[MOBY-l] thank you and more question

[Edward Kawas]

Hi,

> 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?
They should be ... Especially Object, since it is the root of the ontology!

> 
> 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?

To register a service, you only need the register service instance panel, unless
you would like to introduce a new namespace/service type/datatype.
The article name is the name that you give the datatype when you register your
service. For instance, if I register a service that consumes a DNASequence, I
might give it an articlename of 'sequence'. The name is entirely up to you when
you register the service.

> 
> 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?
> 
The rdf endpoint is the url that if I use a browser and point to the url, I can
view the full description of the service. The service endpoint is the url that a
client calls with the appropriate parameters to invoke your service.


Eddie

> 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/Data
> > Clas
> > sOntology.html Namespaces:
> > 
> http://biomoby.open-bio.org/CVS_CONTENT/moby-live/Docs/MOBY-S_API/Obje
> > ctSt 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
> > _______________________________________________
> > moby-l mailing list moby-l at lists.open-bio.org 
> > http://lists.open-bio.org/mailman/listinfo/moby-l
> >
> >
> 
> 
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