ABEL Stephane 175950 wrote:
Yes, Mark i have taken a look in your previous message
To test my dssp program I took a pdb from the protein data bank: 1HRC. This pdb
contains only one protein (and one frame). The DSSP program works fine with it
and I obtain an output. So To test my do_dssp i also used this pdb. In this
case when i choose MainChain 5 or other choices I obtain the same message
described below and no output. I think, I have set correctly the DSSP
environment variable because i have not the Fatal error:
DSSP executable (/usr/local/bin/dssp) does not exist (use setenv DSSP).
Moreover i think that ten minutes is not to short to process one config indeed
the DSSP program take less than 2 seconds to compute the secondary structure of
the protein in 1HRC pdb file.
So i very frustrated...
Stefane
so if you run
setenv DSSP `which dssp`
echo 1 | do_dssp -f 1HRC -s 1HRC
you get no output? do you have write permission in the work directory?
--
David van der Spoel, Ph.D.
Molec. Biophys. group, Dept. of Cell & Molec. Biol., Uppsala University.
Box 596, 75124 Uppsala, Sweden. Phone: +46184714205. Fax: +4618511755.
[EMAIL PROTECTED] [EMAIL PROTECTED] http://folding.bmc.uu.se
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