Principle #2 common format - automated validation

[beckyjackson]

FP 2 - Common Format

Automated checks:

1. The OWL PURL must resolve to RDF/XML

Mechanism:

We can ensure that the ontology properly loads in ROBOT, but this does not confirm that the format is RDF/XML. Unfortunately, it seems like the format data is lost after the ontology is loaded with the OWLAPI OWLOntologyManager. We can check the first line of the file to see if it starts with <?xml version=. I'm open to other suggestions here.

[balhoff]

Unfortunately, it seems like the format data is lost after the ontology is loaded with the OWLAPI OWLOntologyManager.

@beckyjackson have you tried this method?

http://owlcs.github.io/owlapi/apidocs_4/org/semanticweb/owlapi/model/OWLOntologyManager.html#getOntologyFormat-org.semanticweb.owlapi.model.OWLOntology-

[beckyjackson]

Yes, unfortunately it returned null after loading with the ROBOT IOHelper 🙁
Do you know a way to keep that information @balhoff ?

[balhoff]

No, sorry, I thought that would work! It's not something I have used before though.

[beckyjackson]

The root node should be rdf:rdf - @jamesaoverton

[cmungall]

Jena? I think at a minimum it should parse using Jena, which gives us a guarantee that it's in some RDF format, which is a more pragmatic requirement than the stricter RDF/XML IMHO

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On Thu, Aug 15, 2019 at 2:27 PM Becky Jackson ***@***.***> wrote: The root node should be rdf:rdf - @jamesaoverton <https://github.com/jamesaoverton> — You are receiving this because you are subscribed to this thread. Reply to this email directly, view it on GitHub <#1018?email_source=notifications&email_token=AAAMMOL3JOPX5M5R6XVHWKDQEXC5DA5CNFSM4IKVL6SKYY3PNVWWK3TUL52HS4DFVREXG43VMVBW63LNMVXHJKTDN5WW2ZLOORPWSZGOD4NBQ4I#issuecomment-521803889>, or mute the thread <https://github.com/notifications/unsubscribe-auth/AAAMMOPFBR2CCVRUVRJKF3TQEXC5DANCNFSM4IKVL6SA> .

[jamesaoverton]

Even though RDF/XML is not my preferred format, I like the predictability of the strict rule.

[cmungall]

Wait, I just thought, surely we can use the owlapi with only the rdfxml parser registered? If it fails, then it's not valid rdfxml

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On Mon, Aug 19, 2019 at 8:00 AM Chris Mungall ***@***.***> wrote: Jena? I think at a minimum it should parse using Jena, which gives us a guarantee that it's in some RDF format, which is a more pragmatic requirement than the stricter RDF/XML IMHO On Thu, Aug 15, 2019 at 2:27 PM Becky Jackson ***@***.***> wrote: > The root node should be rdf:rdf - @jamesaoverton > <https://github.com/jamesaoverton> > > — > You are receiving this because you are subscribed to this thread. > Reply to this email directly, view it on GitHub > <#1018?email_source=notifications&email_token=AAAMMOL3JOPX5M5R6XVHWKDQEXC5DA5CNFSM4IKVL6SKYY3PNVWWK3TUL52HS4DFVREXG43VMVBW63LNMVXHJKTDN5WW2ZLOORPWSZGOD4NBQ4I#issuecomment-521803889>, > or mute the thread > <https://github.com/notifications/unsubscribe-auth/AAAMMOPFBR2CCVRUVRJKF3TQEXC5DANCNFSM4IKVL6SA> > . >