[gmx-users] problem in gromacs installation

Mark Abraham Mark.Abraham at anu.edu.au
Fri Feb 20 10:34:21 CET 2009

nitu sharma wrote:
> Dear All,
>                     I have successfully insstalled gromacs on my 32 bit 
> i686 linux system but when I give the mdrun command for running gromacs  
> on my system the output is  like this
> "mdrun: error while loading shared libraries: 
> /usr/local/gromacs/lib/libmd.so.5: cannot restore segment prot after 
> reloc: Permission denied."
> could you please let me know what exactly the problem is in my 
> installtion and what is the solution of this problem.

Guessing wildly (since you didn't provide any information!), you used 
--enable-shared when you configured GROMACS and your system doesn't 
follow the rules GROMACS expects. Don't use --enable-shared, and try again.


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