Hi Bronwyn,
Don't know about MacPymol, but with regards to the second issue, a
C-alpha trace, you can do it with:
set cartoon_trace,1
show cartoon
The surface will be tougher, you could play with setting the vanderwaals radius:
show surface
alter (all),vdw=4
rebuild
And you can repeat the last
Dear All,
I am hoping someone can advise me on the best way to include main chain
carbonyls in a cartoon figure. I want to depict a metal centre and
surroundings showing selected main chain carbonyls and side chains with
remaining main chain as a secondary structure Ca trace. How can I best
On Wednesday 17 August 2005 05:44, Bronwyn Carlisle wrote:
> b)I'm trying to make a surface and a cartoon of a CA-only structure.
> A search of my email archive tells me that by now Pymol should be
> able to create at least a ribbon from this sort of file, but I can't
> figure out how to do it. Ca
Is there a simple tool for taking a rotation and translation matrix - in
this case, the BIOMT records from a PDB file - and applying it to an
object? Doesn't necessarily have to be in PyMOL; a simple script/program
would do.
thanks,
Nat
Hi Bronwyn,
I had the same problem (using a Logitech MX310 under OS X 10.4.2). As
somebody previously suggested, I just uninstalled the Logitech software,
so the os treats the mouse as 'generic'. And now the middle button
behaves as expected.
hope this helps,
Xavier
Bronwyn Carlisle wrote:
Yes, I know the move command, but my mouse USED to translate things
when you clicked the scroll wheel, it just doesn't since I had to re-
install things. I like using it rather than the command line.
Bronwyn
On 18/08/2005, at 8:14 AM, Peter Adrian Meyer wrote:
Hi Bronwyn,
a) I've just
Hi,
I could not find anything on this in the archives or google. While
rotating a stereo image using the mouse, the molecule suddenly flips
back by about 90 degrees. Seems like I get to see only one side of a
molecule if rotated on one axis. I can get to see the other side if
the molecule is made
Dear all,
I am trying some of pymol scripts from Prof. Robert L. Campbell, which
require cctbx module. but I don't know how to put pymol and cctbx togther.
I download window version of cctbx/python2.4 bundle. and I download
pymol-0_98rc5-bin-win32-py24.zip. Installation of cctbx is fine, but I
>>>*** ABOUT RivaTuner (suggested by Wang Chern Hoe): ***
I'll keep that trick for my personal record and use, but we don't want
to use any dual boot solution in the lab (at least not yet). For a
whole lab solution I will agree with Cameron (cm...@ucsd.edu) who
suggests to opt for a real ha
Thank-you, that worked beautifully. Before the crash the MouseWorks
software can't have been working properly.
Bronwyn
On 18/08/2005, at 10:01 AM, Xavier Deupi wrote:
Hi Bronwyn,
I had the same problem (using a Logitech MX310 under OS X 10.4.2).
As somebody previously suggested, I just u
Actually I was wondering the same thing, except how to set it up in
linux. I was able to compile the cctbx but I'm not sure how to get it to
show up as a python module so that Pymol scripts (e.g. Dr. Campbell's
draw_cell.py) can work. Any help would be greatly appreciated.
Yi Zhang wrote:
Dea
Indraneel,
When you're in walleye or crosseye stereo mode, try to keep the mouse on
either the right-hand or left-hand side of the screen. If you cross
over the center or edge of the window, then you'll get that annoying
jump.
Fortunately, the problem is eliminated in future builds.
Cheers,
War
Thanks a lot. Robert told me the same thing at noon, so I actually did
this for the past few hours, and it never jumped.
One more question, will it be possible to select residues at the
sequence view on the top of the screen without having to drag the
slider, in future builds? (ie. if one have to
Nat,
I'm working on a 'smart' alignment program, hence the rotation and
translation part is a subset of the work. (The part that's written thus
far is the Kabsch algorithm for optimal alignment of two sets of points
of vectors).
I've uploaded the complete script, but what you want is the part to
14 matches
Mail list logo
