[Bioperl-l] darwin PERL5LIB ignored

[Tim Erwin]

> #the variable is defined in my .bashrc file, which is evaluated at login
> buildmac:~ allenday$ cat ~/.bashrc | grep PERL5LIB
> PERL5LIB=/net/groove/lib/perl5/site_perl:/usr/local/lib/perl5/site_perl

You should export the variable from your .bashrc

export PERL5LIB=/net/groove/lib/perl5/site_perl:/other_dirs

If you don't export it it will only get set for the current shell and
wont be transfer to other shells.

Regards,

Tim

On Wed, 2005-08-03 at 18:08 -0700, Allen Day wrote:
> This is an off-topic question for the list, but I know there are lot of 
> mac users here, and I'm hoping for a quick fix.
> 
> I'm having problems getting my bash environment to recognize my $PERL5LIB 
> variable.  Even if I declare the variable in my .bashrc file and source 
> it, the variable is ignored until I explicitly export it from my session 
> prompt.  Below is a dialog illustrating the problem.
> 
> Anyone know of a workaround to get perl to use $PERL5LIB as declared in
> the .bashrc file, as opposed to requiring an explicit export of the
> variable?
> 
> Thanks.
> -Allen
> 
> ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
> ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
> 
> #variable appears to be set up correctly
> buildmac:~ allenday$ echo $PERL5LIB
> /net/groove/lib/perl5/site_perl:/usr/local/lib/perl5/site_perl
> 
> #but it doesn't appear in @INC
> buildmac:~ allenday$ perl -e 'print join "\n", at INC,"\n"'
> /System/Library/Perl/5.8.6/darwin-thread-multi-2level
> /System/Library/Perl/5.8.6
> /Library/Perl/5.8.6/darwin-thread-multi-2level
> /Library/Perl/5.8.6
> /Library/Perl
> /Network/Library/Perl/5.8.6/darwin-thread-multi-2level
> /Network/Library/Perl/5.8.6
> /Network/Library/Perl
> /System/Library/Perl/Extras/5.8.6/darwin-thread-multi-2level
> /System/Library/Perl/Extras/5.8.6
> /Library/Perl/5.8.1
> .
> 
> #the variable is defined in my .bashrc file, which is evaluated at login
> buildmac:~ allenday$ cat ~/.bashrc | grep PERL5LIB
> PERL5LIB=/net/groove/lib/perl5/site_perl:/usr/local/lib/perl5/site_perl
> 
> #just to make sure, sourcing the .bashrc file has no effect on @INC
> buildmac:~ allenday$ source ~/.bashrc
> buildmac:~ allenday$ perl -e 'print join "\n", at INC,"\n"'
> /System/Library/Perl/5.8.6/darwin-thread-multi-2level
> /System/Library/Perl/5.8.6
> /Library/Perl/5.8.6/darwin-thread-multi-2level
> /Library/Perl/5.8.6
> /Library/Perl
> /Network/Library/Perl/5.8.6/darwin-thread-multi-2level
> /Network/Library/Perl/5.8.6
> /Network/Library/Perl
> /System/Library/Perl/Extras/5.8.6/darwin-thread-multi-2level
> /System/Library/Perl/Extras/5.8.6
> /Library/Perl/5.8.1
> .
> 
> #I have to explicitly export from the prompt to affect @INC
> buildmac:~ allenday$ export PERL5LIB=/net/groove/lib/perl5/site_perl:/usr/local/lib/perl5/site_perl
> buildmac:~ allenday$ perl -e 'print join "\n", at INC,"\n"'
> /net/groove/lib/perl5/site_perl
> /usr/local/lib/perl5/site_perl
> /System/Library/Perl/5.8.6/darwin-thread-multi-2level
> /System/Library/Perl/5.8.6
> /Library/Perl/5.8.6/darwin-thread-multi-2level
> /Library/Perl/5.8.6
> /Library/Perl
> /Network/Library/Perl/5.8.6/darwin-thread-multi-2level
> /Network/Library/Perl/5.8.6
> /Network/Library/Perl
> /System/Library/Perl/Extras/5.8.6/darwin-thread-multi-2level
> /System/Library/Perl/Extras/5.8.6
> /Library/Perl/5.8.1
> .
> 
> ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
> ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
> 
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