[Chimera-users] Silhouettes and depth cueing

Michael Elbaum michael.elbaum at weizmann.ac.il
Mon Nov 2 13:19:59 PST 2015


I would like to add to this request. I've used the depth cueing very effectively with 3D chroma glasses that map front-back by red-blue color. Elaine helped me on this a few months ago (May 17-18) and I made a nice rocking movie. The color depth cue works well over the whole volume defined by global clipping planes, but not on a slab defined by the volume viewer planes. That's my feature request for Chimera 2: to allow definition of the color gradient with respect to the visible planes of a volume.


From: chimera-users-bounces at cgl.ucsf.edu [chimera-users-bounces at cgl.ucsf.edu] on behalf of Tom Goddard [goddard at sonic.net]
Sent: Monday, November 02, 2015 22:42
To: Oliver Clarke
Cc: chimera-users at cgl.ucsf.edu BB
Subject: Re: [Chimera-users] Silhouettes and depth cueing

Hi Oliver,

  In Chimera 2 we can try to have silhouette edges fade with depth.  I’ve attached an example from Chimera 2 where the edges fade and where they don’t fade.  Chimera 1 uses a stencil buffer approach to drawing the edges with old-style OpenGL graphics without shader programs and the depth information is lost.  It would be harder to do in Chimera 1.  I’ve submitted a feature request for Chimera 2 to fade the edges.


[cid:BA152A2D-7CBA-4276-BC8F-8F8F1EB57705 at cgl.ucsf.edu][cid:9BF8AC47-A119-4ADD-91AD-C7144A2046CF at cgl.ucsf.edu]

On Nov 2, 2015, at 8:21 AM, Oliver Clarke wrote:

Hi all,

I’ve noticed that the intensity/color of silhouettes does not vary with depth cueing the way everything else does - normally this is fine, except when one is showing a slab of a structure - fragments of secondary structural elements which would otherwise blend into the background tend to become overly emphasized by the presence of silhouettes. The obvious solution to this for now is to turn off silhouettes when making these kinds of figures, but I quite like the effect that silhouettes provide, so I would rather not do so if there is an alternative. Perhaps in Chimera 2 it may be worth considering applying a depth dependent factor to the silhouette color (so it fades into the background color as it approaches the yon clipping plane)?

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