Please reread the directions I gave you in message #8 in this thread. You didn't even come close to doing what I suggested. Given where you are now, please follow these steps EXACTLY:
ls: /home/Balaji/bin: No such file or directory
ls: /home/Balaji/bin/eon_run.sh: No such file or directory
Kindly advice.
Many Thanks
Balaji
In the 3rd message in this thread you said:
Quote:
I save the script as eon-run.sh and tried to run the script as " sh eon-run.sh"
I now see that instead of saving the script in eon-run.sh and running sh eon-run.sh you saved the script as eon_run.sh and ran the script using sh eon-run.sh. That explains a few things. You did some of the things I asked you to do last time and skipped others.
So, to resolve you problem, please insert the following line into eon_run.sh after line 1:
Code:
echo eon is $eon
and then PLEASE TYPE THE FOLLOWING COMMANDS INTO YOUR SHELL EXACTLY and report the results:
OK Looking at everything you've supplied so far, it seems that most of your problem are related to your shell execution environment (especailly your setting for $PATH).
The : separated values in $PATH are supposed to be directories of commands that you execute frequently; not the names of the executable files that you want to execute. And, having a directory in $PATH more than once only slows down command executiion by your shell. When I replaced the colons in your $PATH value with newlines and sorted the results, I got:
Since you have an alias for eon that is a shell variable that expands to /home/Balaji/Desktop/openeye_progrms/openeye/bin/eon, it seems obvious that /home/Balaji/Desktop/openeye_progrms/openeye/bin is a directory containing the executables for eon, fred, omega2, posit, rocs, szybki, vbrood, vida, and vrocs. It is also highly likely that /home/Balaji/vmd-1.9.1/bin is a directory containing the executable vmd, and /home/Balaji/vmd-1.9.1/bin is a directory containing the executable moe. I'm pretty sure that /home/Balaji/acceleratedMD_analysis/aMD_CBP/aMD_30ptn_lipid/seed4545/ss_plot.c is not a directory and that ss_plot.c is not an executable file, and that /home/Balaji/polypharmacology_simulations/test_03 and /home/Balaji/Desktop/smap_v2_0 don't need to be in $PATH.
If you change the place where you initialize $PATH to set it to:
and then log out, log in again, and run the original script I gave you in message #2 in this thread by issuing the command:
Code:
ksh eon_run.sh
everything should work.
I don't know how many aliases you have like eon, but with this suggested change to $PATH you can certainly get rid of the alias for eon. If you have similar aliases for the other executables in /home/Balaji/Desktop/openeye_progrms/openeye/bin, you can get rid of all of them too.
Last edited by Don Cragun; 12-01-2012 at 08:13 PM..
Reason: fixed typo in last paragraph.
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