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[protege-owl] problem loading galen.owl with protege 3 and protege 4
tredmond at stanford.edu
Wed Aug 1 09:54:03 PDT 2007
I apologize but my last reply only adressed Protege 4. I just loaded
this ontology into Protege 3 also without problems. In the Protege 3
case, are you sure there were no exceptions on the console or in the
logs? No dialog box popped up? My suspicion is that you ran out of
memory in Protege 3 also but I would have thought it would inform you
The ontology loads pretty quickly into Protege 4 though there are
some messages about strange constructs. In Protege 3 it takes much
longer. On the screen I have a log message that says
INFO: ... Loading completed after 470143 ms
This is over 7 minutes. Admittedly I am using a slow machine but
this is still a long time and the full time from trying to load it to
display is even longer (I didn't time it). In Protege 3 of course
you can consider the database backend if you want quicker loading
(after the database has been populated.)
On Aug 1, 2007, at 9:28 AM, Timothy Redmond wrote:
> You have almost certainly run into an out-of-memory error.
> Unfortunately the logging in Protege 4 still has a bit of a problem
> and the exception is not always displayed. If you can, increase the
> memory and let us know how it goes.
> I believe that I fixed the problem with logging last night on an
> internal development branch (it will find its way to the head).
> On Aug 1, 2007, at 8:23 AM, helen.chen at agfa.com wrote:
>> Dear list
>> I downloaded protege 4 and trying to open a local copy of galen.owl
>> . The owl file is about 21M.. After loading 220,000 triples
>> (message on console), the system hung forever (I have to kill the
>> process after more than 30 minutes waiting).
>> This is the same problem with protege 3.2.
>> Can anyone share his/her experience in loading large ontology in
>> protege? Is there a place where I can specify a larger memory
>> space for loading large ontology?
>>  full galen owl ontology http://bioontology.org/projects/
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