[Bioperl-l] Installation Problems

[Brian Madsen]

Thanks for the help. I moved everything to home/bmadsen/bioperl and was
able to set the variable by adding:
setenv PERL5LIB '$HOME/bmadsen/bioperl'
to .login and:
DTSOURCEPROFILE=true
to .dtprofile

-----Original Message-----
From: Heikki Lehvaslaiho [mailto:heikki at ebi.ac.uk] 
Sent: Thursday, October 02, 2003 6:01 AM
To: Brian Madsen
Cc: Bioperl
Subject: Re: [Bioperl-l] Installation Problems

Brian,

Have you set up environmental variable PERL5LIB? 

Here is a command line example (which is best put into shell resource
file):

   bash: % export PERL5LIB='$HOME/src/bioperl'
   tcsh: % setenv PERL5LIB '$HOME/src/bioperl'

Using ':' as a separator you can add more than one directory.

In your case for perl to find IO::String, PERL5LIB should contain
'/home/bmadsen/bjm_perl' and in that directory you should have directory
'IO' with file 'String.pm'

Hope this helps,

	-Heikki



On Wed, 2003-10-01 at 23:25, Brian Madsen wrote:
> I'm new to Bioperl and am trying to complete an installation. The
> company has a Solaris server, and I don't have write privileges to the
> perl5/site_perl source area, so I followed the instructions to install
> to a personal module area.
> In addition to the bioperl-1.2.3 tar file, I also ran installations
for
> bioperl-ext-06, Bundle-BioPerl-2.05 and a separate installation for
> IO-String-1.02. In every case, I used: PREFIX=/home/bmadsen/bjm_perl
as
> a parameter in building the makefile, and all of the installations
were
> successful.
> Still, when I run the bptutorial.pl file, I get the error: "Can't
locate
> IO/String.pm in @INC (@INC contains: ..." followed by a half-dozen
> notices about failed compilation. I've even tried copy the String.pm
> file into the bioperl-1.2.3 directory, but it doesn't help.
> I have already printed bptutorial.pl and am reading through it, but I
> had hoped to run it interactively. Any advice?
> Thanks
> -Brian
> 
> _______________________________________________
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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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