Search Mailing List Archives


Limit search to: Subject & Body Subject Author
Sort by: Reverse Sort
Limit to: All This Week Last Week This Month Last Month
Select Date Range     through    

[bioontology-support] Help with expression (cutoff)

Rob Wynden rob.wynden at ucsf.edu
Wed May 9 10:06:23 PDT 2012


We are supposed to engage Allen by Friday of this week.

Rob



On 5/9/12 10:02 AM, Trish Whetzel wrote:
> Thanks for the additional information. I didn't realize these values
> need to be curated. To help prioritize the issue, is this a blocker
> for your work and when will you be working with Barry to review this
> values?
>
> Trish 
>
>
> On May 9, 2012, at 9:53 AM, Rob Wynden wrote:
>
>> 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
>>>
>>>
>
>
-------------- next part --------------
An HTML attachment was scrubbed...
URL: <http://mailman.stanford.edu/pipermail/bioontology-support/attachments/20120509/42f3ceff/attachment.html>


More information about the bioontology-support mailing list