As an aside: If building current versions from source, there is now an additional performance hack for displaying trajectories using the simplest representations: lines, sticks, nonbonded, spheres, & ribbon.
set defer_builds_mode, 5 This will enable PyMOL to be more RAM and performance competitive with VMD when displaying large trajectories. Also, set sphere_mode, 5 helps if you have a programmable graphics card and are displaying the system using spheres (shader programs instead of triangles). Cheers, Warren -----Original Message----- From: Martin Hoefling [mailto:martin.hoefl...@physik.uni-muenchen.de] Sent: Friday, November 07, 2008 3:41 AM To: pymol-users@lists.sourceforge.net Subject: Re: [PyMOL] Viewing gromacs in pymol Am Freitag 07 November 2008 12:10:19 schrieb DimitryASuplatov: > Hello, > does pymol supports gromacs coordinate and trajectory files (gro, xtc, > tpr, trr etc.)? > Thanks Trajectory support is supported when vmd plugins are enabled during build. Here's a small function I use with pymol to load gro files: ----------------------- def gro( fnm ): tmpfile=tempfile.mktemp(".pdb") os.system("editconf -f %s -o %s" % (fnm,tmpfile) ) cmd.load(tmpfile, fnm[:-4] ) os.remove(tempfile) cmd.extend( "gro", gro ) ----------------------- Best Martin -- ----------------------------------------------------------------------- Dipl.Phys. Martin Hoefling Chair for Applied Physics Ludwig-Maximilians-University Amalienstr. 54 80799 Munich Phone: +49-89-2180-3436 Fax: +49-89-2180-2050 http://www.biophysik.physik.uni-muenchen.de http://www.gottschalklab.org/hoefling_martin.html ----------------------------------------------------------------------- ------------------------------------------------------------------------- This SF.Net email is sponsored by the Moblin Your Move Developer's challenge Build the coolest Linux based applications with Moblin SDK & win great prizes Grand prize is a trip for two to an Open Source event anywhere in the world http://moblin-contest.org/redirect.php?banner_id=100&url=/ _______________________________________________ PyMOL-users mailing list PyMOL-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/pymol-users
