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[bioontology-support] [BioPortal] Feedback from michelle

Michael Dorf mdorf at
Fri Sep 1 15:27:59 PDT 2017

Hi Michelle,

Thank you for reporting this to us. Unfortunately, this is a known issue with the BioPortal backend parsing mechanism that is unable to correctly identify and mark root classes in SKOS ontologies. This issue is tracked here:

and here:

The reason you are seeing search results from this ontology in CEDAR is that this bug specifically affects the root classes endpoint: (returns an empty set)

All other endpoints for the ontology, including the search, are functional:

We’ll try to prioritize fixing this issue in a timely manner. Please, check the Github links above for the latest status of our progress.

Thank you,


On Aug 31, 2017, at 2:19 PM, support at<mailto:support at> wrote:

Name: michelle

Email: futo at<mailto:futo at>



submitted FAST-EVENT-SKOS which per its publisher is a SKOS file ( It has over 15,000 individuals. When I go to Classes tab in BioPortal, I get "problem retrieving classes". When I use FAST-EVENT-SKOS in CEDAR to constrain values of a field, I can search for terms. And when I populate the template, I see a dropdown of terms. But in both cases only about 20 terms (out of ~15,000) appear. I've shared the CEDAR template, called "test", with CEDAR dev team group

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