VMD-L Mailing List

From: Mark Formaneck (formanec_at_chem.wisc.edu)
Date: Mon Aug 22 2005 - 12:55:06 CDT

Thanks for the help. Just for others to note: I had to restart VMD
for the colors changes to take effect, but VMD did not have to be
recompiled.

On Mon, 22 Aug 2005, John Stone wrote:

>
> Hi,
> The color scheme used in the Timeline plugin is hard coded into the
> script that implements the Timeline user interface. You could modify the
> colors used in the plugin by editing the ::timeline::chooseColor proc.
> The colors used for secondary structure plots are defined in this block
> at line 85 of timeline.tcl if I'm not mistaken (I didn't write this code):
> switch $intensity {
> B {set red 180; set green 180; set blue 0}
> C {set red 255; set green 255; set blue 255}
> E {set red 255; set green 255; set blue 100}
> T {set red 70; set green 150; set blue 150}
> G {set red 255; set green 160; set blue 255}
> H {set red 225; set green 130; set blue 225}
> I {set red 225; set green 20; set blue 20}
> default {set red 100; set green 100; set blue 100}
> }
>
> John Stone
> vmd_at_ks.uiuc.edu
>
> On Sun, Aug 21, 2005 at 07:17:11PM -0500, Mark Formaneck wrote:
> >
> > In the 'timeline' function, I am analyzing the secondary structure of
> > a trajectory file. I would like to display only certain structural
> > motifs and leave the others blank. Can one redefine the colors used
> > for the secondary structure? I was thinking of setting the Turns
> > to white, so essentially they do not show up.
> >
> > If there is another way to display only selected structure types, when
> > using timeline, I am interested in this as well.
> >
> > Thanks.
> >
> > Mark Formaneck
>
>