Ack! Sorry to hear this. The two things that determine memory usage when rendering are:
1) the total number of primitives (spheres, triangles, cylinder [i.e. lines] etc.) 2) the value of hash_max #1 may not be easily remedied for your scene #2 can be improved by setting hash_max to something like 65 or 50. Rendering will take much longer, but less RAM will be used. ~200k atoms really shouldn't be a problem on a machine with that kind of RAM, so there is also a chance here you might be experiencing a bug. It might be worth emailing me a (compressed?) copy of the session file just to be sure... I don't see anything wrong with your script. Cheers, Warren > -----Original Message----- > From: pymol-users-ad...@lists.sourceforge.net > [mailto:pymol-users-ad...@lists.sourceforge.net] On Behalf Of > Jason Vertrees > Sent: Saturday, April 24, 2004 6:50 PM > To: PyMol Users List > Cc: Tzintzuni Garcia I.; Roger B. Sutton > Subject: [PyMOL] Does (PDB) size really matter? (Help!) > > PyMolers, > > Our setup is a Dual Xeon 3.2 GHz 1GB RAM and Nvidia Quadro > running PyMol 0.95. (Also available, Dual Opteron 240 64-Bit > Linux w/0.95 w/1 GB RAM w/same problems.) > > We are trying to render a nifty movie but can't. PyMol keeps > crashing during the render process. The scene had originally > 185,000 atoms, but now I've snipped out some cutting it down > to 85,000 or so. > > The command "ray 800, 600" dies. I then collected all of my > bilayer segment objects into one larger one (so, instead of 8 > objects I had one 8x as large, hoping that the reduction in > the number of objects freed up some RAM.) > > The movie script for scene1 is > http://www.vertrees.org/~tree/scene1.py. > I'm very new to making movies, but it does what I want. > > Here's some PyMol output: > > PyMOL>count_atoms > count_atoms: 86220 atoms > > PyMOL>ray > VLAMalloc-ERR: realloc failed > ************************************************************** > ************** > *** EEK! PyMOL just ran out of memory and crashed. To get > around this, > *** > *** you may need to reduce the quality, size, or complexity > of the scene > *** > *** that you are viewing or rendering. Sorry for the > inconvenience... > *** > ************************************************************** > ************** > /usr/bin/pymol.com: line 2: 11531 Aborted > /usr/bin/python > /usr/lib64/python2.3/site-packages/pymol/__init__.py $* > > Any ideas on how we can keep the movie w/o sacrificing > quality or number of atoms? If need be, I can probably trim > another 3,000-10,000 (max) atoms out. > > > Much TIA, > > -- Jason > > -- > Jason Vertrees > BSCB Graduate Student @ UTMB, Galveston > javer...@utmb.edu :: http://www.bscb.utmb.edu > > > ------------------------------------------------------- > This SF.net email is sponsored by: The Robotic Monkeys at ThinkGeek > For a limited time only, get FREE Ground shipping on all orders of $35 > or more. Hurry up and shop folks, this offer expires April 30th! > http://www.thinkgeek.com/freeshipping/?cpg=12297 > _______________________________________________ > PyMOL-users mailing list > PyMOL-users@lists.sourceforge.net > https://lists.sourceforge.net/lists/listinfo/pymol-users >
