[MOBY-l] Local BioMOBY Central - Ontology test fails

[Mark Wilkinson]

Hi Karthik,

I don't think you will be able to test the OntologyServer at mobycentral  
independently of all other calls going to mobycentral also, so if you have  
only changed the MOBY_ONTOLOGYSERVER environment variable, leaving the  
other ones at localhost, you will expect at least some of the errors you  
report below.

M



On Sun, 11 Feb 2007 16:33:10 -0800, Rajasekar Karthik  
<karthik085 at gmail.com> wrote:

> Hi Mark,
>
> I do have all the environment variables as suggested. Still, the same
> results. :-(
> I tested against the default  
> http://mobycentral.icapture.ubc.ca/cgi-bin/On
> tologyServer.cgi and 4 testcases fail:
>
> ok 1 - use MOBY::Client::OntologyServer;
> ok 2 - MOBY::Client::OntologyServer->can(...)
> ok 3
> ok 4
> ok 5
> ok 6
> ok 7
> not ok 8 # TODO How come I cant' set proxy back to its original value?
> #   Failed (TODO) test at t/Client-OntologyServer.t line 101.
> #          got: 'bar'
> #     expected: undef
> # Couldn't return proxy to previous value
> not ok 9
> #   Failed test at t/Client-OntologyServer.t line 111.
> #          got: '0'
> #     expected: '1'
> # Namespace 'Rub1' reported erroneously as non-existent.
> not ok 10
> #   Failed test at t/Client-OntologyServer.t line 111.
> #          got: '0'
> #     expected: '1'
> # Namespace 'Rub2' reported erroneously as non-existent.
> ok 11
> ok 12
> ok 13
> ok 14
> ok 15
> not ok 16
> #   Failed test at t/Client-OntologyServer.t line 127.
> #          got: '0'
> #     expected: '1'
> # Service type 'Rub1' reported erroneously as non-existent.
> not ok 17
> #   Failed test at t/Client-OntologyServer.t line 127.
> #          got: '0'
> #     expected: '1'
> # Service type 'Rub2' reported erroneously as non-existent.
> ok 18 - MOBY::Client::OntologyServer->can('relationshipExists')
> ok 19
> ok 20
> ok 21
> ok 22
> ok 23
> ok 24
> ok 25
> ok 26
> ok 27
> 1..27
> # Looks like you failed 4 tests of 27.
>
>
> On 2/11/07, Mark Wilkinson <markw at illuminae.com> wrote:
>>
>> Hi Karthik,
>>
>> Make sure that you have all three environment variables set:
>>
>> MOBY_SERVER=http://localhost/path/to/MOBY-Central.pl
>> MOBY_URI=http://localhost/MOBY/Central
>> MOBY_ONTOLOGYSERVER=http://localhost/path/to/OntologyServer.cgi
>>
>> That should solve your problems... I hope :-)
>>
>> M
>>
>>
>>
>>
>> On Sun, 11 Feb 2007 14:18:25 -0800, Rajasekar Karthik
>> <karthik085 at gmail.com> wrote:
>>
>> > Hi,
>> >
>> > I am setting up a local biomoby central. I am following this document:
>> >
>> http://biomoby.open-bio.org/CVS_CONTENT/moby-live/Docs/MOBY-S_API/InstallingLocalMOBYCentral.html
>> >
>> > 1. When I do, make test - all test cases passes for all the files,
>> except
>> > for Client-OntologyServer.t. I attached my test results for all('make
>> > test')
>> > and for Client-OntologyServer.t('perl t/Client-OntologyServer.t')  
>> along
>> > this
>> > mail. Here is just the summary:
>> >
>> > Failed Test               Stat Wstat Total Fail  List of Failed
>> >
>> -------------------------------------------------------------------------------
>> > t/Client-OntologyServer.t   13  3328    27   13  9-17 19-22
>> > 1 test skipped.
>> > Failed 1/13 test scripts. 13/381 subtests failed.
>> > Files=13, Tests=381, 79 wallclock secs ( 7.82 cusr +  0.70 csys =   
>> 8.52
>> > CPU)
>> > Failed 1/13 test programs. 13/381 subtests failed.
>> > make: *** [test_dynamic] Error 255
>> >
>> >
>> > 2. t/Config file is being skipped for testing. It says:
>> > all skipped: Required only when you have your own local MOBY Central
>> > How do I test t/Config?
>> >
>> > Any help would be appreciated.
>> >
>>
>>
>>
>> --
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>>
>
>
>



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