Dr. Delano,
Thank you for the information.
--- Warren DeLano wrote:
> Douglas,
>
> It is the molecular or "Connolly" surface: the
> surface that would be traced
> out by the *surfaces* of waters in contact with the
> protein at all possible
> positions.
>
> There's nothing in PyMOL that would
Hi,
Anyone out there have a spec file (or srpm) for building a pymol v0.98
RPM on CentOS-4 or Fedora Core 3?
I succeeded in building a monolithic pymol RPM (~11MB) on CentOS by
basically wrapping the standalone
pymol-0_98rc3-bin-linux-x86-glibc23.tgz, but this resulted in an
executable that w
Alejandro,
Someone a while back wrote a beautiful script to do this for us. I
posted it on the wiki. Check out
http://www.pymolwiki.org/index.php/Stereo_Ray
It should have all the information you'll need.
HTH,
-- Jason
On Fri, 2005-06-10 at 20:19 -0700,
pymol-users-requ...@lists.sourceforge.
Hi Marty,
Sorry if this misses your point, but it is possible to translate molecules
independantly in pymol:
http://sourceforge.net/mailarchive/message.php?msg_id=11658301
However, that won¹t help if you want to show overlap. To do this, you would
have to repeatedly call translate and distan
Hi,
I'd like to know what charges Pymol uses when
generates a pqr file from a pdb.
The follow-up would be is whether there was
a way to change this, say if one wanted to
use charmm charges rather than amber.
It seems that APBS hates chain IDs. Is that
really so, or just my imagination?
Thanks
Additionally, if you have the ImageMagick suite of tools on your machine
(most Linux distros come with it) you can use the 'montage' program to
stitch the two images together automagically. Just add the lines:
print "Creating the stereo image"
montage = '"montage +frame +shadow +label -tile 2
Hello , I tried to open an r3d (raster3d) file in pymol version 0.98 and I
get the following error
Traceback (most recent call last):
File "/xtal2/pymol/modules/pymol/__init__.py", line 218, in exec_deferred
cmd.load(a,quiet=0)
File "/xtal2/pymol/modules/pymol/importing.py", line 549, in load
dis