[Bioperl-l] [Gmod-gbrowse] Planned New BioPerl release andBio::DB::SeqFeature

Chris Fields cjfields at uiuc.edu
Tue Aug 29 17:24:45 EDT 2006

Thanks, Lincoln.  I'll pass this along to Sendu (the release pumpkin for
this release).  Glad to see these added!





From: gmod-gbrowse-bounces at lists.sourceforge.net
[mailto:gmod-gbrowse-bounces at lists.sourceforge.net] On Behalf Of Lincoln
Sent: Tuesday, August 29, 2006 4:15 PM
To: Chris Fields
Cc: bioperl-l at lists.open-bio.org; gmod-gbrowse at lists.sourceforge.net
Subject: Re: [Gmod-gbrowse] Planned New BioPerl release


Hi Chris,

Bio::DB::SeqFeature::Store now has regression tests for the in-memory,
berkeleydb, and mysql adaptors. The tests don't cover as much of the modules
as I would wish, but they're not bad. I discovered several bugs and
inconsistencies while implementing the regression tests, and so I suppose
that this is a good sign.


On 8/14/06, Chris Fields <cjfields at uiuc.edu> wrote:

Scott, Lincoln, et al,

We are gearing up for another developer release (v. 1.5.2, with a target
date for RC1 by Sept 15th).  Sendu Bala is taking up the helm of Release
Pumpkin for this one.  We hope to continue points releases up to the next 
stable release (v1.6, which we would like to get out by summer 2007).

We had some questions about Bio::DB::SeqFeature (for GFF3 support).  Is the
current implementation sufficiently stable for this release?  We haven't 
heard much about it (besides the commit messages via Bioperl-guts) and
didn't know what test files and test cases were available.


Christopher Fields
Postdoctoral Researcher - Switzer Lab
Dept. of Biochemistry
University of Illinois Urbana-Champaign

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