Jason Vertrees wrote:
> Hi Francios,
>
> Someone recently asked about this and the answer was that this should
> be a setting, but isn't currently available. If I have time, I'll try
> to sneak this in the upcoming PyMOL v1.4 release.
Is there a workaround for the moment?
For example, asking Py
Hello,
There's been quite a while since I wanted to ask this on the list, but would
it be possible to have in Pymol some kind of technique to emulate realistic
lighting (global illumination) in a rendered scene?
The next point is related to the new volume representation. For example
after loading
Hi Francois,
That information is in the view matrix you get from get_view. The
first nine numbers are the rotation matrix R. The next three numbers
are the camera position c, followed by the three numbers denoting
origin of rotation o. Then to transform your protein coordinates, as
in the PDB, to
Dear all
I'm sure this question was answered before, but I could not find
anything related to it in neither the mail list nor on the Wiki.
Is it possible to display something like coordinate vectors in PyMOL?
I.e. arrows in the 3d view space pointing towards [1,0,0], [0,1,0] and
[0,0,1]?
I woul
Hi, Martin,
how about this:
http://www.pymolwiki.org/index.php/Symmetry_Axis
also check out the script drawing X, Y, and Z reference axes by Robert:
http://pldserver1.biochem.queensu.ca/~rlc/work/pymol/axes_cyl.py
hope it helps,
hongbo
On 04/08/2011 04:29 PM, Martin Hediger wrote:
> Dear all
>
great, thanks.
On 08.04.11 16:42, Hongbo Zhu wrote:
> Hi, Martin,
>
> how about this:
> http://www.pymolwiki.org/index.php/Symmetry_Axis
>
> also check out the script drawing X, Y, and Z reference axes by Robert:
> http://pldserver1.biochem.queensu.ca/~rlc/work/pymol/axes_cyl.py
>
> hope it helps,
Hi Marius,
> There's been quite a while since I wanted to ask this on the list, but would
> it be possible to have in Pymol some kind of technique to emulate realistic
> lighting (global illumination) in a rendered scene?
So, you're looking for something like ambient occlusion? If so, try
this (
Hi,
I have a few pml scripts for pymol that I would like to rewrite
properly in python, making use of Pymol's ability to interprete Python
scripts.
Do you know of an interpreter that converts pml scripts automatically
to python scripts for Pymol? Since the number of tasks that you can do
in pml i
Hi Matthias,
There is no script that I'm aware of, but writing one should be rather
straightforward because of how the API is organized:
commandName arg1, arg2, arg3
becomes
cmd.commandName(arg1, arg2, arg3)
The hardest part would be determining when to quote strings versus not
quoting numbers
It's not elegant at all, but it's worth knowing that you can use
cmd.do("...") as a quick fix for lines that aren't immediately easy to
convert.
Even a mostly-working pml2py tool would be a useful addition to the wiki.
Cheers,
-Michael
On Fri, Apr 8, 2011 at 2:09 PM, Jason Vertrees <
jason.vert
Hello,
On Fri, Apr 8, 2011 at 6:49 PM, Jason Vertrees <
jason.vertr...@schrodinger.com> wrote:
> Hi Marius,
>
> > There's been quite a while since I wanted to ask this on the list, but
> would
> > it be possible to have in Pymol some kind of technique to emulate
> realistic
> > lighting (global i
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