pbs-dummies
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| pbs-dummies [2011/08/25 16:18] – damir | pbs-dummies [2011/11/01 13:03] – damir | ||
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| The mandatory directives that you must **always** include in the scripts are: | The mandatory directives that you must **always** include in the scripts are: | ||
| - | - Your email address. the official epfl address or something else, but must be a valid (worldwide) email address. This address mus be always present, no matter if you instruct the system to send or not the email messages. | + | - Your email address. the official epfl address or something else, but must be a valid (worldwide) email address. |
| - How much time your job must run (if the job runs over this limit the cluster manager will kill it). the minimum is 1 minute and there' | - How much time your job must run (if the job runs over this limit the cluster manager will kill it). the minimum is 1 minute and there' | ||
| - How much memory (RAM) your job will use. Please remember that if your job use more memory than the limit you put here the cluster manager will kill the job. the minimum is 512 Mbyte, currently (as for Dec 2010) the maximum is ~64 Gbyte. | - How much memory (RAM) your job will use. Please remember that if your job use more memory than the limit you put here the cluster manager will kill the job. the minimum is 512 Mbyte, currently (as for Dec 2010) the maximum is ~64 Gbyte. | ||
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| </ | </ | ||
| - | After this then you can add directives for instructing the system about the messages you | + | After this // |
| want to receive: | want to receive: | ||
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| </ | </ | ||
| - | Also you can tell the PBS where you want to put the output and errors messages. By default the cluster will put the output and errors messages in 2 separate files (<name of the job> | + | Also you can tell the PBS where you want to put the output and errors messages. By default the cluster will put the output and errors messages in 2 separate files (<name of the job> |
| < | < | ||
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| </ | </ | ||
| - | And then you want to assign a name to your job, so you can know what the cluster is doing for you when you look at the list of running jobs (using the command '' | + | And then you want to assign a name to your job, so you will know what the cluster is doing for you when you look at the list of running jobs (using the command '' |
| < | < | ||
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| </ | </ | ||
| - | Another thing to remember is that the output files (the ...o< | + | Another thing to remember is that the output files (the ...o< |
| Once we attach all the lines from above we'll have a script that will look like this: | Once we attach all the lines from above we'll have a script that will look like this: | ||
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| < | < | ||
| - | If you like, you can use the absolute path to indicate the script to launch, but **remember** that the output files will be written inside the directory from where you executed the qsub program. | + | If you like, you can use the absolute path to indicate the script to launch, but **remember** that the output files will be written inside the directory from **where** you executed the qsub program. |
| </ | </ | ||
| - | After all this work, you just need to relax and wait until you receive the email messages from the queuing manager. At this point you return to the directory where the output files are saved and you can check the results.\\ | + | After all this work, you just need to relax and wait until you receive the email messages from the queuing manager. At this point you return to the directory where the output files are saved and check the results.\\ |
| - | If you browse the the documentation we have on [[sge|Batch Queuing System]] you'll find examples on how to use Matlab or Mathematica, some explanation about the directives and the commands available for use the queuing system. | + | If you browse the the documentation we have on [[sge|Batch Queuing System]] you'll find examples on how to use Matlab or Mathematica |
pbs-dummies.txt · Last modified: 2015/11/16 10:33 by 127.0.0.1