I have no idea whether or not qsub is installed on your system or not. And, if it is installed, I have no idea what directory was specified when it was installed. But, in addition to that problem, bash (and any other shell that supports basic POSIX standard shell requirements) has a pre-initialized variable naming the current working directory, and you can't quote a filename pattern if you want the pattern to be expanded to a list of matching files. To protect yourself against whitespace characters in filenames and pathnames, you should also double-quote the variable expansions.
After you set and exported PATH to include the directory in which you have installed qsub, you might want to try something more like:
Code:
#!/bin/bash
for i0 in run_*.sh
do qsub -d "$PWD" "$i0"
done
I have tried the code that you suggest, but it also has the same problem.
However, when I am trying to run a single simulation, "qsub" works well.
If I want to run the "runAll.sh" file, I use a command which is "qsub runAll.sh".
I think if I utilize appropriate options for qsub command, it can help to solve the issue.
But, it is hard to guess which option is appropriate for the simulation.
Could you suggest any qsub options for submitting this sh file?
I have tried the code that you suggest, but it also has the same problem.
However, when I am trying to run a single simulation, "qsub" works well.
If I want to run the "runAll.sh" file, I use a command which is "qsub runAll.sh".
I think if I utilize appropriate options for qsub command, it can help to solve the issue.
But, it is hard to guess which option is appropriate for the simulation.
Could you suggest any qsub options for submitting this sh file?
Thanks a lot!
It appears that you completely ignored:
Quote:
After you set and exported PATH to include the directory in which you have installed qsub, ...
in my last response. I can't suggest anything on how to use qsub other than to try the code that you said is already working. I don't have qsub installed on my machine, and the qsub man page I found doesn't have the -d directory option that you're using. But, there is clearly no way that adding options to qsub is going to make any difference if qsub can't be found in your $PATH and you don't specify an absolute pathname to where you have installed qsub on your system. All I can do is help you with the bash shell syntax.
And, do you know how to find a path for qcommands?
Qcommands are already installed by the system manager so that I do not know where the path is.
So, I tried to find it, but it is hard to do it.
Thanks for your kind help.
I really appreciate it.
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