Paul and Tejas, (01)
Thanks very much for identifying and correcting these problems. I can now
Browse and start to Search in [1]. (02)
However, Search doesn't seem to return any results and the Status column of
Browse is always empty (while BioPortal [2] typically has an Explore link).
Does this mean that the ontologies failed to load, or is there some other
problem? (03)
Also, I notice that the Search page has populated boxes for "Most popular
searches" and "Recent searches" that probably weren't (successfully) performed
on this instance. They seem to be coming from BioPortal itself, i.e. if I
perform a search at [2], it shows up in the Recent searches list at [1] and its
results are shown under Matching Terms. (04)
Thanks! (05)
Mike (06)
[1] http://oor-01f.cim3.net (07)
[2] http://bioportal.bioontology.org (08)
On Jan 25, 2010, at 10:03 PM, Tejas Parikh wrote: (09)
> I will go ahead and update the code for BioPortal UI on OOR sandbox.
>
> --Tejas
>
>
>
> On Mon, Jan 25, 2010 at 8:45 PM, Paul R Alexander
> <palexander@xxxxxxxxxxxx> wrote:
>> Mike,
>>
>> This was a bug that had been fixed in the BioPortal UI trunk but not the
>> branch that OOR has deployed. I just merged the changes from the trunk to
>> the OOR branch and if the code is updated this should go away.
>>
>> Note: There are some config changes in the environment.rb file that will
>> need to be made for this update to work.
>>
>> Please let me know if you have any problems or questions.
>>
>> Paul
>>
>> On 1/24/10 9:04 AM, Mike Dean wrote:
>>
>> I'm often but erratically getting the error below when I browse specific
>> ontologies (i.e. click Browse and then the ontology name or abbreviation,
>> e.g. [1]) using the new sandbox.
>>
>> I originally thought this was consistently happening with several small
>> (less than 50K byte) ontologies/vocabularies I loaded on Friday, but it now
>> seems to happen (somewhat intermittently) with other ontologies as well.
>> Logging-in/out, restarting Safari, or switching to Firefox doesn't seem to
>> make a significant difference.
>>
>> Mike
>>
>> [1] http://oor-01f.cim3.net/ontologies/10018
>>
>> [2] http://oor-01f.cim3.net
>>
>>
>> ArgumentError in Ontologies#show
>>
>> Showing ontologies/show.html.erb where line #522 raised:
>>
>> undefined class/module OntologyMetricsWrapper
>> Extracted source (around line #522):
>>
>> 519: for the most recent version are reflected.
>> 520: <%= link_to "See metrics descriptions",
>> "http://www.bioontology.org/wiki/index.php/Ontology_Metrics"; %>
>> 521: </p>
>> 522: <% if @ontology.metrics.empty? %>
>> 523: <h2 style="padding-left: 1em;">We have not yet
>calculated metrics for
>> this ontology.</h2>
>> 524: <% else %>
>> 525: <table class="form">
>>
>> RAILS_ROOT: /usr/local/bioportal/bioportalui_oor
>>
>> Application Trace | Framework Trace | Full Trace
>> /usr/lib64/ruby/gems/1.8/gems/memcache-client-1.7.7/lib/memcache.rb:255:in
>> `load'
>> /usr/lib64/ruby/gems/1.8/gems/memcache-client-1.7.7/lib/memcache.rb:255:in
>> `get'
>> /usr/lib64/ruby/gems/1.8/gems/memcache-client-1.7.7/lib/memcache.rb:878:in
>> `with_server'
>> /usr/lib64/ruby/gems/1.8/gems/memcache-client-1.7.7/lib/memcache.rb:251:in
>> `get'
>> app/models/data_access.rb:168:in `getOntologyMetrics'
>> app/models/ontology_wrapper.rb:160:in `metrics'
>> app/views/ontologies/show.html.erb:522:in
>> `_run_erb_47app47views47ontologies47show46html46erb'
>> app/controllers/ontologies_controller.rb:66:in `show'
>> /usr/bin/mongrel_rails:19:in `load'
>> /usr/bin/mongrel_rails:19
>>
>> Request
>>
>> Parameters:
>>
>> {"id"=>"10018"}
>> Show session dump
>>
>> Response
>>
>> Headers:
>>
>> {"cookie"=>[],
>> "Cache-Control"=>"no-cache"}
>>
>>
>> _________________________________________________________________
>> Message Archives: http://ontolog.cim3.net/forum/oor-dev/
>> Config/Unsubscribe: http://ontolog.cim3.net/mailman/listinfo/oor-dev/
>> Shared Files: http://ontolog.cim3.net/file/work/OOR/dev/
>> Wiki: http://ontolog.cim3.net/cgi-bin/wiki.pl?OpenOntologyRepository
>>
>>
>> _________________________________________________________________
>> Message Archives: http://ontolog.cim3.net/forum/oor-dev/
>> Config/Unsubscribe: http://ontolog.cim3.net/mailman/listinfo/oor-dev/
>> Shared Files: http://ontolog.cim3.net/file/work/OOR/dev/
>> Wiki: http://ontolog.cim3.net/cgi-bin/wiki.pl?OpenOntologyRepository
>>
>>
>
> _________________________________________________________________
> Message Archives: http://ontolog.cim3.net/forum/oor-dev/
> Config/Unsubscribe: http://ontolog.cim3.net/mailman/listinfo/oor-dev/
> Shared Files: http://ontolog.cim3.net/file/work/OOR/dev/
> Wiki: http://ontolog.cim3.net/cgi-bin/wiki.pl?OpenOntologyRepository (010)
smime.p7s
Description: S/MIME cryptographic signature
_________________________________________________________________
Message Archives: http://ontolog.cim3.net/forum/oor-dev/
Config/Unsubscribe: http://ontolog.cim3.net/mailman/listinfo/oor-dev/
Shared Files: http://ontolog.cim3.net/file/work/OOR/dev/
Wiki: http://ontolog.cim3.net/cgi-bin/wiki.pl?OpenOntologyRepository (01)
|