[Bioperl-l] Re: [Bioperl-guts-l] Notification: incoming/1193

[James D. White]

The CVS version does have the problem fixed.  Thanks.

Jim White

Jason Stajich wrote:

> James - I think I have already fixed this bug in the CVS version of the
> code - are you able to check out the code from the repository?  I will
> double check nonetheless.
>
> I hope to have a 1.01 candidate ready for download in the next 2 weeks
> which should contain the fix in the event you cannot access the src code
> via CVS.
>
> -jason
>
> On Wed, 22 May 2002 bioperl-bugs@bioperl.org wrote:
>
> > JitterBug notification
> >
> > new message incoming/1193
> >
> > Message summary for PR#1193
> >       From: jdwhite@ou.edu
> >       Subject: SearchIO does not return full hit description
> >       Date: Wed, 22 May 2002 16:02:26 -0400
> >       0 replies       0 followups
> >
> > ====> ORIGINAL MESSAGE FOLLOWS <====
> >
> > >From jdwhite@ou.edu Wed May 22 16:02:26 2002
> > Received: from localhost (localhost [127.0.0.1])
> >       by pw600a.bioperl.org (8.12.2/8.12.2) with ESMTP id g4MK2Qdo024517
> >       for <bioperl-bugs@pw600a.bioperl.org>; Wed, 22 May 2002 16:02:26 -0400
> > Date: Wed, 22 May 2002 16:02:26 -0400
> > Message-Id: <200205222002.g4MK2Qdo024517@pw600a.bioperl.org>
> > From: jdwhite@ou.edu
> > To: bioperl-bugs@bioperl.org
> > Subject: SearchIO does not return full hit description
> >
> > Full_Name: James D. White
> > Module: Bio::SearchIO
> > Version: 1.0
> > PerlVer: 5.6.1
> > OS: Solaris 8
> > Submission from: dna2.chem.ou.edu (129.15.12.34)
> >
> >
> > When using Bio::SearchIO to parse blastall 2.2.2
> > reports, the description() method for
> > Bio::Search::Hit::HitI objects returns only the
> > first line of a multi-line hit description.
> > I have tried parsing results of both BLASTN and
> > BLASTX reports.  They both have the same problem.
> > Bio::Tools::Blast returns the full description,
> > but Bio::SearchIO does not.
> >
> >
> > _______________________________________________
> > Bioperl-guts-l mailing list
> > Bioperl-guts-l@bioperl.org
> > http://bioperl.org/mailman/listinfo/bioperl-guts-l
> >
>
> --
> Jason Stajich
> Duke University
> jason at cgt.mc.duke.edu

--

James D. White   (jdwhite@ou.edu)
Department of Chemistry and Biochemistry
University of Oklahoma
620 Parrington Oval, Room 313
Norman, OK 73019-3051
Phone: (405) 325-4912, FAX: (405) 325-7762