nextflow.config

//author: Ye Wang <yewangfaith@gmail.com>, Mike Sauria <mike.sauria@jhu.edu>
import java.time.*
Date now = new Date()

//params.email = "yewangfaith@gmail.com"

profiles {
    standard { includeConfig 'conf/rockfish.config' }
    rockfish { includeConfig 'conf/rockfish.config' }
    local { includeConfig 'conf/local.config' }
    quest { includeConfig 'conf/quest.config' }
    gcp { includeConfig 'conf/gcp.config' }
}

params {
    tracedir = "pipeline_info"
    timestamp = now.format("yyyyMMdd-HH-mm-ss")
    debug = false
    help = false
}

timeline {
    enabled = true
    file = "${params.tracedir}/${params.timestamp}_timeline.html"
}
report {
    enabled = true
    file = "${params.tracedir}/${params.timestamp}_report.html"
}
trace {
    enabled = true
    file = "${params.tracedir}/${params.timestamp}_trace.txt"
}
dag {
    enabled = true
    file = "${params.tracedir}/${params.timestamp}_dag.svg"
}

process.container = 'andersenlab/concordance:20220307191145eae926'