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How do you cancel jobs in Slurm that contain a word in job name? So for example let's say I do squeue in the terminal and get all my current jobs that are running.

JOBID PARTITION NAME USER ST TIME NODES NODELIST(REASON) 468624 overcap ws_svea_ dyung6 R 12:37:16 1 brainiac 468608 overcap fs_svea_ dyung6 R 13:47:57 1 smith 468118 overcap fs_augcl dyung6 R 1-15:51:38 1 gideon 468119 overcap bc_augcl dyung6 R 1-15:52:38 1 bb8 468120 overcap bc_augcl dyung6 R 1-15:52:38 1 jarvis 468122 overcap bc_augcl dyung6 R 1-15:52:38 1 jarvis 467796 overcap ww_augcl dyung6 R 2:06:08 1 asimo 468609 overcap fs_svea_ dyung6 R 11:58:54 1 gideon 468614 overcap ww_svea_ dyung6 R 11:58:54 1 gideon 468615 overcap cs_svea_ dyung6 R 11:58:54 1 gideon 469031 overcap ws_NNDrQ dyung6 R 2:23:46 1 ig-88 469032 overcap ws_NNDrQ dyung6 R 2:23:45 1 ig-88

Then I want to cancel all jobs with augcl in the name. Is this possible?

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  • Not really familiarized with slurm and I was unable to get it work on my system. But given that you want to cancel the jobs with augcl then the jobs ids to cancel are: 468118, 468119, 468120, 468122, 467796. Are they the jobs id you want to cancel? Commented Nov 14, 2022 at 10:03
  • If so, I might give an answer (I searched that scancel cancels the given job). So I can provide an answer using some tools like grep, awk, xargs to be able to cancel the jobs. Do you have any problem If the solution uses those tools? Commented Nov 14, 2022 at 10:07

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Use squeue to get the list of your own jobs that are running with no headers. Now grep to find job names with your chosen string using awk to return the job IDs.

Now feed this into scancel.

Test with:

squeue --me --states=RUNNING --Format=jobid,name --noheader | grep augcl | awk '{print $1}' | xargs echo scancel

Then run with:

squeue --me --states=RUNNING --Format=jobid,name --noheader | grep augcl | awk '{print $1}' | xargs scancel

If you wanted to target all jobs regardless of state you can use --states=ALL and likewise you can target a particular state or states by changing this as needed e.g. --states=RUNNING,PENDING

*Note: not fully tested by me.

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  • Note that you can replace the grep|awk pipeline by a single awk call: awk '$3~/augcl/{print $1}'. Commented Jan 2, 2024 at 15:39

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