Hello,
I think you need namespace, since you classes seem to be defined in a different namespace that the ontology: ontology IRI is file://ontologies/AnnotDoc.owl but your classes are prefixed with sciDeo?
See
http://owlready2.readthedocs.io/en/latest/namespace.html for namespace.
You can also use IRIS["
http://full_iri"] to access your classes.
Best regards,
Jean-Baptiste Lamy
MCF HDR, Laboratoire LIMICS, Université Paris 13