So, a follow up question becomes: is there a way to report what color
something is?
:)
-Tom
-Original Message-
From: matthew.frank...@imclone.com [mailto:matthew.frank...@imclone.com]
Sent: Tuesday, November 11, 2008 1:52 PM
To: Thomas Stout
Cc: pymol-users@lists.sourceforge.net
Subje
"Thomas Stout" wrote on 11/11/2008 04:46:38 PM:
>
> Hi again everyone --
>
> I have another odd PyMOL question: does anyone know if it is
> possible to make selections based on what color certain atoms are?
> I need to do some wholesale re-coloring of a series of complicated
> figures and it wo
Hi again everyone --
I have another odd PyMOL question: does anyone know if it is possible to
make selections based on what color certain atoms are? I need to do
some wholesale re-coloring of a series of complicated figures and it
would be extremely useful if I could just say something like:
QT,
No, unfortunately, it is more complicated than that...see the community
wiki:
http://pymolwiki.org/index.php/Get_View
Also, for sectioning, you may wish to disable depth_cue
unset depth_cue
Cheers,
Warren
--
DeLano Scientific LLC
Subscriber Support Services
mailto:supp...@delsci.com
Yup, thanks for your help that did it. Although the script didn't spring
back to the default camera anchor point after it did the 360 degree rotation
about y-axis, I understand now. So, to move the camera anchor point around,
you modify the parameter 9-11 of set_view(), which controls the x,y,z a
Ah ha, now I see what you're angling at! What a great question -- I'm
amazed this hasn't come up before in ten years of usage and development.
The core problem is that PyMOL's camera has been designed from day one to
orbit around a specific point in space, not at a point. To get the effect
you
Ah thank you Warren, that gave it a fish-eye effect that seems to work. Is
there any other way to go about this problem? Is there no way to move the
camera from looking in to looking out? By default, the camera is anchored
outside the molecule, can the camera be anchored to a point inside the
mo
Quyen,
If clipping isn't the effect you want, the solution probably lies in
increasing the camera field of view angle which will enable PyMOL to better
"get of inside" spaces without having nearby elements appear to intersect
the camera surface (or front clipping plane).
set field_of_view, 45
