VMD-L Mailing List

From: JT (JTibbitt_at_odu.edu)
Date: Sun Nov 29 2009 - 08:23:06 CST

Axel,
Yes, setting the two Color Scale Data Ranges made the colors
consistent with each other.
Thanks,
Jeff

On Nov 28, 2009, at 11:47 PM, Axel Kohlmeyer wrote:

> On Sat, 2009-11-28 at 22:59 -1000, JT wrote:
>> Hi all,
>
> hi jeff,
>
>> I just noticed some unexpected behavior when coloring a protein by
>> position (radial). I colored the entire cartoon protein using
>> position (radial). This generated a very nice image with the protein
>> color smoothly blending from blue on one side to white in the middle
>> to red on the other side. Then, another representation containing
>> just a few residues (drawn as licorice) was added and also colored by
>> position (radial). Since these residues were located on the 'red
>> side' of the protein, I expected the color of this representation to
>> remain red. However, it was actually colored blue and white. I did
>
> have you checked, if you can achieve a consistent coloring by setting
> the "Color Scale Data Range" in the Trajectory tab of the second rep
> to the numbers found in the first rep?
> color scale based reps by default have their own (automatic) range,
> but it can be adjusted to have consistent coloring. never tried this
> on position data, though...
>
> cheers,
> axel.
>
>> not check, but maybe the 'position' is based only on the atoms in the
>> representation selection. Anyway, I'm not sure if adjusting the
>> behavior to match my expectation would be an improvement or an
>> unnecessary (and unwanted) complication. I just wanted to point it
>> out.
>> Good day,
>> Jeff Tibbitt
> --
> Dr. Axel Kohlmeyer akohlmey_at_gmail.com
> Institute for Computational Molecular Science
> College of Science and Technology
> Temple University, Philadelphia PA, USA.
>