Dear Amber users,
I found out that OUTPUT COORD option in carnal has an option BOX which
is not written in the manual.
With this option I managed to output trajectories in a proper way for
visualizing them with VMD.
Now the question is that I want to see the trajectory after fitting
all the structures to the first frame.
The BOX option seems not to work anymore when I give to carnal the
following:
DECLARE
GROUP g1 (RES 1-17);
IMAGE img g1%cmass;
RMS fit1 FIT g1;
OUTPUT
COORD crd fit1 BOX;
The program gives an error message that tells me that the BOX option
does not work with fit. If I do not use the BOX option the trajectories
are again impossible to visualize with VMD.
Does anyone have any suggestions about this??
Thanks a lot!
vlad
--
Vlad Cojocaru
Max Planck Institut for Biophysical Chemistry
Deparment: 060
Am Fassberg 11, 37077 Goettingen, Germany
tel: ++49-551-201.1389
e-mail: Vlad.Cojocaru_at_mpi-bpc.mpg.de
Received on Wed Oct 30 2002 - 05:25:36 PST
