Sabuj, Yeah, it could be that Chimera and O don't use as large of a variety of OpenGL primitives and VMD and Pymol do. Last I checked, Rasmol didn't use OpenGL at all, it renders using its own algorithm and displays using Xlib calls. Do you have any other OpenGL programs to try, I suspect that VMD and Pymol are not the only programs that'll stress the drivers in this way.
John Stone v...@ks.uiuc.edu On Tue, Mar 29, 2005 at 11:55:03AM -0600, Sabuj Pattanayek wrote: > Hi, > > Unfortunately I can't get pymol-0.97 & 0.98beta29/27 to open a pdb > without crashing instantly. I also tested Chimera (1.2105), O v9.0.7, > and rasmol and these seem to work ok but I guess they aren't using > quads/quad strips. Thanks for your insight, I'll email nvidia with the > contents of your email. > > ..Sabuj Pattanayek > > John Stone wrote: > >Sabuj, > > That's really interesting. It sounds to me like NVidia's new driver > >has some sort of problem with drawing quads or quad strips in immediate > >mode. > >If that's what's going on, then a lot of other programs are going to crash > >too, not just VMD and Pymol, so I suspect they'll have to fix this very > >soon :-) All of the VMD reps you listed as having problems draw > >quadrilateral strips at some point, so that's my personal guess as > >to what is happening with their new driver. The Isosurface rep is > >one exception, it is drawing triangle strips, so I'm not sure why you'd > >have trouble with it, given that several of the others you listed do > >as well. Please email these results to linux-b...@nvidia.com so they > >are aware of the problem. If you can do similar tests with Pymol, > >that will help convince them it's a new problem with the driver and not > >just one bad software package, which is likely their default assumption. > > > > John > > > >On Tue, Mar 29, 2005 at 11:11:54AM -0600, Sabuj Pattanayek wrote: > > > >>Hi John, > >> > >>This is what I was able to test on vmd 1.8.3, I think 1.8.2 will do the > >>same (note this only affects the quadro cards and not geforce): > >> > >>Representation Result > >>-------------- ------ > >>Lines (Default) ok > >>Bonds crash > >>DynamicBonds crash > >>HBonds ok > >>Points ok > >>VDW ok > >>CPK crash > >>Licorice crash > >>Trace crash > >>Tube crash > >>Ribbons ok > >>NewRibbons ok > >>Cartoon crash > >>NewCartoon ok!!! > >>MSMS ok > >>Surf ok > >>Dotted ok > >>Solvent ok > >>Isosurface(points) ok > >>Isosurface(solid) crash > >>Isosurface(wireframe) ok > >>VolumeSlice ok? ..not sure what datatype this wants (never used > >>this before), i was using a brix map but couldn't see anything > >> > >>Thanks, > >>Sabuj Pattanayek > >> > >>David A. Horita wrote: > >> > >>>Hi, > >>>I Haven't tried VMD yet, but Windows XP-pro pymol crashes upon file open > >>>under the 71.84 drivers, but not the 70.78 drivers. (Quadro 1300, > >>>XP-Pro servicepack 2) > >>>David Horita > >>> > >>>-----Original Message----- > >>>From: pymol-users-ad...@lists.sourceforge.net > >>>[mailto:pymol-users-ad...@lists.sourceforge.net] On Behalf Of John Stone > >>>Sent: Monday, March 28, 2005 10:10 AM > >>>To: Sabuj Pattanayek > >>>Cc: pymol-users@lists.sourceforge.net; vm...@ks.uiuc.edu > >>>Subject: Re: vmd-l: vmd and Re: [PyMOL] pymol crashes with new [7167] > >>>nvidia driver > >>> > >>> > >>>Hi, > >>>Have you reported the crashes to NVidia? I'd suggest sending an email > >>>to their linux-b...@nvidia.com mail address. The fact that multiple > >>>packages crash with the new driver indicates that they may have a new > >>>bug in their drivers. You mentioned that making a licorice rep crashes > >>>your VMD on that driver, what about VDW or bonds? Do they have a > >>>similar effect? > >>> > >>>John Stone > >>>v...@ks.uiuc.edu > >>> > >>>On Sat, Mar 26, 2005 at 04:42:42PM -0600, Sabuj Pattanayek wrote: > >>> > >>> > >>>>Yeah I have the same problem in the beta pymol, haven't tried the > >>>>stable > >>>>version: > >>>> > >>>>OpenGL-based graphics engine: > >>>>GL_VENDOR: NVIDIA Corporation > >>>>GL_RENDERER: Quadro4 750 XGL/AGP/SSE/3DNOW! > >>>>GL_VERSION: 1.5.3 NVIDIA 71.67 > >>>>Hardware stereo capability detected. > >>>>Adapting to Quadro hardware... > >>>>Detected 2 CPUs. Enabled multithreaded rendering. > >>>>/usr/bin/pymol: line 14: 8852 Segmentation fault > >>>>$PYMOL_PATH/pymol.exe $* > >>>> > >>>>and 7167 won't compile on 2.6.10-11? kernels either, need 2.6.12-rc1, > >>>>haven't tested others. I get similar crashes in VMD 1.8.2+ using 7167 > >>>>also. For instance, if you load a pdb and try to make a "licorice" > >>>>representation, vmd just closes/crashes. > >>>> > >>>>I also think this maybe a Quadro problem and not a a problem with > >>>>GeForce cards. I have a GeForce 5500 FX on another machine and it > >>>>doesn't have these programs, and realtime GLSL rendering works very > >>>>nicely in vmd 1.8.3. > >>>> > >>>>Sorry for posting this on both mailing lists, just trying to avoid > >>>>reposting. > >>>> > >>>>..Sabuj Pattanayek > >>>> > >>>>HuiZhe Li wrote: > >>>> > >>>> > >>>>>just upgraded nvidia driver from 6629 to 7167 (Linux, RHEL 4) and > >>>>>pymol crashes when a molecule is load. is there a fix? (pymol worked > >>>>>fine with 6629 driver). > >>>>> > >>>>>OpenGL-based graphics engine: > >>>>>GL_VENDOR: NVIDIA Corporation > >>>>>GL_RENDERER: Quadro FX 1400/PCI/SSE2 > >>>>>GL_VERSION: 1.5.3 NVIDIA 71.67 > >>>>>Adapting to Quadro hardware... > >>>>>/usr/local/bin/pymol: line 14: 4575 Segmentation > >>>>>fault (core dumped) $PYMOL_PATH/pymol.exe $* > >>>>> > > > > -- NIH Resource for Macromolecular Modeling and Bioinformatics Beckman Institute for Advanced Science and Technology University of Illinois, 405 N. Mathews Ave, Urbana, IL 61801 Email: jo...@ks.uiuc.edu Phone: 217-244-3349 WWW: http://www.ks.uiuc.edu/~johns/ Fax: 217-244-6078
