[Bioperl-l] bptutorial.pl won't run

Brian Osborne osborne1 at optonline.net
Sun Mar 5 21:22:33 EST 2006


Philip,

You need to execute bptutorial in the directory that contains the t/
directory. If you've installed BioPerl using CPAN this may be something like
~/.cpan/build/bioperl-1.4.

Brian O.


On 3/5/06 8:15 PM, "Philip M Terry" <pterry2 at unlnotes.unl.edu> wrote:

> 
> Hello,
> 
> Would anyone be able to help with the following.
> 
> version of bioperl: Distribution    B/BI/BIRNEY/bioperl-1.4.tar.gz
> platform: OS X 10.4.5
> What trying to do: Install core bioperl modules, then run bptutorial.pl.
> Code that gives the error: Following installation steps:
> 
> sudo perl -MCPAN -e shell;
> cpan> install Bundle::CPAN
> cpan> q
> sudo perl -MCPAN -e shell;
> cpan> install B/BI/BIRNEY/bioperl-1.4.tar.gz
> cpan> q
> sudo perl -MCPAN -e shell;
> cpan> force install B/BI/BIRNEY/bioperl-1.4.tar.gz
> cpan> q
> 
> Tried to run bptutorial.pl from its directory,
> 
> /opt/local/lib/perl5/site_perl/5.8.7 directory
> Note: first changed two lines in bptutorial.pl
> #!/usr/bin/perl
> to
> #!/opt/local/bin/perl
> 
> philip-terrys-power-mac-g5:/opt/local/lib/perl5/site_perl/5.8.7 mterry$
> perl -w bptutorial.pl 1
> Example 1 uses files in t/data
> Directory t/data not found
> philip-terrys-power-mac-g5:/opt/local/lib/perl5/site_perl/5.8.7 mterry$
> 
> Note: permissions are 444 for bptutorial.pl
> Reset to 555, got same output, still won't run.
> 
> 
> 
> Question:
> What to do to get bptutorial.pl to run on this system?
> 
> Thanks,
> Philip M. Terry, Ph.D.
> University of Nebraska-Lincoln
> 
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> Bioperl-l at lists.open-bio.org
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