[Chimera-users] same volume data values over the entire volume

Elaine Meng meng at cgl.ucsf.edu
Mon Jul 22 08:57:52 PDT 2019

> On Jul 21, 2019, at 11:22 AM, Blaas Dieter <dieter.blaas at meduniwien.ac.at> wrote:
> Hi Elaine,
> thank you very much, but with a slice again colouring only works with "volume data gradient norm" see attached image. When changing to "volume data" I receive the message "no volume data for surface" and pushing "colour" does not change the appearance. Is there anything wrong with my mrc file?

Hi Dieter,
How would I know??!   The error message sounds like you did not specify a “volume file" in the Surface Color dialog, but since you colored by gradient, you must know how to do that.

If I just open emdbID:5020 and slice it with Side View and then color its own surface by "volume data value" it looks as expected, image attached.  You could try the same process with publicly available datasets and if only your data has the problem, you would suspect something is wrong with it.

Only other idea is to make sure the values associated with the colors in Surface Color are reasonable, based on the range of values in the map as shown in the histogram in Volume Viewer.

If you keep having a problem, instead of this guessing game, you should use menu:  Help… Report a Bug and attach your data file and describe exactly the steps to reproduce your problem.
Elaine C. Meng, Ph.D.
UCSF Chimera(X) team
Department of Pharmaceutical Chemistry
University of California, San Francisco


-------------- next part --------------
An HTML attachment was scrubbed...
URL: <http://plato.cgl.ucsf.edu/pipermail/chimera-users/attachments/20190722/4eb62c30/attachment.html>
-------------- next part --------------
A non-text attachment was scrubbed...
Name: 5020slice.png
Type: image/png
Size: 48225 bytes
Desc: not available
URL: <http://plato.cgl.ucsf.edu/pipermail/chimera-users/attachments/20190722/4eb62c30/attachment.png>

More information about the Chimera-users mailing list