From: Aris Marcolongo (aris.marcolongo_at_gmail.com)
Date: Mon Oct 26 2015 - 17:04:21 CDT

Hello,

      I just noticed that I was using a different source file than the one
I linked before:

http://www.ks.uiuc.edu/Research/vmd/old/script_library_old/trajectory_path/trajectory_path.vmd

Maybe this can be the source of the problem? Actually in the old version
there is this command:

mol new graphics [$selection text]

which is not present in the new version....

2015-10-26 21:39 GMT+01:00 Axel Kohlmeyer <akohlmey_at_gmail.com>:

>
>
> On Mon, Oct 26, 2015 at 4:06 PM, Aris Marcolongo <
> aris.marcolongo_at_gmail.com> wrote:
>
>> No clue? Is there an other simple way to leave the track of the motion of
>> selected atoms using VMD?
>>
>
> ‚Äčthe script you are pointing to works as documented‚Äč, but the command it
> defines is called "trajectory_path" and not "traj".
> the error message you quote does not make sense with the script you
> quoted. it cannot generate this error.
>
> PEBCAC?
>
> axel.
>
>
>
>>
>> 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
>>>
>>>
>>
>
>
> --
> Dr. Axel Kohlmeyer akohlmey_at_gmail.com http://goo.gl/1wk0
> College of Science & Technology, Temple University, Philadelphia PA, USA
> International Centre for Theoretical Physics, Trieste. Italy.
>