AMBER Archive (2009)

Subject: [AMBER] the problem of nucgen.dat

From: liangchen88_at_ucla.edu
Date: Sat Nov 07 2009 - 08:41:49 CST

hello,
I was trying to run the first tutorial (polyA-polyT) provided with
Amber and got stuck early in the process, because the
$AMBERHOME/dat/leap/parm/nucgen.dat file in the Amber10 distribution
is not correct. The file consist of about 380 lines with a single line
for each atom:
atom x y z
It is different from the format :
linedifinition atom no. atom name residue name residue no.
x y z
So that i get the empty pdb file after running nucgen .
I have installed the Amber10 patch and the AmberTools patch ,but i
haven't solved the problem all the same .
Who could help me ? Could someone send me the nucgen.dat file to me by
email if the problem is just in the nucgen.dat file ?

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