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[bioontology-support] CIDO new version uploading error in BioPortal

He, Oliver yongqunh at med.umich.edu
Wed Oct 7 10:39:53 PDT 2020


Thanks, Michael, for your taking the time to work on it!
I will submit a new version soon.
Oliver

From: Michael Dorf <mdorf at stanford.edu>
Sent: Wednesday, October 7, 2020 1:37 PM
To: He, Oliver <yongqunh at med.umich.edu>
Cc: support at bioontology.org; John Graybeal <jgraybeal at stanford.edu>
Subject: Re: [bioontology-support] CIDO new version uploading error in BioPortal

External Email - Use Caution
Hi Oliver,

There was an orphan record in our database that prevented a new version of CIDO from being submitted.  Not sure how it ended up there, but I’ve removed it and cleared our internal caches. You should be able to submit your new version of CIDO now. Let us know if you run into further issues.

Thank you for your patience.

Michael



On Oct 6, 2020, at 3:17 PM, John Graybeal <jgraybeal at stanford.edu<mailto:jgraybeal at stanford.edu>> wrote:

Oliver,

We are short of resources through today, but will be looking at this tomorrow.  Sorry for the delay.

John


On Oct 4, 2020, at 7:56 PM, He, Oliver <yongqunh at med.umich.edu<mailto:yongqunh at med.umich.edu>> wrote:

As shown on the CIDO BioPortal site:
http://bioportal.bioontology.org/ontologies/CIDO
the version there is 1.0.146 on 9/3/2020.
However, the newest version should be 1.0.159 on 9/25/2020:
http://purl.obolibrary.org/obo/cido.owl
or:
https://raw.githubusercontent.com/CIDO-ontology/cido/master/src/ontology/cido.owl

I was trying to add the newest version manually. Then I got this error:

Errors On Form
•  [:error, #<OpenStruct links=nil, context=nil, proc_naming=#<OpenStruct links=nil, context=nil, duplicate="There is already a persistent resource with id `http://data.bioontology.org/ontologies/CIDO/submissions/20`">>]

I am not sure what the error message means.

Thanks,
Oliver


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========================
John Graybeal
Technical Program Manager
Center for Expanded Data Annotation and Retrieval /+/ NCBO BioPortal
Stanford Center for Biomedical Informatics Research
650-736-1632  | ORCID  0000-0001-6875-5360



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