UNIX for Advanced & Expert Users

Hi all,
Today, I want to ask how to submit multiple qsub jobs.

I want to submit 100 .sh files for the simulations.
The name of files is
run_001.sh,
run_002.sh,
run_003.sh,
.....
.....
run_100.sh

Submitting each file manually are time-consuming, hence, I want to make another .sh file (runAllFile.sh) for just submitting those files at once.
The code of runAllFile.sh is as follows:

--------------------------------------------------------

Code:

#!/usr/bin/tcsh

set currDir = `pwd`

foreach i0 (run_*.sh)
	qsub -d ${currDir} ${i0}
end

--------------------------------------------------------

I think if I submit the runAllFile.sh file, it will submit all run_*.sh files to the machine.
However, I have received an error when I try to submit runAllFile.sh by "qsub runAllFile.sh".

This is an error message:

Code:

-bash: /usr/bin/tcsh: bad interpreter: No such file or directory

Could you please help me solve this problem?


Thanks for your time and consideration.

Please use code tags as required by forum rules!

You seem to be running the bash shell. The script's shebang requests the tcsh shell. Does the file /usr/bin/tcsh exit?

Why don't you use bash to run all the .sh files?

You could also get an error message like that if you created runAllFile.sh with an editor that uses DOS (<carriage-return><newline>) line terminators instead of UNIX/Linux (<newline>) line terminators.

So, if tcsh on your system is in /usr/bin/tcsh (instead of /bin/tcsh where it is located on many systems) try:

Code:

od -c runAllFile.sh

and look for characters displayed as \r.

Thanks for your kind reply.
I can solve the issue by changing "

Code:

/usr/bin/tcsh

" to "

Code:

/bin/tcsh

"

However, I received another error message.

Code:

line 5: syntax error near unexpected token `('
line 5: `foreach i0 (run_*.sh)'

I think my code looks correct, so that it is hard to find the reason.



Thanks.

You dont need the () there, unless you encapsule ls like $(ls run_*.sh), which would be unnecesary.
Not sure if it would require a leading ./run_*.sh.

hth

No no, if this is tcsh, foreach needs the brackets!
And the syntax looks correct to me.

Code:

tcsh --version

?

Thanks for your valuable comments.

I found that, if this is "bash", "foreach" does not work.
I use "for" instead.
Hence, I have modified the code as follows:

Code:

#!/bin/bash

set currDir = `pwd`

for i0 in 'run_*.sh'
do
	qsub -d ${currDir} ${i0}
done

Nonetheless, I have received an error:

Code:

line 7: qsub: command not found

Could you please help me solve this problem?




Thank you for your time and consideration.