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
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
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
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
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()
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
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
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
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.
> >
>
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
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
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 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
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