Bioperl Rpm For Scientific/Enterprise Linux 6

Question

[Casey Bergman]

Hi -

Does anyone know of a source for obtaining BioPerl RPM for Scientific/Enterprise Linux 6? Our sysadmin and I have been engaged on a relatively extensive hunt for such a package, to no avail. Any pointers to such a resource or info about if/why it isn't available would be much appreciated.

Many thanks in advance,

Casey

Answer 1

[Matt Shirley]

Why do you need an RPM. It's a set of Perl modules so just grab it from CPAN and do:

wget http://search.cpan.org/CPAN/authors/id/C/CJ/CJFIELDS/BioPerl-1.6.1.tar.gz
sudo yum install expat-devel
sudo perl -MCPAN -e shell
>>> install Bundle::CPAN
>>> install Module::Build
>>> install BioPerl-1.6.1.tar.gz

Done.

[Casey Bergman]

Of course I am aware that BioPerl is available on CPAN, and have wasted many hours of my life with this ritual incantation. There are two good reasons we want to use an RPM: (i) we are trying to deploy across a cluster and (ii) we do not want to contaminate the native Perl installation on the OS by using CPAN.

[Matt Shirley]

Then maybe you should make an RPM.

[Casey Bergman]

We are in the process of doing this but it is bigger task than we would like for many reasons, and I would assume that this has been done by someone else in the community.