLiteral(str(object))
if bulk_load is True:
values.append(
models.Value(
pk=identifier["value_id"] if
(identifier["value_id"] != ""
and identifier["value_id"] is not None) else
str(uuid.uuid4()),
concept_id=concept.pk,
value=identifier["value"],
language_id=default_lang,
valuetype_id=dcterms_identifier_type.valuetype,
))
else:
concept.addvalue({
'id':
identifier['value_id'],
'value':
identifier['value'],
'language':
default_lang,
'type':
dcterms_identifier_type.valuetype,
'category':
dcterms_identifier_type.category
})
self.nodes.append(concept)
# Search for SKOS.Collections
for s, v, o in graph.triples((None, RDF.type, SKOS.Collection)):
# print "%s %s %s " % (s,v,o)
if bulk_load is True:
concept = models.Concept(
pk=self.generate_uuid_from_subject(baseuuid, s),
legacyoid=str(s),
nodetype_id="Collection",
)
else:
concept = Concept({
'id':
self.generate_uuid_from_subject(baseuuid, s),
'legacyoid':
str(s),
'nodetype':
'Collection'
})
# loop through all the elements within a <skos:Concept> element
for predicate, object in graph.predicate_objects(subject=s):
if str(SKOS) in predicate or str(ARCHES) in predicate:
if not self.language_exists(object, allowed_languages):
allowed_languages = models.DLanguage.objects.values_list(
"pk", flat=True)
# this is essentially the skos element type within a <skos:Concept>
# element (eg: prefLabel, broader, etc...)
relation_or_value_type = predicate.replace(
SKOS, "").replace(ARCHES, "")
if relation_or_value_type in skos_value_types_list:
value_type = skos_value_types[
relation_or_value_type]
val = self.unwrapJsonLiteral(object)
if bulk_load is True:
values.append(
models.Value(
pk=val["value_id"],
concept_id=concept.pk,
value=val["value"],
language_id=object.language
or default_lang,
valuetype_id=value_type.valuetype,
))
else:
concept.addvalue({
'id':
val['value_id'],
'value':
val['value'],
'language':
object.language or default_lang,
'type':
value_type.valuetype,
'category':
value_type.category
})
self.nodes.append(concept)
for s, v, o in graph.triples((None, SKOS.member, None)):
# print "%s %s %s " % (s,v,o)
self.member_relations.append({
"source":
self.generate_uuid_from_subject(baseuuid, s),
"type":
"member",
"target":
self.generate_uuid_from_subject(baseuuid, o),
})
# insert and index the concpets
scheme_node = None
orphaned_concepts = {}
concepts = []
# bulk_create() does NOT call the object's save() method, nor pre_save/post_save
# TODO: figure out how to ensure functions get called with bulk_create()
with transaction.atomic():
if bulk_load is True:
models.Concept.objects.bulk_create(self.nodes,
ignore_conflicts=True)
models.Value.objects.bulk_create(values,
ignore_conflicts=True)
self.logger.info(
f"Bulk created: {len(self.nodes)} concepts and {len(values)} values from {path}"
)
for node in self.nodes:
if node.nodetype.nodetype == "ConceptScheme":
scheme_node = Concept({
"id": node.conceptid,
"legacyoid": str(scheme),
"nodetype": "ConceptScheme",
})
elif node.nodetype.nodetype == "Concept":
orphaned_concepts[str(node.conceptid)] = node
if staging_options == "stage":
try:
models.Concept.objects.get(pk=node.conceptid)
except:
# this is a new concept, so add a reference to it in the Candiates schema
if node.nodetype.nodetype != "ConceptScheme":
self.relations.append({
"source":
"00000000-0000-0000-0000-000000000006",
"type":
"narrower",
"target":
node.conceptid,
})
if overwrite_options == "overwrite":
node.save()
# concepts.append(node)
elif overwrite_options == "ignore":
try:
# don't do anything if the concept already exists
models.Concept.objects.get(pk=node.conceptid)
except:
# else save it
node.save()
# concepts.append(node)
else:
for node in self.nodes:
if node.nodetype == 'ConceptScheme':
scheme_node = node
elif node.nodetype == 'Concept':
orphaned_concepts[str(node.id)] = node
if staging_options == 'stage':
try:
models.Concept.objects.get(pk=node.id)
except:
# this is a new concept, so add a reference to it in the Candiates schema
if node.nodetype != 'ConceptScheme':
self.relations.append({
'source':
'00000000-0000-0000-0000-000000000006',
'type': 'narrower',
'target': node.id
})
if overwrite_options == 'overwrite':
node.save()
elif overwrite_options == 'ignore':
try:
# don't do anything if the concept already exists
models.Concept.objects.get(pk=node.id)
except:
# else save it
node.save()
# Concept().bulk_save(concepts, None)
# insert the concept relations
# TODO: make sure this still works with code commented out, then remove
# relation_objs = []
for relation in self.relations:
newrelation, created = models.Relation.objects.get_or_create(
conceptfrom_id=relation["source"],
conceptto_id=relation["target"],
relationtype_id=relation["type"],
)
# models.Relation.objects.bulk_create(relation_objs)
# check for orphaned concepts, every concept except the concept scheme should have an edge pointing to it
if (relation["type"] == "narrower" or relation["type"]
== "hasTopConcept") and orphaned_concepts.get(
relation["target"]) is not None:
orphaned_concepts.pop(str(relation["target"]))
# relation_objs.append(newrelation)
if len(orphaned_concepts.keys()) > 0:
if scheme_node:
orphaned_scheme = Concept({
"id": uuid.uuid4(),
"legacyoid": uuid.uuid4(),
"nodetype": "ConceptScheme",
})
orphaned_scheme_value = None
for value in scheme_node.values:
if value.type == "prefLabel":
orphaned_scheme.addvalue({
"id":
uuid.uuid4(),
"value":
"ORPHANS - " + value.value,
"language":
value.language,
"type":
value.type,
"category":
value.category,
})
orphaned_scheme.save()
for (
orphaned_concept_id,
orphaned_concept,
) in orphaned_concepts.items():
models.Relation.objects.create(
conceptfrom_id=str(orphaned_scheme.id),
conceptto_id=orphaned_concept_id,
relationtype_id="narrower",
)
self.logger.warning(
"The SKOS file appears to have orphaned concepts.")
# need to index after the concepts and relations have been entered into the db
# so that the proper context gets indexed with the concept
if scheme_node:
scheme_node.bulk_index()
# insert the concept collection relations
# we do this outide a transaction so that we can load incomplete collections
# relation_objs = []
# TODO: debug bulk_create to speed up this section of skos
for relation in self.member_relations:
try:
# if bulk_load is True:
# newrelation = models.Relation(
# conceptfrom_id=relation['source'],
# conceptto_id=relation['target'],
# relationtype_id=relation['type']
# )
# relation_objs.append(newrelation)
# else:
newrelation, created = models.Relation.objects.get_or_create(
conceptfrom_id=relation["source"],
conceptto_id=relation["target"],
relationtype_id=relation["type"],
)
except IntegrityError as e:
self.logger.warning(e)
pass
# if bulk_load is True:
# models.Relation.objects.bulk_create(relation_objs, ignore_conflicts=True)
return scheme_node
else:
raise Exception(
"graph argument should be of type rdflib.graph.Graph")
