[Bioperl-l] Blast stuff

[Lincoln Stein]

On Monday 02 December 2002 01:37 pm, Ewan Birney wrote:
> bioperl-run:
>
> Ok, having looked at some of the other options, I reckon the simplest is
> the one lincoln suggested and backed up by Hilmar -
> Bio::Tools::RemoteBlast gets transfered back to core. Any one vote
> otherwise?
>
>
>   Elia/Catherine - what are your plans for bioperl-run - can one of you
> take charge of regression testing against the slowly solidyfying core and
> make a branch and tar file when the time comes.
>
>
>   [Hilmar - ditto for bioperl-db - are you ok to do this?]
>
>
> Bio::Tools::Blast.pm
>
>   I want to kill this - it has lots of confusing documentation; it is big;
> I think Bio::SearchIO is the way forward and is stable enough to take it
> on; I will bug fix Bio::SearchIO on spec for the 1.2 series (phew!). So...
> can we remove it and put in a warning in a BEGIN block saying - it has
> died, please try out Bio::SearchIO.
>
>
>   SteveC and Jason - what are your votes here.

Nat Goodman will second this one.

> ..1.2 marches on...
>
>
> (BTW - tests pass and I have latest ExtUtils to try to find the Makefile
> fix...)

I'm afraid there's still a problem with Bio::DB::GenBank on Windows systems.  
Hopefully I'll get this squashed soon.

Lincoln


>
>
>
> ewan
>
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-- 
Lincoln Stein
lstein@cshl.org