Re: [gmx-users] How to apply trjconv -nojump to a part of a system

On 7/9/13 7:13 PM, Bin Liu wrote: Hi All, For the convenience of visualization, I need to remove the jump of one component (say a protein) of the system at the boundary. I don't need to, or say I need not to remove the jump of the other components (say a lipid bilayer), since otherwise the

Re: [gmx-users] How to apply trjconv -nojump to a part of a system

VMD might do what you want with the PBC tools plugin (installed by default). http://www.ks.uiuc.edu/Research/vmd/plugins/pbctools/ unwrap being the equivalent of -nojump Otherwise, couldn't you just view your 2 trajectories simultaneously, one with protein the other not? -Trayder On Wed, Jul

RE: [gmx-users] How to apply trjconv -nojump to a part of a system

Thanks mate, I am trying it now :) -Original Message- From: gmx-users-boun...@gromacs.org [mailto:gmx-users-boun...@gromacs.org] On Behalf Of Trayder Thomas Sent: Thursday, 11 July 2013 11:52 AM To: Discussion list for GROMACS users Subject: Re: [gmx-users] How to apply trjconv -nojump

[gmx-users] How to apply trjconv -nojump to a part of a system

Hi All, For the convenience of visualization, I need to remove the jump of one component (say a protein) of the system at the boundary. I don't need to, or say I need not to remove the jump of the other components (say a lipid bilayer), since otherwise the system will look falling apart. I