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[bioontology-support] VA. Some terms aren't completely parsed

Paul R Alexander palexander at stanford.edu
Fri Jul 11 17:02:15 PDT 2014


Vitaly,

There is a good chance that this is a bug that we have fixed in more recent versions of our code. The Virtual Appliance will get this fix when we do our next release.

Paul


On Jul 9, 2014, at 12:50 AM, Vitaly Zimukha <unknownnpc at gmail.com> wrote:

> Dear support team,
> 
> I found some 'broken' terms on my own VA in the ontologies > 100mb. 
> for eg. I am trying to search 'Anxiety disorder' term in the MEDDRA
> http://my.va.local:8080/search?q=Anxiety%20disorder&ontologies=MEDDRA
> Response is correct and looks the same as
> http://data.bioontology.org/search?q=Anxiety%20disorder&ontologies=MEDDRA
> But when I try to open 'Anxiety disorder' tree:
> http://my.va.local:8080/ontologies/MEDDRA/classes/http%3A%2F%2Fontology.clinovo.local%2Fontology%2FMEDDRA%2F10057666/tree
> I got "Internal Server Error", but it works OK using:
> http://data.bioontology.org/ontologies/MEDDRA/classes/http%3A%2F%2Fpurl.bioontology.org%2Fontology%2FMEDDRA%2F10057666/tree
> 
> Also, when I try to search this term using web ui search, VA returns correct
> search result:
> 
> <http://ncbo-support.2288202.n4.nabble.com/file/n4653159/meddra.png> 
> 
> But when I try to open it, I got 'alone' term in the classes list:
> 
> <http://ncbo-support.2288202.n4.nabble.com/file/n4653159/meddra1.png> 
> 
> BP classes tree display this term correctly: 
> 
> <http://ncbo-support.2288202.n4.nabble.com/file/n4653159/meddra2.png> 
> 
> Looks like some terms were parsed incorrectly or parser lost some links
> between them.. Could you please add some info how you fix it?
> 
> Best Regards,
> Vitaly
> 
> 
> 
> 
> --
> View this message in context: http://ncbo-support.2288202.n4.nabble.com/VA-Some-terms-aren-t-completely-parsed-tp4653159.html
> Sent from the NCBO Support mailing list archive at Nabble.com.
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