[Bioperl-l] Bio::Graphics

[Jason Stajich]

On Mon, 4 Feb 2002, Lincoln Stein wrote:

> Actually Bio::Graphics does introduce a dependency on the GD module, which is
> usually found on Linux distributions, but not universal.  I hadn't thought of
> that.
>
> I could add Bio::Graphics to the existing bioperl-gui package, but I'm
> not so keen to do that since it is hidden on the FTP site.  From the
> bioperl.org main page takes two clicks and a cut-and-paste to get to
> the bioperl-gui distribution.  Yargs.
>

I want to use a CVS trick to combine elements from different CVS modules
into a single checkout - I would also like us to do a better job with the
whole distribution set of packages.  We should do a better job providing
links to all the sets of packages that we have regardless of whether or
not Bio::Graphics makes it into bioperl-live or bioperl-gui.  Its on my
list but happy for our webteam or other volunteers to help out here.

In the meantime I'd prefer Bio::Graphics to live in bioperl-gui but only
if we can make it really easy for people to get it.  In bioperl-gui I also
checked in some modules called MapView contributed by a third party that
have not been bioperl-alized (named init parameters, regression tests,
Bio::Root::Root inheritance and exception throwing)

-j

> Lincoln
>
> On Monday 04 February 2002 11:49, Heikki Lehvaslaiho wrote:
> > Lincoln Stein wrote:
> > > Anyone mind if I add Bio::Graphics (about 6000 lines of code) to the main
> > > Bioperl branch?  It's a library that renders Bio::SeqI-compliant objects
> > > onto a canvas to create static PNG or JPEG images.
> >
> > Following the policy of keeping dependiencies to minimum, shouldn't it go
> > into bioperl-gui?
> >
> > It this still a good idea? I am beginning to have doubts. Last summer we
> > thought basic perl only modules are in bioperl-live. Modules with extra
> > dependencies should go into reparate repositories. So far we have e.g.
> >
> > bioperl-db	for RDM dependencies (mySQL, Postgres)
> > bioperl-gui	for TK GUI modules, cared for by Mark Wilkinson
> > bioperl-ext	for C extensions
> >
> >
> > I'd hate to see this devision to hinder the addition of the new code when
> > it was meant to make installation easier.
> >
> >
> > 	-Heikki
> >
> > > It was part of the generic genome browser, but since it's library code,
> > > it probably belongs in BioPerl rather than at the application level.
> > >
> > > Lincoln
> > >
> > > --
> > > ========================================================================
> > > Lincoln D. Stein                           Cold Spring Harbor Laboratory
> > > lstein@cshl.org                                   Cold Spring Harbor, NY
> > > ========================================================================
> > > _______________________________________________
> > > Bioperl-l mailing list
> > > Bioperl-l@bioperl.org
> > > http://bioperl.org/mailman/listinfo/bioperl-l
>
>

-- 
Jason Stajich
Duke University
jason@cgt.mc.duke.edu