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[protege-discussion] ChAO slows down Protege Server significantly

Jonathan Carter jonathan.carter at
Tue Nov 15 03:04:45 PST 2011


Have you made sure to use a database backend for the changes ontology, annotations-<your project name>.pprj?
If you use a file-based repository for the changes, the server has to perform a timed save of the entire changes ontology and when you get to 45MB this can take a few seconds and freeze the server. However, if you use a database backend for the ChAO, changes are written to the database incrementally and performance will be unaffected by the size of the changes ontology - which can get very large, very quickly!

Hope this helps


Jonathan Carter 
Enterprise Architecture Solutions Ltd

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On 15 Nov 2011, at 10:34, Restel, Hannes wrote:

> HI,
> I'm using Collaborative Protege in Client Server mode including a ChAO (Change Annotation Ontology).
> The ontology itself has got something like 1.5MB, but the ChAO has got around 45MB of file size.
> This results the Protégé Clients to freeze regularily, waiting for synchronizing data, I guess.
> These freezes occur 2-3 times a minute, each taking around 10seconds..
> What exactly happens that makes Protégé so slow?
> Is there a workaround, i.e. in the Protégé Server settings? (except emptying the CHaO...)
> Thx!
> M.Sc. Hannes Restel | Fraunhofer-Institut für Software- und Systemtechnik ISST
> Sichere Business IT-Infrastrukturen, Wissenschaftl. Mitarbeiter
> Steinplatz 2, 10623 Berlin, Germany
> Telefon: +49 (0)30/24 306-324
> mailto:hannes.restel at
> -----Ursprüngliche Nachricht-----
> Von: protege-discussion-bounces at [mailto:protege-discussion-bounces at] Im Auftrag von Csongor Nyulas
> Gesendet: Dienstag, 15. November 2011 06:30
> An: protege-discussion at
> Betreff: [protege-discussion] [POSSIBLE VIRUS:###] Re: (no subject)
> Hi Tanumeet,
> You should be able to open .owl files the exact same way as Ana explained to you how to open the .pprj file.
> (FYI: the .pprj file contains, besides the references to the content stored either in the .owl file or the .pins and .pont files, the Protege project configuration, i.e. which tabs are open, form configurations, etc)
> I downloaded the amino-acid.owl file from the following URL:
> (which I zipped up and attached to this email for you) and I could open it with Protege without any problem.
> Can you? If not, please check the Protege console. Do you get any exceptions?
> Csongor
> On 11/13/2011 9:37 AM, Tanumeet Kaur Juneja wrote:
>> how will the file with the extension .owl open?
>> i was trying to open amino-acid.owl. and wsant able to.
>> Thank u
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