,
Thomas
On Tue, Apr 5, 2011 at 8:49 PM, Anastassis Perrakis
a.perra...@nki.nl wrote:
Hi -
I am trying to use the script by Thomas Holder, Spectrumany
http://www.pymolwiki.org/index.php/Spectrumany
When I import the script (run) I get:
PyMOLrun sp.pml
Traceback (most recent call last):
File
Hi -
I am trying to use the script by Thomas Holder, Spectrumany
http://www.pymolwiki.org/index.php/Spectrumany
When I import the script (run) I get:
PyMOLrun sp.pml
Traceback (most recent call last):
File /Applications/MacPyMOL.app/pymol/modules/pymol/parser.py,
line 332, in parse
Dear all,
I have a small domain which is mostly loops, its a Cys-knot.
All residues are in the preferred Rama regions, and all atoms are
present in the PDB,
but Pymol decides to 'break' my cartoon!
Would anyone have a solution to force pymol draw a nice loop where the
break is?
(see small
A silly but working solution is to embed the pymol script in a csh
script which changes the value for the transparency in small steps.
Not ellegant but if you know csh/sh/bash it's easy.
A.
Sent from my iPhone
On 1 Sep 2009, at 16:23, Schubert, Carsten [PRDUS] cschu...@its.jnj.com
wrote:
Dear all,
This is a reminder and some news for the meeting:
What is a macromolecular Complex? Shades of Meaning Across Cellular,
Systems, and Structural Biology
http://xtal.nki.nl/Oct2009
- Registration closes on Monday 7th September at 12:00 noon. No
exceptions after the deadline.
-
Dear all,
I was wondering what is the state of the art for this old dark art ...
are there any good servers / programs that allow to easily upload your
own sequence alignments or create a 'transparent' alignment (I want to
see the alignment first and not a total black box) and then allow
hi all -
could one use pymol to read in EM/Tomography images in one the
formats below:
stacked images from IMOD .rec format.
conversion of this stack of images to meta, patch, rib, or vrml ?
Thanks, Tassos
Dear pymolers -
One can store 'Scenes' and then switch between them; the algorithm
that goes from one scene to each other is very nice.
Can one ask Pymol to write frames going from one scene to another to
png files to make a movie ?
or does anyone have python code that can render the
Hi -
I installed apbs and tools (0.4.0) in a Linux box.
I then specified the location of psize.py and apbs executable.
when i load a protein and click on 'set grid' according to
instructions I get on a new window a rather cryptic response:
Error: 6
ValueError Exception in Tk callback
Dear all,
11 April is the closing date for registering for the Como School if
you want your abstract to be considered for an oral presentation !
http://www.crystallographyschool.org/
There's only a few places left ...!
We are looking forward to see you all there for what we hope it will
Dear all,
On behalf of the organizing committee I would like to draw your
attention to the
8th International School on the Crystallography of Biological
Macromolecules
For more information please visit:
http://www.crystallographyschool.org
The 'Como meeting' as it is commonly known, is
Hi all -
While on the subject and after thanking Warren for providing the
excellent resource ...:
We have some nice 3D monitors and Nvidia cards in Linux PC's we do
stereo with.
Warren correctly points out that you need:
1280x960 @ 120 Hz requires H-sync of 123 kHz
... and furthermore, HKL2000 was not a graphics and visualization
software last time I checked ...!
Tassos
On 27 Apr 2005, at 21:14, Jim Nettles wrote:
Michael Love did some early Darwin ports. Thanks MIchael, and we do
need to make sure Warren gets the appropriate limelight.
outperforming the Linux version by being 20+
faster - lots of
EXPs and smart programming from Serge Cohen ...)
Happy that tomorrow we place the order for our new Xserve cluster !
Apologies for the non-Pymol interferences !!!
Tassos
On 27 Apr 2005, at 21:41, Anastassis Perrakis wrote
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