Description of the bug
In the long-read host removal, the publishing of unmapped bam files should be actively deactivated. The modules.config looks like:
withName: SAMTOOLS_VIEW {
ext.args = '-f 4'
ext.prefix = { "${meta.id}_${meta.run_accession}.unmapped" }
}
James screenshot:
Command used and terminal output
Relevant files
No response
System information
No response