Could you paste your .top file and the command your add ions? Maybe the Cl- ion was also added when you added Na+ ion?
On Tue, Jun 12, 2012 at 1:18 PM, tarak karmakar <tarak20...@gmail.com>wrote: > Dear All , > > I am facing problem in matching the coordinates number in this two files, > em.gro and toplogy.top. > I have tried with changing the number of solvents, adding ions (Na+) > ....but in vain > > *Note :: My system has ' -1.00 ' charge .......so I have added one > Sodium ion* > > So can anyone please get me out of this trouble ??? > > Fatal error: > number of coordinates in coordinate file (em.gro, 64506) > does not match topology (toplogy.top, 64504) > > -- > *Tarak Karmakar > Molecular Simulation Lab. > Chemistry and Physics of Materials Unit > Jawaharlal Nehru Centre for Advanced Scientific Research > Jakkur P. O. > Bangalore - 560 064 > Karnataka, INDIA > Ph. (lab) : +91-80-22082809 * > > -- > gmx-users mailing list gmx-users@gromacs.org > http://lists.gromacs.org/mailman/listinfo/gmx-users > Please search the archive at > http://www.gromacs.org/Support/Mailing_Lists/Search before posting! > Please don't post (un)subscribe requests to the list. Use the > www interface or send it to gmx-users-requ...@gromacs.org. > Can't post? Read http://www.gromacs.org/Support/Mailing_Lists >
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