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[bioontology-support] [BioPortal] Feedback from rakesh

Jennifer Leigh Vendetti vendetti at
Wed Aug 12 12:47:55 PDT 2020

Sorry about that Rakesh - I meant to send a link to this script in our sample code repository:

On Aug 11, 2020, at 6:31 PM, Rakesh Nagarajan <rakesh at<mailto:rakesh at>> wrote:

     Thanks! Can you confirm the last link where you refer to a script but that link is the same as the previous link?


On Tue, Aug 11, 2020 at 6:18 PM Jennifer Leigh Vendetti <vendetti at<mailto:vendetti at>> wrote:
Hi Rakesh,

On Aug 10, 2020, at 5:18 PM, support at<mailto:support at> wrote:

Name: rakesh

Email: rakesh at<mailto:rakesh at>



I am using v2.5 of the Ontoportal appliance and have successfully loaded NCIT a few times now. I am now attempting to load SNOMED-CT after conversion from the UMLS using umls2rdf as a .ttl file. I have selected UMLS as the format but I have now tried twice to upload via UI and the server threw an error saying 'something went wrong and administrators have been notified. However I dont know what happened. Are there logs on the server to check?

There are some instructions for locating log files here:

Any other ideas to help troubleshoot? Finally are there commands to load directly on the server I may use?

I’m not certain this is what you’re asking for, but you can manually re-parse an ontology submission using this methodology:

It’s also possible to upload ontologies programmatically. An appliance user submitted the following script to our code sample repository:

It’s a script that imports ontologies from on appliance instance to another, which is not what you’re doing. However, I thought that some portions of the code might be of interest to you.

Kind regards,


Rakesh Nagarajan

Founder, President, and Chief Technology & Visionary Officer

m: 314-504-5620
e: rakesh at<mailto:rakesh at>

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