Clearing and reloading ontology and its imports

[Martynas Jusevičius <ma...@atomgraph.com>]

Hi,

we have an ontology editor that stores ontologies and their terms in a
triplestore. On the other end, they are being loaded by OntDocumentManager.

The question is: what is the proper way to clear and reload an ontology and
its imports in OntDocumentManager?

Because, for example, a user could totally change owl:imports statements of
an ontology, and we need this feature to be able to reload a completely new
OntModel without any old imported submodels.

Right now I'm simply doing the following:


OntDocumentManager.getInstance().getFileManager().removeCacheModel(ontologyURI)
  OntDocumentManager.getInstance().addModel(ontologyURI, infModel);
  OntModel ontModel = OntDocumentManager.getInstance().getOntology(ontologyURI,
ontModelSpec);

But this is not enough, because doing ontModel.listImportedOntologyURIs()
lists all the old imports from before.

Am I getting this right and what needs to be done to reload the imports as
well?

I can see there is a concept of dynamic imports in OntModel, but not sure
it's related.


Martynas

Re: Clearing and reloading ontology and its imports

[Dave Reynolds <da...@gmail.com>]

On 07/04/18 10:49, Martynas Jusevičius wrote:
> Sorry for the noise, it looks like the listImportedOntologyURIs() was a red
> herring -- the submodel count actually comes from InfModel which includes
> the schema submodels.
> 
> 
> But I was able to dig a little further, and observed after the code I have
> shown is executed, there are inconsistencies in models for the same
> ontology but accessed in different ways:
> 
>    ontology.getOntModel().getOntology("
> https://localhost:4443/demo/iswc-2017/ns/templates#
> ").listImports().toList().toString()
> 
>    [http://atomgraph.com/ns/platform/templates#,
> https://www.w3.org/ns/ldt/core/templates#]
> 
> 
>    ontology.getOntModel().getDocumentManager().getOntology("
> https://localhost:4443/demo/iswc-2017/ns/templates#",
> org.apache.jena.ontology.OntModelSpec.OWL_MEM).getOntology("
> https://localhost:4443/demo/iswc-2017/ns/templates#
> ").listImports().toList().toString()
> 
>    [https://www.w3.org/ns/ldt/core/templates#]
> 
> 
> Notice how imports for
> https://localhost:4443/demo/iswc-2017/ns/templates# differ.
> How is that possible, and how do I avoid this?

No idea but since the first example has some inference enabled that 
might be a clue.

Do you have a complete minimal example of an ontology which exhibits 
this difference?

Dave

> On Fri, Apr 6, 2018 at 3:19 PM, Martynas Jusevičius <ma...@atomgraph.com>
> wrote:
> 
>> I guess dynamic imports is what I need. But will they get triggered if I
>> remove and then re-add the whole Model (as shown in my example), rather
>> than statements?
>>
>> I could probably removeAll() statements from it instead of removing it
>> from cache.
>>
>> On Fri, Apr 6, 2018 at 1:59 PM, Martynas Jusevičius <
>> martynas@atomgraph.com> wrote:
>>
>>> Hi,
>>>
>>> we have an ontology editor that stores ontologies and their terms in a
>>> triplestore. On the other end, they are being loaded by OntDocumentManager.
>>>
>>> The question is: what is the proper way to clear and reload an ontology
>>> and its imports in OntDocumentManager?
>>>
>>> Because, for example, a user could totally change owl:imports statements
>>> of an ontology, and we need this feature to be able to reload a completely
>>> new OntModel without any old imported submodels.
>>>
>>> Right now I'm simply doing the following:
>>>
>>>    OntDocumentManager.getInstance().getFileManager().
>>> removeCacheModel(ontologyURI)
>>>    OntDocumentManager.getInstance().addModel(ontologyURI, infModel);
>>>    OntModel ontModel = OntDocumentManager.getInstance().getOntology(ontologyURI,
>>> ontModelSpec);
>>>
>>> But this is not enough, because doing ontModel.listImportedOntologyURIs()
>>> lists all the old imports from before.
>>>
>>> Am I getting this right and what needs to be done to reload the imports
>>> as well?
>>>
>>> I can see there is a concept of dynamic imports in OntModel, but not sure
>>> it's related.
>>>
>>>
>>> Martynas
>>>
>>
>>
> 

Re: Clearing and reloading ontology and its imports

[Martynas Jusevičius <ma...@atomgraph.com>]

Sorry for the noise, it looks like the listImportedOntologyURIs() was a red
herring -- the submodel count actually comes from InfModel which includes
the schema submodels.


But I was able to dig a little further, and observed after the code I have
shown is executed, there are inconsistencies in models for the same
ontology but accessed in different ways:

  ontology.getOntModel().getOntology("
https://localhost:4443/demo/iswc-2017/ns/templates#
").listImports().toList().toString()

  [http://atomgraph.com/ns/platform/templates#,
https://www.w3.org/ns/ldt/core/templates#]


  ontology.getOntModel().getDocumentManager().getOntology("
https://localhost:4443/demo/iswc-2017/ns/templates#",
org.apache.jena.ontology.OntModelSpec.OWL_MEM).getOntology("
https://localhost:4443/demo/iswc-2017/ns/templates#
").listImports().toList().toString()

  [https://www.w3.org/ns/ldt/core/templates#]


Notice how imports for
https://localhost:4443/demo/iswc-2017/ns/templates# differ.
How is that possible, and how do I avoid this?

On Fri, Apr 6, 2018 at 3:19 PM, Martynas Jusevičius <ma...@atomgraph.com>
wrote:

> I guess dynamic imports is what I need. But will they get triggered if I
> remove and then re-add the whole Model (as shown in my example), rather
> than statements?
>
> I could probably removeAll() statements from it instead of removing it
> from cache.
>
> On Fri, Apr 6, 2018 at 1:59 PM, Martynas Jusevičius <
> martynas@atomgraph.com> wrote:
>
>> Hi,
>>
>> we have an ontology editor that stores ontologies and their terms in a
>> triplestore. On the other end, they are being loaded by OntDocumentManager.
>>
>> The question is: what is the proper way to clear and reload an ontology
>> and its imports in OntDocumentManager?
>>
>> Because, for example, a user could totally change owl:imports statements
>> of an ontology, and we need this feature to be able to reload a completely
>> new OntModel without any old imported submodels.
>>
>> Right now I'm simply doing the following:
>>
>>   OntDocumentManager.getInstance().getFileManager().
>> removeCacheModel(ontologyURI)
>>   OntDocumentManager.getInstance().addModel(ontologyURI, infModel);
>>   OntModel ontModel = OntDocumentManager.getInstance().getOntology(ontologyURI,
>> ontModelSpec);
>>
>> But this is not enough, because doing ontModel.listImportedOntologyURIs()
>> lists all the old imports from before.
>>
>> Am I getting this right and what needs to be done to reload the imports
>> as well?
>>
>> I can see there is a concept of dynamic imports in OntModel, but not sure
>> it's related.
>>
>>
>> Martynas
>>
>
>

Re: Clearing and reloading ontology and its imports

[Martynas Jusevičius <ma...@atomgraph.com>]

I guess dynamic imports is what I need. But will they get triggered if I
remove and then re-add the whole Model (as shown in my example), rather
than statements?

I could probably removeAll() statements from it instead of removing it from
cache.

On Fri, Apr 6, 2018 at 1:59 PM, Martynas Jusevičius <ma...@atomgraph.com>
wrote:

> Hi,
>
> we have an ontology editor that stores ontologies and their terms in a
> triplestore. On the other end, they are being loaded by OntDocumentManager.
>
> The question is: what is the proper way to clear and reload an ontology
> and its imports in OntDocumentManager?
>
> Because, for example, a user could totally change owl:imports statements
> of an ontology, and we need this feature to be able to reload a completely
> new OntModel without any old imported submodels.
>
> Right now I'm simply doing the following:
>
>   OntDocumentManager.getInstance().getFileManager()
> .removeCacheModel(ontologyURI)
>   OntDocumentManager.getInstance().addModel(ontologyURI, infModel);
>   OntModel ontModel = OntDocumentManager.getInstance().getOntology(ontologyURI,
> ontModelSpec);
>
> But this is not enough, because doing ontModel.listImportedOntologyURIs()
> lists all the old imports from before.
>
> Am I getting this right and what needs to be done to reload the imports as
> well?
>
> I can see there is a concept of dynamic imports in OntModel, but not sure
> it's related.
>
>
> Martynas
>