Publishing oddities

main.nf

#!/usr/bin/env nextflow

params.outdir = 'results'
params.all = false

workflow {
    First()

    First.out.value | Second
    Second.out.value | Third
}


process First {
    publishDir params.outdir
    container 'quay.io/nextflow/bash'
    output:
    val(1), emit: value
    path('out'), emit: files
    
    script:
    """
    mkdir -p out/first/{1,2,3}/{1,2,3}
    echo foo | tee out/first/{1,2,3}/{1,2,3}/{1,2,3}.txt 
    """
}

process Second {
    publishDir params.outdir
    container 'quay.io/nextflow/bash'

    input:
    val(x)

    output: 
    val(x), emit: value
    path('out'), emit: files

    script:
    """
    mkdir -p out/second/{1,2,3}/{1,2,3}
    echo foo | tee out/second/{1,2,3}/{1,2,3}/{1,2,3}.txt 
    """
}

process Third {
    publishDir params.outdir
    container 'quay.io/nextflow/bash'

    input:
    val(x)
    
    output:
    path('out')
    
    script:
    """
    mkdir -p out/third/{1,2,3}/{1,2,3}
    echo foo | tee out/third/{1,2,3}/{1,2,3}/{1,2,3}.txt 
    """
}