The program is comparing the atom names NA with Na in the two files and finding they are different. Change the case of the second letter in either the .top or the .gro (ideally so the string matches whatever sodium is in ions.itp in the share/top directory of gromacs) and that should fix the warning.
--- jahanshah ashkani <[EMAIL PROTECTED]> wrote: > Could you please more explain? > > Alan Dodd <[EMAIL PROTECTED]> wrote: Upper/lower > case matters for atom names. > > --- jahanshah ashkani wrote: > > > hi, > > I have a protein with 1277 residue. I added 131 > > NA+ to my .gro and .top files by genion_d and > manual > > adaptation. But I have a problem in grompp_d run: > > "WARNING: atom names in .top and .gro don't match > > (NA-Na),..." > > I would be glad if you help me in this case. > > Thank you very much. > > > > Sincerely yours, > > Jahan > > > > > > --------------------------------- > > Yahoo! Messenger with Voice. PC-to-Phone calls for > > ridiculously low rates.> > _______________________________________________ > > gmx-users mailing list [email protected] > > http://www.gromacs.org/mailman/listinfo/gmx-users > > 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 > > > __________________________________________________ > Do You Yahoo!? > Tired of spam? Yahoo! Mail has the best spam > protection around > http://mail.yahoo.com > _______________________________________________ > gmx-users mailing list [email protected] > http://www.gromacs.org/mailman/listinfo/gmx-users > 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 > > > > --------------------------------- > Blab-away for as little as 1ยข/min. Make PC-to-Phone > Calls using Yahoo! Messenger with Voice.> _______________________________________________ > gmx-users mailing list [email protected] > http://www.gromacs.org/mailman/listinfo/gmx-users > 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 __________________________________________________ Do You Yahoo!? Tired of spam? Yahoo! Mail has the best spam protection around http://mail.yahoo.com _______________________________________________ gmx-users mailing list [email protected] http://www.gromacs.org/mailman/listinfo/gmx-users 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
