[Bioperl-l] starting out with Boulder

[Jason Stajich]

On Tue, 20 Aug 2002, Ewan Birney wrote:

> On Tue, 20 Aug 2002, Jason Stajich wrote:
>
> > This is very old documentation, I guess I will try and carve out time for
> > updating this at some point.
>

SteveC and I have discussed rewriting all of the example scripts to use
SearchIO and building a migration path tutorial for people using
Tools::Blast or BPlite who want to use SearchIO.  This is a definite on
my list for things that need to be done for the 1.2 release.



> We can/should make this a 1.2 showstopper (ie, all mentions of
> Bio::Tools::Blast over to Bio::SearchIO). I think we are experiencing a
> "nice" shakedown of Bio::SearchIO by people finding bugs/cornor cases, and
> by 1.2 it will be closer to taking on the brunt of people's parsing.
>
>
>
> But for the moment the 1.0 series is the stable series, and there one does
> have a choice of three BLAST parsers, with (in my view) BPlite currently
> the stablest and most robust.
>
>
> There is where we should point users with the caveat that we think
> Bio::SearchIO is the way of the future.
>
>
>
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-- 
Jason Stajich
Duke University
jason at cgt.mc.duke.edu