majid hasan wrote:
I have attached the output of "demo", and "water" with the message.
I just ran the demo and kept pressing enter whenever it asked me. Demo
ran the pdb2gmx first, and here is what I got.
You seem to have the DISPLAY variable is set, so we will pop up a window with
the output of the pdb2gmx program
Press <enter>
Starting pdb2gmx
[1] 28221
output.pdb2gmx: Permission denied
pdb2gmx finished
Press <enter>###################################################################
[1] Done xterm -title pdb2gmx -sb -e tail +0f
Then it ran genbox, gompp, and mdrun in the end (I am not totally sure of it as
I forgot the whole list of programs, if you need complete list, let me know,
and I'll post it).
I got similar output after every program. I also ran the files (conf.gro, topol.top) from "tutor/water" folder, but I got the "Permission denied" message.
ubuntu:/usr/share/gromacs/water/>./conf.gro
./conf.gro: Permission denied
First of all, conf.gro is not an executable, so trying to execute it isn't going
to do anything. All of this is a result of the fact that you don't have
permission to write files (at the very least) in this system-wide directory.
-Justin
I got same output for other files like topol.top etc.
Thanks,
Majid
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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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