Dear Michael,
I am using Pymol 1.2r3pre and APBS 1.2, all installed via FINK in my Mac
(10.6.2).
I start pymol, build a TRP, call apbs plugin, set grid, run apbs and I can
see surface and all, but when trying your commands below, pymol-generated
doesn't exist for me.
Either I am doing something
Alan,
my advice is to see if a dx file by another name has been created and,
if so, use that to visualize the field lines.
The full story is below, and might be more interesting to the developers
of the apbs plugins. I'm using PyMOL 1.2r3pre and APBS 1.2 with openmpi
installed via FINK on
On Sun, Feb 14, 2010 at 4:39 PM, David Hall li...@cowsandmilk.net wrote:
I don't think DynoPlot can't do this. Are there even callbacks to
watch for things like changing state in the Pymol GUI? Maybe that
should be a feature request as it would allow for a lot more powerful
plugins.
Hi all,
Being a user of Adobe products, I am use to having a very customizable working
environment so that you could easily improve overall workflow and decrease
fumbling time. I find myself wanting my productivity to increase when using
PyMOL. While I do input a lot of my commands by hand,
Hello,
I'm quite a novice user of PyMOL but I am already impressed at the speed and
beauty of the rendering. But I have some questions regarding it's use for
viewing results of Autodock.
So I normally proceed as follows, i open the PDB molecule say fetch BLABLA
and i get the pdb file...Then i
Hi Msev,
if you download the latest version you'll find what you're looking for. On the
Score/Rank-page you can export docking scores and also docking poses in pdb
format. If you save a list containing different ligands it might indeed look
weired when you reload the file into pymol since
We are attempting to compile pymol on windows so that it is compiled against
the version of python that we use in all of our other software (due to our
IT situation this would make our plugin development substantially easier).
Our version of python is 2.6. We are using the distutils method where
Hi everyone,
Could some explain for me why there are just two hydrogen bonds in G-C base
pair and one hydrogen bond in A-T base pair in my Pymol?
The existing ones are (N-HO) and the missing one is (N-H.H).
Thanks
Take a look at the patch at
http://sourceforge.net/tracker/?func=detailaid=2819455group_id=4546atid=104546,
especially the last part. Another recommendation: Use freeglut 2.6.0
rc1, not glut.
Christoph Gohlke
Laboratory for Fluorescence Dynamics
University of California, Irvine
Song,
This is a naming error that occurs among different distributions. It
should be fixed in the next release. If you need more details ping
Michael Lerner or http://pymolwiki.org/index.php/APBS.
-- Jason
On Mon, Feb 15, 2010 at 8:12 PM, Song Tan sx...@psu.edu wrote:
I'm trying to use the
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