VMD-L Mailing List

From: Kenley Barrett (kenley.barrett_at_gmail.com)
Date: Tue Apr 25 2006 - 13:05:06 CDT

Dear VMD community,

I am going to be running some molecular dynamics simulations in AMBER, and I
want to analyze the resulting trajectory files in VMD. AMBER allows a choice
of a periodic box or a periodic truncated octahedron. The AMBER manual
recommends using the truncated octahedron. Will VMD understand this kind of
periodicity? Would I still use "crdbox" as the file type for the trajectory
file?

Thank you very much for any advice.

Kenley