[MOBY-dev] gbrowse_moby and bioMoby Python webservices

Fri Dec 10 14:29:27 UTC 2004

Thank you very much!!!!!

It almost works. I had to make one small change (after some searching); 
The Body class you've written is identified by a getattr in the module 
in question. This does not work since the <body> tag send by 
gbrowse_moby is in lowercase. I've worked aroud this by changing 'class 
Body:' to 'class body:'.  (is it possible to define __getattr__() on 
module level??? That would be a nice way to circumvent this problem)

Concerning Mark's question if gbrowse_moby sends incorrectly formatted 
messages? The <body> tag is as far as I understand not a valid soap tag 
and apparantly also not part of bioMoby XML. So, I would say that it is 
still open for discussion, I'm not an expert on the subject.

Cheers
Mark

Yan Wong wrote:

>
> I've solved the problem and posted corrections to the CVS.
>
> See changelog for listed modifications.
>
> Here are the following steps to do to update your bioMoby Python 
> server API:
>
> In your bioMoby python package directory:
>
> -First update your ZSI library with the ZSI library provided by this 
> package:
> cd packages
> tar jxvf ZSI-1.5.0-patched-2
> cd ZSI-1.5.0-patched-2
> python setup.py install (with your fancy options if you have)
>
> -Update your bioMoby Python library
> python setup.py install  (with options)
>
> -Update your scripts by applying the rules:
> however, you'll have to change some things in your script:
>
> BEFORE:
>
> from ZSI import dispatch
> dispatch.AsCGI()
>
> NOW:
>
> from ZSI import dispatch
> from bioMoby.webservice import TCBioMoby
>
> dispatch.AsCGI(typesmodule=TCBioMoby)
>
> or with mod_python:
>
> dispatch.AsHandler(modules=myModule,), request=req, 
> typesmodule=TCBioMoby)
>
> TCBioMoby contains a class that serialize/deserialize the content 
> inside the tag Body  into a MobyContent Object.
>
> This will allow a Python webservice to deal with gbrowse_moby.
>
>
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>