// Configurable variables

params {

outdir = './results'

cpus = 4

exclude = 'decoy,random,chrUn,alt,chrEBV,chrM'

}

process {

time = 12.h

memory = 8.GB

cpus = 1

cache = 'lenient'

container = 'brwnj/covdist:v1.0.1'

}

profiles {

docker {

docker.enabled = true

}

singularity {

singularity.runOptions = '--bind /scratch'

singularity.enabled = true

}

none {}

}

process.shell = ['/bin/bash', '-euo', 'pipefail']

timeline {

enabled = true

file = "${params.outdir}/logs/timeline.html"

}

report {

enabled = true

file = "${params.outdir}/logs/report.html"

}

trace {

enabled = true

file = "${params.outdir}/logs/trace.txt"

}

manifest {

name = 'brwnj/covdist'

author = 'Joe Brown'

description = 'simple coverage profile of aligned samples. useful for sequencing center feedback and topoffs.'

version = '1.0.0'

nextflowVersion = '>=20.10.0'

homePage = 'https://github.com/brwnj/covdist'

mainScript = 'main.nf'

}