[Chimera-users] transparent rainbow ribbons

[Elaine Meng]

So it's not too bad then, for example, commands:

colordef tblue 0 0 1 .2
colordef tcyan 0 1 1 .2
colordef tgreen 0 1 0 .2
colordef tyellow 1 1 0 .2
colordef tred 1 0 0 .2
rainbow residue tblue,tcyan,tgreen,tyellow,tred

However, Chimera transparency rendering has some problems.  When I do this on a protein ribbon, in some places the stuff behind the ribbon  shows through (as it should), but in some other places, it does not.

Also unlike surfaces, there is no single-layer transparency option that would avoid this problem.

Elaine

On Sep 7, 2011, at 2:15 PM, Eric Pettersen wrote:

> One trick is that if you define colors with transparency in them (by  
> using the colordef command) then you can use them in the rainbow  
> command to get a rainbow with transparency.
> 
> --Eric
> 
> On Sep 7, 2011, at 1:55 PM, Elaine Meng wrote:
> 
>> Hi Stefano,
>> Sorry, unlike surfaces, there is no option to keep the ribbon the  
>> same color(s) except make it transparent.  There is only the  
>> capability of making specific transparent colors and then using them  
>> on the ribbon, and it sounds like you already know how to do that.
>> Best,
>> Elaine
>> ----------
>> Elaine C. Meng, Ph.D.
>> UCSF Computer Graphics Lab (Chimera team) and Babbitt Lab
>> Department of Pharmaceutical Chemistry
>> University of California, San Francisco
>> 
>> On Sep 7, 2011, at 1:27 PM, Stefano Luciano Ciurli wrote:
>> 
>>> Hello,
>>> Reading the posts and the tutorials, I have understood how to make  
>>> ribbons transparent, but with a single color.
>>> I would like to make a rainbow-colored ribbon look transparent. How  
>>> do I do it?
>>> Thanks a lot
>>> Stefano
>> 
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