Re: [PyMOL] SCWRL version with educational-use PyMOL?

2015-06-01 Thread Thomas Holder
Hi Emilia, the rotamer library hasn't bee updated in the last 5 years. It looks like it was generated from bbdep02.May.lib and bbind02.May.lib Hope that helps. Cheers, Thomas On 01 Jun 2015, at 16:56, Emilia C. Arturo (Emily) wrote: > David, > > I believe all versions of Pymol use the 200

Re: [PyMOL] create bonds between selections within cutoff radius

2015-06-01 Thread Thomas Holder
Hi Carsten, the Category pages are auto generated, for example every page which contains a [[Category:Commands]] link is listed on the Category:Commands page. Since cmd.find_pairs() is not a command (it's an API-only function) it doesn't have a Category:Commands link. It's listed on http://pym

Re: [PyMOL] SCWRL version with educational-use PyMOL?

2015-06-01 Thread Emilia C. Arturo (Emily)
David, I believe all versions of Pymol use the 2002 version of the library. > I guess you mean SCWRL3.0, which is not the latest version. Can you tell me how you know (or believe :-)) this? Is there a way to find out for certain? Do other versions of PyMOL have the latest SCWRL version? > > -Dav

Re: [PyMOL] create bonds between selections within cutoff radius

2015-06-01 Thread Schubert, Carsten [JRDUS]
Shamelessly hijacking this thread... ...but the index page for the Wiki http://www.pymolwiki.org/index.php/Category:Commands has not been updated for the last 10 year, according to the footer. In other words the "find_pairs" function is not on the index. Makes me wonder, what else is missing?!

Re: [PyMOL] SCWRL version with educational-use PyMOL?

2015-06-01 Thread David Hall
I believe all versions of Pymol use the 2002 version of the library. -David > On Jun 1, 2015, at 1:32 PM, Emilia C. Arturo (Emily) wrote: > > Hello. > > Does anyone know which version of SCWRL (backbone-dependent rotamer library) > is used in the educational-use-only version of PyMOL? > > R

[PyMOL] SCWRL version with educational-use PyMOL?

2015-06-01 Thread Emilia C. Arturo (Emily)
Hello. Does anyone know which version of SCWRL (backbone-dependent rotamer library) is used in the educational-use-only version of PyMOL? Regards, Emily. -- ___ PyMOL-users mail

Re: [PyMOL] stereo requirements

2015-06-01 Thread mathog
On 01-Jun-2015 01:43, EPF (Esben Peter Friis) wrote: > If you need stereo-in-a-window, you must have a Quadro card. And not just _any_ Quadro card. Nvidia periodically desupports stereo on older model Quadros. We had a bunch of machines with Quadro FX 1400 cards stuck at an old Nvidia driver a

Re: [PyMOL] citing pymol script in thesis--copyright issues?

2015-06-01 Thread Thomas Holder
Hi Suzanne, you are welcome to put those modified scripts in your thesis. The PyMOL Open-Source license only asks you to include the original copyright notice, see: https://sourceforge.net/p/pymol/code/HEAD/tree/trunk/pymol/LICENSE Cheers, Thomas On 31 May 2015, at 18:44, Lapolla, Suzanne M (

Re: [PyMOL] stereo requirements

2015-06-01 Thread EPF (Esben Peter Friis)
Hi Gary GeForce cards do support Nvidia 3D vision 2 under Windows, but in full screen only. (Tested with Windows 8, PyMOL and an Alienware 3D-capable laptop). If you need stereo-in-a-window, you must have a Quadro card. It works with Yasara too (full screen), but for unknown reasons, the stereo

[PyMOL] stereo requirements

2015-06-01 Thread Gary Hunter
To avoid confusion (mine) can you please specify whether or not Quadro cards are still necessary for stereo on Windows systems. Will a GeForce card (not quadro) support nvidia nvision 3D ? I remember a recent post concerning this but cant seem to find it. Gary Hunter -- Prof. Gary J. Hunter,