[Bioperl-l] Withdraw Bio::Graphics and Bio::DB::SeqFeature from bioperl distribution?

[Lincoln Stein]

Actually, it was while I was fixing these (and other) file overlap problems
that I became concerned about the difficulty in updating bioperl.

Lincoln

On Mon, Nov 10, 2008 at 8:19 PM, Charles Plessy <
charles-listes+bioperl at plessy.org <charles-listes%2Bbioperl at plessy.org>>wrote:

> Le Mon, Nov 10, 2008 at 03:25:24PM -0500, Lincoln Stein a écrit :
> > Hi All,
> >
> > The glacial pace of official bioperl releases is interfering with my
> ability
> > to package GBrowse 2.00 into debian and rpm packages. Is there any
> objection
> > if I withdraw Bio::Graphics and Bio::DB::SeqFeature from the bioperl
> > distribution and turn them into independent CPAN modules?
>
> Dear all,
>
> Just a word to say that when BioPerl 1.6 is released, the package in Debian
> unstable/testing can be quickly updated, and a backport can be made for the
> stable distribution.
>
> However, it would make my task easier if the following file conflict would
> be
> resloved. GBrowse and BioPerl are shiping copies of the same modules:
>
> Bio::Graphics::Glyph::ideogram
> Bio::Graphics::Glyph::heat_map
> Bio::Graphics::Glyph::heat_map_ideogram
>
> This is an obstacle to proper packaging, as on Debian system two packages
> are
> not supposed to deliver the same file.
>
> Have a nice day,
>
> --
> Charles Plessy
> Debian Med packaging team
> http://www.debian.org/devel/debian-med
> Tsurumi, Kanagawa, Japan
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>



-- 
Lincoln D. Stein

Ontario Institute for Cancer Research
101 College St., Suite 800
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416 673-8514
Assistant: Stacey Quinn <Stacey.Quinn at oicr.on.ca>

Cold Spring Harbor Laboratory
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Cold Spring Harbor, NY 11724 USA
(516) 367-8380
Assistant: Sandra Michelsen <michelse at cshl.edu>