nextflow.config

params {
    workflows               = 'demo'
    outdir                  = 'results'

    general.wf_opts         = '-resume -ansi-log false'    

    demo.input              = null
    demo.params_file        = null
    demo.wf_opts            = '-profile test,singularity'
    demo.add_config         = null
    
    fetchngs.input          = null
    fetchngs.params_file    = null
    fetchngs.wf_opts        = '-profile test,singularity'
    fetchngs.add_config     = null

    rnaseq.input            = null
    rnaseq.params_file      = null
    rnaseq.wf_opts          = '-profile test,singularity'
    rnaseq.add_config       = null

    taxprofiler.input       = null
    taxprofiler.params_file = null
    taxprofiler.wf_opts     = '-profile test,singularity'
    taxprofiler.add_config  = null

    mag.input               = null
    mag.params_file         = null
    mag.wf_opts             = '-profile test,singularity'
    mag.add_config          = null

    funcscan.input          = null
    funcscan.params_file    = null
    funcscan.wf_opts        = '-profile test,singularity'
    funcscan.add_config     = null
}

resume = true

process {
    errorStrategy = 'finish' // Important, otherwise concurrent running of workflows may kill the other on error leaving a lock file present
    withName: 'NFCORE_DEMO' {
        publishDir = "$params.outdir/nf-core-demo"
    }
    withName: 'NFCORE_FETCHNGS' {
        publishDir = "$params.outdir/nf-core-fetchngs"
    }
    withName: 'NFCORE_RNASEQ' {
        publishDir = "$params.outdir/nf-core-rnaseq"
    }
    withName: 'NFCORE_TAXPROFILER' {
        publishDir = "$params.outdir/nf-core-taxprofiler"
    }
    withName: 'NFCORE_MAG' {
        publishDir = "$params.outdir/nf-core-mag"
    }
    withName: 'NFCORE_FUNCSCAN' {
        publishDir = "$params.outdir/nf-core-funcscan"
    }
}