[Bioperl-l] PPSEARCH, PRFSCAN, PRINTS

[Hilmar Lapp]

Just to make sure everyone knows and has had a chance to protest
or shout: These 3 parsers will certainly be removed from the
release, unless someone jumps in and revives them by tomorrow
(sorry, there's no test script and no sample output, I see no way
that I do that last minute).

If no-one pops up who would be willing to take a look at them,
they will also be removed from the development tree (timeline 3
weeks after release I suggest).

If you think this is not justified please say so.

	Hilmar

-------- Original Message --------
Subject: Re: [Bioperl-l] Bio::Root::Object cleanup
Date: Thu, 08 Feb 2001 17:11:04 +0000
From: Evgueni M Zdobnov <zdevg@ebi.ac.uk>
Organization: EMBL / EBI
To: Hilmar Lapp <hlapp@gmx.net>
References:
<Pine.GSO.4.05.10101301517520.6270-100000@helix.mc.duke.edu>
<3A77D220.1D20E5E1@gmx.net>

Hi Hilmar,

sorry for the silence. I was away.
the modules parse output of some protein signature recognition
programs and similar to Bio/Tools/HMMER/Parse.pm

unfortunately we are not using them now.

regards,
Evgeni

> Jason Stajich wrote:
> >
> > > Bio/Tools/PPSEARCH/Parse.pm
> > depends on old Bio::SeqFeatureSet which no longer exists, I'm not sure
> > what to do here
> > > Bio/Tools/PRFSCAN/Parse.pm
> > ditto
> > > Bio/Tools/PRINTS/Parse.pm
> > ditto
> 
> These modules are obviously not being maintained, nor are they
> functional, let alone test scripts. Does anyone know what the
> intended destiny for these modules is? The author seems to be
> Evgueni; is he still with EBI?
> 
> There was another module Tools::SeqWords which escaped my grep; I
> fixed it to inherit from RootI and fixed also a couple of other
> bugs there.
> 
>         Hilmar
> --
> -----------------------------------------------------------------
> Hilmar Lapp                                email: hlapp@gmx.net
> GNF, San Diego, Ca. 92122                  phone: +1 858 812 1757
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-- 
|                    Evgeni M Zdobnov                     |
|Email: zdevg@ebi.ac.uk		Phone: +44 (0)1223 494 442|
|European Bioinformatics Institute - EMBL Outstation      |