Lab 08: Putting it all together

Putting it all together

If you inspect exercises/08_putting_it_all_together, you'll see a Nextflow pipeline using the same organization we used in labs 4 and 6.

Look at the "nextflow.config" file. Notice anything new?

params {
    fasta_seqs = false
    skip_qc = false
}

process {
    publish_dir = "${params.publish_dir}"
        withLabel: star {
            cpus = 2
        }
}

singularity {
    enabled = true
    cacheDir = "${HOME}/singularity/"
    autoMounts = true
}

report {
    enabled = true
    file    = "${process.publish_dir}/summary/report.html"
}

timeline{
    enabled = true
    file    = "${process.publish_dir}/summary/timeline.html"
}