search

ncbo / bioportal-project

Serves to consolidate (in Zenhub) all public issues in BioPortal
BSD 2-Clause "Simplified" License
7 stars 5 forks source link

DRON: BioPortal's nightly pull fails for this ontology #233

Closed jvendetti closed 1 year ago

jvendetti commented 2 years ago

Received a complaint on the support list from an end user that classes weren't accessible for DRON.

Our nightly pull process is unable to download new versions of the ontology source file from GitHub due to this known issue:

https://github.com/ncbo/ontologies_linked_data/issues/112

As a temporary workaround, I manually uploaded a new file-based submission (i.e., the pull URL is now disabled). I used the latest version of the ontology source file from Oct. 18, 2021:

https://github.com/ufbmi/dron/releases/download/v2021-10-18/dron.owl

The new submission from Oct. 18 is now fully processed / available in BioPortal: 

I, [2021-12-08T20:47:56.840813 #17951]  INFO -- : ["Completed caching ontology: DRON (http://data.bioontology.org/ontologies/DRON/submissions/13) in 1131.905910955742 sec. 617959 classes."]
D, [2021-12-08T22:25:45.182805 #17951] DEBUG -- : ["Completed processing of http://data.bioontology.org/ontologies/DRON/submissions/13 in 17404.72s"]

As an aside - when I uploaded the new submission, I updated some of the ontology metadata that was outdated compared to what is currently displayed at the OBO Foundry:

https://obofoundry.org/ontology/dron.html

jvendetti commented 1 year ago

Fixed by https://github.com/ncbo/ontologies_linked_data/pull/134 from @syphax-bouazzouni. Released to production as part of https://github.com/ncbo/ontologies_api/releases/tag/v5.23.0.