VMD-L Mailing List

From: Margaret Shun Cheung (mscheung_at_ipst.umd.edu)
Date: Thu Jun 22 2006 - 14:56:36 CDT

Dear John,
Thank you very much for the instruction. Now it worked after the new
plugin was replaced.
Thanks.
Sincerely,
Margaret

On Thu, 22 Jun 2006, John Stone wrote:

>
> Margaret,
> You need to move or rename the old rmsdtt.tcl in your VMD installation and
> copy the new one in place of the old one. The location is generally (from
> the installation directory):
> vmd/plugins/noarch/tcl/rmsdtt2.0
>
> Once the new one is in place, you won't need to source it etc, it'll
> be what shows up in the menus.
>
> John Stone
> vmd_at_ks.uiuc.edu
>
> On Thu, Jun 22, 2006 at 03:31:01PM -0400, Margaret Shun Cheung wrote:
>>
>> Dear John,
>> Thank you very much for the file. I wonder how to implement this plugin to
>> my vmd program. I go "Extension"-> "Tkconsole"
>>
>> In the console, I entered "source rmsdtt.tcl".
>>
>> Then I went back to RMSDTrajectory Tool console, and hit RMSD with
>> "average". Error showed:
>>
>> "Error: invalid command name ".rmsdtt.top.left.swap.0".
>>
>> Please help.
>> THank you very much.
>> Sincerely,
>> Margaret
>>
>>
>>
>>
>> On Thu, 22 Jun 2006, John Stone wrote:
>>
>>>
>>> Margaret,
>>> I think Luis updated the RMSDTT tool to fix this problem after
>>> the release of VMD 1.8.4. I've attached the current version of the
>>> plugin so that you can try copying it in place of the one
>>> installed on your system if you like.
>>>
>>> John Stone
>>> vmd_at_ks.uiuc.edu
>>>
>>> On Thu, Jun 22, 2006 at 12:28:10PM -0400, Margaret Shun Cheung wrote:
>>>> Dear VMD wizards,
>>>>
>>>> As I enjoyed the new and cool feature of RMSD Trajectory Tool from
>>>> VMD1.84 version, I found that if I clicked on "average" to compute RMSD
>>>> then an error message showed up as "Error: measure avpos: invalid syntax,
>>>> no such keywork: 0". However, when I clicked on "Top" then it worked just
>>>> fine.
>>>> In my upper left selection box, I enterred "all" with no Backbone, no
>>>> Trace and no Noh selected.
>>>> Please help. Thank you very much.
>>>> Sincerely,
>>>> Margaret S. Cheung,
>>>> Ph. D. Postdoctoral Fellow,
>>>>
>>>> ------------------------------------------------------------
>>>> Change of Room Number to:
>>>>
>>>> Room 2112 Tel: (301) 405-9307
>>>> Inst. for Phys. Sci. & Tech. Fax: (301) 314-9404
>>>> University of Maryland http://glue.umd.edu/~mscheung
>>>> College Park, MD 20742-2431 email: mscheung_at_ipst.umd.edu
>>>> ------------------------------------------------------------
>>>
>>> --
>>> NIH Resource for Macromolecular Modeling and Bioinformatics
>>> Beckman Institute for Advanced Science and Technology
>>> University of Illinois, 405 N. Mathews Ave, Urbana, IL 61801
>>> Email: johns_at_ks.uiuc.edu Phone: 217-244-3349
>>> WWW: http://www.ks.uiuc.edu/~johns/ Fax: 217-244-6078
>>>
>>
>> Margaret S. Cheung,
>> Ph. D. Postdoctoral Fellow,
>>
>> ------------------------------------------------------------
>> Change of Room Number to:
>>
>> Room 2112 Tel: (301) 405-9307
>> Inst. for Phys. Sci. & Tech. Fax: (301) 314-9404
>> University of Maryland http://glue.umd.edu/~mscheung
>> College Park, MD 20742-2431 email: mscheung_at_ipst.umd.edu
>> ------------------------------------------------------------
>
> --
> NIH Resource for Macromolecular Modeling and Bioinformatics
> Beckman Institute for Advanced Science and Technology
> University of Illinois, 405 N. Mathews Ave, Urbana, IL 61801
> Email: johns_at_ks.uiuc.edu Phone: 217-244-3349
> WWW: http://www.ks.uiuc.edu/~johns/ Fax: 217-244-6078
>

Margaret S. Cheung,
Ph. D. Postdoctoral Fellow,

------------------------------------------------------------
Change of Room Number to:

Room 2112 Tel: (301) 405-9307
Inst. for Phys. Sci. & Tech. Fax: (301) 314-9404
University of Maryland http://glue.umd.edu/~mscheung
College Park, MD 20742-2431 email: mscheung_at_ipst.umd.edu
------------------------------------------------------------