AMBER Archive (2004)

Subject: Re: AMBER: amber 8 error

From: Carlos Simmerling (
Date: Tue Oct 19 2004 - 06:22:37 CDT

try compiling with static linking of libraries.

also, make sure you get sander running without mpi before
trying mpi, and ,make you sure you have mpi sander running
by itself before you try using PBS.

Carlos L. Simmerling, Ph.D.
Associate Professor Phone: (631) 632-1336
Center for Structural Biology Fax: (631) 632-1555
Stony Brook University Web:
Stony Brook, NY 11794-5115 E-mail:

Abd Ghani Abd Aziz wrote:

>dear amber group,
>i get an error when running amber 8 using pbs.
>actually i try to run sander (parallel) using only
>mpirun but the job is not running. then i found there
>is no output file (only input file). then i test to
>run sander using pbs and after that i found this error
>in the output file :-
>/usr/local/amber8/exe/sander: error while loading
>shared libraries: cannot open shared
>object file: No such file or directory
>for your information i already did :-
>cp -s -f /usr/local/c++/lib* . (the directory is c++
>because the c++ compiler in this directory)
>cp -s -f /usr/local/l_fc_p_8.1.018/lib/* .
>can somebody help me?
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