base.config

process {
    cpus = { methods.check_limits( 1 * task.attempt, 'cpus' ) }

    commonRetryCodes = [104, 134, 137, 139, 143, 247] // Common out-of-memory error codes
    if (params.input_type == 'bam') {
        withName: 'call_sSNV_Strelka2' {
            ext.retry_codes = [1] // call_sSNV_Strelka2 doesn't differentiate memory errors
        }
    }

    errorStrategy = { task.exitStatus in (((task?.ext?.retry_codes) ? task.ext.retry_codes : []) + process.commonRetryCodes) ? 'retry' : 'terminate' }
    maxRetries = 1

    withLabel:process_low {
        cpus = { methods.check_limits( 2 * task.attempt, 'cpus' ) }
        memory = { methods.check_limits( 3.GB * task.attempt, 'memory' ) }
    }
    withLabel:process_medium {
        cpus = { methods.check_limits( 6 * task.attempt, 'cpus' ) }
        memory = { methods.check_limits( 42.GB * task.attempt, 'memory' ) }
    }
    withLabel:process_high {
        cpus = { methods.check_limits(12 * task.attempt, 'cpus' ) }
        memory = { methods.check_limits( 84.GB * task.attempt, 'memory' ) }
    }
}