[MOBY-dev] how to handle errors in a biomoby service?

[Oswaldo Trelles]

Dear all,

We sent a message (July 25) regarding error handling. I am not sure weather
the message is in your hands, thus I am re-sending it for discussion.

best regards

Oswaldo





--------------


----- Original Message ----- 
From: "Oswaldo Trelles" <ots at ac.uma.es>
To: "Eddie Kawas" <ed.kawas at gmail.com>
Sent: Monday, July 25, 2005 6:43 PM
Subject: Error handling proposal


> Eddie, could you please circulate this message and made the document
> available following your protocol?
> thanks in advance
> Oswaldo
>
> Please let me introduce myself. My name is Oswaldo Trelles and I work at
the
> Computer architecture Department of the University of Malaga, Spain (where
> all of you are invited and welcomed). Our group is in charge of the
> "Integrated Bioinformatics" aspects at the INB (National Institute of
> Bioinformatics). As David Gonzáles Pisano informed you at the Vancouver
> meeting we are developing an integrated platform to deploy general and
> specific services using BioMOBY as the underlying protocol.
>
> Thus we are quite concerned with BM specifications and we would like to
> contribute in the development, extension and improvements in the protocol.
> At this moment Roman has made a preliminary version and description of
> Theseu project available. Now we would like to put over the table the
error
> handling issue. We have prepared a document, which represent an extension
of
> our current implementation. This proposal was discussed during the
> INB-meeting here in Malaga (July 2005) and now is distributed as an open
> document for further discussion.
>
> Please feel free to comment.
>
> best regards, Oswaldo + GNV5 team + INB team


----- Original Message ----- 
From: "Martin Senger" <senger at ebi.ac.uk>
To: "Moby Developers" <moby-dev at biomoby.org>
Sent: Thursday, August 11, 2005 3:10 AM
Subject: [MOBY-dev] how to handle errors in a biomoby service?


> This question is meant primarily for Java-based biomoby services, but a
> suggestion from Perl people can help me as well.
>
> I wonder what are the general rules for handling errors in biomoby
> services. The API is silent about it, and the only thing I remember from
> the discussions is that if there is an error the service will return an
> empty output object (still, of course, wrapped in a biomoby XML
> envelope). Is this really the only way how to handle all kinds of
> errors?
>
> I understand that this behaviour is reasonable when my input data does not
> produce any result (wrong id, non-existing id, etc.). But should I use the
> same mechanism for things like:
>    * the input data does not come as String or base64 type,
>    * the input XML does not conform to the Biomoby API,
>    * my service cannot respond because of some limited internal resources,
>    * etc.
>
> Any advise how you deal with these situations will be appreciated, and I
> thank you very much.
>
>    With regards,
>    Martin
>
> PS. Of course, you noticed that in my main email body above I have not
> mentioned how dissapointing the Biomoby API is if it does not deal with
> error handling :-)
>
> M.
>
>
> -- 
> Martin Senger
>    email: martin.senger at gmail.com
>    skype: martinsenger
> International Rice Research Institute
> Biometrics and Bioinformatics Unit
> DAPO BOX 7777, Metro Manila
> Philippines, phone: +63-2-580-5600 (ext.2324)
>
> _______________________________________________
> MOBY-dev mailing list
> MOBY-dev at biomoby.org
> http://www.biomoby.org/mailman/listinfo/moby-dev
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