Dear Berk and Mark, thank you for your suggestion. I will try to download that version.
regards, Arie --- On Wed, 12/10/08, Berk Hess <[EMAIL PROTECTED]> wrote: > From: Berk Hess <[EMAIL PROTECTED]> > Subject: RE: [gmx-users] fatal error during running grompp > To: "Discussion list for GROMACS users" <[email protected]> > Date: Wednesday, December 10, 2008, 12:14 AM > Hi, > > This looks like a bug reported before in version 4.0. > It has been fixed in 4.0.2, download that version. > > Berk > > > Date: Wed, 10 Dec 2008 09:27:27 +1100 > > From: [EMAIL PROTECTED] > > To: [email protected] > > Subject: Re: [gmx-users] fatal error during running > grompp > > > > arie wibowo wrote: > > > Dear all, > > > > > > I am a beginner using gromacs. when I start to > run gromacs, the calculation always stop in grompp due to > fatal error was appeared. the information below the fatal > error is "number of coordinates in coordinate file > (minimized_water.gro, 26791) does not match topology file > (aki.top, 1555)". but when I try to look aki.top file, > there are already 1 molecules of protein, 78 molecules of > SOL and 8412 molecules of SOL in the end of this file, so I > think topology file must contain more than 1555 atom. I have > already change .mdp file manually using gedit because I see > in internet this error can also occur because .mdp file has > been edited under Windows, but the problem still occur. is > there any help or suggestion? > > > > You've probably got something wrong with your .top > file format, but we > > can't guess what. Have a read of the relevant bits > of chapter 5, > > including the examples there. > > > > Mark > > _______________________________________________ > > gmx-users mailing list [email protected] > > http://www.gromacs.org/mailman/listinfo/gmx-users > > Please search the archive at > http://www.gromacs.org/search before posting! > > Please don't post (un)subscribe requests to the > list. Use the > > www interface or send it to > [EMAIL PROTECTED] > > Can't post? Read > http://www.gromacs.org/mailing_lists/users.php > > _________________________________________________________________ > Express yourself instantly with MSN Messenger! Download > today it's FREE! > http://messenger.msn.click-url.com/go/onm00200471ave/direct/01/_______________________________________________ > gmx-users mailing list [email protected] > http://www.gromacs.org/mailman/listinfo/gmx-users > Please search the archive at http://www.gromacs.org/search > before posting! > Please don't post (un)subscribe requests to the list. > Use the > www interface or send it to [EMAIL PROTECTED] > Can't post? Read > http://www.gromacs.org/mailing_lists/users.php _______________________________________________ gmx-users mailing list [email protected] http://www.gromacs.org/mailman/listinfo/gmx-users Please search the archive at http://www.gromacs.org/search before posting! Please don't post (un)subscribe requests to the list. Use the www interface or send it to [EMAIL PROTECTED] Can't post? Read http://www.gromacs.org/mailing_lists/users.php
