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geneontology / obographs

Basic and Advanced OBO Graphs: specification and reference implementation
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Missing rdf:type owl:Ontology causes non-intelligible fail #100

Open matentzn opened 1 year ago

matentzn commented 1 year ago

ROBOT convert and generally the OWL API is robust to the absence of an ontology declaration like <http://purl.obolibrary.org/obo/my-ont.owl> rdf:type owl:Ontology .

Can we make this statement optional for obographs parser as well? It just took me 1 hour to debug this, and I think others may struggle hard with this as well if they hit the issue.

matentzn commented 4 months ago

@caufieldjh are you ok with adding the annotate subcommand as a preprocessing step for now or do we need to prioritise fixing this?

caufieldjh commented 4 months ago

Sure, I have a hacky fix to account for this downstream so I'll add an annotate to ensure a full declaration gets added. Would probably make life easier in general re: obographs if the declaration wasn't mandatory, particularly when they don't get added by robot extract.