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Re: Issue with Problem Oriented Medical Record OWL Ontology

From: Jim Hendler <hendler@cs.umd.edu>
Date: Wed, 11 Apr 2007 21:34:53 -0400
Message-Id: <p062406c1c2433b66fa77@[]>
To: Holger Knublauch <holger@topquadrant.com>, public-semweb-lifesci@w3.org
Cc: danbri@danbri.org

At 6:18 PM -0700 4/11/07, Holger Knublauch wrote:
>Noah Cohen wrote:
>>  Hi,
>>  I'm new to Protege and ontologies, and I'm getting the following 
>>issue with the POMR ontology from Chimezie.
>You may want to address the protege-owl mailing list with this problem.
>Also note that Protege is not the only ontology editor in the world. 
>For example TopBraid Composer [1] can open this file without 
>problems. While this is a commercial tool, you can exploit a free 30 
>days evaluation period.
>[1] http://www.topbraidcomposer.com

yes Holger,  (and if he wanted a free, open source editor that could 
handle it I would recommend SWOOP [1])

However, I think the bigger issue here is that there were (and I 
believe still are) some weirdnesses in the machine readability of the 
FOAF namespace ( http://xmlns.com/foaf/0.1 ) and that a number of 
systems have problems with it (I notice if I try to load it directly 
into SWOOP I still get XML parsing errors).  Lots of systems have 
done various work arounds for this -- so when you report your error 
to the Protege mailing list, you might also send it to the FOAF one, 
we've been complaining about this for a couple years now, maybe if 
some other folks yell as well we can get it so that the most used 
Semantic Web vocabulary will actually conform to the standards it 
promotes :-)
[1] http://code.google.com/p/swoop/

>>  I have protege version 3.2.1 build 365 and JDK 1.5.0
>>  If I run this ontology through a verifier, it verifies the 
>>ontology seemingly without a problem.
>>  If i try to load the ontology directly from 
>>I get some very interesting error:
>>  WARNING: [ProtegeOWLParser] Warning: Trying to add import for 
>>external resource:
>>   http://purl.org/dc/elements/1.1/ -- 
>>  INFO: [ProtegeOWLParser] Importing 
>>http://purl.org/dc/elements/1.1/ (from Redire
>>  ct to http://protege.stanford.edu/plugins/owl/dc/protege-dc.owl 
>>  The resource p1:chime has the rdf:type 
>>http://xmlns.com/foaf/0.1/Person which is
>>   not a class but a 
>>  ource
>>  Suggestion: In many cases the problem is a missing owl:imports 
>>statement to the
>>  classes file which defines the correct type of 
>>  It seems to me that it cannot distinguish the foaf Person class, 
>>with or without the foaf imports statement.  If someone could 
>>please assist here, it would be of great help.  Thank you in 
>>  Noah

How can you be in two places at once if you're not anywhere at all?
						(Firesign Theatre, 1969)
Prof James Hendler				http://www.cs.rpi.edu/~hendler
Tetherless World Constellation Chair		301-405-2696 (work)
Computer Science Dept			301-405-6707 (Fax)
Rensselaer Polytechnic Institute, Troy NY 12180
Received on Thursday, 12 April 2007 01:34:38 UTC

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