Jim Balhoff
Jim Balhoff
Have that implemented here (I think): https://github.com/obophenotype/uberon/pull/2125 Maybe somebody could take it over?
Ready to merge?
Also want to note that some formats (RDF-based ones) may not be parsed correctly if declarations found in imports aren't loaded first.
@tgbugs it's not really the semantics of `convert`, just something to do with how OWL is encoded in RDF. Property types (annotation property vs. object property vs. data property) can...
The formula for Jena (another Java-based tool) might be instructive: https://github.com/Homebrew/homebrew-core/blob/HEAD/Formula/jena.rb
I think it has a lot to do with the `OWLEntityChecker` you have configured the expression parser with. I have had to provide a custom entity checker when trying to...
I'm coming a bit late to this, but just wanted to mention that in my experiments upgrading ROBOT to OWL API 4.5.18, one of the failing tests relates to QuotedEntityChecker...
It would be nice if the annotation property used for axioms was configurable, but then again that option that could be added in a backwards-compatible way later.
> What is the intended behaviour for entities and axioms that are not in the ontology namespace, such as RDF, RDFS, OIO, PROV, etc.? The current code marks all terms...
I'm pretty sure we're in agreement as far as entity annotations. But just to be clear, if one of the input files ('myont-base.owl') says `rdfs:comment rdf:type owl:AnnotationProperty`, I want that...