[MOBY-dev] question about the bioMoby python API

Fri Nov 26 14:57:35 UTC 2004

Hi

We've succeeded in using the biomoby python module to create an in house 
biomoby service. Now we have registered this service and all of the 
sudden it doesn't work anymore. Has anybody successfully done this?

As far as I can tell, ZSI does not parse the incoming xml correctly and 
does not execute the service. Upon parsing the xml (oh,I'm using 
http://mobycentral.cbr.nrc.ca/cgi-bin/gbrowse_moby):

##################################################
<?xml version="1.0" encoding="UTF-8"?>
  <SOAP-ENV:Envelope xmlns:xsi="http://www.w3.org/1999/XMLSchema-instance"
             xmlns:SOAP-ENC="http://schemas.xmlsoap.org/soap/encoding/"
             xmlns:SOAP-ENV="http://schemas.xmlsoap.org/soap/envelope/"
             xmlns:xsd="http://www.w3.org/1999/XMLSchema"

SOAP-ENV:encodingStyle="http://schemas.xmlsoap.org/soap/encoding/">
  <SOAP-ENV:Body>
  <namesp755:getWAtDBIdByPOAcc xmlns:namesp755="http://biomoby.org/">
  <body>
  <![CDATA[
              <?xml version='1.0' encoding='UTF-8'?><moby:MOBY 
xmlns:moby='http://www.biomoby.org/moby-s'>
              <moby:mobyContent><moby:mobyData queryID='23'>
                  <moby:Simple moby:articleName=''><Object 
namespace='PO_acc' id='431260'/>
                  </moby:Simple></moby:mobyData>
              </moby:mobyContent></moby:MOBY>

  ]]>
  </body>
  </namesp755:getWAtDBIdByPOAcc>
  </SOAP-ENV:Body>
  </SOAP-ENV:Envelope>
##################################################

I I try a local script calling this function I get :

##################################################
<?xml version="1.0" encoding="UTF-8"?>
  <SOAP-ENV:Envelope 
SOAP-ENV:encodingStyle="http://schemas.xmlsoap.org/soap/encoding/"       
               xmlns:SOAP-ENC="http://schemas.xmlsoap.org/soap/encoding/"
               xmlns:xsi="http://www.w3.org/1999/XMLSchema-instance"
               xmlns:SOAP-ENV="http://schemas.xmlsoap.org/soap/envelope/"
               xmlns:xsd="http://www.w3.org/1999/XMLSchema">
  <SOAP-ENV:Body>
  <ns1:getWAtDBIdByPOAcc xmlns:ns1="http://biomoby.org/" SOAP-ENC:root="1">
  <v1 xsi:type="xsd:string">&lt;moby:Object moby:namespace="PO_acc" 
moby:id="9054" moby:articleName="PO_query"/&gt;</v1>
  </ns1:getWAtDBIdByPOAcc>
  </SOAP-ENV:Body>
  </SOAP-ENV:Envelope>
##################################################

Which works fine. As far as I can see ZSI does not like the "<body>" tag 
in the upper xml. It barfs and tells me :
"Any cannot parse untyped element"

Does anybod have a clue why this is going wrong?

Cheers

Mark Fiers
Plant Research International
Wageningen
The Netherlands

>I am modifying the API in order to deal with the RDF files and solving
>some bugs:
>
>-Bug in the Dispatcher corrected (troubles with handling multiple
>queries simultaneously)
>added signatureURL and RDF for Registration process (in Service,
>ServiceList)
>-debug option when executing a service (trace of HTTP calls) in Central
>and Service Class
>     (allows you to have the dump of all your SOAP transaction with the
>webservice)
>
>if you want to trace a SOAP call while executing a service just put:
>     service.execute(mobyqueries, debug=True) 
>and you'll have the complete trace of the execution
>
>when you deal with the Moby Central Server:
>     client=Client(debug=True)
>to trace execution of your moby Query
>
>As Errare Humanum Est, feel free to notify me errors I missed :)
>
>I expect to release a corrected version in the end of next week.
>_______________________________________________
>MOBY-dev mailing list
>MOBY-dev at biomoby.org
>http://www.biomoby.org/mailman/listinfo/moby-dev
>
>  
>