Dear Amber experts,
We are new to Amber. So far, we have managed to install Amber6 on Linux
(Redhat 7). Now we would like to visualize (animate) energy minimization
trajectories. As evident in the mail reflector, others have successfully
used VMD for that purpose. What do we need to do, at the Amber end, for
piping the coordinate outputs to VMD? And how do we build, at the VMD end,
an interface that can accept output from Amber6? How can we get Amber to
accept a connection request from VMD? How can we specify Amber to send the
coordinates to a particular port? Does anyone have a Sander input file
and/or a Tcl script for VMD?
What about using gOpenmol? Has anybody used that?
Please point us in the right direction. Any suggestions would be gratefully
appreciated.
Thank you very much.
Hermann von Grafenstein and Harsh Parikh.
Received on Thu May 24 2001 - 17:32:44 PDT
