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

[Oswaldo Trelles]

Hi Eddie,
OK I have posted again the message
regards, O.

----- Original Message ----- 
From: "Eddie Kawas" <edward.kawas at gmail.com>
To: "Core developer announcements" <moby-dev at portal.open-bio.org>
Cc: "Moby Developers" <moby-dev at biomoby.org>
Sent: Tuesday, August 16, 2005 3:26 AM
Subject: Re: [MOBY-dev] how to handle errors in a biomoby service?


> Hi Oswaldo,
>
> Do you think that you could repost it to the list?
>
> Thanks,
>
> Eddie
>
> On 8/11/05, Oswaldo Trelles <ots at ac.uma.es> wrote:
> > 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)
> > >
> > > _______________________________________________
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> > > MOBY-dev at biomoby.org
> > > http://www.biomoby.org/mailman/listinfo/moby-dev
> >
> >
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> >
> >
> >
> >
>
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