problem in loading ontologies that have unworking imported ontologies

[marwa811]

Hello,

Thanks for your effort in such an excellent tool for matching ontologies.
I am using your API in my research and I found an exception happened when I try to load an ontology the have a broken imported link. For example, OBOE-SBC.owl (you can download it from Bioportal), has an imported ontology called "oboe-context.owl" that its IRI doesn't exist anymore. That's why when I use your API I got:
UnloadableImportException: Could not load imported ontology: http://ecoinformatics.org/oboe/oboe.1.0/oboe-context.owl
Could you fix that in your Ontology() class in function openOntology(str,str).

Regards,
Marwa

[marwa811]

P.S. you can use this code snippet for such task:

OWLOntologyManager manager=OWLManager.createOWLOntologyManager();
OWLOntologyLoaderConfiguration loaderConfig = new OWLOntologyLoaderConfiguration()
.setMissingImportHandlingStrategy(MissingImportHandlingStrategy.SILENT);
IRIDocumentSource source=new IRIDocumentSource(IRI.create("ontology IRI"));
OWLOntology ontology = manager.loadOntologyFromOntologyDocument(source, loaderConfig);

[DanFaria]

Hi @marwa811,

I actually made this very fix two months ago in the dev branch we're working on for complex ontology matching, but forgot to update the master branch and the release.
I will do so ASAP, and get back to you when it is fixed.
Thanks for your appreciation!

Daniel

[marwa811]

Hi Daniel, I sent you an email 4 months ago to fix the unworking imported ontologies problem. Are you done with it? and if so which version should I use? Appreciated. Best regards, Marwa

…

On Tue, Nov 3, 2020 at 1:22 PM Daniel Faria ***@***.***> wrote: Hi @marwa811 <https://github.com/marwa811>, I actually made this very fix two months ago in the dev branch we're working on for complex ontology matching, but forgot to update the master branch and the release. I will do so ASAP, and get back to you when it is fixed. Thanks for your appreciation! Daniel — You are receiving this because you were mentioned. Reply to this email directly, view it on GitHub <#19 (comment)>, or unsubscribe <https://github.com/notifications/unsubscribe-auth/ACLV2MVMZNENDRTMWPZJRNLSN7RWNANCNFSM4S53EW5A> .

-- *Marwa Hussein M. TA @ Information Systems Department Faculty of Computers & Information Assuit University* <imanhelal@yahoo.com>

[DanFaria]

Hi Marwa,

Apologies for the delay. I just fixed the issue.
If you were working with the source code, you can just make a new pull of the master branch. If you were working with the binary, please download AML release v3.2.

I would appreciate it if you could confirm that you can load your ontologies with no issues.

Best,

Daniel

[marwa811]

Hi Dan
I am sorry for being late to confirm but I was busy with another project. Now I tried the AML release v3.2. to find if the "could not load imported ontology" Exception, but It was not solved, still getting the same exception!!
Any Suggestions to fix it?

Regards,
Marwa

[DanFaria]

Hi Marwa,

I'll look further into it to see if there is an alternative fix.
But for the time being maybe you can consider the workaround of removing the troublesome import statement(s) from the ontology in question.

Best,

Daniel