jobs failing with sigbus and unknown userid errors

[mniederhuber]

jobs failing with sigbus and unknown userid errors

[mniederhuber]

It turns out this is almost certainly an issue on the HPC side.
slurm / admins were causing jobs that were submitted to one partition to get redirected to a different partition.
By default, nextflow polls job status from the submitted partition, and if it can't find the job things get messed up.
We have been able to fix this by adding the following to our config file:

executor {
    name = "slurm"
    queueGlobalStatus = true
}

This will tell nextflow to poll for job status globally and not just within the submitted partition.

It would be great if this was either the default behavior from nextflow, or there was a more informative error message in cases where a job has been redirected.