On 10/9/13 6:42 AM, Mass wrote:
Hi Justin
Thanks for your answer but I could not solve the problem, sorry
Can you tell me how can I fix this part? the highlighted part is your answer
I google it and found this on ubuntu forum but I followed it and still I am
getting error
up vote
0
down vote
accept DSSP is not in official ubuntu repositories, but you can install it
manually:
sudo wgetftp://ftp.cmbi.ru.nl/pub/software/dssp/dssp-2.0.4-linux-amd64
<ftp://ftp.cmbi.ru.nl/pub/software/dssp/dssp-2.0.4-linux-amd64>-O
/usr/local/bin/dssp
or
sudo wgetftp://ftp.cmbi.ru.nl/pub/software/dssp/dssp-2.0.4-linux-i386
<ftp://ftp.cmbi.ru.nl/pub/software/dssp/dssp-2.0.4-linux-i386>-O
/usr/local/bin/dssp
And for the end:
sudo chmod a+x /usr/local/bin/dssp
I have done this but still I am getting Fatal error: DSSP executable
(/opt/dssp/bin/dssp) does not exist (use setenv DSSP) –
If you have set the $DSSP environment variable to point to /opt/dssp/bin/dssp,
then you should get a fatal error, because based on the above commands, your
dssp is in /usr/local/bin/dssp, which is the default location where do_dssp
looks for it. If $DSSP is set, it overrides the default, which in your case is
causing problems.
How can I resolve this?
If your dssp executable is /usr/local/bin/dssp, do not set the DSSP environment
variable as that is the default location that do_dssp will look for. If your
dssp executable is somewhere else, set DSSP to indicate its location.
-Justin
--
==================================================
Justin A. Lemkul, Ph.D.
Postdoctoral Fellow
Department of Pharmaceutical Sciences
School of Pharmacy
Health Sciences Facility II, Room 601
University of Maryland, Baltimore
20 Penn St.
Baltimore, MD 21201
jalem...@outerbanks.umaryland.edu | (410) 706-7441
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