From: Andreas F. <doc...@gm...> - 2008-05-31 10:32:13
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Dear all, I just checked out PyMOL 1.1r0 revision 3367 via subversion. When I open any old pdb file (eg. fetch 1ubq), the protein is displayed as if irradiated with a free-electron laser ( https://fileexchange.imperial.ac.uk/files/5b706c5efa/lines.png). The cartoon (https://fileexchange.imperial.ac.uk/files/0dd1d6af73/cartoon.png) or any other representation is fine, except ribbon, which displays nothing. Is that a bug in PyMOL or in my graphics driver? I'm running Fedora 7 with the current ATI driver obtained from the livna repository. The graphics card is a dusty FireGL T2. Thanks. Andreas |
From: DeLano S. <de...@de...> - 2008-05-31 16:09:44
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Andreas, Thanks for compiling & testing the current open-source code! I think this is a driver issue. Some card/driver combinations object to being fed geometry too fast in immediate mode. Please See if one or both of the following settings helps: set ati_bugs set nvidia_bugs Also, try: set use_display_lists Cheers, Warren -- DeLano Scientific LLC Subscriber Support Services mailto:su...@de... ________________________________ From: pym...@li... [mailto:pym...@li...] On Behalf Of Andreas Forster Sent: Saturday, May 31, 2008 3:32 AM To: PYMOLBB Subject: [PyMOL] exploding proteins Dear all, I just checked out PyMOL 1.1r0 revision 3367 via subversion. When I open any old pdb file (eg. fetch 1ubq), the protein is displayed as if irradiated with a free-electron laser (https://fileexchange.imperial.ac.uk/files/5b706c5efa/lines.png). The cartoon (https://fileexchange.imperial.ac.uk/files/0dd1d6af73/cartoon.png) or any other representation is fine, except ribbon, which displays nothing. Is that a bug in PyMOL or in my graphics driver? I'm running Fedora 7 with the current ATI driver obtained from the livna repository. The graphics card is a dusty FireGL T2. Thanks. Andreas |
From: Andreas F. <doc...@gm...> - 2008-06-01 13:55:38
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Hey Warren, unfortunately, none of your suggestions fixes the problem (which isn't really one anyway as I never use the lines representation). If I set both ati_bugs and nvidia_bugs, the display is completely messed up. https://fileexchange.imperial.ac.uk/files/dfc7e41276/ati_nvidia.png I'll update to Fedora 9 once the new ATI driver is compatible. Thanks. Andreas On Sat, May 31, 2008 at 5:09 PM, DeLano Scientific <de...@de...> wrote: > Andreas, > > Thanks for compiling & testing the current open-source code! I think this > is a driver issue. Some card/driver combinations object to being fed > geometry too fast in immediate mode. Please See if one or both of the > following settings helps: > > set ati_bugs > set nvidia_bugs > > Also, try: > > set use_display_lists > > Cheers, > Warren > > > |