That's likely the problem. If you need to reduce RAM consumption during raytracing (at the cost of performance), try reducing hash_max to 80 or 60.
set hash_max,60 Cheers, Warren -- mailto:war...@delanoscientific.com Warren L. DeLano, Ph.D. Principal Scientist DeLano Scientific LLC Voice (650)-346-1154 Fax (650)-593-4020 > -----Original Message----- > From: pymol-users-ad...@lists.sourceforge.net [mailto:pymol-users- > ad...@lists.sourceforge.net] On Behalf Of andr...@biochem.utah.edu > Sent: Wednesday, June 25, 2003 12:28 PM > To: Nat Echols > Cc: pymol > Subject: Re: [PyMOL] pymol crashes with large pdb files > > Limited physical memory might indeed be the problem. > When I ray-trace under WinXP, memory usage increases sharply (to about > 500MB) and after a second or so, pymol crashes. > When I ray-trace under linux, almost all physical memory (1GB) is being > used. Barely 40MB available. > > We should be getting new computers next week. We'll see if 2GB will do the > trick for Windows. > > > Andreas > > > >> Now there is a twist to the story. We also run linux (redhat with > 2.4.18 > >> kernel) on a 2 CPU 930MHz (1GB RAM, Nvidia GeForce2 GTS) PIII. Working > >> speed is much slower but no crashes when ray-tracing from the exact > same > >> pml script. > >> Can it be that linux makes better use of its physical memory or that > the > >> 2GB of swap make the difference? > > > > When you ray-trace an image, PyMOL will tell you exactly how much memory > > it's using. My suspicion is that this is painfully close to the > physical > > memory limit. From what I understand, swap space does not give you more > > memory but Linux will transfer idle programs to swap, freeing up more > > RAM for PyMOL. I have no idea how Windows works (other than "badly"). > > > > 'top' in Linux or the Task Manager in WinXP should tell you how much > > physical memory is being used at any time. > > > > ------------------------------------------------------------------------ > ---- > > Nathaniel Echols > > Programmer > > n...@bioinfo.mbb.yale.edu Gerstein > > Lab > > 203-589-6765 Yale > > University > > ------------------------------------------------------------------------ > ---- > > > > ------------------------------------------------------- > This SF.Net email is sponsored by: INetU > Attention Web Developers & Consultants: Become An INetU Hosting Partner. > Refer Dedicated Servers. We Manage Them. You Get 10% Monthly Commission! > INetU Dedicated Managed Hosting http://www.inetu.net/partner/index.php > _______________________________________________ > PyMOL-users mailing list > PyMOL-users@lists.sourceforge.net > https://lists.sourceforge.net/lists/listinfo/pymol-users
