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[bioontology-support] rdfs:label rendering

Madani,Sina AHMadani at
Mon Mar 5 08:45:27 PST 2012

Thank you Trish,
That did it. I used the uri instead of the default and it processed rdfs:label correctly.


From: Trish Whetzel [mailto:whetzel at]
Sent: Sunday, March 04, 2012 5:02 PM
To: Madani,Sina
Cc: support at Support
Subject: Re: [bioontology-support] rdfs:label rendering

Hi Sina,

The only thing I can think of is to set the preferred name and synonym properties directly in the upload menu rather than rely on the defaults.  Paul may have additional suggestions.


On Feb 28, 2012, at 11:43 PM, Madani,Sina wrote:


I created a custom ontology using Protege Bioportal import plug in. During Protege Bioportal import, I set label and synonym properties to rdfs:label and skos:altLabel.

Then I uploaded and processed the custom ontology into our 2 identical local 0.4 appliance instances (Dev & Test).
In the Test instance everything looked ok but in the Dev enviroment the display name was rendered by URI and not RDFS:label. I used one single owl file and the default setting for both uploads. I followed exact similar workflow for both.

I should mention that I had similar issue for another ontology (converted from excel spreadsheet into owl) but I noticed the problem was related to rdfs:label values imported as literals in TopBriad. When I changed the rdfs:label property to string values it loaded and represented ok in NCBO bioportal. However, this isn't the case here; I am importing some of the axioms from SNOMED into my ontology and it loads and renders accurately only in one of the 0.4 appliance instance.

I also got an error in my first attempt in Dev (last screenshot) but when I repated the process, the error was gone. Additionally, while trialing catalina.out log, I noticed that as soon as an OWL file is being uploaded it's being processed immediately and no manual process from the Admin menu is required.

Where can I look to find the issue? Any help is appreciated.






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Trish Whetzel, PhD
Outreach Coordinator
The National Center for Biomedical Ontology
Ph: 650-721-2378

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