VMD-L Mailing List
From: Bharat Sharma (bharatsolbridge_at_gmail.com)
Date: Thu Apr 09 2015 - 09:43:10 CDT
During the post-production from dcd file, I encountered with "Determining
bond structure from bond search" after running some steps. I don't get if I
have few frames.
I am using xyz file initially and loaded dcd file. Since psf is not
provided, VMD calculates bonds with bond search technique (this is what I
found on web).
Is there any solution to fix this problem? It may be fine if I use psf
file. How can I make psf file from xyz format?
I only have water molecules in my xyz file.
Thank you .