I know that I can use pdb and build my index file. But I want to know the problem. What's the problem?
Sincerely, Shima ________________________________ From: Chandan Choudhury <iitd...@gmail.com> To: Shima Arasteh <shima_arasteh2...@yahoo.com>; Discussion list for GROMACS users <gmx-users@gromacs.org> Sent: Monday, December 31, 2012 11:08 AM Subject: Re: [gmx-users] Index file On Mon, Dec 31, 2012 at 1:07 PM, Chandan Choudhury <iitd...@gmail.com> wrote: > > > > >On Mon, Dec 31, 2012 at 11:59 AM, Shima Arasteh <shima_arasteh2...@yahoo.com> >wrote: > >Dear all, >>I had a .pdb file containing protein, popc, and ions. So I used editconf to >>make a .gro file. But when I want to make an index file, 2 CL ions are not >>identified, so I can not choose it. >> >> >use make_ndx f .pdb use make_ndx -f .pdb >Sincerely, >>Shima >>-- >>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 > > > >-- >Chandan kumar Choudhury >NCL, Pune > >INDIA > -- Chandan kumar Choudhury NCL, Pune INDIA -- 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
