Depth cueing and silhouette
Dear ChimeraX team, I write you to ask about the depth cueing option. I have a structure with the silhouette true option and now I want to change the depth cueing to obtain a slice of the structure but with some of the fog coming from the background. The cartoon color disappear gradually as expected, however the black line of the silhouette is 100% or nothing, is there anything I am doing wrong or is it what I should expect? Is there anyway to obtain also that smooth disappearing of the silhouette? Thank you for your help. All the best, Aritz
Hi Aritz, You are not doing anything wrong — currently the silhouette edges are “immune” from the depth-cuing fog, and there is no option to also fade them. It has been requested by a few users, but there is no option yet, sorry. Elaine ----- Elaine C. Meng, Ph.D. UCSF Chimera(X) team Department of Pharmaceutical Chemistry University of California, San Francisco
On Mar 4, 2020, at 6:00 AM, Aritz Roa Eguiara <aritz.eguiara@cpr.ku.dk> wrote:
Dear ChimeraX team,
I write you to ask about the depth cueing option. I have a structure with the silhouette true option and now I want to change the depth cueing to obtain a slice of the structure but with some of the fog coming from the background. The cartoon color disappear gradually as expected, however the black line of the silhouette is 100% or nothing, is there anything I am doing wrong or is it what I should expect? Is there anyway to obtain also that smooth disappearing of the silhouette?
Thank you for your help.
All the best, Aritz
There is a ticket for this request in our database, #174. It is old, but helpful to know that more people are interested in the feature. I’ve wanted it too! <http://plato.cgl.ucsf.edu/trac/ChimeraX/ticket/176> Best, Elaine
On Mar 4, 2020, at 8:16 AM, Elaine Meng <meng@cgl.ucsf.edu> wrote:
Hi Aritz, You are not doing anything wrong — currently the silhouette edges are “immune” from the depth-cuing fog, and there is no option to also fade them. It has been requested by a few users, but there is no option yet, sorry. Elaine ----- Elaine C. Meng, Ph.D. UCSF Chimera(X) team Department of Pharmaceutical Chemistry University of California, San Francisco
On Mar 4, 2020, at 6:00 AM, Aritz Roa Eguiara <aritz.eguiara@cpr.ku.dk> wrote:
Dear ChimeraX team,
I write you to ask about the depth cueing option. I have a structure with the silhouette true option and now I want to change the depth cueing to obtain a slice of the structure but with some of the fog coming from the background. The cartoon color disappear gradually as expected, however the black line of the silhouette is 100% or nothing, is there anything I am doing wrong or is it what I should expect? Is there anyway to obtain also that smooth disappearing of the silhouette?
Thank you for your help.
All the best, Aritz
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It is #176 (the link is correct), not #174. Sorry about that. Elaine
On Mar 4, 2020, at 8:21 AM, Elaine Meng <meng@cgl.ucsf.edu> wrote:
There is a ticket for this request in our database, #174. It is old, but helpful to know that more people are interested in the feature. I’ve wanted it too!
<http://plato.cgl.ucsf.edu/trac/ChimeraX/ticket/176>
Best, Elaine
On Mar 4, 2020, at 8:16 AM, Elaine Meng <meng@cgl.ucsf.edu> wrote:
Hi Aritz, You are not doing anything wrong — currently the silhouette edges are “immune” from the depth-cuing fog, and there is no option to also fade them. It has been requested by a few users, but there is no option yet, sorry. Elaine ----- Elaine C. Meng, Ph.D. UCSF Chimera(X) team Department of Pharmaceutical Chemistry University of California, San Francisco
On Mar 4, 2020, at 6:00 AM, Aritz Roa Eguiara <aritz.eguiara@cpr.ku.dk> wrote:
Dear ChimeraX team,
I write you to ask about the depth cueing option. I have a structure with the silhouette true option and now I want to change the depth cueing to obtain a slice of the structure but with some of the fog coming from the background. The cartoon color disappear gradually as expected, however the black line of the silhouette is 100% or nothing, is there anything I am doing wrong or is it what I should expect? Is there anyway to obtain also that smooth disappearing of the silhouette?
Thank you for your help.
All the best, Aritz
Hi Aritz, The current ChimeraX silhouette drawing code does not know the depth of the silhouette and therefore cannot dim it with depth cueing. It is possible to improve the code so it know the depth of the silhouettes but I have not had time to work on that because of a hundred competing improvements and new features. It is a bit tricky make silhouettes have depth because it requires new low level graphics OpenGL shader code to be written. I hope to do it some day. Tom
On Mar 4, 2020, at 8:16 AM, Elaine Meng wrote:
Hi Aritz, You are not doing anything wrong — currently the silhouette edges are “immune” from the depth-cuing fog, and there is no option to also fade them. It has been requested by a few users, but there is no option yet, sorry. Elaine ----- Elaine C. Meng, Ph.D. UCSF Chimera(X) team Department of Pharmaceutical Chemistry University of California, San Francisco
On Mar 4, 2020, at 6:00 AM, Aritz Roa Eguiara wrote:
Dear ChimeraX team,
I write you to ask about the depth cueing option. I have a structure with the silhouette true option and now I want to change the depth cueing to obtain a slice of the structure but with some of the fog coming from the background. The cartoon color disappear gradually as expected, however the black line of the silhouette is 100% or nothing, is there anything I am doing wrong or is it what I should expect? Is there anyway to obtain also that smooth disappearing of the silhouette?
Thank you for your help.
All the best, Aritz
_______________________________________________ ChimeraX-users mailing list ChimeraX-users@cgl.ucsf.edu Manage subscription: http://www.rbvi.ucsf.edu/mailman/listinfo/chimerax-users
Hi Tom, Can we GET and SET the positions (float number) of the two vertical bars (near & far) on COMMAND LINE? Thank you for this help and others! Steve On Thu, Mar 5, 2020 at 3:01 PM Tom Goddard <goddard@sonic.net> wrote:
Hi Aritz,
The current ChimeraX silhouette drawing code does not know the depth of the silhouette and therefore cannot dim it with depth cueing. It is possible to improve the code so it know the depth of the silhouettes but I have not had time to work on that because of a hundred competing improvements and new features. It is a bit tricky make silhouettes have depth because it requires new low level graphics OpenGL shader code to be written. I hope to do it some day.
Tom
On Mar 4, 2020, at 8:16 AM, Elaine Meng wrote:
Hi Aritz, You are not doing anything wrong — currently the silhouette edges are “immune” from the depth-cuing fog, and there is no option to also fade them. It has been requested by a few users, but there is no option yet, sorry. Elaine ----- Elaine C. Meng, Ph.D. UCSF Chimera(X) team Department of Pharmaceutical Chemistry University of California, San Francisco
On Mar 4, 2020, at 6:00 AM, Aritz Roa Eguiara wrote:
Dear ChimeraX team,
I write you to ask about the depth cueing option. I have a structure with the silhouette true option and now I want to change the depth cueing to obtain a slice of the structure but with some of the fog coming from the background. The cartoon color disappear gradually as expected, however the black line of the silhouette is 100% or nothing, is there anything I am doing wrong or is it what I should expect? Is there anyway to obtain also that smooth disappearing of the silhouette?
Thank you for your help.
All the best, Aritz
_______________________________________________ ChimeraX-users mailing list ChimeraX-users@cgl.ucsf.edu Manage subscription: http://www.rbvi.ucsf.edu/mailman/listinfo/chimerax-users
_______________________________________________ ChimeraX-users mailing list ChimeraX-users@cgl.ucsf.edu Manage subscription: http://www.rbvi.ucsf.edu/mailman/listinfo/chimerax-users
-- Steve Chou
Hi Steve, For setting and reporting the current clipping plane offsets, see "clip" and "clip list" respectively. <http://rbvi.ucsf.edu/chimerax/docs/user/commands/clip.html> I hope this helps, Elaine ----- Elaine C. Meng, Ph.D. UCSF Chimera(X) team Department of Pharmaceutical Chemistry University of California, San Francisco
On Mar 5, 2020, at 12:06 PM, Steve Chou <stevezchou@gmail.com> wrote:
Hi Tom, Can we GET and SET the positions (float number) of the two vertical bars (near & far) on COMMAND LINE? Thank you for this help and others! Steve
participants (4)
-
Aritz Roa Eguiara -
Elaine Meng -
Steve Chou -
Tom Goddard