Run the Batch Job

✅ Make sure you are in the directory where you want the SLURM logs to end up

✅ Type:

Note

The batch job number is used to track information about the job. You can find it in the Audit tab on the HPC Portal.

✅ Go to the Jobs tab in OOD and see if the job has started yet.

✅ If the job has not failed immediately, then a subdirectory qsiprep will have been created in derivatives. Look to see if it is there.

You do not need to be in interactive mode. The sbatch command will ensure the job is run as a batch job!
You can start the command from any directory, but wherever you start from, the SLURM log will be deposited there. It should have a name similar to this slurm-543618.out. If anything goes wrong (e.g., the qsiprep directory is not generated, or the job finishes in seconds, look in the SLURM log to help troubleshoot. Common problems include not finding the script, not finding the right path or subject, a typo, etc.

Caution!

☠️ If anything goes wrong (e.g., the qsiprep directory is not generated, or the job "finishes" in seconds), look in the SLURM log to help troubleshoot. Common problems include not finding the script, not finding the right path or subject, a typo, hitting the time limit, etc.

🟢 dMRI: Practice 1 (~30-minutes + 3.5 hours job time)