Hi all,
is there the possibility to export a trajectory loaded in pymol?
I've compiled it from source with the VMD support.
With save molecule I can see only pdb...so probably it can create a
multiple pdb file..but nothing else (e.g dcd...)?
Thanks
Andrea
--
Andrea Carot
Andrea,
Yes:
save file-name.pdb, object-name, 0
For example:
save multi.pdb, mytraj, 0
Cheers,
Warren
-Original Message-
From: andrea carotti [mailto:and...@chimfarm.unipg.it]
Sent: Thu 10/22/2009 5:02 AM
To: pymol
Subject: [PyMOL] Export trajectory
Hi all,
is there the possibilit
hello -
i would like to create a first person view so that it is as if you are
walking around the scene. would this be possible through pymol's python
interface while maintaining adequate performance for real time interaction?
if not, would it be possible/difficult to alter the source code in suc
I have a 5 similar domains (struct.pdb) aligned on another one
(rcsb.pdb). I made a copy of one of them and translated it 37
angstroms to the right. translate [37, 0, 0 ].
But I did not get a simple translation. The two molecules end up
having a rotation between them.
Here's the script. I need
Hi David,
You have a rotate command in that script. Did you mean to 'turn' the
camera rather than 'rotate' the atomic coordinates?
Cheers,
Warren
> -Original Message-
> From: David Garboczi [mailto:dgarbo...@niaid.nih.gov]
> Sent: Thursday, October 22, 2009 7:00 AM
> To: pymol-users@li
Nick,
How would this be different from the existing Scene interpolation
capability?
You can use the Scene menu to Append a series of scenes of the molecule
(views+representations) and then use Scene -> Next, PAGE-DN or the
scene command to interpolate through them.
Cheers,
Warren
___
Ah, "turn", yes that is better.
thanks,
Dave
At 10:08 AM -0400 10/22/09, Warren DeLano wrote:
>Hi David,
>
>You have a rotate command in that script. Did you mean to 'turn' the
>camera rather than 'rotate' the atomic coordinates?
>
>Cheers,
>Warren
>
>> -Original Message-
>> From: Dav
Hi again,
and thanks for the support.
I have another question. I would like to select molecules inside my pdb.
I've seen that using the mouse selection (activating molecules in the
right panel) and clicking on a molecule, the program correctly identify
it.
It's possible to use a command to do it?
S
Dear Pymol experts;
I am trying to make a complex movie using new movie-making features of
MacPymol 1.2. The video tutorials that are available to "power users"
were quite helpful explaining how to use the timeline. However, the
clips do not explain how to switch objects during the animation.
Dear Andrea,
Yes it is.
http://pymolwiki.org/index.php/Select
mvh
Folmer
2009/10/22 andrea carotti :
> Hi again,
> and thanks for the support.
> I have another question. I would like to select molecules inside my pdb.
> I've seen that using the mouse selection (activating molecules in the
> rig
Hi Thomas,
The viewport is not important for rendering. You can render at
whatever resolution/dimensions you want with whatever viewport. You
can
even make a panorama using a wide angle lens if you want to have
something for on your wall ;)
Cheers,
Tsjerk
On Wed, Oct 21, 2009 at 11:43 PM, Thoma
But isn't it true that only the objects that are visible in the viewport are
what are written to the rendered image file? I was proposing rendering a
poster-sized image in "tiles" and stitching them back together post facto to
create a very large, high resolution image.
something like:
--
Hi Tom,
Actually this is how the "draw" command works in using the screen-based OpenGL
renderer to create images of arbitrary size. However, the ray-tracer isn't
currently set up to operate that way. Ray might work with an orthoscopic
projection, but with perspective enabled, each frame woul
Of course your protein and computer will be different to mine, but
just as a test I used a fully surfaced 380 residue protein with a
docked ligand and did the raytrace you suggest:
using Pymol 1.2:
Macbook Pro 2.16GHz, 2GB RAM took 10 minutes to render, 20 seconds to
write the 9000x6000 PNG
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