AMBER Archive (2006)

Subject: AMBER: mm_pbsa.pl fails to start in linux cluster

From: pkb bioinfo (pkstruct_at_gmail.com)
Date: Wed Aug 02 2006 - 07:07:22 CDT

Dear AMBER users,

I have installed AMBER8 on linux cluster having
AMD Opteron Machines with both Intel and Pathscale Compilers

I have set the enviornment for AMBER in the .cshrc file as follows

# AMBER8
setenv AMBERHOME usr/people/iche/baral/software/AMBER8
# AMBER8 / MPIRUN Memorysettings
setenv P4_GLOBMEMSIZE 256000000
setenv LD_LIBRARY_PATH
/installadmin/mpich/1.2.6/intel/lib:/usr/lib64:{$LD_LIBRARY_PATH}

# PATH
setenv PATH /software/AMBER8/exe

This works fine for sander and other programs but it gives error message for
mm_pbsa.pl
mm_pbsa_statitics.pl

the error message is as follows

Can't locate mm_pbsa_global.pm in @INC (@INC contains:
usr/people/iche/baral/software/AMBER8/src/mm_pbsa
/usr/lib64/perl5/5.8.5/x86_64-linux-thread-multi /usr/lib/perl5/5.8.5
/usr/lib64/perl5/site_perl/5.8.5/x86_64-linux-thread-multi
/usr/lib64/perl5/site_perl/5.8.4/x86_64-linux-thread-multi
/usr/lib64/perl5/site_perl/5.8.3/x86_64-linux-thread-multi
/usr/lib64/perl5/site_perl/5.8.2/x86_64-linux-thread-multi
/usr/lib64/perl5/site_perl/5.8.1/x86_64-linux-thread-multi
/usr/lib64/perl5/site_perl/5.8.0/x86_64-linux-thread-multi
/usr/lib/perl5/site_perl/5.8.5 /usr/lib/perl5/site_perl/5.8.4
/usr/lib/perl5/site_perl/5.8.3 /usr/lib/perl5/site_perl/5.8.2
/usr/lib/perl5/site_perl/5.8.1 /usr/lib/perl5/site_perl/5.8.0
/usr/lib/perl5/site_perl
/usr/lib64/perl5/vendor_perl/5.8.5/x86_64-linux-thread-multi
/usr/lib64/perl5/vendor_perl/5.8.4/x86_64-linux-thread-multi
/usr/lib64/perl5/vendor_perl/5.8.3/x86_64-linux-thread-multi
/usr/lib64/perl5/vendor_perl/5.8.2/x86_64-linux-thread-multi
/usr/lib64/perl5/vendor_perl/5.8.1/x86_64-linux-thread-multi
/usr/lib64/perl5/vendor_perl/5.8.0/x86_64-linux-thread-multi
/usr/lib/perl5/vendor_perl/5.8.5 /usr/lib/perl5/vendor_perl/5.8.4
/usr/lib/perl5/vendor_perl/5.8.3 /usr/lib/perl5/vendor_perl/5.8.2
/usr/lib/perl5/vendor_perl/5.8.1 /usr/lib/perl5/vendor_perl/5.8.0
/usr/lib/perl5/vendor_perl .) at
/usr/people/iche/baral/software/AMBER8/exe/mm_pbsa.pl line 23.
BEGIN failed--compilation aborted at
/usr/people/iche/baral/software/AMBER8/exe/mm_pbsa.pl line 23.

So anybody please find out whats wrong in my system and kindly suggest me
how to run mm_pbsa.pl script.Thanking you in advance

Best regards
Pravas
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