[kepler-users] Using NCBI Entrez web services

[Jianwu Wang]

Hi Panickos,

    Which Kepler version are you using? This actor is not in Kepler 1.0, 
only in Kepler trunk. The java class for this actor is 
org.kepler.actor.rest.RESTService (its url at kepler-trunk is 
https://code.kepler-project.org/code/kepler/trunk/modules/actors/src/org/kepler/actor/rest/RESTService.java), 
you can try to use 'initiate the component' item to initiate the actor. 
If you still can not get it, please update your Kepler.

Best wishes

Sincerely yours

Jianwu Wang
jianwu at sdsc.edu
http://users.sdsc.edu/~jianwu/

Scientific Workflow Automation Technologies (SWAT) Laboratory
San Diego Supercomputer Center 
University of California, San Diego
San Diego, CA, U.S.A. 



Panickos Neophytou wrote:
> Hi Jianwu,
>
> I searched for this but couldn't find something relevant. Maybe I'm
> looking at the wrong place or just skipped it... Can you tell me the
> exact name of the Actor I should be looking for?
>
> Thanks,
> Panickos
>
> On Sun, Sep 13, 2009 at 11:42 PM, Jianwu Wang <jianwu at sdsc.edu> wrote:
>   
>> Hi Panickos,
>>
>>     There is a RESTful Service actor in Kepler trunk. You should be able to
>> find it by searching 'Service'.
>>
>> Best wishes
>>
>> Sincerely yours
>>
>> Jianwu Wang
>> jianwu at sdsc.edu
>> http://users.sdsc.edu/~jianwu/
>>
>> Scientific Workflow Automation Technologies (SWAT) Laboratory
>> San Diego Supercomputer Center
>> University of California, San Diego
>> San Diego, CA, U.S.A.
>>
>> Panickos Neophytou wrote:
>>
>> Thanks Daniel,
>>
>> I was wondering if there's any way to use the REST method, using just
>> the URL with some query parameters. Is there an actor for doing this?
>> And maybe have the query part of the URL be generated somehow by the
>> upstream actors of the workflow...
>>
>> If this is not possible, then how long do you think it is going to
>> take to fix the Web Service Actor? Should I pause this and wait for
>> your update or should I try something different?
>>
>> Cheers,
>> Panickos
>>
>> On Sat, Sep 12, 2009 at 9:42 PM, Daniel Crawl <crawl at sdsc.edu> wrote:
>>
>>
>> Hi Panickos,
>>
>> I'm in the process of updating the web service actor to
>> work with the NCBI web services. I'll let you know when
>> I'm done.
>>
>>  --dan
>>
>>
>>
>> Panickos Neophytou wrote:
>>
>>
>> Hi,
>>
>> I'm new to kepler and I was wondering if anyone has a sample workflow
>> using eSearch and eFetch for some any of their databases. I tried a
>> few thing and I also didn't find anything on the web about this.
>>
>> Thanks,
>> Panickos
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