e sent that has been found wanting.
Regards,
--
Joe
> To print out the coordinates within Pymol, you need to use the command
> iterate_state, e.g.:
>
> iterate_state 1, , print x,y,z
>
> Where is the name of the object for the atom(s) you've
> selected, and x, y, &z a
On Wed, Jul 05, 2006 at 04:33:16PM -0400, John Anderson wrote:
> or are the coordinates in the pdb file?
They are, yes.
--
D. Joe
On Sat, Jan 14, 2006 at 04:51:21PM -0800, Warren DeLano wrote:
> The Quadro FX 4500-based PowerMac G5 is Steve Jobs' timely and direct
> answer [...]
> The UNIX-based Mac has become the robust, low-cost, well-supported, and
> high-performance replacement for SGI workstations that Linux never
> deli
On Thu, Dec 01, 2005 at 01:36:08PM -0800, Warren DeLano wrote:
and before that, Sarina had noted:
> >File "", line 1
> > b=3D10
> > ^
> > SyntaxError: unexpected EOF while parsing
> > Alter-Error: Aborting on error. Assignment may be incomplete.
> > Alter: modified 0 atoms.
> >
On Mon, Oct 17, 2005 at 02:43:42PM -0700, Warren DeLano wrote:
>
> You'll only need the new PyMOL build if you are using a
> non-quadro graphics card to drive your geowall.
Can dual-head Macs drive a two-display GeoWall-type setup under
PyMOL?
--
D. Joe
On Mon, Oct 24, 2005 at 10:18:40AM -0500, Kristl Adams wrote:
> I have several txt files of coordinates (mostly heme type compounds)
> that I'd like to format correctly for pymol to be able to read. I've
> tried several things looking at PDBs with hemes, but can't figure it out.
>
> Will someon
So, that sure looks like PyMOL to me (actually, four instances
of it) running on the display of a PowerMac G5 on the
newly-updated Apple Store website today.
My question is, which structure is that?
--
D. Joe Anderson, Asst. Sci.2252 Molecular Biology Bldg
Biochem, Biophys, & Mol
to do that (even if just in full
screen mode, or in Linux if/when the drivers catch up) on the G5
PowerMacs we're deploying now. I'd also appreciate reading
about experience with this that anyone has had.
--
D. Joe Anderson, Asst. Sci.2252 Molecular Biology Bldg
Biochem, B
a heavily used Wiki its definitely easy to get lost.
Agreed. To have a better shot at success, a wiki needs to be
seeded with some initial content, and some initial stylistic
conventions (free links vs CamelCase wiki names, for instance)
should be set down.
--
D. Joe Anderson, Asst. Sci.2252
a new set of drivers were made
available Nov 5.
It'll be interesting to hear how they fare with PyMOL, and if
any difficulties get cleared up by them.
--
D. Joe Anderson, Asst. Sci.2252 Molecular Biology Bldg.
BBMB Research Computing Support
www.bb.iastate.edu/computing
Image width
> or height is zero in IHDR
It seems that in order to save the image, you must first display
the image. This limitation has been noted earlier:
http://sourceforge.net/mailarchive/message.php?msg_id=8551897
--
D. Joe Anderson, Asst. Sci.2252 Molecular Biology Bldg.
BBMB Research Computing Support
www.bb.iastate.edu/computing bbsupp...@iastate.edu
when I tried to take the stl files through the first stage
of the conversion, I got an error about the input not being a
valid stl file. I'm hoping to get my hands on an stl file from
another source (AutoCAD, maybe?) and seeing if I can tease out
what the problem is.
--
D. Joe Anderson, As
) and ever since then have been thinking
over ways to approach putting a system like this together (both
technical as well as what kind of funding to try to use).
What kind of uses does your system see? Is it predominately
used by researchers, or by classes, or a good mix between the
two?
--
D. J
On Fri, Aug 13, 2004 at 05:07:47PM +0200, Michael Banck wrote:
> On Fri, Aug 13, 2004 at 08:34:17AM -0500, D. Joe Anderson wrote:
On Tue, Aug 03, 2004 at 11:31:04AM -0700, chuit...@interchange.ubc.ca wrote:
> > > I have a small tutorial for getting started with PyMOL and I
d to:
>
> http://www.microbiology.ubc.ca/eltis/pymol/
I've got it bookmarked. Thanks for the tutorial, and for posting the link.
--
D. Joe Anderson, Asst. Sci.2252 Molecular Biology Bldg
Biochem, Biophys, & Mol Bio Iowa State Univ, Ames, IA 50010
How to Report Bugs Effectively
htt
ython.net/crew/hinsen/MMTK/
Probably, given messages to this list like this one, for instance:
http://sourceforge.net/mailarchive/forum.php?thread_id=1419207&forum_id=60
--Joe
--
D. Joe Anderson, Asst. Sci.2252 Molecular Biology Bldg.
BBMB R
ize into print times, but whatever PyMOL-specific details you
want to provide would be great.)
Best Regards,
--Joe
--
D. Joe Anderson, Asst. Sci.2252 Molecular Biology Bldg.
BBMB Research Computing Support
www.bb.iastate.edu/computing bbsupp...@iastate.edu
. i don't know
> if this emitter and enabler cable work with nuvision glasses?
They do in my hands, using the NuVision NSR (for non stereo-ready cards like
the 8500) glasses.
--Joe
_________
D. Joe Anderson, Asst. Sci.
http://www.public.iastate.edu/~deejoe
On Wed, Jan 29, 2003 at 01:22:52PM +0100, Marc Saric wrote:
> Hi all,
>
> I recently installed the very nice new rTools 0.5.2 with the latest
> release of Pymol (0.8.6) on a PC running SuSE-Linux 8.1.
>
> After setup of all external programs I tried to run HBExplore, but got
> an error from the
On Wed, Jan 29, 2003 at 08:11:27PM +0100, Eugen Leitl wrote:
> On Wed, 29 Jan 2003, Naveen Michaud-Agrawal wrote:
>
> > Hi, this is more a general question related to using pymol on linux, but
> > does anyone have any 3D graphics card recommendations for linux; ie good
> > driver support, supports
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