Re: [gmx-users] Re: Re: how to center a MARTINI trajectory so that the lipid bilayer remains at the center of the box (XAvier Periole) (XAvier Periole)

I did remove the center of mass motion from my system. But did not do it separately for the lipids and solvent. Oh dear ... thats not good ... is it ? Then you should use g_traj to plot the COM of your bilayer and of the water separately and look at them ... Is this just a problem which can

[gmx-users] Re: Re: how to center a MARTINI trajectory so that the lipid bilayer remains at the center of the box (XAvier Periole) (XAvier Periole)

I did remove the center of mass motion from my system. But did not do it separately for the lipids and solvent. Oh dear ... thats not good ... is it ? Is this just a problem which can be corrected after the simulation, or are the simulations now completely useless ? -MAria On Fri, Jul 3, 2009 at