nextflow-io / nextflow-io/nextflow
Please allow Nextflow to monitor the disk space of a process and optionally kill it if a certain amount of disk space is reached
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- Dominant language
- Groovy
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Description
New feature
Hi! Thanks for using Nextflow and submitting the proposal
for a new feature or the enhancement of an existing functionality.
Please replace this text providing a short description of your
proposal.
Usage scenario
If a process, or several processes of potentially different users run on an HPC node with limited disk space, it is important to monitor how much disk space each process occupies. Or else a process might get killed by the scheduler and Nextflow is not giving any hints what so ever why this is happening. It is a pain on the admin side to debug such a problem. For more details please see https://nextflow.slack.com/archives/C02T98A23U7/p1709196894689059.
Suggest implementation
Add a new param type like max_disk_usage to any config file which tells a process or a HPC in general how much disk space can be occupied.
In the past, Nextflow jobs were killed randomly and it took us days to find out why, because there were no logs or error messages. Monitoring the disk space occupied and killing a process early might be of help here.
Thanks!
Contributor guide
First steps
- Read the whole issue, then the project's contributing guide.
- Comment on the issue to say you are picking it up — it saves two people doing the same work.
- Fork the repository and make your change on a branch.
- Open a pull request that references the issue number.
Research direction
The issue names no files, tests, or entry points, so first identify where process configuration and HPC execution are handled. Define how disk usage is measured, configured, reported, and enforced for individual or shared processes; done means the behavior is specified, implemented, and covered by tests.
Written by the indexing model from the issue text.
Assessment
- Tech stack
- groovy
- Domain
- hpc
- Issue type
- Feature
- Difficulty
- 5/5
- Estimated time
- Over a week
- Activity status
- Stale
- Clarity
- Needs clarification
- Newbie friendliness
- 25/100