[Bioperl-l] Smaller Bioperl Modules

Bernd Web bernd.web at gmail.com
Fri Jul 25 05:00:46 EDT 2008


We often just copied the Bio directory into a Perl library dir. This
worked great as we only used Perl-only modules (AlignIO, SearchIO
etc.). Persons doing short projects even copied Bioperl (w/o
installing etc) directly on their USB stick. Their scripts just worked
fine on all computers with "use lib", of course). This is not an
alternative for smaller modules clearly, but made people get into
BioPerl quick.


On Tue, Jul 22, 2008 at 1:09 AM,  <Nathan.Watson-Haigh at csiro.au> wrote:
> Hi all,
> I'm developing a web-based application and it'd be cool to use some
> Bioperl modules. However, I'll be providing my tool for downloaded and
> installation on a web server, so having to ask the sys admin to install
> all of bioperl where I only need a few modules is overkill and is likely
> to cause installation headaches.
> Since I've been out of the loop for quite a while now, I was wondering
> if any decisions had been made about whether or not Bioperl was going to
> be released on CPAN in smaller sets of modules with correct dependencies
> and possibly a Bundle::Bioperl? It'd be nice to have my application, for
> example, depend on Bio::SeqIO, such that only Bio::SeqIO::* and it's
> dependencies are installable through CPAN.
> Cheers,
> Nath
> -------------------------------------------------------------
> Dr. Nathan S. Watson-Haigh        (publish under Haigh, N.S.)
> OCE Post Doctoral Fellow
> CSIRO Livestock Industries
> J M Rendel Laboratory
> Rockhampton
> QLD 4701                              Tel: +61 (0)7 4923 8121
> Australia                             Fax: +61 (0)7 4923 8222
> -------------------------------------------------------------
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