Paride, One option is to simply create and modify coordinates real-time using Python. See example particle01.py
<http://pymol.svn.sourceforge.net/viewvc/pymol/trunk/pymol/examples/devel/pa rticle01.py?view=markup> for a live animation of a particle system. -- DeLano Scientific LLC Subscriber Support Services mailto:[email protected] "Not yet a PyMOL Subscriber, but want to support the project? Email [email protected] to quote your lab, school, or employer. Thank you for sponsoring this open-source endeavor!" -WLD > -----Original Message----- > From: [email protected] > [mailto:[email protected]] On Behalf > Of Paride Legovini > Sent: Monday, October 29, 2007 5:23 AM > To: [email protected] > Subject: [PyMOL] file format for homebrew MD software > > I'm writing a simple molecular dynamics simulation software > and I'd like to visualize its results with pymol. More in > detail I have to simulate the behavior of chain of bounded > monomers (a polymer) in certain conditions. The monomers are > _generic_, i.e. I don't want to specify any particular > element for them (one good thing could be specifying their > diameter). I'd like to show the bonds between the monomers. > > Which file format should I use for my output? At the moment > I'm trying with XYZ, but its quite unsuitable for the things > I've just remarked. > > Sorry for the eventual trivial question, but I'm a newbie in MD. > > Thank you, > p. > > -------------------------------------------------------------- > ----------- > This SF.net email is sponsored by: Splunk Inc. > Still grepping through log files to find problems? Stop. > Now Search log events and configuration files using AJAX and > a browser. > Download your FREE copy of Splunk now >> > http://get.splunk.com/ _______________________________________________ > PyMOL-users mailing list > [email protected] > https://lists.sourceforge.net/lists/listinfo/pymol-users
