[MOBY-l] thank you and more question

[yuying at vbi.vt.edu]

Hi moby-members:

Thank you all for youe reply. That was very helpful. I read about the
Class Ontology and Object Structure. Now I have two questions:

1. Why some classes such as ABI_Encoded, alignment, and
SimpleAnnotatedJPEGImage, are in the Ontology document on-line, but not in
the Dashboard DataType tree? Why Object itself is not in the Object
Ontology list?

2. Do I need to register every panel (namespace, service type, datatype,
service) when I want to register a service? If I can leave the namespace
blank, do I have to use the namespace register panel? How do I find about
the article name?

3. My situation is that I am working on my local computer (Linux) and I
will deploy on a remote server. What is different between service endpoint
and RDF endpoint?

Yuying


On Thu, September 14, 2006 7:13 am, Dirk Haase wrote:
> Hi Yuying,
>
>
> On Wednesday 13 September 2006 18:19, yuying at vbi.vt.edu wrote:
>
>> Hi:
>>
>>
>> I am new to the BioMoby project.
>>
>
> Welcome to the club!
>
>
>> I am trying to set up everything on my
>> local computer and I am trying to do a testing for an Echo web service.
>> I
>> am following the guide for Java from biomoby.tigr.org. And my current
>> step is to register this testing service using Dashboard. The Dashboard
>> documentation did not tell me how to find out the namespace, service
>> type, data types and necessary fields for registering the service.
>
> Generally speaking, these are the things which are specific for each new
> service, so it's hard for a general guide to help you there...  All these
> things have to be fixed at the very beginning, it only makes sense to
> register a service when you are sure about its 'signature' (ie. input and
>  output datatypes/namespaces/service type). In order to get an idea of
> these concepts which are very basic for the whole biomoby thing, I would
> recommend the general documentation on biomoby.org->'For Developers'. Data
> types:
> http://biomoby.open-bio.org/CVS_CONTENT/moby-live/Docs/MOBY-S_API/DataClas
> sOntology.html Namespaces:
> http://biomoby.open-bio.org/CVS_CONTENT/moby-live/Docs/MOBY-S_API/ObjectSt
> ructure.html Service types are not very well described, but the ones which
> already exist have quite speaking names, just browse the hierarchy and
> select whatever fits best.
>
> For the special case of an Echo service we can of course offer you
> advice. To be a real echo, it should be able to deal with any sort of
> object, so it would be wrong to rely on any 'special feature' of an input.
> Thus, the input
> data type has to be just 'Object'. Same for the output, otherwise it's not
> an echo ;-) You also wouldn't want to restrict the service to objects of a
>  specific namespace, so leave it blank. Consequently, the output
> namespace is also not specifyable (ie. blank). Regarding the service type
> 'Testing' is the
> best choice as you guessed correctly.
>
>> My guess is
>> that the service type is testing. Could anyone tell me how to find such
>> information? And if I want to use RDF, how to find out the signature
>> URL?
>>
>
> The signature URL can not be 'found out', you have to specify it.
> Remember
> that it must be a link to a place where a) it can be accessed from
> everywhere (i.e. on your publicly accessible webserver) b) you have write
> permissions, because you have to put the RDF document to the place which
> is referenced by the signature URL
>
> You might also have a look at
> http://bioinfo.mpiz-koeln.mpg.de/araws/documentation/help/rdf-faq/
> which answers the most important question concerning RDF. The parent
> folder contains more documentary stuff which could also be helpful.
>
>> Thank you!
>>
>
> Hope this helps,
> dirk
>
> --
>
>
> ----------------------------------------------------------
> Dirk Haase		            phone +49 89 3187 3583
> http://mips.gsf.de/~haase           email   d.haase at gsf.de
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