[Bioperl-l] Problems installing bioperl (bioperl-live tarball from CVS)
bix at sendu.me.uk
Fri Nov 30 03:45:57 EST 2007
alison waller wrote:
> I would like to install the CVS version of bioperl as I know of some code
> changes that will be useful to me. However, I am having problems installing
> I am trying to install bioperl in my home directly on a linux cluster.
> Please check, if the URLs I found in your configuration file
> (ftp://ftp.nrc.ca/pub/CPAN/, ftp://cpan.sunsite.ualberta.ca/pub/CPAN/,
> ftp://cpan.mirror.cygnal.ca/pub/CPAN/, ftp://mirror.isurf.ca/pub/CPAN) are
> valid. The urllist can be edited. E.g. with 'o conf urllist push
Either these urls are invalid as suggested (try setting the urllist to
nothing), or your linux cluster doesn't have internet access. You can't
do a 'proper' install of BioPerl and its dependencies without internet
However, for most purposes simply downloading the BioPerl modules (ie.
from a different machine with internet access) and pointing your
PERL5LIB to their location is sufficient. You can download CVS modules
from the BioPerl website individually, or as a tarball or everything.
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