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 > Date: Fri, 4 Nov 2005 13:05:10 + > To: pymol-users > 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] 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
Re: [PyMOL] Re: macpymol beta 21 bug?
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 Nov 4, 2005, at 7:26 AM, 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 Christopher M. Yip, Ph.D., P.Eng. Associate Professor - Canada Research Chair in Molecular Imaging Department of Chemical Engineering and Applied Chemistry Department of Biochemistry Institute of Biomaterials and Biomedical Engineering The Terrence Donnelly Centre for Cellular and Biomolecular Research University of Toronto Room 404 160 College St. Toronto, ON, CANADA M5S 3E1 (416) 978-7853 (416) 978-4317 (fax) christopher@utoronto.ca http://bigten.ibme.utoronto.ca
Re: [PyMOL] Re: macpymol beta 21 bug?
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
Re: [PyMOL] Re: macpymol beta 21 bug?
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 -
[PyMOL] Re: macpymol beta 21 bug?
Hi Warren, 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. Having just read Jesper's email regarding getting drivers at ATI's website, I had a look and there are no mac drivers available as far as I can see. Only the ATI Displays software. After installing this on my machine, nothing has changed. The molecule loads fine and the window behaves in "default" line representation but when I change to cartoon (or any other) representation, the window flickers badly. Cheers MGM On 4 Nov 2005, at 03:48, Warren DeLano wrote: Martin, 10.4.3 is one ingredient in this problem -- ATI may be another...still trying to reproduce it here, but so far all our nVidia-based 10.4.3 machines are doing just fine. Cheers, Warren -- Warren L. DeLano, Ph.D. Principal Scientist . DeLano Scientific LLC . 400 Oyster Point Blvd., Suite 213 . South San Francisco, CA 94080 USA . Biz:(650)-872-0942 Tech:(650)-872-0834 . Fax:(650)-872-0273 Cell:(650)-346-1154 . mailto:war...@delsci.com -Original Message- From: Martin Montgomery [mailto:m...@mrc-dunn.cam.ac.uk] Sent: Thursday, November 03, 2005 5:08 AM To: Warren DeLano Subject: macpymol beta 21 bug? Hi Warren, I'm having a problem with 0.99 beta 21. I get an occasional glitch where the graphics pane and GUI flickers badly when I move/zoom the molecule. This can be temporarily corrected by resizing the window and typing reset. However sometimes, after a little while, the flicker returns. The "brushed metal" surround of the window does not flicker nor does the text pane. One possible cause is that I have updated to 10.4.3 and am not sure whether the problem also occurred in 10.4.2 but I could boot into my backup clone and check. 10.4.3 has meant that the fans are running more often even when the computer is doing very little. I've got a Dual 2Ghz G5 with 3.5G RAM and the stock Radeon 9600 Pro 64mB RAM graphics card into a Cinema 20" display. Cheers MGM Martin Montgomery Director's Group MRC Dunn Human Nutrition Unit Hills Road Cambridge CB2 2XY
