[Bioperl-l] XEMBL deprecation

Lincoln Stein lstein at cshl.edu
Fri Feb 16 08:55:47 EST 2007


Oh, looks like someone has inserted the warnings already. Good.

Lincoln

On 2/16/07, Lincoln Stein <lstein at cshl.edu> wrote:
>
> I like the idea of converting these over to use DBFetch's SOAP services.
> On the other hand, it isn't llikely that I'm going to have time to do this
> anytime soon.
>
> Probably the best thing to do is to issue a warning and return undef if
> someone tries to use othe XEMBL module. I'll make that change.
>
> Lincoln
>
> On 2/15/07, Chris Fields <cjfields at uiuc.edu> wrote:
> >
> > I have gone ahead and marked Bio::DB::XEMBL and Bio::DB::XEMBLService
> > both for deprecation in the wiki and in CVS (though I haven't set any
> > timeline):
> >
> > http://www.bioperl.org/wiki/Deprecated_modules
> >
> > The XEMBL web services are no longer available, and it looks like
> > everything is running through DBFetch now.  The XEMBL tests are
> > skipped if no server is detected, so they shouldn't cause any
> > problems with Bioperl installations.
> >
> > Lincoln, was there anything to salvage from these?  I noticed they
> > used SOAP::Lite, so maybe we could convert these over to a SOAP-based
> > interface to DBFetch web services?
> >
> > chris
> >
>
>
>
> --
> Lincoln D. Stein
> Cold Spring Harbor Laboratory
> 1 Bungtown Road
> Cold Spring Harbor, NY 11724
> (516) 367-8380 (voice)
> (516) 367-8389 (fax)
> FOR URGENT MESSAGES & SCHEDULING,
> PLEASE CONTACT MY ASSISTANT,
> SANDRA MICHELSEN, AT michelse at cshl.edu




-- 
Lincoln D. Stein
Cold Spring Harbor Laboratory
1 Bungtown Road
Cold Spring Harbor, NY 11724
(516) 367-8380 (voice)
(516) 367-8389 (fax)
FOR URGENT MESSAGES & SCHEDULING,
PLEASE CONTACT MY ASSISTANT,
SANDRA MICHELSEN, AT michelse at cshl.edu


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