Hi, I would definitely not like to see a default representation to be any more than lines (as it is now). Opening one of my 100,000 atom MD trajectory frames would take far longer than it's worth.
Regarding png output, I think this is in there already (but don't remember) - I'd like to be able to specify one dimension (usually width) and have the other automatically calculated. If I'm trying to frame a molecule and adjust the size of the screen window I'll want output to keep the same aspect ratio. Also, I see a major slowdown when running remotely as compared to VMD, especially with regards to using the menus (top and right). I get an "unable to create direct context rendering" message, and while I don't expect it to perform as well as when running locally, I get very adequate performance running VMD over the same connection. This is useful when checking of MD or NMR calculations on a remote cluster from my lab machines. The slowdown (especially the view descriptor menu on the right side) is apparent even over a gigE lan. I'll add another voice for a better undo function. In my specific case I can think of a number of times where I've highlighted a collection of residues as spheres and then accidentally added spheres to the whole molecule instead of the next selection. Being able to get back from that (even one step) would be a time-saver. Dave ----------------------------- David A. Horita, Ph.D. Department of Biochemistry Wake Forest University School of Medicine Winston-Salem, NC 27157-1016 Tel: 336 713-4194 Fax: 336 716-7671 email: dhor...@wfubmc.edu web: http://www1.wfubmc.edu/biochem/faculty/Horita.htm -----Original Message----- From: David Hall [mailto:dwash59_2...@yahoo.com] Sent: Thursday, January 21, 2010 9:20 AM To: Jason Vertrees; pymol-users@lists.sourceforge.net Subject: Re: [PyMOL] PyMOL on the Mac Alright, here's a feature request that might convince people who still don't believe, despite your first commit to pymol trunk post-acquisition including "Fixed a GL build bug on OSX" (see http://pymol.svn.sourceforge.net/viewvc/pymol?view=rev&revision=3887 ) A Pymol Quicklook plugin. My primary purpose would be for pses, but you might as well pick up pdbs and other formats supported by pymol along the way. For pdb files, I wouldn't want the default pymol view of lines colored by atom with green carbons being what I quicklook to, so either reading .pymolrc to get a default view or some variant ( .pymolqlrc ?) would be nice to allow users to customize their views. Also, maybe default to a cartoon representation colored by chains with het atoms as sticks and metals as spheres, but that's probably just forcing the view I want on others when I could just stick that in my personal .pymolqlrc type file. Hopefully I'm out of ideas nows, David ------------------------------------------------------------------------------ Throughout its 18-year history, RSA Conference consistently attracts the world's best and brightest in the field, creating opportunities for Conference attendees to learn about information security's most important issues through interactions with peers, luminaries and emerging and established companies. http://p.sf.net/sfu/rsaconf-dev2dev _______________________________________________ PyMOL-users mailing list (PyMOL-users@lists.sourceforge.net) Info Page: https://lists.sourceforge.net/lists/listinfo/pymol-users Archives: http://www.mail-archive.com/pymol-users@lists.sourceforge.net
