/*
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
    nf-core/taxprofiler Nextflow base config file
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
    A 'blank slate' config file, appropriate for general use on most high performance
    compute environments. Assumes that all software is installed and available on
    the PATH. Runs in `local` mode - all jobs will be run on the logged in environment.
----------------------------------------------------------------------------------------
*/

process {

    cpus          = { 1 * task.attempt }
    memory        = { 6.GB * task.attempt }
    time          = { 4.h * task.attempt }

    errorStrategy = { task.exitStatus in ((130..145) + 104 + (175..177)) ? 'retry' : 'finish' }
    maxRetries    = 1
    maxErrors     = '-1'

    // Process-specific resource requirements
    // NOTE - Please try and reuse the labels below as much as possible.
    //        These labels are used and recognised by default in DSL2 files hosted on nf-core/modules.
    //        If possible, it would be nice to keep the same label naming convention when
    //        adding in your local modules too.
    // See https://www.nextflow.io/docs/latest/config.html#config-process-selectors
    withLabel: process_single {
        cpus   = { 1 }
        memory = { 1.GB * task.attempt }
        time   = { 4.h * task.attempt }
    }
    withLabel: process_low {
        cpus   = { 2 * task.attempt }
        memory = { 12.GB * task.attempt }
        time   = { 4.h * task.attempt }
    }
    withLabel: process_medium {
        cpus   = { 6 * task.attempt }
        memory = { 36.GB * task.attempt }
        time   = { 8.h * task.attempt }
    }
    withLabel: process_high {
        cpus   = { 12 * task.attempt }
        memory = { 72.GB * task.attempt }
        time   = { 16.h * task.attempt }
    }
    withLabel: process_long {
        time = { 20.h * task.attempt }
    }
    withLabel: process_high_memory {
        memory = { 200.GB * task.attempt }
    }
    withLabel: error_ignore {
        errorStrategy = 'ignore'
    }
    withLabel: error_retry {
        errorStrategy = 'retry'
        maxRetries    = 2
    }
    withLabel: process_gpu {
        ext.use_gpu = { workflow.profile.contains('gpu') }
        accelerator = { workflow.profile.contains('gpu') ? 1 : null }
    }

    withName: BRACKEN_BRACKEN {
        errorStrategy = 'ignore'
    }

    withName: CENTRIFUGE_KREPORT {
        errorStrategy = { task.exitStatus == 255 ? 'ignore' : 'retry' }
    }

    withName: KRAKENTOOLS_COMBINEKREPORTS_CENTRIFUGE {
        errorStrategy = { task.exitStatus in [255, 1] ? 'ignore' : 'retry' }
    }

    withName: MEGAN_RMA2INFO_TSV {
        cpus   = { 1 }
        memory = { 6.GB * task.attempt }
        time   = { 4.h * task.attempt }
    }
    withName: MEGAN_RMA2INFO_KRONA {
        cpus   = { 1 }
        memory = { 6.GB * task.attempt }
        time   = { 4.h * task.attempt }
    }
    withName: FALCO {
        cpus   = { 6 }
        memory = { 4.GB * task.attempt }
        time   = { 4.h * task.attempt }
    }
}