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[bioontology-support] [BioPortal] Feedback from nlorimer

Jennifer Leigh Vendetti vendetti at
Tue Aug 29 11:20:32 PDT 2017

Yes - on the Active Ontology tab in Protege you can see the list of imports that your ontology uses. You can also add and remove the imports from this tab. Once doing so, you’d need to upload your new version to GitHub so that BioPortal can access as part of the nightly pull.

Kind regards,

[cid:E2308338-FC9C-4D4F-9635-D0F1F174B9C9 at]

On Aug 29, 2017, at 10:55 AM, Nancy Lorimer <nlorimer at<mailto:nlorimer at>> wrote:

Thanks very much! So to get rid of the Bibframe, I would need to remove that connection in Protege...


On 8/29/2017 10:42 AM, Jennifer Leigh Vendetti wrote:
Hi Nancy,

On Aug 28, 2017, at 9:40 PM, Nancy Lorimer <nlorimer at<mailto:nlorimer at>> wrote:

Huh, it just took a really long time, and I seem to have pulled in the BF base as well, which I didn't quite want. Comes from using the Protege file, I guess.

BIBFRAME is pulled in due to the import statement on line 22 of your ontology source file. Here’s a link to the exact line in the version in GitHub:

On Github, it is at Would I use that URL?

There is one additional step you need to take to get the correct URL. On the page that you reference above, click the “Raw” button to navigate to the raw ontology source file. The resulting URL in the browser window is the one you use, i.e.:

Notice that the URL begins with “<>”.

I created a new submission on your behalf and entered this URL as the pull location. The new submission is fully parsed and available to view in BioPortal. Your pull URL will be checked nightly for new versions.

Kind regards,

Nancy Lorimer
Head, Metadata Dept
Stanford University Libraries
nlorimer at<mailto:nlorimer at>

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