[Bioperl-l] bioperl-live install issue on unix

Sean O'Keeffe limericksean at gmail.com
Tue Dec 9 17:24:38 UTC 2008


Hi all,

I've just downloaded bioperl-live with svn. All fine.
Tried doing a local install in a personal module area like so:

'cd /home/okeeffe/bioperl-live; perl Build.PL --install_base
/home/okeeffe/bioperl; ./Build install'

and got the following error at the install stage:
...
Manifying /home/okeeffe/bioperl/lib/perl5/Bio/WebAgent.pm
Unlinking /usr/local/lib/perl5/site_perl/5.8.7/Bio/WebAgent.pm (shadowing?)
!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!
WARNING: WARNING: Failed chmod(438,
/usr/local/lib/perl5/site_perl/5.8.7/Bio/WebAgent.pm): Operation not
permitted

!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!
!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!
ERROR: Cannot unlink
'/usr/local/lib/perl5/site_perl/5.8.7/Bio/WebAgent.pm': Permission
denied
!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!


What is shadowing? Why is it trying to unlink a system-wide perl module?
Perl is v5.8.7
Thanks,
Sean.



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