francesca vitalini wrote:
Thanks!
However now I jet another error
-bash: export: `/home/cocktail/vitalini/gromacs_special/bin/dssp': not
a valid identifier
even though the path is correct and I have saved the binary file that
I downloaded with the name dssp. Do you kno if after downloading I
have to do anything with the binary file to make it work? n the dssp
website they don't write anything about it.
What was your exact export command?
-Justin
Thanks again
2012/2/17 Justin A. Lemkul <jalem...@vt.edu>:
francesca vitalini wrote:
Dear all,
In order to get the secondary structure of my pdb file I need to run
the do_dssp program. When I try to run it however I get the following
error
Program do_dssp, VERSION 3.3.1
Source code file: do_dssp.c, line: 448
Fatal error:
DSSP executable (/usr/local/bin/dssp) does not exist (use setenv DSSP)
So I went to the http://swift.cmbi.ru.nl/gv/dssp/DSSP_5.html website
and downloaded the program. when then I try to settle the environment
variable
set an environment variable DSSP pointing to the dssp executable, e.g.:
setenv DSSP /opt/dssp/bin/dssp
then I get the following error message:
-bash: setenv: command not found
You need to use "export" for bash; "setenv" is for csh.
export DSSP=/opt/dssp/bin/dssp
-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
========================================
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--
========================================
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
========================================
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