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[bioontology-support] issues with ontology visualization
Jennifer Leigh Vendetti
vendetti at stanford.edu
Wed Feb 17 12:24:25 PST 2016
We had some issues with instability this morning, but the site should be back to normal now. Apologies for the inconvenience.
On Feb 17, 2016, at 10:30 AM, sridevi polavaram <spolavar at gmail.com<mailto:spolavar at gmail.com>> wrote:
It is 1:23pm EST and once again i get the error page saying '
We're sorry but something has gone wrong. We have been notified of this error.'
when i try to browse NMOBR http://bioportal.bioontology.org/ontologies/NMOBR/?p=classes
whatever that is causing this issue is practically making this link unusable. I hope you can reproduce it at your end!
On Tue, Feb 16, 2016 at 9:32 PM, sridevi polavaram <spolavar at gmail.com<mailto:spolavar at gmail.com>> wrote:
It was working spottily yesterday many times giving an error message, i saw it working when i first uploaded it, but then it went down when i tried to access it many times later. Now it seem to be working fine!
On Tue, Feb 16, 2016 at 6:10 PM, Michael Dorf <mdorf at stanford.edu<mailto:mdorf at stanford.edu>> wrote:
I don't see any issues with NMOBR other than some of the terms repeat in the tree. Is this the issue you are referring to?
On Feb 16, 2016, at 11:36, sridevi polavaram <spolavar at gmail.com<mailto:spolavar at gmail.com>> wrote:
I have uploaded two new ontologies yesterday, the insect hierarchy and the vertebrate hierarchy. but only the insect hierarchy works (http://bioportal.bioontology.org/ontologies/INSECTH?p=classes), i am having issues with the second one (http://bioportal.bioontology.org/ontologies/NMOBR?p=classes). May i know what is the problem?
On Wed, Feb 10, 2016 at 6:28 PM, sridevi polavaram <spolavar at gmail.com<mailto:spolavar at gmail.com>> wrote:
Any updates on issue NCBO-1605 - can't search NMOSP by synonym?
On Tue, Jan 19, 2016 at 11:47 PM, sridevi polavaram <spolavar at gmail.com<mailto:spolavar at gmail.com>> wrote:
Thank you, Mike. see inline below.
2. The issue with NMOSP still stands. It is tracked internally as NCBO-1605 - can't search NMOSP by synonym. Even after having deployed the patch and re-parsing/re-indexing the ontology, I am unable to get any hits on "chimpanzee" or "common chimpanzee". This means that even after re-indexing, these values did not get picked up as "synonyms" of the concept "Pan troglodytes":
We will continue looking into the issue and update you as more details become available.
For now, I will be using only two properties for synonyms in my owl ontologies:
It is really strange that the synonym defined as these two properties were working fine with NMOSP before! I will keep my fingers crossed.
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