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theiagen / public_health_bioinformatics

Bioinformatics workflows for genomic characterization, submission preparation, and genomic epidemiology of pathogens of public health concern.
GNU General Public License v3.0
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[feature request] expose disk_size optional input for kraken workflows #315

Closed kapsakcj closed 5 months ago

kapsakcj commented 6 months ago

:cool:

:pushpin: Explain the Request

disk_size is not exposed as an optional input parameter in the kraken2_PE_PHB and kraken2_SE_PHB workflows. A user ran into disk space issues/errors using this workflow with large databases and has no way of requesting a VM with a larger disk.

:books: Context

see above

:chart_with_upwards_trend: Desired Behavior

Allow user to optionally define disk_size for the kraken2 task within the 2 aforementioned workflows.

:information_source: Additional Information

I've started a dev branch called cjk-kraken-standalone-disk-size to address this request & have started testing in Terra. I'll open a draft PR momentarily