Hi,
coloring a certain residue in an object takes about 4 ms when only one
object is loaded in PyMol:
%time cmd.color("blue", "obj1of1 and resi 1")
CPU times: user 3.33 ms, sys: 0 ns, total: 3.33 ms
Wall time: 4.13 ms
Performing the same operation when a lot of other objects (~300) are
load
Hi Leonhard,
Very interesting analysis. I'm wondering if this slowdown actually scales with
number of objects or rather total number of atoms.
If your color scheme lookup by (object, resi) key is fast in Python (let's say
you have it all in a dictionary), then you can use cmd.alter() with a sin
Hi
Please, when using PyMOL app for iPad is that possible to set up multiple
structures from diffent PDB codes at the same time?
I'm a Immunology teacher and I'd like a slide with 04 antibodies (PDB
codes: 1IGY, 1IGT, 1HZH, and 5DK3) *aligned* *side by side* to save a
screenshot to Photos.
When
Dear João,
type
set grid_mode, on
to see your models side by side. You might have to align them first. Use
the command
super model1, model2
for that.
All best.
Andreas
On Tue, Feb 28, 2017 at 5:27 PM, João Oliveira Jr.
wrote:
> Hi
>
> Please, when using PyMOL app for iPad is that pos
Dear Andreas
Where do I find this typing command option?
Em ter, 28 de fev de 2017 às 13:53, Andreas Forster
escreveu:
> Dear João,
>
> type
>
> set grid_mode, on
>
> to see your models side by side. You might have to align them first. Use
> the command
>
> super model1, model2
>
> for that.
Dear João,
The Mobile (iPad) PyMOL interface is rather limited and does not expose these
options, unfortunately. The only way to display a "grid_mode=on" scene is to
load a PyMOL session file (.pse) which already has the setting enabled.
Cheers,
Thomas
On 28 Feb 2017, at 11:57, João Oliveira
Hi Paul,
Interesting observation. This change was not intentional, it's a side effect of
a very low level change in the geometry generation. We should be able to
optimize this for the next PyMOL release.
Cheers,
Thomas
On 24 Feb 2017, at 12:02, Paul Paukstelis wrote:
> There seem to have b
Thomas,
Thanks. I re-wrote my blender scripts to accommodate both version, since
it seems like other visualization programs generally output bonds as two
cylinders. What I would love, though I'm not even sure its possible with
vrml2, would be export some 'additional' info (like chain, resnum) t
Thank you all for your time.
Someone could please explain me why some structures aren't fully displayed?
For example, in 1QFU, I just get 01 HA attached to 01 Fab antibody arm,
instead of 03 HA + 03 Fabs...
Em ter, 28 de fev de 2017 às 14:25, Thomas Holder <
thomas.hol...@schrodinger.com> escrev
Hi João,
1QFU has a three-fold symmetry, and only one copy of each molecule is contained
in the asymmetric unit.
PyMOL (on the desktop) can load the biological assembly like this:
PyMOL> set assembly, 1
PyMOL> fetch 1qfu
Hope that helps.
Cheers,
Thomas
On 28 Feb 2017, at 16:16, João Olivei
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