Re: [PyMOL] Re: macpymol beta 21 bug in 10.4.3?
I've given it a quick run on a new Powerbook with the ATI Radeon 9700 w/128 MB, and I can't reproduce the flicker. Same thing with a G5 with a 9800 with 256 MB. My dual G4 with a Radeon 9000 (128 MB) does show the flicker, however, and Jespers trick does the trick. No more flicker. Dan -- Dr. Daniel Moriarty Siena College Chemistry and Biochemistry Dept. 515 Loudon Road Loudonville, NY 12211 (518) 783-2472 fax: (518) 276-4887 From: Martin Montgomery m...@mrc-dunn.cam.ac.uk Date: Fri, 4 Nov 2005 13:05:10 + To: pymol-users pymol-users@lists.sourceforge.net Subject: Re: [PyMOL] Re: macpymol beta 21 bug in 10.4.3? Just for completeness, I've now checked a 20 G5 iMac with a 128MB ATI card and it is fine. Also, I can confirm that there is not a problem whilst using X11 pymol on a 64MB ATI card. Cheers MGM Flicker problem here on a PowerBook 1.5 G4 w/ 64 MB ATI card under 10.4.3 however, if I launch X11 and run PyMol under that - (version 0.97), then there's no problem Chris On 4 Nov 2005, at 12:26, Martin Montgomery wrote: I've just tested a G5 imac with a GeForce FX5200 with 64MB RAM and macpymol 99beta21/25 and it works fine with 10.4.3. It seems the problem is limited to ATI graphics cards with less than 256 RAM. nVidea cards are not affected. Will try an ATI card with 128MB RAM if I can find one here. I have also used my powerbook which has an ATI card and has the flicker problem to boot (via target mode firewire) a G5 iMac with an nVidea card and there is no problem when the powerbook system uses the iMac graphics. Cheers MGM On 4 Nov 2005, at 12:08, khin...@cea.fr wrote: On Nov 4, 2005, at 12:38, Martin Montgomery wrote: Tested 99beta21 and 99beta25 on a dual 2.5 with ATI 9800 XT (256 MB) with 10.4.2 and it works fine. After upgrading to 10.4.3 on that machine, everything is still fine. Also tried 99beta25 on my machine (ATI 9600 Pro - 64MB) and that still has a problem. I then booted into my back up clone which is at 10.4.2 and 99beta21 and 99beta25 work just fine. So the 64MB ATI cards look to be dodgy under 10.4.3 whilst the better spec ATI ones are OK. Will try and find a nVidia 64MB equipped mac for comparison. On my iMac G4 (nVidia GeForce FX 5200 with 64 MB VRAM), I have not noticed any change after updating to 10.4.3. I use a self-compiled PyMol 0.98. Konrad. -- - Konrad Hinsen Laboratoire Léon Brillouin, CEA Saclay, 91191 Gif-sur-Yvette Cedex, France Tel.: +33-1 69 08 79 25 Fax: +33-1 69 08 82 61 E-Mail: khin...@cea.fr - --- SF.Net email is sponsored by: Tame your development challenges with Apache's Geronimo App Server. Download it for free - -and be entered to win a 42 plasma tv or your very own Sony(tm)PSP. Click here to play: http://sourceforge.net/geronimo.php ___ PyMOL-users mailing list PyMOL-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/pymol-users --- SF.Net email is sponsored by: Tame your development challenges with Apache's Geronimo App Server. Download it for free - -and be entered to win a 42 plasma tv or your very own Sony(tm)PSP. Click here to play: http://sourceforge.net/geronimo.php ___ PyMOL-users mailing list PyMOL-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/pymol-users --- SF.Net email is sponsored by: Tame your development challenges with Apache's Geronimo App Server. Download it for free - -and be entered to win a 42 plasma tv or your very own Sony(tm)PSP. Click here to play: http://sourceforge.net/geronimo.php ___ PyMOL-users mailing list PyMOL-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/pymol-users
RE: [PyMOL] Hardware Stereo OSX Tiger 10.4
I've had the same problem as well. I'm using a dual G5 with a Radeon 9800 Pro using the CrystalEyes system. I've also tried getting it work on several different systems running 10.4, and full screen stereo will not work on any of them. If I boot the G5 into 10.3.9, full screen stereo works fine. I can also run full screen stereo on the G5 running 10.4 using Nanasaur 2 (heck of a way to test full screen stereo!). Dan --- Dr. Daniel Moriarty Dept. of Chemistry Biochemistry Siena College 515 Loudon Road Loudonville, NY 12211 (518) 783-2472 http://www.siena.edu/chemistry/ -Original Message- From: pymol-users-ad...@lists.sourceforge.net on behalf of Stephen Dunham Sent: Tue 9/27/2005 12:15 AM To: pymol-users@lists.sourceforge.net Subject: [PyMOL] Hardware Stereo OSX Tiger 10.4 Hi Can anyone lend support on getting full screen stereo to work with either MacPymol 0.98 or the latest beta 0.99. I am running Mac OS X version 10.4.2 on a dual G5 system with an ATI Radeon 9650 graphics card and a Monitor Z-screen 2000i. I have been able to run the GLUTStereo demo from the apple site, so I believe the hardware is working correctly. http://developer.apple.com/samplecode/GLUTStereo/GLUTStereo.html Any suggestions would be appreciated. thanks, Steve -- Stephen U. Dunham TEL 610 625-7103 Department of ChemistryFAX 610 625-7918 Moravian College 1200 Main Street Bethlehem, PA 18018 www.biochem.moravian.edu/biochemmain.html
Re: [PyMOL] keynote and pymol
I've had the same experience as well. I've found that it works a little better in the newer version. It's not perfect, but my movies do look better than when I use Powerpoint. Dan From: William Scott wgsc...@chemistry.ucsc.edu Date: Sat, 4 Jun 2005 22:25:34 -0700 (PDT) To: pymol-users@lists.sourceforge.net Subject: [PyMOL] keynote and pymol I was wondering if anyone out there has any experiance with usuing Apple's Keynote to display animated pymol gif's. I've had a look in the archives and couldn't find anything. On a second note (and sorry to open up this debate again), What is the consensus for displaying a pymol movie in a presentation package such as powerpoint? i've tried avi and mpeg but i find that there is a loss in the quailty when compared to the sharpness of a animated gif. Many Thanks Rick Young Hi Rick: I use pymol movies in keynote all the time. It seems to work well with either animated gifs or quicktime movies. If you dig around inside your presentation you will see the animated gifs get converted to quicktime movies. My experience is it doesn't blow chunks quite as much as powerpoint. HTH, Bill --- This SF.Net email is sponsored by: NEC IT Guy Games. How far can you shotput a projector? How fast can you ride your desk chair down the office luge track? If you want to score the big prize, get to know the little guy. Play to win an NEC 61 plasma display: http://www.necitguy.com/?r=20 ___ PyMOL-users mailing list PyMOL-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/pymol-users
[PyMOL] using the build function
Hello everyone, I'm trying to build some model proteins for a diagram showing a protein unfolding over several steps. I'm using the build function in the 0.95beta10 release. The main problem is that I can't control the angle of the protein chain, so the chain just goes off in one direction only, unless proline is placed in the middle of a helix at which point it goes off at a new angle. This makes me think that it can be specified, but I just don't know how to do it. Any help would be appreciated, Dan
