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[bioontology-support] Fwd: quick question
Jennifer Leigh Vendetti
vendetti at stanford.edu
Fri Dec 18 10:15:09 PST 2015
From: Jennifer Vendetti <vendetti at stanford.edu<mailto:vendetti at stanford.edu>>
Subject: Re: [bioontology-support] quick question
Date: December 18, 2015 at 10:14:38 AM PST
To: Haider Syed <haider.syed at dartmouth.edu<mailto:haider.syed at dartmouth.edu>>
I just noticed that you posted a message to the Protege User support list yesterday regarding the BioPortal Import plug-in . This plug-in was developed by the Protege team using an old version of our REST API. The old version of the REST API was retired in September of 2014 , and according to Tania’s reply, the Protege team has never updated the source code of the plug-in to work with the new version of our REST API.
Unfortunately, I’m not aware of any way to make this Protege plug-in work, short of updating the code to use the new API. It looks like the Protege team has entered an issue in GitHub to track the status of if/when this plug-in will be updated to use the new API .
On Dec 17, 2015, at 5:26 PM, Haider Syed <haider.syed at dartmouth.edu<mailto:haider.syed at dartmouth.edu>> wrote:
Thanks for the response. I'm not sure if you have any experience with using the BioPortal Import Tool in Protege.
I used the url you provided now; when I hit Test BioPortal Connection, it says:
Testing the BioPortal connection for REST base: http://data.bioontology.org/ ...
Retrieving ontology list from BioPortal...
But it just doesn't populate the list and nothing happens even after you leave it running for a long time...
Any ideas on what the issue might be?
Thanks for the help.
On Thu, Dec 17, 2015 at 7:35 PM, Jennifer Leigh Vendetti <vendetti at stanford.edu<mailto:vendetti at stanford.edu>> wrote:
The correct URL is http://data.bioontology.org<http://data.bioontology.org/>.
On Dec 17, 2015, at 3:24 PM, Haider Syed <haider.syed at dartmouth.edu<mailto:haider.syed at dartmouth.edu>> wrote:
I am trying to use the Bioportal Import Plugin in Protege - the plugin uses Bioportal's REST services. Specifically, it requries the BioPortal REST service base URL, which by default is specified as: http://rest.bioontology.org/bioportal/
However, when I try this link, I get a page that say Not Found
Instead, I have also tried:
and these don't work as well...
Can you please tell me what the endpoint should be?
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