Dump as OWL
cthoyt opened this issue · 6 comments
Right now the Ontology.dump() function only supports OBO and OBO Graph JSON. It would be great if it could dump valid OWL (e.g. in RDF/XML) or another serialization of OWL that can be read by Protege
It's getting there, I have almost finalized the OBO to OWL mapping at the syntactic level in fastobo-owl, with that I will be able to provide OWL/XML and OWL/Functional serialization, and any other output format supported by horned-owl!
Excellent news! However the OWL python software ecosystem is basically turtles all the way down now... it would be great to have a reference implementation of everything in one package (would be great if it were yours). I guess you're involved in horned-owl though?
Well, horned-owl has some work going on regarding RDF formats with the rio_api, for now it's hardcoded to be used with an RDF/XML parser, but rio_api is generic so in theory you could get support for turtles with limited effort with rio-turtle. That's probably going to take longer though, for now I'll focus on getting the current formats into fastobo before adding new ones.
The end goal being to have the different implementations in different Rust crates, but then expose all of them in the fastobo-py package so they can be used in Python with fastobo.load_owl and fastobo.dump_owl, just like the OBO-graph format :)
Okay so you can now dump to OWL Functional in v2.4.4, I'll update when the horned-owl XML serializer is fixed to support OWL/XML, and then for the RDF-based formats we may have a bit of upstream work to do first.
@althonos wanted to follow up to see what the status of this enhancement is. I'd like to turn an OBO ontology into OWL format; however, in both the docs and the source code, it looks like OWL Functional isn't supported (I have v2.5.5)