Ken, (01)
> [KenB] Ideally, an email should be sent to the person who submitted the
> ontology. Presumably, the ontology should then be put in an appropriate state. (02)
[ppy] true, but at the moment, re-initiating "parsing ontology" is
still an admin task - ref.
http://ontolog.cim3.net/forum/oor-users/2010-12/msg00003.html (03)
> [KenB] In general, a workflow manager should handle this. (04)
[ppy] yes, that would be perfect! (05)
Regards. =ppy
-- (06)
On Sun, Feb 6, 2011 at 9:33 AM, kenb <kenb@xxxxxxxxxxx> wrote:
> See my comments below.
>
> On Sat, 5 Feb 2011, Peter Yim wrote:
>
>> Tejas (& All),
>>
>>
>> 1. Thanks, the OOR-sandbox is working now (as reported earlier).
>>
>> 2. However, I just tried an admin login (pointing my browser to:
>> http://oor-01.cim3.net:8080/bioportal_admin/welcome.jsf ) and got a
>> HTTP 404 error.
>>
>> 2a. Can you fix that too, please.
>> 2b. ... Clues, anyone?
>>
>> 3. When you can get in, can you restart the parsing the the ontologies
>> that were being parsed previously, please, also?
>> which include ... (sorted):
>> //
>> 1021 - COSMO875 (COSMO)
>> 1029 - Gene Ontology (GO)
>> 1036 - Chemical entities of biological interest (CHEBI)
>> 1038 - Human disease (DOID)
>> 1042 - Mouse gross anatomy and development (EMAP)
>> 1043 - Environment Ontology (ENVO)
>> 1048 - Drosophila gross anatomy (FBbt)
>> 1050 - Fly taxonomy (FBsp)
>> 1059 - Human developmental anatomy, timed version (EHDA)
>> 1060 - human phenotype ontology (HP)
>> 1068 - Medaka fish anatomy and development (MFO)
>> 1072 - Mosquito gross anatomy (TGMA)
>> 1073 - Mosquito insecticide resistance (MIRO)
>> 1087 - PRotein Ontology (PRO)
>> 1096 - Sequence types and features (SO)
>> 1100 - Teleost anatomy and development (TAO)
>> 1101 - Teleost taxonomy (TTO)
>> 1108 - Units of measurement (UO)
>> 1114 - Units of measurement (ZFA)
>> //
>>
>> 3a. we might want to remove those who are showing a "parsing error"
>> too ... but hold that for later (in case someone can step up and
>> suggest something else we can do to them.) ... thoughts, anyone?
>
> Ideally, an email should be sent to the person who submitted the ontology.
> Presumably, the ontology should then be put in an appropriate state.
>
> In general, a workflow manager should handle this.
>
> -- Ken
>
>>
>> Thanks & regards. =ppy
>> --
>>
>>
>> On Sat, Feb 5, 2011 at 11:56 AM, Tejas Parikh <tejas@xxxxxxxxxxxxxxx>
>> wrote:
>>>
>>> I have restarted all services. It seems like tomcat keeps crashing. I
>>> need
>>> to look at the logs to find out what's causing the crash.
>>>
>>> --Tejas
>>
>>
>>> On Fri, Feb 4, 2011 at 8:37 AM, Peter Yim <peter.yim@xxxxxxxx> wrote:
>>>>
>>>> Tejas,
>>>>
>>>> I just checked, and the OOR-sandbox seems to be down again
>>>> - returning a "NoMethodError in HomeController#index"
>>>> (undefined method `io' for #<Timeout::Error: execution expired>)
>>>>
>>>> Kindly re-start ... but more importantly, can we figure out why it is
>>>> crashing so much lately? ... Paul, maybe?
>>>>
>>>> Thanks in advance. =ppy
>>>> --
>>
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>
>
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> (07)
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