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tools:psc [2024/04/24 11:48] – [Submitting jobs on the PSC] will | tools:psc [2024/04/24 12:06] – [Submitting jobs on the PSC] will | ||
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- | Jobs are submitted on the PSC via '' | + | Jobs are submitted on the PSC via '' |
- | | + | **If you need to run a script that requires command line arguments**, you can export |
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- | * -n : number of cores requested in total (useful if you are requesting >1 node and dividing requested cores over nodes) | + | |
- | * -J " | + | |
- | * -o : output log file name | + | |
- | * -e : error log file name | + | |
- | * --export: | + | |
- | *//If you need to run a script that requires command line arguments, you can export them, for example: | + | < |
- | '' | + | # in your script |
+ | export bids_dir freesurfer_dir freesurfer_sif license acq_label | ||
+ | do_thing $bids_dir | ||
+ | |||
+ | #in your sbatch call | ||
+ | --export=" | ||
+ | </code> | ||
Not sure what resources to request? You can run 1 job with more resources than you think you will need. When the job completes successfully, | Not sure what resources to request? You can run 1 job with more resources than you think you will need. When the job completes successfully, | ||
- | **Checking the status and resource usage of your submitted jobs** | + | ===== Checking the status and resource usage of your submitted jobs ===== |
When you have launched some jobs, you can check on whether they are running via '' | When you have launched some jobs, you can check on whether they are running via '' |