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[bioontology-support] Help with expression (cutoff)

Rob Wynden rob.wynden at ucsf.edu
Wed May 9 09:53:02 PDT 2012


Hi,

Well we can't curate HOM Bool expressions on BioPortal if folks can't
read them.  We are about to start working in with Barry Smith's team. 
This could hold up the train.

Rob



On 5/9/12 9:50 AM, Trish Whetzel wrote:
> Hi Rob and Ketty, 
>
> It looks like there is an issue rendering the expression in the Web
> interface since the "Get Term" web service call returns the expression
> [1] and also calling the "Get Term" web service from Excel GoogleDocs
> also returns the expression. I'll submit a bug report related to the
> rendering issue. Can you confirm this using this ontology is working
> properly in your application?
>
> Trish 
>
> [1] http://rest.bioontology.org/bioportal/concepts/47403?conceptid=MM_CLASS_101&apikey=
> <http://rest.bioontology.org/bioportal/concepts/47403?conceptid=MM_CLASS_101&apikey=>YourAPIKey
>
>
> On May 9, 2012, at 9:22 AM, Rob Wynden wrote:
>
>> I think that we may be triggering an escape character on the page. 
>> Is that correct?
>> Rob
>>
>>
>> On 5/9/12 8:57 AM, Mobed, Ketty wrote:
>>> Hi Trish,
>>>
>>> here is a problem that I have run into. I have attached the Protege
>>> generated .owl file for HOM-ORTHO (BP ID# 1697). When you open up
>>> the Protege owl file and click on the left to open OrthoSurgery ->
>>> Diagnoses -> Comorbidities -> Anemia, then on the right hand side
>>> the expression for HOM-BOOL1 reads (I9CM>I9CM.2799 AND
>>> I9CM<I9CM.2860), and this is correct. Now when I upload the
>>> HOM-ORTHO.owl file to BP, then when you expand the ontology to
>>> Anemia you see that Hom Bool1 was cut-off and only reads
>>> (I9CM>I9CM.2799 AND I9CM  .
>>>
>>> Why is this? This is the SQLite syntax that we need to process our
>>> HOM translator. Any help will be appreciated.
>>>
>>> Thanks,
>>> Ketty
>>>
>>> 'It's the little things that matter'
>>>
>>> Ketty Mobed, PhD
>>> UCSF-IHPS-Informatics Lab
>>> ketty.mobed at ucsf.edu
>>> 415-352-8815
>
>
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