On Wed, Jan 21, 2004 at 09:11:01PM -0800, Morri Feldman wrote:
> Regarding my problems raytracing on my debian/testing machine.
What is the exact version of the pymol .deb you're using? 0.93-2?
What architecture are you running on? i386 or something else?
Do you use pymol's internal raytracer, or
Does anyone know if it is possible to add 'help' documentation to my own
user-defined functions? What I want is to be able to define a new PyMOL
command by executing the following script:
#--
def some_func:
'''
Some help docs here...
'''
# Pyth
On Thu, 22 Jan 2004 11:02:25 +0100 Michael Banck wrote:
> On Wed, Jan 21, 2004 at 09:11:01PM -0800, Morri Feldman wrote:
> > Regarding my problems raytracing on my debian/testing machine.
>
> What is the exact version of the pymol .deb you're using? 0.93-2?
pymol_0.93-2_i386.deb
> What architect
Hi,
I haven't seen this documented anywhere, so I have no idea if it's the
Right Way to do things, but I think all you need to do is add
cmd.help_sc.append('some_func')
after the cmd.extend('some_func',some_func) call. should this be built in
to cmd.extend()?
-michael
--
This isn't a democrac
I recently installed a new version of pymol using all-in-one archive
pymol-0_93-bin-linux-libc6-i386.tgz. When I try to run pymol the program
crashes and gives this error message:
pymol.com: line 14: 10610 Floating point exception$PYMOL_PATH/pymol.exe $*
I am trying to do this on a PC running S
Package: pymol
Version: 0.93-2
On Thu, Jan 22, 2004 at 08:53:37AM -0800, Morri Feldman wrote:
> On Thu, 22 Jan 2004 11:02:25 +0100 Michael Banck wrote:
>
> > On Wed, Jan 21, 2004 at 09:11:01PM -0800, Morri Feldman wrote:
> > > Regarding my problems raytracing on my debian/testing machine.
> >
>
Yes,
PyMOL can visualize CA-only models, perform CA-based alignments on CA
models, visualize all-atom models, perform CA-based alignments on all
atom models, and perform all-atom alignments on all-atom models.
Cheers,
Warren
--
mailto:war...@delanoscientific.com
Warren L. DeLano, Ph.D.
Principa
Warren L. DeLano [war...@delanoscientific.com] wrote:
> Yes,
>
> PyMOL can visualize CA-only models, perform CA-based alignments on CA
> models, visualize all-atom models, perform CA-based alignments on all
> atom models, and perform all-atom alignments on all-atom models.
Thats great !
To make
Takefumi,
You only need to worry about this if you're using an external Python
interpreter with a modular build of PyMOL. For example, after
installing a late-model linux PyMOL RPM, you run
python script.py
Where script.py contains the following sequence:
import pymol
pymol.finish_launching()
Thanks for the suggestion, and the solution.
In Versions >= 0.95, cmd.extend will will adds new commands into the
help dictionary.
In the meantime
cmd.help_sc.append('func_name')
will work...
Cheers,
Warren
--
mailto:war...@delanoscientific.com
Warren L. DeLano, Ph.D.
Principal Scienti
On Thu, 22 Jan 2004, Warren L. DeLano wrote:
> Where script.py contains the following sequence:
>
> import pymol
> pymol.finish_launching()
>
> [PS If there's anyone out there with a more elegant alternative for
> launching the PyMOL thread from a standalone Python script, I'd sure
> like to hea
Lesley,
set cartoon_transparency, 0.6
should do the trick. Note that you may need to ray-trace the image to
avoid transparency artifacts.
Cheers,
Warren
--
mailto:war...@delanoscientific.com
Warren L. DeLano, Ph.D.
Principal Scientist
DeLano Scientific LLC
Voice (650)-346-1154
Fax
Michal,
Unfortunately, beautiful backbones require N and C coordinates as well,
because PYMOL uses AA geometry to determine orientation vectors. The
best you can do with CA only is a tube.
Cheers,
Warren
--
mailto:war...@delanoscientific.com
Warren L. DeLano, Ph.D.
Principal Scientist
DeLano Sc
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