[gmx-users] Concerning DSSP

Justin A. Lemkul jalemkul at vt.edu
Tue Feb 26 21:26:16 CET 2008

Quoting Ricardo Soares <rsoares at fcfrp.usp.br>:

> Yes, I have permission to both view and modify content. I even run the
> do_dssp command with the sudo (root user) option enabled.
> I think that the problem may then be related to sh:
> "sh:  /path/to/dssp: Permission denied"

Perhaps a naive question, but are you trying to execute some sort of shell
script that specifies /path/to/dssp as the PATH to dssp?  If so, you need to
replace /path/to/dssp with the actual location (PATH) where the dssp executable
is (i.e., /usr/bin/dssp).


> I'll try to change its permissions and post another message later with
> the results.
> David van der Spoel wrote:
> In that case it should also work in gromacs...
> I don't know what is going on. Do you have permission to write in the
> working directory?
> --
> ___________________________________________________________
> Ricardo Oliveira dos Santos Soares
> Post-graduation Student in Biological Physics
> University of Sao Paulo - USP
> Faculty of Farmaceutical Sciences of Ribeirao Preto - FCFRP
> Phone: 55 (16) 3602-4840
> Curriculum Lattes - http://lattes.cnpq.br/0777038258459931
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Justin A. Lemkul
Graduate Research Assistant
Department of Biochemistry
Virginia Tech
Blacksburg, VA
jalemkul at vt.edu | (540) 231-9080


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