[Bioperl-l] bioperl-live install issue on unix
Kevin.M.Brown at asu.edu
Wed Dec 10 12:38:49 EST 2008
IIRC, Bio::Graphics was split off because of the fact that Gbrowse
depends on it. So, as a convenience to them (so they don't have to wait
on a full release of Bio::Perl) it was split off.
> -----Original Message-----
> From: bioperl-l-bounces at lists.open-bio.org
> [mailto:bioperl-l-bounces at lists.open-bio.org] On Behalf Of
> Sean O'Keeffe
> Sent: Wednesday, December 10, 2008 10:27 AM
> To: Chris Fields
> Cc: bioperl-l at lists.open-bio.org
> Subject: Re: [Bioperl-l] bioperl-live install issue on unix
> ok. well to cut a long story short, the reason for my initial bioperl
> installation was it was a gbrowse requirement for me.
> upgrading gbrowse (>1.69) returned Bio::Graphics compatibility issues
> for me which were previously resolved by updating bioperl-live.
> i had assumed (i know never assume) the graphics were, amongst other
> things, the important part.
> so now i'll hit the Bio::Graphics trail and see what happens., or wait
> 'til the 1.6 release.
> ok well cheers folks (for now).
> 2008/12/10 Chris Fields <cjfields at illinois.edu>:
> > On Dec 10, 2008, at 10:10 AM, Sean O'Keeffe wrote:
> >> at the risk of sounding idiotic, i've realised that the
> issue may have
> >> been of my own making.
> >> i had ssh'd to another server and hadn't thought about it when
> >> starting the install.
> >> i just assumed i was in my /home/dir but was only virtually there.
> >> exiting from this, everything went smooth. apologies for
> all hassles
> >> caused.
> >> my only other question is where has Bio::Graphics gone from the
> >> bioperl checkout on svn?
> >> sean.
> > Bio::Graphics is now separate from BioPerl as of 1.6. It
> will be a separate
> > installation via CPAN, see:
> > http://search.cpan.org/~lds/Bio-Graphics-1.8/
> > Note the bioperl README.
> > I am hoping to install a hook into Build.PL to post-install
> this or any any
> > other split-off modules in the future, but we may just have
> a Bundle package
> > to do this instead. One of the remaining decisions for 1.6...
> > chris
> Bioperl-l mailing list
> Bioperl-l at lists.open-bio.org
More information about the Bioperl-l