nextflow.config

process.cache = 'deep'

nextflowVersion = '>=20.0'

import java.time.*
Date now = new Date()


params {
    day                = now.format("yyyMMdd")
    timestamp          = now.format("yyyyMMdd-HH-mm-ss")
    out                = "Analysis_Results-${day}"
}

profiles {

    mappings { includeConfig 'conf/mappings.config' }
    standard { includeConfig 'conf/mappings.config' }
    simulations { includeConfig 'conf/simulations.config' }
    gcp { includeConfig 'conf/gcp.config' }
    genomatrix { includeConfig 'conf/genomatrix.config' }
    local { includeConfig 'conf/local.config' }

}

report {
    enabled = true
    file = "${params.out}/${params.timestamp}_report.html"
}

timeline {
    enabled = true
    file = "${params.out}/${params.timestamp}_timeline.html"
}

executor {
    queueSize = 500
    submitRateLimit = 5
}

process {
    container = 'andersenlab/nemascan:20220407173056db3227'

    withLabel: mediation {
        container = 'andersenlab/mediation:20220407173046db3227'
    }
}