Re: [Mged-ontologies] [Obi-devel] new release (2012 spring) of OBI is out

[Jie Z. <jie...@pc...>]

Hi Bill,

I have same issue when I opened OBI from url

http://purl.obolibrary.org/obo/obi.owl


This URL redirect to the file:
https://obi.svn.sourceforge.net/svnroot/obi/releases/2012-03-29/merged/merged-obi-comments.owl

If you use the above URL, everything worked fine. I have no idea about 
the error with Protege and cannot fix it by searching online. I will 
send the email to Protege mailing list. We have set this kind of 
redirect for each release. They all worked well. It might be some bug in 
the obi OWL file but I cannot find it.

Will let you know when it get be fixed. You can use the link of the 
actually file located for OBI now.

Thanks for reporting the error.

Jie




On 4/6/2012 12:24 PM, Bill Hogan wrote:
> Folks,
>
> WHen I try to open the ontology from the URI, I get the following error:
>
> org.xml.sax.SAXParseException: White spaces are required between
> publicId and systemId.
>
> I am using Protege 4.1 (Build 239) on a Windows PC.
>
> Bill
>
>
> On Thu, Apr 5, 2012 at 3:51 PM, Jie Zheng<jie...@pc...>  wrote:
>> Hi All,
>>
>> OBI 2012 Spring version is released. The new version is on:
>> http://purl.obolibrary.org/obo/obi.owl
>>
>> Highlight of this release:
>>
>>   OBO format of OBI is available for this version
>> (http://purl.obolibrary.org/obo/obi/obi.obo)
>>
>> The OBO format of OBI was generated using Oort, a OBO-OWL converter.
>>
>>   25 newly added classes, including
>> - terms to represent metadate of sample required by BRC
>> - types of binding assays and related terms such as binding measurement data
>> required by the IEDB group
>>
>> 	The newly added OBI classes are listed on
>> http://obi.svn.sourceforge.net/viewvc/obi/releases/2012-03-29/docs/newClasses.html
>>
>>   fixed multiple asserted inheritance of NCBITaxon under organism branch
>> caused by some errors occur during MIROET
>>
>>   A static URL is given to OBI IEDB view ontology (view for IMMUNE EPITOPE
>> DATABASE), http://purl.obolibrary.org/obo/obi/obi_IEDBview.owl
>>
>> The detailed release information can be found on:
>> http://purl.obolibrary.org/obo/obi/release-notes.html
>>
>> The released OBI files can be loaded into Protege 4v and reasoned consistent
>> using Hermit reasoner. It was loaded into Ontobee (http://www.ontobee.org/)
>> and Bioportal.
>>
>> Notes: There are parsing errors shown in the Bioportal website. We are
>> waiting for fixing.
>>
>>
>> Jie
>>
>>
>> ------------------------------------------------------------------------------
>> Better than sec? Nothing is better than sec when it comes to
>> monitoring Big Data applications. Try Boundary one-second
>> resolution app monitoring today. Free.
>> http://p.sf.net/sfu/Boundary-dev2dev
>> _______________________________________________
>> Obi-devel mailing list
>> Obi...@li...
>> https://lists.sourceforge.net/lists/listinfo/obi-devel
>>