Search Mailing List Archives

Limit search to: Subject & Body Subject Author
Sort by: Reverse Sort
Limit to: All This Week Last Week This Month Last Month
Select Date Range     through    

[bioontology-support] [BioPortal] Feedback from John Robinson

Jennifer Leigh Vendetti vendetti at
Fri Nov 18 17:20:41 PST 2016

Hi John,

I took a look at ICW and the initial submission failed to parse.  The reason for this is that a pull URL was specified that pointed to WebProtege.  Pull URLs must point to the exact location where the ontology source file (OWL file) is located.  Unfortunately, WebProtege doesn’t expose such a URL.  It does give users the ability to download ontology files by clicking on the download links in the Revisions pane on the Project Dashboard tab.  However, as I mentioned, it doesn’t expose a URL where the ontology source file resides.

I took the liberty of downloading the latest version of your ontology from WebProtege and I created a new submission in BioPortal, using the same metadata as your initial one.  Instead of specifying a pull URL, I used the “Upload Local File” option to upload your latest version.  This time it successfully parsed and your ontology is now fully available in BioPortal:

Summary page:


Kind regards,

On Nov 18, 2016, at 1:30 PM, John Robinson <john.robinson at<mailto:john.robinson at>> wrote:

Hi Jennifer,

Thank you for the clear instructions. I have submitted the ICW ontology to BioPortal.

John M. Robinson MD, PhD  |  CEO, Wellzesta Inc.
1708 AUGUSTA ST,  STE C PMB 309  |  Greenville SC 29605-6514
+1.864.214.5207  |  john.robinson at<mailto:john.robinson at>  |<>

The information contained in this message may be confidential and legally protected under applicable law. The message is intended solely for the addressee(s). If you are not the intended recipient, you are hereby notified that any use, forwarding, dissemination, or reproduction of this message is strictly prohibited and may be unlawful. If you are not the intended recipient, please contact the sender by return e-mail and destroy all copies of the original message.

On Nov 2, 2016, at 2:46 PM, Jennifer Leigh Vendetti <vendetti at<mailto:vendetti at>> wrote:

Hi John,

Anyone is welcome to submit ontologies to BioPortal.  Just curious if you had already tried and were experiencing issues in doing so?

I wrote up some instructions for submitting ontologies in a previous message to the support list today, which I’ve pasted below.

Let me know if this information helps, and/or if you need any sort of additional assistance.

Kind regards,


If you haven’t already signed up for an account at the BioPortal website, you’ll need to do that first:

Once you have an account and are logged in, navigate to the Browse page:

… and click the "Submit New Ontology" button.

In the resulting form, you’ll be asked to fill out some metadata about your ontology, e.g., name, acronym, etc.  Once you’ve filled out the form, click the "Create ontology" button.  This will create the ontology summary page for your ontology.  On the summary page, you can then click the "Add submission” link.  The new submission form is where you’ll be able to specify your ontology file, as well as things like description, version number, etc.

On Nov 1, 2016, at 7:13 AM, support at<mailto:support at> wrote:

Name: John Robinson

Email: john.robinson at<mailto:john.robinson at>



Please consider indexing the "International Classification of Wellness" (ICW-1).

bioontology-support mailing list
bioontology-support at<mailto:bioontology-support at>

-------------- next part --------------
An HTML attachment was scrubbed...
URL: <>

More information about the bioontology-support mailing list