[PyMOL] ordering objects in the Object Control Panel in PyMOL 3

2024-04-25 Thread Engin Özkan
ly below. Deleting all groups lets me fully order the list again using two-finger drag (but ctrl-drag still does not work). Also I have not managed to move groups at all using mouse actions. I have not tried the order command in command line. Best, Engin -- Engin Özkan, Ph.D. Associate Professor

Re: [PyMOL] [EXTERNAL] Student version

2023-10-06 Thread Engin Özkan
aC4bKhTKFhhL4H-ldFoxLn3QIHqARfp2zYm2Y$ [sourceforge[.]net] ___ PyMOL-users mailing list Archives:http://www.mail-archive.com/pymol-users@lists.sourceforge.net Unsubscribe:https://sourceforge.net/projects/pymol/lists/pymol-users/unsubscribe -- Engin Özk

Re: [PyMOL] on contact surface and domain angle

2016-04-04 Thread Engin Özkan
Hi, On 4/4/16 6:04 PM, João M. Damas wrote: > formula you present gives "twice" the BSA, depending of the definition Agreed on all points, except that by my reading of the literature (since the days of Chothia and colleagues, 1970s through this century), the definition for BSA (or more accurate

Re: [PyMOL] X11 2.7.7

2014-10-28 Thread Engin Özkan
Ehem, what do you mean by "does not work". I just started PyMOLX11Hybrid.app (version 1.7.2.3) in OS X Yosemite with X11 2.7.7, and it "worked". Any functionality that's broken? Also, did you reinstall Xquartz (same version) if you upgraded to Yosemite? That seems to be required as Yosemite wip

Re: [PyMOL] CONECT table

2014-10-07 Thread Engin Özkan
PyMOL-users mailing list (PyMOL-users@lists.sourceforge.net) Info Page: https://lists.sourceforge.net/lists/listinfo/pymol-users Archives: http://www.mail-archive.com/pymol-users@lists.sourceforge.net -- Engin Özkan, Ph.D. Assistant Professor Dept of Biochemistry and Molecular Biology University

Re: [PyMOL] Pymol 1.3 and 1.6 compatability?

2014-01-14 Thread Engin Özkan
While you are updating, you might as well update to the very recently released version, 1.7. Engin On 1/14/14, 3:07 PM, Marcelo Marcet wrote: > Hi Lapolla, > > Yes, you can keep your pymol v1.3 and v1.6. Just make sure that they have > different names. You will also be able to open your old pse

Re: [PyMOL] Sequence numbers in MacPyMOL 1.6.0.0 with background set to white

2013-09-04 Thread Engin Özkan
I forgot to explicitly say, this is only for the Sequence View panel, which has a black background regardless of the background parameter. And it applies to both sequence numbers and chain labels. Sequences themselves are displayed correctly. Engin On 9/4/13 12:59 PM, Engin Özkan wrote: >

Re: [PyMOL] Sequence numbers in MacPyMOL 1.6.0.0 with background set to white

2013-09-04 Thread Engin Özkan
gin, > > If you go to Edit_all and change the seq_view_label_color to grey the numbers > will become visible with white bkgr. > > Vaheh > > > > > -----Original Message- > From: Engin Özkan [mailto:eoz...@stanford.edu] > Sent: Wednesday, Septe

[PyMOL] Sequence numbers in MacPyMOL 1.6.0.0 with background set to white

2013-09-04 Thread Engin Özkan
Hi everybody, Using MacPyMOL 1.6.0.0 Incentive Build, I no longer can see residue numbers in the sequence if the background is set to white. I have been playing with all the seq_view_* settings (thanks for documenting them clearly within the Edit All Settings window!), especially seq_view_labe