Preempted Job Causes Workflow Manager Hard Failure
SLURM reclaimed the node for a higher-priority job and sent a SIGTERM. The running application did not catch the signal to gracefully exit or checkpoint within the 2-minute grace period. The workflow manager was not configured to interpret the 'PREEMPTED' (PR) state as a resumable event.
SLURM reclaimed the node for a higher-priority job and sent a SIGTERM.
- Symptom
Workflow manager error: Job failed with exit code 15- Root cause
- SLURM reclaimed the node for a higher-priority job and sent a SIGTERM. The running application did not catch the signal to gracefully exit or checkpoint within the 2-minute grace period. The workflow manager was not configured to interpret the 'PREEMPTED' (PR) state as a resumable event.
- Recommended fix
errorStrategy = { task.exitStatus == 15 ? 'retry' : 'terminate' }- How Denpex helps
- Denpex matches Preempted Job Causes Workflow Manager Hard Failure across every rank in a distributed run and reports which rank failed first, so you act on the initiating node instead of the loudest one.
What this failure is
Preempted Job Causes Workflow Manager Hard Failure is a Job Execution failure seen during ML training runs. SLURM reclaimed the node for a higher-priority job and sent a SIGTERM. The running application did not catch the signal to gracefully exit or checkpoint within the 2-minute grace period. The workflow manager was not configured to interpret the 'PREEMPTED' (PR) state as a resumable event. Common tags: Preemption Handling.
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Why it happens (the mechanism)
The application logs just show it was killed or exited with code 15, appearing as an unexpected crash or OOM, when it was actually a routine scheduler preemption.
What you'll observe
- slurmstepd: error: *** JOB <ID> ON <node> CANCELLED AT <time> DUE TO PREEMPTION ***
- Workflow manager error: Job failed with exit code 15
Common symptoms and what they mean
| Symptom | Why it happens |
|---|---|
| A long-running machine learning job is killed abruptly. | SLURM reclaimed the node for a higher-priority job and sent a SIGTERM. The running application did not catch the signal to gracefully exit or checkpoint within the 2-minute grace period. The workflow manager was not configured to interpret the 'PREEMPTED' (PR) state as a resumable event. |
| The workflow manager (e.g. Nextflow) marks the task as failed and aborts the entire pipeline instead of resubmitting. | SLURM reclaimed the node for a higher-priority job and sent a SIGTERM. The running application did not catch the signal to gracefully exit or checkpoint within the 2-minute grace period. The workflow manager was not configured to interpret the 'PREEMPTED' (PR) state as a resumable event. |
Which systems are affected
- SLURM
- Snakemake
- Nextflow
How to confirm this is the problem
Use this checklist to test the hypothesis against a small reproduction. No single line proves the root cause, so preserve the preceding events and compare one variable at a time.
- ✓Run `sacct -j <job_id> -o State,Reason` and look for the 'PREEMPTED' state.
- ✓Check application logs for received signals (SIGTERM).
Searchable error signature
Workflow manager error: Job failed with exit code 15
slurmstepd: error: *** JOB <ID> ON <node> CANCELLED AT <time> DUE TO PREEMPTION ***Use this text as a lookup key in logs and upstream issue trackers. It is not presented as a captured customer log. Confirm the cause from your own preceding events, versions, configuration and the cited references.
The fix and the prevention pattern
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Diagnose this failure in VS Code
Select the traceback or open the failed terminal, then run Denpex locally to see the initiating rank, collateral failures, exact fix, and verification command without uploading the log.
Install the free VS Code extensionRoot cause
- SLURM reclaimed the node for a higher-priority job and sent a SIGTERM. The running application did not catch the signal to gracefully exit or checkpoint within the 2-minute grace period. The workflow manager was not configured to interpret the 'PREEMPTED' (PR) state as a resumable event.
The fix and how to prevent it
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References
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