Hi Héctor,

On Fri, 3 May 2013 11:42:16 +0200
Héctor Valverde Pareja <hvalve...@uma.es> wrote:

> Hi coleagues!
> 
> I have a question about CPAN installation progress. I have recently upload a
> new module to CPAN (Molevol::Complex). It is a part of my work in Molecular
> Evolution of Protein Complexes. This module needs several requirements to
> work properly, such as PAML software
> (http://abacus.gene.ucl.ac.uk/software/paml.html) and DSSP
> (http://swift.cmbi.ru.nl/gv/dssp/). Also it needs Bioperl and Bioperl-run.
> The two formers programs must be installed manually (not through CPAN), so I
> want that during the installation progress of my module, CPAN test if the
> environment variables $ENV{PAMLDIR} and $ENV{DSSPBIN} are correctly declared.
> 

You can put whatever you want in Makefile.PL or Build.PL before writing the
"Makefile" or "Build" files, so you can make sure these things are set there.

> Also, I want to ask if it is possible to launch Bioperl and Bioperl-run
> installation if they are not installed, apart from the other required modules.

If they are on CPAN, you can list them as dependencies in
PREREQ_PM/'requires'/etc.

> 
> I think this questions are so basic, I am a novice in program distribution
> and I barely understand the correct configuration of Makefile.PL and Makefile
> to reach my mentioned purposes.

See:

http://perl-begin.org/topics/cpan/

Regards,

        Shlomi Fish

> 
> Thanks
> 
> Héctor Valverde
> Universidad de Málaga
> Spain


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