From: Aris Marcolongo (aris.marcolongo_at_gmail.com)
Date: Mon Oct 26 2015 - 15:06:07 CDT

No clue? Is there an other simple way to leave the track of the motion of
selected atoms using VMD?

             Thanks,

                         Aris

2015-10-26 12:02 GMT+01:00 Aris Marcolongo <aris.marcolongo_at_gmail.com>:

> Hello,
>
> I am trying to use this script:
>
>
> http://www.ks.uiuc.edu/Research/vmd/script_library/scripts/trajectory_path/ <https://ewa.epfl.ch/owa/redir.aspx?SURL=-XIwpi3phwsVq54Qgbd-NJ_5lkgmK5aQGTkckEriak_bdi6o9N3SCGgAdAB0AHAAOgAvAC8AdwB3AHcALgBrAHMALgB1AGkAdQBjAC4AZQBkAHUALwBSAGUAcwBlAGEAcgBjAGgALwB2AG0AZAAvAHMAYwByAGkAcAB0AF8AbABpAGIAcgBhAHIAeQAvAHMAYwByAGkAcAB0AHMALwB0AHIAYQBqAGUAYwB0AG8AcgB5AF8AcABhAHQAaAAvAA.&URL=http%3a%2f%2fwww.ks.uiuc.edu%2fResearch%2fvmd%2fscript_library%2fscripts%2ftrajectory_path%2f>
>
>
> for visualizing the trajectory of a single atom with VMD,
> here with index 59. I am a beginner with VMD, and I just wrote in
> the TkC console:
>
> > source traj.tcl
> > set crystal [atomselect top "index 59"]
> atomselect11
> > traj $crystal scale
>
> but I finally end up with the error.
>
> Illegal molecule specification 'index 59': Could not
> find molecule 'index 59'. mol new operates on one molecule only
>
> How can I solve this problem?
>
>
> Thanks a lot for any help,
>
>
> Aris
>
>