AMBER Archive (2006)

Subject: Re: AMBER: Nucgen Problem

From: Navnit Kumar Mishra (
Date: Fri Dec 22 2006 - 03:55:26 CST

puneet kacker wrote:

>I am unable to generate a dsDNA by nucgen command.
>Usually it generates two files, a .out file and a .pdb
>file. While on my system nucgen is generating both the
>files but there is no coordinates(0 bytes) for the
>molecule in the nuc.pdb file however the file nuc.out
>is generating without any error.
>The command which I am using is as follows-
>nucgen -O -i -o nuc.out -d Path_for_nucgen.dat
>-p nuc.pdb
I can say every thing seems right, may be you can check is there
Path_for_nucgen.dat and in your working directory. If not than
try to copy it in the working directory from


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