AMBER Archive (2003)

Subject: AMBER: regarding trajectory input and output with ptraj or Carnal

From: Vlad Cojocaru (Vlad.Cojocaru_at_mpi-bpc.mpg.de)
Date: Thu Oct 02 2003 - 07:37:19 CDT

Dear ambers,
   I have several dcd trajectories from NAMD. First question is: Does
Carnal support dcd input? If not I would like to transform them into
amber trajectories using ptraj, but I would like to do it in such a way
(like in Carnal) to select each 10th frame and to output the trajectory
after rms fitting to the first frame. I couldnt find in the amber manual
such an option for ptraj. Could somebody guide me just a bit into this?
Thank you very much
vlad 

-- 
Vlad Cojocaru 
Max Planck Institute for Biophysical Chemistry 
Department: 060 
Am Fassberg 11, 37077 Goettingen, Germany 
tel: ++49-551-201.1327 
e-mail: Vlad.Cojocaru_at_mpi-bpc.mpg.de
home tel: ++49-551-9963204  

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