Hi,
I'm exploring owlready and I've found an example to find ancestor in another thread:
http://owlready.8326.n8.nabble.com/Problem-with-inferring-classes-caused-by-logical-operators-td1403.htmlWhich works for me. But when I try with the ontology I want to use, I get an error:
__venv__\Scripts\python.exe owlready_ancecestor_issue.py
* Owlready2 * Warning: optimized Cython parser module 'owlready2_optimized' is not available, defaulting to slower Python implementation
obo.FOODON_03311121
Traceback (most recent call last):
File "owlready_ancecestor_issue.py", line 18, in <module>
all_ancestors(my_white_rice)
File "owlready_ancecestor_issue.py", line 12, in all_ancestors
ancestors.update(c.ancestors())
File "__venv__\lib\site-packages\owlready2\entity.py", line 278, in ancestors
Class._fill_ancestors(s, include_self, include_constructs)
File "__venv__\lib\site-packages\owlready2\entity.py", line 312, in _fill_ancestors
parent._fill_ancestors(s, True, False)
File "__venv__\lib\site-packages\owlready2\entity.py", line 312, in _fill_ancestors
parent._fill_ancestors(s, True, False)
File "__venv__\lib\site-packages\owlready2\entity.py", line 312, in _fill_ancestors
parent._fill_ancestors(s, True, False)
File "__venv__\lib\site-packages\owlready2\entity.py", line 296, in _fill_ancestors
for equivalent in Class.equivalent_to.indirect():
File "__venv__\lib\site-packages\owlready2\entity.py", line 41, in indirect
if self._indirect is None: self._build_indirect()
File "__venv__\lib\site-packages\owlready2\entity.py", line 37, in _build_indirect
for o in n.world._get_obj_triples_transitive_sym(self._obj.storid, self._obj._owl_equivalent)
File "__venv__\lib\site-packages\owlready2\entity.py", line 38, in <genexpr>
if o != self._obj.storid ))
File "__venv__\lib\site-packages\owlready2\namespace.py", line 259, in _to_python
if o < 0: return self._parse_bnode(o)
File "__venv__\lib\site-packages\owlready2\namespace.py", line 1032, in _parse_bnode
r = self.world._get_by_storid(bnode, main_onto = self)
File "__venv__\lib\site-packages\owlready2\namespace.py", line 537, in _get_by_storid
return self._load_by_storid(storid, full_iri, main_type, main_onto, default_to_none)
File "__venv__\lib\site-packages\owlready2\namespace.py", line 610, in _load_by_storid
entity = ThingClass(name, types, { "namespace" : namespace, "storid" : storid } )
File "__venv__\lib\site-packages\owlready2\entity.py", line 144, in __new__
Class = namespace.world._entities[storid] = _is_a._obj = type.__new__(MetaClass, name, superclasses, obj_dict)
TypeError: type.__new__() argument 1 must be str, not int
This is the code I'm using:
import owlready2
foodon = owlready2.get_ontology("
http://purl.obolibrary.org/obo/foodon.owl")
foodon.load()
obo = foodon.get_namespace("
http://purl.obolibrary.org/obo/")
def all_ancestors(indiv):
ancestors = set()
for c in indiv.is_a:
if isinstance(c, owlready2.EntityClass):
print(c)
ancestors.update(c.ancestors())
print(ancestors)
with foodon:
WhiteRice = obo.FOODON_03311121
my_white_rice = WhiteRice()
all_ancestors(my_white_rice)
There might be mistakes in the ontology or the (many) imports but the error message is not telling me enough to find it. Right after the crash in debug I find this:
<class 'dict'>: {'namespace': get_ontology("
http://purl.obolibrary.org/obo/foodon/imports/foodon_product_import.owl#"), 'storid': -30, '_name': -30, 'is_a': [owl.Thing], '_equivalent_to': None}
Can someone help me out?
Thanks in advance
Locked
