Hi Tom,
Okay, I thought you wanted to trace out a path through space for the
camera. But for your purpose, it doesn't matter how the things are
defined internally. That's just a matter of representation, which can
be interconverted.
What you really want is to place the center of your active site at the
position of the camera (which has the same effect of doing it the
other way around :p). I'm not sure whether there's a shortcut to it.
But you can do it manually. First center the scene on your active
site, and then move the scene to set the offset from the camera to
zero:
center my_active_site_selection
cmd.move('z',-cmd.get_view()[11])
Hope it helps... and sorry for the confusion :)
Cheers,
Tsjerk
On Thu, May 13, 2010 at 1:28 AM, Tom Dupree
t.dup...@student.unsw.edu.au wrote:
Thank you everyone for giving me your time,
I think I failed to explain what I am trying to do correctly/clearly...or I
simply do not understand your answers, either is possible :)
What I really want is to be able to explore binding sites from inside the
binding site.
Take a room with a couch and a lamp in it, pymol allows me to look at the
room from the outside from a wide range of perspectives and angles looking in
at the room, it also allows me with clipping planes to remove (from view)
walls so that I can see the contents of the room. I want to be able to walk
into the room and turn around in the room looking out (and to move around in
that room).
As far as I understand it I can use the scene commands to switch from one
preset view to another which is good, but my problem is I want free movement
like you have when you turn/rotate your views.
A better description is a to load up the molecule and then use a no-clipping
mode of a first person computer game to move through and around it.
My problem is that pymol (seems) to always have a fixed point that the camera
is looking at (wrt turning). It is this property that I am trying to get away
from/change. Is there a way to turn the look at vector x degrees horizontal
and y degrees vertical?
Tom
-Original Message-
From: Bard, Joel [mailto:joel.b...@pfizer.com]
Sent: Wednesday, 12 May 2010 11:38 PM
To: Tom Dupree; pymol-users@lists.sourceforge.net
Subject: RE: [PyMOL] Moveable Camera
Tom-
Take a look at slerpy: http://pymolwiki.org/index.php/Slerpy
It was written to do exactly what you describe...and of course it is the
camera that moves. The coordinates of the molecule are not changed
unless you go into edit mode.
Best,
Joel
-Original Message-
From: Dupree Tom [mailto:t.dup...@student.unsw.edu.au]
Sent: Tuesday, May 11, 2010 8:27 PM
To: Bard, Joel; pymol-users@lists.sourceforge.net
Subject: [PyMOL] Moveable Camera
Hello everyone,
I am trying to do something that seems a little uncommon. I wish to have
a moveable camera. So instead of rotating/translating the
protein/molecule/DNA I move the camera point/location and the vector
that the camera points in. I wish to be able to move into the molecule
and view binding pockets from the perspective of the molecule. I have
tried a few web searches on this and thought I would ask everyone here
if they have heard of something similar?
I am currently trying to find some 3d modelling software that will load
a .PDB file so that I can export it to a game engine (Unreal development
kit) as a back up method if all else fails.
Thanks for your time,
Tom
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Tsjerk A. Wassenaar, Ph.D.
post-doctoral researcher
Molecular Dynamics Group
Groningen Institute for Biomolecular Research and Biotechnology
University of Groningen
The Netherlands
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