[Bioperl-l] Bio::Tools::Run::Phylo::PAML::Codeml

[Heikki Lehvaslaiho]

Yep. IO::String is one of the few CPAN modules that are really needed to
run a large number of bioperl modules (most others are needed only by
one or two modules). You probably have never installed bioperl or ran
its tests using the provided makefile. The makefile would have detected
and listed missing dependencies in your system.

Do yourself a favour and install IO::String.

	-Heikki

On Mon, 2003-11-10 at 17:01, Derek Gatherer wrote:
> Hi
> 
> try this:
> _________________________
> #!/usr/bin/perl -w
> 
> use lib "/usr/local/lib/site_perl/5.8.0/";
> use strict;
> 
> use Bio::Tools::Run::Phylo::PAML::Codeml;
> ______________________________________
> 
> I get the following:
> 
> BEGIN failed--compilation aborted at 
> /usr/local/lib/site_perl/5.8.0//Bio/Tools/Phylo/PAML.pm line 168.
> 
> The offending line is:
> 
> use IO::String;
> 
> find /usr/local/lib/site_perl/5.8.0/ -name String.pm
> 
> gives nothing.  Am I missing a module?  Commenting this line out allows the 
> script above to run, but I am unsure of its effect in other places.
> 
> Cheers
> Derek
> 
> _______________________________________________
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> Bioperl-l at portal.open-bio.org
> http://portal.open-bio.org/mailman/listinfo/bioperl-l
-- 
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      _/      _/                      http://www.ebi.ac.uk/mutations/
     _/  _/  _/  Heikki Lehvaslaiho    heikki_at_ebi ac uk
    _/_/_/_/_/  EMBL Outstation, European Bioinformatics Institute
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  _/  _/  _/  Cambs. CB10 1SD, United Kingdom
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