mbikinyi brat | 2 Nov 22:19 2009
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Customization difficulties in ontoVizTab

Dear All,
I want to visualize my ontology using OntoVizTab. But I do not know how to do it so that it fits on the screen. Most of it are out of the screen. See the attached  files.
 
Regards,
Nancy

--- On Thu, 10/29/09, Laila Ibrahim <al_zakiadin <at> hotmail.com> wrote:

From: Laila Ibrahim <al_zakiadin <at> hotmail.com>
Subject: [protege-discussion] How to put protege output file(owl) in java swing??
To: "protege discuss" <protege-discussion <at> lists.stanford.edu>
Date: Thursday, October 29, 2009, 4:53 PM

<!-- #yiv1554930917 .hmmessage P { margin:0px;padding:0px;} #yiv1554930917 { font-size:10pt;font-family:Verdana;} -->
Deal all:
After building the domain using protege, i need to put it in java swing for building the interface,
i don't now how to do this task??

any help plz



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Attachment (OntoVizCust.doc): application/octet-stream, 218 KiB
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mbikinyi brat | 2 Nov 22:36 2009
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ObjectAndDataTypeProperties_OntoViz

Dear All,
When I want to view my ontology in OntoViz I find that in the properties cell, a long URI is prefixed to any defined properties. For instance as seen in the screenshot, the property "hasTopping" is seen in OntoViz as:
 
How do i do away with the URI represented in the abbove in pink?
Also in case of a datatype properties how can we make sure the datatype appears, and the value for instance (Location: String: Paris or Age:Integer: 24)??
 
Thanks
Nancy

--- On Fri, 10/30/09, Timothy Redmond <tredmond <at> stanford.edu> wrote:

From: Timothy Redmond <tredmond <at> stanford.edu>
Subject: Re: [protege-discussion] How to put protege output file(owl) in java swing??
To: "User support for Core Protege and the Protege-Frames editor" <protege-discussion <at> lists.stanford.edu>
Date: Friday, October 30, 2009, 10:32 AM


You can access your ontology with some owl api like the Manchester owl api or an rdf library such as jena or sesame.  You can also use the Protege 3 code generation tools to automatically generate code for accessing your ontology.

-Timothy


On Oct 29, 2009, at 1:53 PM, Laila Ibrahim wrote:

>
> Deal all:
> After building the domain using protege, i need to put it in java swing for building the interface,
> i don't now how to do this task??
>
> any help plz
>
>
>
> Windows Live Hotmail: Your friends can get your Facebook updates, right from Hotmail®._______________________________________________
> protege-discussion mailing list
> protege-discussion <at> lists.stanford.edu
> https://mailman.stanford.edu/mailman/listinfo/protege-discussion
>
> Instructions for unsubscribing: http://protege.stanford.edu/doc/faq.html#01a.03

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mbikinyi brat | 2 Nov 22:56 2009
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Difficulties Opening OWL files using URI


Dear All,
I attempted opening an OWL ontology the the use of its URI from the web and I had this message from protege  "Can only open Protege projects(.pprj) files".  See File1. When I save the file on my system an opens as a file document (see File2) it opens. Please help, so that I should be able to open my ontology by using just URI.
 
Regards,
Nancy
--- On Thu, 10/29/09, Laila Ibrahim <al_zakiadin <at> hotmail.com> wrote:

From: Laila Ibrahim <al_zakiadin <at> hotmail.com>
Subject: [protege-discussion] How to put protege output file(owl) in java swing??
To: "protege discuss" <protege-discussion <at> lists.stanford.edu>
Date: Thursday, October 29, 2009, 4:53 PM

<!-- #yiv2098329126 .hmmessage P { margin:0px;padding:0px;} #yiv2098329126 { font-size:10pt;font-family:Verdana;} -->
Deal all:
After building the domain using protege, i need to put it in java swing for building the interface,
i don't now how to do this task??

any help plz



Windows Live Hotmail: Your friends can get your Facebook updates, right from Hotmail®.

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Samson Tu | 3 Nov 03:17 2009
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Re: Difficulties Opening OWL files using URI


Maybe you should try Protege 4 instead of Protege 3.4.1. It doesn't use 
Protege pprj files.

Samson

mbikinyi brat wrote:
> 
> Dear All,
> I attempted opening an OWL ontology the the use of its URI from the web 
> and I had this message from protege  "Can only open Protege 
> projects(.pprj) files".  See File1. When I save the file on my system an 
> opens as a file document (see File2) it opens. Please help, so that I 
> should be able to open my ontology by using just URI.
>  
> Regards,
> Nancy
> --- On *Thu, 10/29/09, Laila Ibrahim /<al_zakiadin <at> hotmail.com>/* wrote:
> 

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Oliver Schmidt | 3 Nov 13:49 2009
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Ontologies for finance or business etc...

 Dear All,

I hope this is the appropriate mailing list for my question.
I guess, here are the specialists concerning ontologies... :)

In my PhD project I'm working on knowledge discovery with the application of bisociations (which can be seen as links between different knowledge domains).
The idea is to combine information from different knowledge areas such as biology and finance.
Following certain links shall trigger a creative process and help to gain new insights according the domain under study.

I'm looking for an ontology or ontologies related to finance, business or marketing.

I want to integrate such ontologies with other information sources such as scientific articles from the same knowledge area.

Can someone help me out here and give pointers to ontologies, please?

Thanks in advance!

Cheers
Olli
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Tania Tudorache | 3 Nov 20:55 2009
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It's not too late to help us fund the future Protege development!

Dear members of the Protege community,

It is not too late to help us in the next funding round for Protege! 
Please take 2-3 minutes to fill out an easy questionnaire on how you use 
Protege. This would help us tremendously to continue to develop and 
support our tools. The questionnaire is accessible at:

http://www.surveymonkey.com/s.aspx?sm=tpk8iJUwgp_2b4RLR8arobAA_3d_3d

Thank you very much to all of you who have already filled out the 
questionnaire.

We really appreciate your support!

The Protege team
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Trish Whetzel | 3 Nov 22:17 2009
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REMINDER: NCBO Webinar - Maryann Martone, Nov. 4

The next NCBO Webinar will be held TOMORROW, November 4 at 10am PT. Please note there will not be a VOIP option and attendees must call into the teleconference.


The Webinar will be presented by Dr. Maryann Martone, from the University of California San Diego. The title of the presentation will be “The use of ontologies within the Neuroscience Information Framework, a neuroscience-centered portal for searching and accessing diverse resources”. Below is Information on how to join the online meeting and accompanying teleconference. For a schedule of the 2009 presentations or for more information about the NCBO Seminar series, see: http://www.bioontology.org/seminar-series.

Title:
The use of ontologies within the Neuroscience Information Framework, a neuroscience-centered portal for searching and accessing diverse resources


Abstract:
Although a plethora of resources (tools, databases, materials) for neuroscientists is now available on the web, finding these resources among the billions of possible web pages continues to be a challenge. The lack of discoverability is particularly acute for information contained in on-line databases, whose dynamic content is largely opaque to web search engines such as Google.  The Neuroscience Information Framework (NIF;  http://neuinfo.org) was launched in 2008 to address the problem of finding neuroscience-relevant resources.  It provides simultaneous search across multiple information sources to connect neuroscientists to available resources. Search through the NIF portal is enhanced through the utilization of a comprehensive ontology (NIFSTD) covering major domains in neuroscience, including diseases, brain anatomy, cell types, subcellular anatomy, small molecules, techniques and resource descriptors.  Through the NIFSTD vocabularies, users can expand search using synonyms and related terms and resource providers.  NIFSTD also provides a large neuroscience-centered vocabulary for resource providers to utilize when building or annotating tools and data.  In the past year, the NIF has undergone a significant upgrade in both functionality and content.  New features make it easier to search across the NIF information sources and to organize and view results.  The NIF vocabularies continue to be enhanced and expanded.  Tools for resource providers to make their tools and data available through NIF have been improved.  NIF has also made available a set of community tools whereby neuroscientists can contribute their knowledge and expertise, including the Neurolex Wiki, a semantically enhanced Wiki where each page represents a NIFSTD concept.


Topic: NCBO Seminar Series
Date: November 4
Time: 10:00 am, Pacific Daylight Time (San Francisco, GMT-07:00)
Meeting Number: 926 719 478
Meeting Password: ncbomeeting


-------------------------------------------------------
To join the online meeting (Now from iPhones too!)
-------------------------------------------------------
1. Go to https://stanford.webex.com/stanford/j.php?ED=107799137&UID=0&PW=NNzlkODFlYWVm&RT=MiM0
2. Enter your name and email address.
3. Enter the meeting password: ncbomeeting
4. Click "Join Now".
5. Follow the instructions that appear on your screen.

To view in other time zones or languages, please click the link:
https://stanford.webex.com/stanford/j.php?ED=107799137&UID=0&PW=NNzlkODFlYWVm&ORT=MiM0

-------------------------------------------------------
To join the audio conference only
-------------------------------------------------------
Call-in toll number (US/Canada): 1-650-429-3300
Global call-in numbers: https://stanford.webex.com/stanford/globalcallin.php?serviceType=MC&ED=107799137&tollFree=0

Access code:926 719 478

-------------------------------------------------------
For assistance
-------------------------------------------------------
1. Go to https://stanford.webex.com/stanford/mc
2. On the left navigation bar, click "Support".

You can contact me at:
whetzel <at> stanford.edu


To update this meeting to your calendar program (for example Microsoft Outlook), click this link:
https://stanford.webex.com/stanford/j.php?ED=107799137&UID=0&ICS=UMI&LD=1&RD=2&ST=1&SHA2=sscJxPSrxubkyAnBruXELuZe4XBKeHnhQa70aJiFfUI=&RT=MiM0


WebEx will automatically setup Meeting Manager for Windows the first time you join a meeting. To save time, you can setup prior to the meeting by clicking this link:
https://stanford.webex.com/stanford/meetingcenter/mcsetup.php




Trish Whetzel, PhD
Outreach Coordinator
The National Center for Biomedical Ontology
Ph: 650-721-2378
whetzel <at> stanford.edu
http://www.bioontology.org

 


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Nithya Janarthanan | 4 Nov 00:50 2009
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help needed with downloading protege source code

Hi,
I am trying to download protege source code from
http://smi-protege.stanford.edu/repos/protege/owl/trunk/
using tortoise svn. But it keeps asking me for username and password.
Any body have any idea about it.

Regards,
Nithya

On Tue, November 3, 2009 2:55 pm, Tania Tudorache wrote:
> Dear members of the Protege community,
>
>
> It is not too late to help us in the next funding round for Protege!
> Please take 2-3 minutes to fill out an easy questionnaire on how you use
> Protege. This would help us tremendously to continue to develop and
> support our tools. The questionnaire is accessible at:
>
> http://www.surveymonkey.com/s.aspx?sm=tpk8iJUwgp_2b4RLR8arobAA_3d_3d
>
>
> Thank you very much to all of you who have already filled out the
> questionnaire.
>
> We really appreciate your support!
>
>
> The Protege team
> _______________________________________________
> protege-owl mailing list protege-owl <at> lists.stanford.edu
> https://mailman.stanford.edu/mailman/listinfo/protege-owl
>
>
> Instructions for unsubscribing:
> http://protege.stanford.edu/doc/faq.html#01a.03
>
>
>

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Timothy Redmond | 4 Nov 15:32 2009
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Re: [protege-owl] help needed with downloading protege source code


This sounds like a tortoise svn issue.  There is no problem checking  
out the protege sources without a username and password.  You only  
need credentials if you are trying to commit changes to svn.  I can't  
check this now because I don't have access to a windows machine.

-Timothy

On Nov 3, 2009, at 3:50 PM, Nithya Janarthanan wrote:

> Hi,
> I am trying to download protege source code from
> http://smi-protege.stanford.edu/repos/protege/owl/trunk/
> using tortoise svn. But it keeps asking me for username and password.
> Any body have any idea about it.
>
> Regards,
> Nithya
>
> On Tue, November 3, 2009 2:55 pm, Tania Tudorache wrote:
>> Dear members of the Protege community,
>>
>>
>> It is not too late to help us in the next funding round for Protege!
>> Please take 2-3 minutes to fill out an easy questionnaire on how  
>> you use
>> Protege. This would help us tremendously to continue to develop and
>> support our tools. The questionnaire is accessible at:
>>
>> http://www.surveymonkey.com/s.aspx?sm=tpk8iJUwgp_2b4RLR8arobAA_3d_3d
>>
>>
>> Thank you very much to all of you who have already filled out the
>> questionnaire.
>>
>> We really appreciate your support!
>>
>>
>> The Protege team
>> _______________________________________________
>> protege-owl mailing list protege-owl <at> lists.stanford.edu
>> https://mailman.stanford.edu/mailman/listinfo/protege-owl
>>
>>
>> Instructions for unsubscribing:
>> http://protege.stanford.edu/doc/faq.html#01a.03
>>
>>
>>
>
>
> _______________________________________________
> protege-owl mailing list
> protege-owl <at> lists.stanford.edu
> https://mailman.stanford.edu/mailman/listinfo/protege-owl
>
> Instructions for unsubscribing: http://protege.stanford.edu/doc/faq.html#01a.03

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Stuart Bertram | 4 Nov 15:35 2009

Re: [protege-owl] help needed with downloading protege source code

One of the users of one of my own apps (unrelated to Protege) tried 
downloading using TortoiseSVN recently and hit the same problem. I've 
also got anonymous read access. When I told them they shouldn't need one 
they tried again and said "it works now" but didn't say what they did 
differently.

On 04/11/09 14:32, Timothy Redmond wrote:
>
> This sounds like a tortoise svn issue. There is no problem checking out
> the protege sources without a username and password. You only need
> credentials if you are trying to commit changes to svn. I can't check
> this now because I don't have access to a windows machine.
>
> -Timothy
>
>
>
> On Nov 3, 2009, at 3:50 PM, Nithya Janarthanan wrote:
>
>> Hi,
>> I am trying to download protege source code from
>> http://smi-protege.stanford.edu/repos/protege/owl/trunk/
>> using tortoise svn. But it keeps asking me for username and password.
>> Any body have any idea about it.
>>
>> Regards,
>> Nithya
>>
>> On Tue, November 3, 2009 2:55 pm, Tania Tudorache wrote:
>>> Dear members of the Protege community,
>>>
>>>
>>> It is not too late to help us in the next funding round for Protege!
>>> Please take 2-3 minutes to fill out an easy questionnaire on how you use
>>> Protege. This would help us tremendously to continue to develop and
>>> support our tools. The questionnaire is accessible at:
>>>
>>> http://www.surveymonkey.com/s.aspx?sm=tpk8iJUwgp_2b4RLR8arobAA_3d_3d
>>>
>>>
>>> Thank you very much to all of you who have already filled out the
>>> questionnaire.
>>>
>>> We really appreciate your support!
>>>
>>>
>>> The Protege team
>>> _______________________________________________
>>> protege-owl mailing list protege-owl <at> lists.stanford.edu
>>> https://mailman.stanford.edu/mailman/listinfo/protege-owl
>>>
>>>
>>> Instructions for unsubscribing:
>>> http://protege.stanford.edu/doc/faq.html#01a.03
>>>
>>>
>>>
>>
>>
>> _______________________________________________
>> protege-owl mailing list
>> protege-owl <at> lists.stanford.edu
>> https://mailman.stanford.edu/mailman/listinfo/protege-owl
>>
>> Instructions for unsubscribing:
>> http://protege.stanford.edu/doc/faq.html#01a.03
>
> _______________________________________________
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>
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Gmane