Am a new user to gromacs and am making a comparitive study of different bilayer simulation.For the other two bilayers i took pre-equilibriated system and ran the simulation.Now for one of the bilayer am trying to make it of my own.
I tried to remove water,by first adding water to entire system and then removed water from sides using a tcl script.But since this system is huge,am getting error with this procedure. My query is,*how will you add water to the bilayer so that water should not be in the middle & sides of the bilayer.*Is there something that can be specified in the genbox command so that i can add water to that layer alone and build layer by layer.Am damn confused.Please provid a solution for this
_______________________________________________ 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
