subworkflows/fasta_build_add_kraken2_bracken

Channel containing a meta with a list of FASTAs to be built
Structure: [ val(meta), [ fasta1, fasta2, fasta3 ] ]

Channel containing a NCBI-style taxdump names file
Structure: [ names.dmp ]

Channel containing a NCBI-style taxdump nodes file
Structure: [ nodes.dmp ]

Channel containing a NCBI-style taxdump accession2taxid (acc2tax) file
Structure: [ accession2taxid_file ]

Boolean flag whether to clean up intermediate files after build or not.
If val_runbrackenbuild set, will be ignored as BRACKEN requires intermediate files.
Structure: [ val_cleanintermediate ]

Boolean flag whether to additionally insert required BRACKEN database files into KRAKEN2 directory.
Note any changes for k-mer or read lengths must come via Nextflow config ext.args.
Structure: [ val_runbrackenbuild ]