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translate.py
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translate.py
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import argparse
import yaml
import copy
from owlready2 import *
def translate():
parser = argparse.ArgumentParser()
parser.add_argument("-i", "--ontology", required=True, help="Input ontology file owl path file")
parser.add_argument("-o", "--output", required=True, help="Output file path")
args = parser.parse_args()
if len(sys.argv) == 5:
try:
ontology = str(args.ontology)
output_path = str(args.output)
except ValueError:
print("No input the correct arguments, run pip3 translate.py -h to see the help")
sys.exit()
else:
print("No input the correct arguments, run pip3 translate.py -h to see the help)")
sys.exit()
# onto_path.append(os.path.abspath(ontology).replace(ontology, ""))
onto = get_ontology("file://" + os.path.abspath(ontology)).load()
template = init_yarrrml()
construct_mapping(template, onto)
write_output(template, output_path)
def init_yarrrml():
template = yaml.load(open("template.yaml"), Loader=yaml.FullLoader)
return template
def construct_mapping(template, onto):
base_iri = onto.base_iri
generate_prefixes(template,onto)
for c in list(onto.classes()):
if c.iri != "http://www.w3.org/2004/02/skos/core#Concept" and c.iri != "http://www.w3.org/2004/02/skos/core#ConceptScheme":
template['prefixes'][onto.name] = base_iri
triplesmapTemplate = copy.deepcopy(template['mappings']['triplesmap0'])
triplesmapTemplate['s'] = 'http://example.org/resource/' + c.iri.replace(c.namespace.base_iri, "").lower() + "/$()"
triplesmapTemplate['po'][0][1] = c.iri.replace(c.namespace.base_iri, prefixes[c.namespace.base_iri] + ":")
del triplesmapTemplate['po'][1]
class_name = c.iri.replace(c.namespace.base_iri, '')
pos = 1
superclasses = []
get_superclasses(c, onto, superclasses)
for d in list(onto.data_properties()):
property_name = d.iri.replace('\'', '').replace(d.namespace.base_iri, prefixes[d.namespace.base_iri] + ":")
for domains in d.domain:
if domains == c or domains in superclasses:
for ranges in d.range:
datatype = get_data_type(ranges)
if datatype is not None:
triplesmapTemplate['po'].insert(pos, [property_name, '$()', datatype.replace('\'', '')])
else:
triplesmapTemplate['po'].insert(pos, [property_name, '$()'])
pos = pos + 1
template['mappings']['triplesMap' + class_name.capitalize()] = triplesmapTemplate
for c in list(onto.classes()):
superclasses = [c]
get_superclasses(c, onto, superclasses)
for triplesmap in dict(template['mappings']):
if template['mappings'][triplesmap]['po'][0][1] == c.iri.replace(c.namespace.base_iri, prefixes[c.namespace.base_iri] + ":"):
join_template = template['mappings']['triplesmap0']['po'][1]
for s in superclasses:
generate_ref_object_maps(triplesmap, join_template, template, s, onto, prefixes)
del template['mappings']['triplesmap0']
def generate_prefixes(template, onto):
for prefix in template["prefixes"]:
prefixes[template["prefixes"][prefix]] = prefix
for c in list(onto.classes()):
if c.namespace.base_iri not in prefixes:
template['prefixes'][c.namespace.name] = c.namespace.base_iri
prefixes[c.namespace.base_iri] = c.namespace.name
for dp in list(onto.data_properties()):
if dp.namespace.base_iri not in prefixes:
template['prefixes'][dp.namespace.name] = dp.namespace.base_iri
prefixes[dp.namespace.base_iri] = dp.namespace.name
for do in list(onto.object_properties()):
if do.namespace.base_iri not in prefixes:
template['prefixes'][do.namespace.name] = do.namespace.base_iri
prefixes[do.namespace.base_iri] = do.namespace.name
def find_triplesmap(mapping, range):
ref_triples_map = ""
for triplesMap in dict.keys(mapping['mappings']):
if mapping['mappings'][triplesMap]['po'][0][1] == range.iri.replace(range.namespace.base_iri, prefixes[range.namespace.base_iri] + ":"):
ref_triples_map = triplesMap
return ref_triples_map
def generate_ref_object_maps(triplesmap, join_template, template, c, onto, prefixes):
for o in list(onto.object_properties()):
for domain in o.domain:
if domain == c:
for object_range in o.range:
if type(object_range) is not owlready2.entity.ThingClass:
for r in object_range.Classes:
if type(r) is owlready2.entity.ThingClass:
if r.iri == "http://www.w3.org/2004/02/skos/core#Concept":
if object_range.Classes[1]:
print()
template['mappings'][triplesmap]['po'].append([o.iri.replace(o.namespace.base_iri, prefixes[o.namespace.base_iri] + ":"), object_range.Classes[1].value.iri+'/$()~iri'])
else:
template['mappings'][triplesmap]['po'].append([o.iri.replace(o.namespace.base_iri, prefixes[o.namespace.base_iri] + ":"), 'http://example.org/kos/$()~iri'])
elif r in list(onto.classes()):
create_join_condition(template, join_template, o, triplesmap, r, prefixes)
else:
if object_range.iri == "http://www.w3.org/2004/02/skos/core#Concept":
template['mappings'][triplesmap]['po'].append([o.iri.replace(o.namespace.base_iri, prefixes[o.namespace.base_iri] + ":"), 'http://example.org/kos/$()~iri'])
elif object_range.iri != "http://www.w3.org/2002/07/owl#Thing":
create_join_condition(template, join_template, o, triplesmap, object_range, prefixes)
def create_join_condition(template, join_template, o, triplesmap, range, prefixes):
triples_map_parent = find_triplesmap(template, range)
join = copy.deepcopy(join_template)
join['p'] = o.iri.replace(o.namespace.base_iri, prefixes[o.namespace.base_iri] + ":")
join['o'][0]['mapping'] = triples_map_parent
template['mappings'][triplesmap]['po'].append(join)
def get_superclasses(c, onto, superclasses):
for superclass in c.is_a:
if superclass in list(onto.classes()):
superclasses.append(superclass)
get_superclasses(superclass, onto, superclasses)
def write_output(mapping, output):
dumped_yaml = str(yaml.dump(mapping, default_flow_style=None, sort_keys=False)).replace("'\"", '"').replace("\"'", ' " ').replace('\'', '')
with open(output, "w") as output_stream:
output_stream.write(dumped_yaml)
def get_data_type(type):
if type == float:
return "xsd:float"
elif type == int:
return "xsd:integer"
elif type == bool:
return "xsd:boolean"
elif type == datetime.date:
return "xsd:date"
elif type == datetime.time:
return "xsd:time"
elif type == datetime.datetime:
return "xsd:dateTime"
else:
return None
if __name__ == "__main__":
prefixes = {}
translate()