[MOBY] [MOBY-l] Services on MOBYClient

[Simon Twigger]

Hi Mark,

I think registration was partly to blame. However, even once it did  
appear it didnt actually work - the result screen would come back empty  
- it didnt say 'Nothing found' it just had no result listed but it knew  
the result was a string because it listed services that could be used  
in subsequent steps. Perhaps a Client issue? I managed to get it  
working by looking at the response XML from working services and  
copying them.

I'm currently registering it as consuming Objects and returning strings  
and that seemed to make it appear on the Client. To make it actually  
work properly I seemed to have to take out all the 'moby:' prefixes on  
the XML, now it seems to run in the client and the cross references  
come up as expected and link to the right places. try using 'A2m' as a  
search.

Now I have it working I'll clean it up, register it as taking in  
Global_Keyword and add in some more content to the cross references.  
I'll also look into the moby: tag issue to see if that was really the  
problem or just my imagination.

Simon.



On Monday, Dec 8, 2003, at 11:57 America/Chicago, Mark Wilkinson wrote:

> What was your registration code/XML - your service is registered as
> consuming "Object" rather than "Global_Keyword"... probably why you
> can't discover it in your search.
>
> M
>
>
> On Fri, 2003-12-05 at 13:47, Simon Twigger wrote:
>> Hi there,
>>
>> I've been using Ken's MobyEd examples to get a service up and
>> running(the docs were very useful, thanks) and all seems to be well.
>> It takesa Global_Keyword and looks at the list of genes in RGD and if
>> thatgene is in RGD returns a String containing the official symbol
>> andcross reference data (currently only PMIDs). This is a
>> marginallyuseful service that Im using as a test case.
>>
>> Sample output for comments/vetting. I ran a query using 'Atp1a1',
>> theservice ('keywordToGene') returned the following
>>
>> <?xml version='1.0'encoding='UTF-8'?>
>> <moby:MOBYxmlns:moby='http://www.biomoby.org/moby'>
>>         <moby:Responsemoby:authority='http://www.illuminae.com'>
>>         <moby:queryResponse>
>>             <Simple>
>>         <moby:String moby:namespace="RGD"
>> moby:id="Atp1a1"moby:articleName="geneSymbol">
>>         Atp1a1
>>         </moby:String>
>>         <CrossReference>
>>                 <Object moby:namespace="PMID" moby:id="1363813"/>
>>        <Object moby:namespace="PMID" moby:id="8040284"/>
>>         </CrossReference>
>>             </Simple>
>>         </moby:queryResponse>
>>     </moby:Response>
>> </moby:MOBY>
>>
>>
>> I can register the service and it appears on Ken's
>> list_services.cgi,however, it doesnt seem to appear on the MOBYClient
>> when I selectGlobal_Keyword as an input. I was wondering if the Client
>> is either(a) still looking live at services on MOBY-Central and my
>> serviceregistration isnt working as it should, or (b) new services
>> dontappear by default (not a bad idea given how crowded things get
>> aspeople test things) and so it will not appear simply by registering
>> atMOBY-Central.
>>
>> Does anyone have any suggestions?
>>
>> Cheers,
>>
>> Simon.
>>
>> ---------------------------------------------------------------------- 
>> ----------------------------
>> Simon Twigger, Ph.D.
>> Assistant Professor, Bioinformatics Research Center
>>
>> Medical College of Wisconsin
>> 8701 Watertown Plank Road,
>> Milwaukee, WI, 53226
>> tel. 414-456-8802, fax 414-456-6595
>>
>> ______________________________________________________________________
>> _______________________________________________
>> moby-l mailing list
>> moby-l at biomoby.org
>> http://biomoby.org/mailman/listinfo/moby-l
> -- 
> Mark Wilkinson <markw at illuminae.com>
> Illuminae
>
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>
------------------------------------------------------------------------ 
--------------------------
Simon Twigger, Ph.D.
Assistant Professor, Bioinformatics Research Center

Medical College of Wisconsin
8701 Watertown Plank Road,
Milwaukee, WI, 53226
tel. 414-456-8802, fax 414-456-6595