Run pipeline on biowulf - Memory issue

NCI-CGR / GwasQcPipeline

The CGR GWAS QC processing workflow.

https://nci-cgr.github.io/GwasQcPipeline/

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Run pipeline on biowulf - Memory issue #209

Closed 1teaspoon closed 2 years ago

1teaspoon commented 3 years ago

no problem with installation and preflight.

error occured when run 'cgr submit':

sbatch: error: Invalid --mem specification

dorks81 commented 2 years ago

The wrapper for biowulf does not provide a default memory setting so --local-mem-mb needs to be specified in the command line execution. cgr submit --biowulf --local-mem-mb 8000