params {
    config_profile_description = 'New York University HPC profile provided by nf-core/configs.'
    config_profile_contact     = 'HPC@nyu.edu'
    config_profile_url         = 'https://services.rt.nyu.edu'

    // Resource limits
    max_memory                 = 3000.GB
    max_cpus                   = 128
    max_time                   = 7.d
}

apptainer {
    enabled    = true
    runOptions = "-B ${System.getenv('APPTAINER_BINDPATH') ?: '/scratch'}"
}

process {
    resourceLimits = [
        memory:  params.max_memory,
        cpus:    params.max_cpus,
        time:    params.max_time
    ]
    executor       = 'slurm'
    clusterOptions = {
        "--account=${System.getenv('SLURM_JOB_ACCOUNT')} --export=NONE"
    }

    // Only retry for specific SLURM exit codes (e.g., OOM or Timeouts)
    errorStrategy = { task.exitStatus in [143, 137, 104, 134, 139] ? 'retry' : 'finish' }
    maxRetries     = 3

    cache          = 'lenient'  // Tolerates minor timestamp differences on shared filesystems
}

executor {
    queueSize       = 500

    // Job submission throttling - prevents overwhelming scheduler
    submitRateLimit   = '3 sec'      // Max 3 jobs/sec (180 jobs/min)
    pollInterval      = '10 sec'     // Check running jobs every 10s (reduces I/O on shared FS)
    queueStatInterval = '2 min'      // Check queue status every 2min (reduces squeue load)

    // SLURM optimization flags (version-dependent, gracefully ignored if unsupported)
    queueGlobalStatus = true         // Query jobs globally, not per-partition (23.01.0+)
    onlyJobState      = true         // Use --only-job-state for faster queries (25.12.0+, requires SLURM 24.05+)

    // Prevents false failures when file sync is delayed across storage nodes
    exitReadTimeout = '10 min'

    // Job submission retry with exponential backoff
    retry {
        maxAttempts = 5            // Try up to 5 times before giving up
        delay       = '5 sec'      // Delay when retrying failed job submissions
        maxDelay    = '1 min'      // Cap exponential backoff at 60sec
        jitter      = 0.25         // Add ±25% randomness to avoid retry storms
    }
}