[gmx-users] dssp

[Justin A. Lemkul]

mustafa bilsel wrote:
> Hi,
> I have a problem with dssp programme.
> I have the programme in /home/m/DSSP. When I write
> export DSSP=/usr/local/bin
> and then I check /usr/local/bin I couldn't see dssp.
> How can I handle this problem. I have caheceked gromacs website
> 
> export DSSP=/path/to/dssp
> 
> setenv DSSP /path/to/dssp
> 
> commands are written.
> Could you write export DSSP=/path/to/dssp command according to me.
> 

The proper setting for the environment variable is explained in great detail here:

http://www.gromacs.org/Documentation/Gromacs_Utilities/do_dssp

Note the line "If this is not the case, you must set the DSSP environment 
variable accordingly, pointing to the actual dssp executable, not just the PATH 
to it."

> And also I use Ubuntu 10.04, setenv is not used, if I try to install it, I
> see the package not found message.
> What should I do about it?
> 

Learn what your shell uses and apply it.  You're more than likely running bash, 
in which case "export" is the command to use.

-Justin


-- 
========================================

Justin A. Lemkul
Ph.D. Candidate
ICTAS Doctoral Scholar
MILES-IGERT Trainee
Department of Biochemistry
Virginia Tech
Blacksburg, VA
jalemkul[at]vt.edu | (540) 231-9080
http://www.bevanlab.biochem.vt.edu/Pages/Personal/justin

========================================