On Friday, March 18, 2011, Bingwu Yu <amber.qna.gmail.com> wrote:
>>
>> I load topology file first (AMBER7 PARM). then load mdcrd file (AMBER
> COORDINATES).
> I can play the movie to see everything is moving. but many bonds between
> no-related atoms appear. How do you tell if the mdcrd file is not right?
Are you sure you are not loading a periodic mdcrd as non-periodic (or
vice versa)? What you are describing often happens in these cases.
Gustavo.
--
Gustavo Seabra
Professor Adjunto
Departamento de Química Fundamental
Universidade Federal de Pernambuco
Fone: +55-81-2126-7417
_______________________________________________
AMBER mailing list
AMBER.ambermd.org
http://lists.ambermd.org/mailman/listinfo/amber
Received on Fri Mar 18 2011 - 11:30:04 PDT
