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This repository was archived by the owner on Apr 19, 2023. It is now read-only.
clusterOptions "-l nodes=1:ppn=2 -l walltime=1:00:00 -A ${params.global.qsubaccount}"
An improvement would be to specify the resource usage per process using the built-in directives, and have a VSC profile that sets cluster-specific settings.
process example {
cpus 4
memory 10.GB
disk '2 GB'
queue 'bigmem'
time '1h'
...
}
The current use of
clusterOptions
is specific to the VSC and won't work with other HPC systems:vsn-pipelines/src/utils/processes/h5adAnnotate.nf
Line 9 in 0f1dd63
An improvement would be to specify the resource usage per process using the built-in directives, and have a VSC profile that sets cluster-specific settings.
Even better, we could set these dynamically based on the number of cells and genes (https://www.nextflow.io/docs/latest/process.html#dynamic-directives)
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