nextflow.config

// vim: syntax=groovy expandtab
// BACTpipe Nextflow configuration file

manifest {
    homePage = 'https://bactpipe.readthedocs.io'
    description = 'BACTpipe - whole genome assembly, species identification and annotation pipeline'
    mainScript = 'bactpipe.nf'
}

report {
    enabled = true
    file = "BACTpipe_report.html"
}

timeline {
    enabled = true
    file = "BACTpipe_timeline.html"
}


profiles {
    standard {
        includeConfig 'conf/params.config'
        includeConfig 'conf/local.config'
    }
    ctmrnas {
        includeConfig 'conf/params.config'
        includeConfig 'conf/ctmrnas.config'
    }
    rackham {
        includeConfig 'conf/params.config'
        includeConfig 'conf/rackham.config'
    }

} 
params.profiles_that_require_project = ['rackham']