[gmx-users] library mismatch

Maria Nemirovskaya nemirovm at darkwing.uoregon.edu
Thu Nov 20 23:46:02 CET 2003


I have a problem running gromacs on Mac osX. It was successfully 
installed. However, when executing anything including tutorial I 
receive the following message:

dyld: clear version mismatch for library: /usr/lib/
libncurses.5.dylib (compatibility version of user: 6.0.0 greater 
than library's version: 5.0.0)
Trace/BPT trap

Then, at the very first grompp run of the tutorial the following 
error occurs:

Fatal error: number of coordinates in coordinate file 
(cpeptide_b4em.gro, 1607)
             does not match topology (cpeptide.top, 0)
                         :-)  G  R  O  M  A  C  S  (-:

               Go Rough, Oppose Many Angry Chinese Serial killers

                            :-)  VERSION 3.1.4  (-:

       Copyright (c) 1991-2002, University of Groningen, The 
         This program is free software; you can redistribute it 
          modify it under the terms of the GNU General Public 
         as published by the Free Software Foundation; either 
version 2
             of the License, or (at your option) any later 

                     :-)  grompp_d (double precision)  (-:

creating statusfile for 1 node...
calling /lib/cpp...
cpp exit code: 32512
Tried to execute: '/lib/cpp  -I/usr/local/gromacs/share/top -
DFLEX_SPC cpeptide.top > gromppHIBheu'
The '/lib/cpp' command is defined in the .mdp file
processing topology...

I’d appreciate any help.


Maria Nemirovskaya

Maria Nemirovskaya
Postdoctoral Research Associate
Dept. of Chemistry, University of Oregon

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