Posts tagged slurm
Why does my job wait so long before being executed? or: Why is my job being overtaken by other jobs in the queue?
- 19 June 2017
There are several possible reasons for to be queued for a long time and/or to be overtaken …
… later submitted jobs with a higher priority (usually these have used less of their share then your job).
When will my SLURM job start?
- 19 June 2017
The SLURM squeue command with the options - -start and -j provides an estimate for the job start time, for example:
How to set the default Slurm project account
- 19 June 2017
Specification of the project account (via option -A or
--account) is necessary to submit a job or make a job allocation,
otherwise your request will be rejected. To set the default project
account you can use the following SLURM input environment variables
SLURM_ACCOUNT - interpreted by srun command
How to display the batch script for a running job
- 19 June 2017
Once your batch job started execution (i.e. is in RUNNING state)
your job script is copied to the slurm admin nodes and kept until the
job finalizes - this prevents problems that might occur if the job
script gets modified while the job is running. As a side-effect you
can delete the job script without interfering with the execution of
the job.
If you accidentally removed or modified the job script of a running job, you can use the following command to query for the script that is actually used for executing the job:
How to Write a shell alias or function for quick login to a node managed by SLURM
- 19 June 2017
For tasks better run in a dedicated but interactive fashion, it might be advantageous to save the repeating pattern of reserving resources and starting a new associated shell in an alias or function, as explained below.
If you use bash as default shell you can place the following alias
definition in your ~/.bashrc file and source this file in the
~/.bash_profile or in the ~/.profile file:
How can I see on which nodes my job was running?
- 19 June 2017
Yon can use the SLURM sacct command with the following options:
How can I choose which account to use, if I am subscribed to more than one project?
- 19 June 2017
Just insert the following line into your job script:
There is no default project account.
Can I run cron jobs on HPC login nodes?
- 19 June 2017
For system administration reasons users are not allowed to shedule and
execute periodic jobs on DKRZ HPC systems using the cron utility. Our
recommendation is to use the functionality provided by the workload
manager Slurm for this purpose. With the option --begin of the
sbatch command you can postpone the execution of your jobs until
the specified time. For example, to run a job every day after 12pm
you can use the following job script re-submitting itself at the
beginning of the execution:
A variety of different date and time specifications is possible with
the --begin option, for example: now+1hour, midnight,
noon, teatime, YYYY-MM-DD[Thh:mm:ss], 7AM, 6PM
etc. For more details see manual pages of the sbatch command: