[gmx-users] cpp error again

[David van der Spoel]

On Wed, 2003-07-02 at 12:49, Y U Sasidhar wrote:
> David van der Spoel wrote:
> 
> >[l1:~] % which cpp
> >/usr/bin/cpp
> >
> >replace it with the answer you get from this command
> >
> >  
> >
> did that too; I still have problem. I installed gromacs rpms twice; cpp also is re-installed. I find that /lib/cpp is a link to /usr/bin/cpp. I reproduce the complete error message below. Thanks for your patience and time.
> ================================================
> creating statusfile for 1 node...
> 
> ' for variable integrator, using 'md'
> 
> Next time use one of: 'md' 'steep' 'cg' 'bd' 'sd' 'nm'
> 
> ' for variable ns-type, using 'Grid'
> 
> Next time use one of: 'Grid' 'Simple'
> 
> ' for variable coulombtype, using 'Cut-off'
> 
> Next time use one of: 'Cut-off' 'Reaction-Field' 
> 'Generalized-Reaction-Field' 'PME' 'Ewald' 'PPPM' 'Poisson' 'Switch' 
> 'Shift' 'User'
> 
> ' for variable constraints, using 'none'
> 
> Next time use one of: 'none' 'h-bonds' 'all-bonds' 'h-angles' 'all-angles'
> 
> 
> 
> Back Off! I just backed up mdout.mdp to ./#mdout.mdp.41#
> 
> Warning: as of GMX v 2.0 unit of compressibility is truly 1/bar
> 
> checking input for internal consistency...
> 
> ...ling /usr/bin/cpp
> 
> : No such file or directory
> 
> cpp exit code: 32512
> 
> betahair.top > gromppFiKGjL'top -DFLEX_SPC
> 
> ' command is defined in the .mdp file
> 
> processing topology...
> 
> processing coordinates...
> 
> Fatal error: number of coordinates in coordinate file (solvation.gro, 6191)
> 
>             does not match topology (betahair.top, 0)
> 
It may be an error in your topology, as it says bethair.top 0 atoms.
Check whether your include files are OK, or whether you have any
characters that cpp stubmles over like an apostrophe (')

> 
> 
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-- 
Groeten, David.
________________________________________________________________________
Dr. David van der Spoel, 	Dept. of Cell & Mol. Biology
Husargatan 3, Box 596,  	75124 Uppsala, Sweden
phone:	46 18 471 4205		fax: 46 18 511 755
spoel at xray.bmc.uu.se	spoel at gromacs.org   http://xray.bmc.uu.se/~spoel
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