[Bioperl-l] Compilation error

[Heikki Lehvaslaiho]

Sivakumar,

It looks like you have not either installed bioperl-core which the run needs 
or added it into your PERL5LIB environmental variable.


The core is at http://bioperl.org/DIST/current_core_stable.tar.gz

Modify as needed and put one of the following into you shell initalization 
file:

 ~/.bash_profile:
export PERL5LIB='$HOME/src/bioperl-core:$HOME/src/bioperl-run'
~/.cshrc:
setenv PERL5LIB '$HOME/src/bioperl-core:$HOME/src/bioperl-run'

Yours,
		-Heikki


On Tuesday 20 Apr 2004 11:09, Sivakumar.K.C wrote:
> Dear Sir,
>
> i have downloaded current_run_stable.tar.gz from the
> site and followed the instructions in the file README.
> After that i tried to run a programme Clustalw.pl from
> bioperl-run-1.4/examples/pise show some error
> like...this..
>
> Can't locate Bio/Root/Root.pm in @INC (@INC contains:
> /usr/lib/perl5/5.8.0/i386-linux-thread-multi
> /usr/lib/perl5/5.8.0
> /usr/lib/perl5/site_perl/5.8.0/i386-linux-thread-multi
> /usr/lib/perl5/site_perl/5.8.0
> /usr/lib/perl5/site_perl
> /usr/lib/perl5/vendor_perl/5.8.0/i386-linux-thread-multi
> /usr/lib/perl5/vendor_perl/5.8.0
> /usr/lib/perl5/vendor_perl .) at
> /usr/lib/perl5/site_perl/5.8.0/Bio/Tools/Run/AnalysisFactory/Pise.pm
> line 148.
> BEGIN failed--compilation aborted at
> /usr/lib/perl5/site_perl/5.8.0/Bio/Tools/Run/AnalysisFactory/Pise.pm
> line 148.
> Compilation failed in require at clustalw.pl line 2.
> BEGIN failed--compilation aborted at clustalw.pl line
> 2.
>
>
> Sir, please help me in rectifying the problem...
>
> hoping for a early reply..
>
> with regards
> Sivakumar
>
>
> =====
> ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
> Sivakumar K.C
> Bioinformatics Consultant
> Center for Bioinformatics and Computational biology
> Soundarya Buildings,Thiruvananthapuram,
> Kerala - 695001
> ~~~~~~~~~~~~~~~
>
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-- 
______ _/      _/_____________________________________________________
      _/      _/                      http://www.ebi.ac.uk/mutations/
     _/  _/  _/  Heikki Lehvaslaiho    heikki_at_ebi ac uk
    _/_/_/_/_/  EMBL Outstation, European Bioinformatics Institute
   _/  _/  _/  Wellcome Trust Genome Campus, Hinxton
  _/  _/  _/  Cambs. CB10 1SD, United Kingdom
     _/      Phone: +44 (0)1223 494 644   FAX: +44 (0)1223 494 468
___ _/_/_/_/_/________________________________________________________