[PyMOL] default view on load (2.0)?

Forgive me if this is answered somewhere else. I couldn't find the answer. How does one change the default view on startup/load (now cartoon in 2.0) to lines or sticks? Thanks, --paul -- Check out the vibrant tech c

Re: [PyMOL] valence_size?

Clarification: valence_size for sticks does not work. It does work for lines. On 10/03/2017 04:32 PM, Paul Paukstelis wrote: I cannot seem to get the "valence_size" setting to do anything. Regardless of the setting, double bonds are drawn the same distance apart. Bug or am

[PyMOL] valence_size?

I cannot seem to get the "valence_size" setting to do anything. Regardless of the setting, double bonds are drawn the same distance apart. Bug or am I missing something? (Pymol. 2.0 incentive). -- Check out the vibrant

Re: [PyMOL] change in VRML format output

t; optimize this for the next PyMOL release. > > Cheers, > Thomas > > On 24 Feb 2017, at 12:02, Paul Paukstelis wrote: > >> There seem to have been some changes in how the VRML2 output is done >> between 1.7.X and 1.8.X, though I can't find it documented in chang

[PyMOL] change in VRML format output

There seem to have been some changes in how the VRML2 output is done between 1.7.X and 1.8.X, though I can't find it documented in change logs. In 1.7.X, vrml2 output would convert sticks to cylinders that was dependent on color. If a bond were split into two colors, it would output as two cyli

Re: [PyMOL] 3D printing

Bob, I've just started 3D printing myself. I've been focusing on complex ball-and-stick models (I posted some questions about WRL output not too long ago), as there seems to be very few people doing these type of models. By most accounts, doing surfaces or cartoons is more straightforward, an

Re: [PyMOL] VRML export

> Hi Paul - > > The relevant function used for VRML export is RayRenderVRML2() in > layer1/Ray.cpp. > > Cheers, > > Jared > >> On Sep 22, 2016, at 11:43 AM, Paul Paukstelis >> wrote: >> >> Greetings, >> >> I've started playing with 3D pr

[PyMOL] VRML export

Greetings, I've started playing with 3D printing some ball-and-stick models (primarily nucleic acids). I've worked up some Blender scripts to enable automatic pinning (e.g. add a small pin to cylinder of the O3'-P bond and a correspond hole in the phosphate sphere), however, I'm trying to furt

Re: [PyMOL] Session scene compatibility with MacPymol?

not only get them a more up-to-date PyMOL version, but as an added bonus, a little exposure to a Unix command line environment. Hope that helps. Cheers, Jared On Sep 2, 2016, at 4:24 PM, Paul Paukstelis <mailto:shocksofmig...@gmail.com>> wrote: Are there known session issues with

[PyMOL] Session scene compatibility with MacPymol?

Are there known session issues with MacPymol? I've saved a session for my students to look at using my linux incentive linux build and tried various session compatibility settings (1.6, 1.74, 1.76) but in all cases the preset scenes I've saved in the session are not loaded when the session is o

Re: [PyMOL] measuring wizard

I've run into this before as well. I think the simplest work around is just to alter the chain of the symmetry mate. --paul On 10/02/2015 02:58 PM, Oganesyan, Vaheh wrote: > Hi PyMOL users, > > In measuring wizard I'm consistently facing an annoying property that allows > me to measure only one

[PyMOL] AxPymol with wine?

Has anyone successfully installed AxPymol under wine? I thought I would give this a try as a way to avoid having to fire up a VM on older hardware. --paul -- Dive into the World of Parallel Programming The Go Parallel We

Re: [PyMOL] Pymol OpenGL ES?

uture), pymol would really make it a complete mobile device. --p On 07/17/2013 12:02 PM, Jason Vertrees wrote: > Hi Paul, > > It's been done already. See, PyMOL on the iPad (http://pymol.org/mobile). > > Cheers, > > -- Jason > > On Wed, Jul 17, 2013 at 10:55 AM, P

[PyMOL] Pymol OpenGL ES?

Just out of curiosity, are there any plans to port pymol over to use OpenGL ES to bring it to more mobile devices? -- Paul Paukstelis, Ph.D Assistant Professor University of Maryland Chemistry & Biochemistry Dept. Center for Biomolecular Structure & Organization pauks...@umd.edu 301-

Re: [PyMOL] Odd issue with control and shift keys in pymol

the repository). >> >> It is annoying. Right now I have to use another computer if I want to >> use the more 'advanced' functions of PyMOL. >> >> I found one other person with the same problem who posted to the >> Fedora forum, and got no response: >> h

[PyMOL] Control and shift keys not functioning (Fedora 18)

be pymol specific as coot and other programs work fine. Has anyone seen this before? Thanks, --paul -- Paul Paukstelis, Ph.D Assistant Professor University of Maryland Chemistry & Biochemistry Dept. Center for Biomolecular Structure & Organization pauks...@um

[PyMOL] Odd issue with control and shift keys in pymol

I've found that all recent versions (1.5, 1.6, non-incentive) of Pymol on my laptop running updated Fedora 18 (nvidia drivers) don't allow me to use the control or shift keys for selection or editing in the gui. I dug out an older version (1.4.1) and it behaved properly. It appears to be pymol

[PyMOL] educational build?

I would be interested in using pymol in my class. Is there an educational build that students can download? All the links I found are dead. Thanks. --paul -- Sell apps to millions through the Intel(R) Atom(Tm) Develope