[MOBY-dev] encodeException question....

[Frank Gibbons]

Thanks for the feedback, Björn. And of course, I should have credited you 
with the Exception coding in CommonSubs. I'll fix the documentation, and 
let you know whether I encounter success or failure ;-)

Thanks again.
-Frank

At 12:23 PM 7/21/2006, you wrote:
>Hi Frank,
>
>as far as I am concerned just fix my documentation bug.
>
>The reason I incorporated these (methods not the bug) into CommonSubs is
>that there was no solution available and when I asked in the beginning
>of the year if somebody was working on it, nobody replied.
>
>I personally think the INB solution is cleaner and also contains all the
>error codes etc., but by then I already had the code checked in. As far
>as I know their code is not yet checked in.
>
>I think also in the OO Perl approach there seems to be some code. So
>there will be many ways for the same goal.
>
>
>Oh also if you use the CommonSubs methods please report if it actually
>proves useful.
>
>Cheers,
>Björn
>
>Frank Gibbons wrote:
> >    Hi,
> >    Been away from MOBY for a while, now I'm back, and I see that everyone's
> >    been  very  busy  ;-)  Major kudos to Mark/Pieter on his work encoding
> >    Exceptions in the Perl API, as well as cleaning up the 
> message-parsing into
> >    an object-oriented form. So much cleaner now than in the past!
> >    I  notice  also  that  the  INB  group posted to the mailing list some
> >    nice-looking code to encode all the work in the RFC from last year, 
> but I
> >    didn't see it make it into the actual code base. Am I right? It too 
> looked
> >    pretty clean, seems like it'd make a good addition to the codebase.
> >    Regarding the docs for CommonSubs::encodeExceptions, it seems to me 
> that the
> >    first two arguments are confused:
> >    usage:
> >   encodeException(
> >
> > -refElement => 'refers to the queryID of the offending input
> > mobyData',
> >
> > -refQueryID => 'refers to the articleName of the offending input
> > Simple or Collection'
> >
> >    <snip-snip>
> >    Surely, 'refQueryID' should contain the queryID, and not refElement, 
> while
> >    refElement should contain the articleName. I can fix it, just wanted to
> >    check, since I've been away for a while.
> >    -Frank
> >
> >    PhD, Computational Biologist,
> >    Harvard Medical School BCMP/SGM-322, 250 Longwood Ave, Boston MA 
> 02115, USA.
> >    Tel: 617-432-3555       Fax:
> >    617-432-3557       [1]http://llama.med.harvard.edu/~fgibbons
> >
> > References
> >
> >    1. http://llama.med.harvard.edu/~fgibbons
> > _______________________________________________
> > MOBY-dev mailing list
> > MOBY-dev at lists.open-bio.org
> > http://lists.open-bio.org/mailman/listinfo/moby-dev
>
>--
>-+-+-+-+-+-+-+-+-+-+-+-
>Björn Usadel, PhD
>
>Max Planck Institute of Molecular Plant Physiology
>System Regulation Group
>
>Am Mühlenberg 1
>D-14476 Golm
>Germany
>
>Tel    (+49 331) 567-8114
>
>Email  usadel at mpimp-golm.mpg.de
>WWW    mapman.mpimp-golm.mpg.de
>_______________________________________________
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PhD, Computational Biologist,
Harvard Medical School BCMP/SGM-322, 250 Longwood Ave, Boston MA 02115, USA.
Tel: 617-432-3555       Fax: 
617-432-3557       http://llama.med.harvard.edu/~fgibbons