[Bioperl-l] [Gmod-gbrowse] Non-root installation: problem withModule::Builder versions

Mark A. Jensen maj at fortinbras.us
Tue May 12 20:31:53 EDT 2009

Is this really an install problem? The error begins in Module::Build::Base in 
site_perl, no problem there. The error says $VAR1 has got scoping problems; that 
doesn't sound like a permissions problem.
----- Original Message ----- 
From: "Dave Clements, GMOD Help Desk" <gmodhelp at googlemail.com>
To: "Neil Saunders" <neilfws at gmail.com>; "BioPerl List" 
<Bioperl-l at lists.open-bio.org>
Cc: <gmod-gbrowse at lists.sourceforge.net>
Sent: Tuesday, May 12, 2009 1:36 PM
Subject: Re: [Bioperl-l] [Gmod-gbrowse] Non-root installation: problem 
withModule::Builder versions

Hi Neil,

I'm cross-posting your question to the BioPerl list as 1) it is more
of a perl question than a GBrowse question, and 2) I don't know the

Dave C.
GMOD Help Desk

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On Thu, May 7, 2009 at 7:26 PM, Neil Saunders <neilfws at gmail.com> wrote:
> I'm trying to install the latest Gbrowse (1.99) on a machine where I do
> not have root access (Ubuntu/dapper).
> I have set up non-root CPAN and installed all of the prerequisites, no
> problems, in ~/lib/perl5. However, when I try to install Gbrowse either
> via CPAN or using the latest CVS Build script, I run into this problem:
> Global symbol "$VAR1" requires explicit package name at (eval 28) line
> 1088, <GEN6> line 1.
> ...propagated at /usr/local/share/perl/5.8.7/Module/Build/Base.pm line
> 1002, <GEN6> line 1.
> make: *** [all] Error 255
> LDS/GBrowse-1.99.tar.gz
> /usr/bin/make -- NOT OK
> It seems that there are 2 versions of Module::Builder on the machine. I
> have installed a version from CPAN which is found in
> ~/lib/perl5/site_perl/Module/. However, from the above error it looks
> as though the install is trying to use a system-wide version of
> Module::Build in /usr/local/share/perl/5.8.7.
> Can anyone shed any light on either the error message, or a way to force
> usage of my $HOME module, not the system one?
> thanks,
> Neil Saunders
> --
> Statistical Bioinformatics - Health
> CSIRO Mathematical and Information Sciences
> Locked Bag 17, North Ryde, NSW 1670, Australia
> http://friendfeed.com/neilfws
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