[Chimera-users] transparent rainbow ribbons
meng at cgl.ucsf.edu
Wed Sep 7 14:27:31 PDT 2011
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.
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.
> 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.
>> 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:
>>> 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
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>> Chimera-users at cgl.ucsf.edu
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