[gmx-users] genion: -pot fails to produce .pdb file

[Stud_Psychopharm]

madhuri,
you can try with this way.. instead of -pot just give 
-o outputfilename.pdb 
>genion -s input.tpr -nn 2 -o output.pdb -rmin 2 (in the case of two or 
more Cl)
all the best
------------------------------------------------------------
"The more we learn the more we realize how little we know." - 
R.Buckminster Fuller 

Blaise M.Costa
Graduate Student,
Department of Psychopharmacology,
National Institute of Mental Health And Neuro Sciences (NIMHANS),
Bangalore-560029,
India. Tel: 91 80 6995112.


-----Original Message-----
From: "Madhuri Agashe" <magashe at CLEMSON.EDU>
To: <gmx-users at gromacs.org>
Date: Sun, 1 Feb 2004 21:30:33 -0500
Subject: [gmx-users] genion: -pot fails to produce .pdb file

> 
> I am using the genion command to replace few solvent atoms by Na and Cl
> ions.
> I want this command to also generate a .pdb output file in addition to
> the
> ..gro file. Hence I specified the -pot option, but no .pdb file was
> created.
> 
> I have used this command before and it has worked successfully.
> 
> There have been no changes in parameters. The system comprises of a
> self
> assembled monolayer surface of methyl and a protein segment at a
> distance of
> 5Au from the surface.
> 
> Why should this happen??
> -Madhuri
> 
> 
> 
> _______________________________________________
> gmx-users mailing list
> gmx-users at gromacs.org
> 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 gmx-users-request at gromacs.org.
>