I am sorry, I do not follow completely... What do you mean by "frame change callback" ? Do I have to use the "connect" command and after that the "animation" command at each molecular dynamics step ? I am new to Jmol, so some example script would be of a great help.
And what about the user defined covalent radii of atoms ? Is is possible to change the defaults ? Regards, Karol On Sun, 2009-03-22 at 15:42 -0600, Bob Hanson wrote: > I think you may need to use a frame change callback. You can have it > running a jmol script function that uses the connect command. It will > slow down the animation, but should work. > > Sent from my iPhone > > On Mar 22, 2009, at 2:56 AM, [email protected] wrote: > > > Hi, > > > > I am trying to view a molecular dynamics simulation, where bonds are > > being > > formed and destroyed. The data is in the XYZ format containing > > multiple > > structures. However I would like to use my own cut-off distances for > > bonds. > > Is there a way to do this in Jmol ? > > Are the bonds being evaluated at each MD step or just at the first > > one ? > > > > I was searching the documentation, but there I found that you can > > change > > only Van der Vaals radius but not the covalent. > > > > Regards, > > > > Karol > > > > > > --- > > --- > > --- > > --------------------------------------------------------------------- > > Apps built with the Adobe(R) Flex(R) framework and Flex Builder(TM) > > are > > powering Web 2.0 with engaging, cross-platform capabilities. Quickly > > and > > easily build your RIAs with Flex Builder, the Eclipse(TM)based > > development > > software that enables intelligent coding and step-through debugging. > > Download the free 60 day trial. http://p.sf.net/sfu/www-adobe-com > > _______________________________________________ > > Jmol-users mailing list > > [email protected] > > https://lists.sourceforge.net/lists/listinfo/jmol-users > > ------------------------------------------------------------------------------ > Apps built with the Adobe(R) Flex(R) framework and Flex Builder(TM) are > powering Web 2.0 with engaging, cross-platform capabilities. Quickly and > easily build your RIAs with Flex Builder, the Eclipse(TM)based development > software that enables intelligent coding and step-through debugging. > Download the free 60 day trial. http://p.sf.net/sfu/www-adobe-com > _______________________________________________ > Jmol-users mailing list > [email protected] > https://lists.sourceforge.net/lists/listinfo/jmol-users ------------------------------------------------------------------------------ _______________________________________________ Jmol-users mailing list [email protected] https://lists.sourceforge.net/lists/listinfo/jmol-users
