Warren, XiG would like to know what is happening with PyMOL and Accelerated-X. We are not experts with PyMOL so we may need help reproducing the problem.
WLD>What numeric version of Summit are you using? WLD>What Summit series do you have (LX, DX, CX, WX, etc.)? WLD>What operating system, distro, and version are you running? Most of this information can be generated by running the 'Xsupport' script and sending the the output. For instance send the file 'xsupport.txt' that is made by running the command: # /usr/X11R6/lib/X11/AcceleratedX/bin/Xsupport > xsupport.txt This output also contains other information that we might need to reproduce the problem here. What GL render mode does PyMOL use while picking objects? Sincerely, -- Mike Ginis mgi...@xig.com http://www.xig.com ------------------------------------------------------------------------ On Wed, 21 Jan 2004, Warren L. DeLano wrote: WLD>PyMOL Users, WLD> WLD>It appears that some PyMOL users are having trouble with Xi WLD>Graphics' Summit line of OpenGL graphics drivers, version 2.2. WLD> WLD>Atom picking (which uses glReadPixels with color-encoded pixel WLD>buffers) fails with these drivers. It's unclear right now whether WLD>the problem is due to the XiG OpenGL implementation or with the WLD>default keyboard modifier event mapping. WLD> WLD>If you are both a PyMOL and Summit user (any version), please help by WLD>responding to me directly with information about: WLD> WLD>What numeric version of Summit are you using? WLD>What Summit series do you have (LX, DX, CX, WX, etc.)? WLD>What operating system, distro, and version are you running? WLD>Does atom picking and mouse selection work for you in PyMOL? WLD>Does PyMOL work fine under XFree86 with the identical hardware setup? WLD> WLD>Once we understand the extent of the problem, we'll try to set up our WLD>own Summit install here and then track down the problem... WLD> WLD>Cheers, WLD>Warren WLD> WLD>-- WLD>mailto:war...@delanoscientific.com WLD>Warren L. DeLano, Ph.D. WLD>Principal Scientist WLD>DeLano Scientific LLC WLD>Voice (650)-346-1154 WLD>Fax (650)-593-4020 WLD> WLD>> -----Original Message----- WLD>> From: Dr. Daniel James White PhD [mailto:d...@chalkie.org.uk] WLD>> Sent: Wednesday, January 21, 2004 1:20 AM WLD>> To: t.gran...@ubs.u-bordeaux1.fr; Warren L. DeLano WLD>> Subject: pymol, with summit2.2 Xserver on linux WLD>> WLD>> Hi, WLD>> WLD>> I get this problem also. WLD>> I fear is the the summit Xserver niot handling mouse events properly WLD>or WLD>> something. WLD>> My mouse is a ps2 logitech with a scroll wheel button. WLD>> I can't do ctrl-click operations. WLD>> WLD>> Have you also noticed that your sound does not work with summit, but WLD>> does with XFree86? WLD>> WLD>> cheers WLD>> WLD>> Dan WLD>> WLD>> WLD>> Message: 1 WLD>> From: "Warren L. DeLano" <war...@delanoscientific.com> WLD>> To: "'Thierry Granier'" <t.gran...@ubs.u-bordeaux1.fr>, WLD>> <pymol-users@lists.sourceforge.net> WLD>> Subject: RE: [PyMOL] mouse WLD>> Date: Fri, 16 Jan 2004 08:12:42 -0800 WLD>> WLD>> Thierry, WLD>> WLD>> This behavior could be the symptom of either malfunctioning OpenGL, or WLD>a WLD>> screen with two few colors to support color-encoded picking (which is WLD>> what PyMOL uses behind the scenes). WLD>> WLD>> Please confirm that your display is running in 24 or 32 bit color. If WLD>> that is the case and picking still fails, then please try saving a png WLD>> file of what you see on the screen ("png filename.png"). If that PNG WLD>> file exhibits any distortion or artifacts, then that's the cause of WLD>the WLD>> problems. Otherwise, PyMOL may have a bug... WLD>> WLD>> Cheers, WLD>> Warren WLD>> WLD>> WLD>> -- WLD>> mailto:war...@delanoscientific.com WLD>> Warren L. DeLano, Ph.D. WLD>> Principal Scientist WLD>> DeLano Scientific LLC WLD>> Voice (650)-346-1154 WLD>> Fax (650)-593-4020 WLD>> WLD>> > -----Original Message----- WLD>> > From: pymol-users-ad...@lists.sourceforge.net [mailto:pymol-users- WLD>> > ad...@lists.sourceforge.net] On Behalf Of Thierry Granier WLD>> > Sent: Friday, January 16, 2004 12:52 AM WLD>> > To: pymol-users@lists.sourceforge.net WLD>> > Subject: [PyMOL] mouse WLD>> > WLD>> > Good morning, WLD>> > WLD>> > I am trying to use pymol on a PC linux RedHat 9.0 using WLD>> > the software summit 2.2 of Xig, and I run into the following WLD>> > problem: WLD>> > after loading a molecule, when I try to click on an atom, for WLD>> selection, WLD>> > using WLD>> > CTRL shif lb or CTRL shift lb, I get the message WLD>> > "no atom found nearby" WLD>> > WLD>> > I have tried all the mouse settings from the gui with no success. WLD>> > WLD>> > Any help will be appreciated, WLD>> > thank you WLD>> > WLD>> > Thierry Granier. WLD>> > WLD>> > WLD>> > WLD>> > WLD>> > ------------------------------------------------------- WLD>> > The SF.Net email is sponsored by EclipseCon 2004 WLD>> > Premiere Conference on Open Tools Development and Integration WLD>> > See the breadth of Eclipse activity. February 3-5 in Anaheim, CA. WLD>> > http://www.eclipsecon.org/osdn WLD>> > _______________________________________________ WLD>> > PyMOL-users mailing list WLD>> > PyMOL-users@lists.sourceforge.net WLD>> > https://lists.sourceforge.net/lists/listinfo/pymol-users WLD>> WLD>> WLD>> WLD>> WLD>> Dr. Daniel James White BSc. (Hons.) PhD WLD>> Cell Biology WLD>> Department of biological and environmental science WLD>> PO Box 35 WLD>> University of Jyv?skyl? WLD>> Jyv?skyl? FIN 40014 WLD>> Finland WLD>> +358 (0)14 260 4183 (work) WLD>> +358 (0)414740463 (mob) WLD>> WLD>> http://www.chalkie.org.uk WLD>> d...@chalkie.org.uk WLD>> wh...@cc.jyu.fi
