AMBER Archive (2009)

Subject: Re: [AMBER] error in constructing DNA from nucgen

From: Carlos Simmerling (
Date: Tue Mar 17 2009 - 13:53:05 CDT

are you in a directory where you have write permissions?
try to create a test file and see if you can. do ls -la and make sure
things are writable and owned by you.
if you're not sure how to interpret unix permissions, there is a nice
unix tutorial at

On Tue, Mar 17, 2009 at 2:43 PM, Pansy Patel <> wrote:
> Hello
> I am trying to construct an AB DNA  hexamer using nucgen:
> nucgen -i -o nuc.out -d $AMBERHOME/dat/leap/parm/nucgen.dat -p nuc.pdb
> but I get the following error:
> Unit    6 Error on OPEN: nuc.out
> Can somebody please tell me what it means and how I can get it to work ?
> Pansy
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