Using --lowmem option causes kraken2 to fail

ellisrichardj / BovTB-nf

Nextflow script for processing WGS data

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Closed ellisrichardj closed 4 years ago

ellisrichardj commented 4 years ago

Appears that lowmem variable outputs 'true' rather than '--memory-mapping' which is the required input for kraken2.

ellisrichardj commented 4 years ago

Command line option must be --lowmem='--memorymapping'