slurm.yaml

__default__:
    time: "0-10:00:00"
    partition: "batch"
    qos: "qos-batch"
    nodes: 1
    n: 1
    explicit: ""
    job-name: "ONT_Zymo.{rule}"
    # output: "slurm-%j.%N-%x.out"
    # error: "slurm-%j.%N-%x.err"
    # mail-type: "end"

# Preprocessing
guppy_gpu_basecalling:
    time: "01-00:00:00"
    partition: "gpu"
    qos: "qos-gpu"
    nodes: 1
    n: 1
    explicit: "--gres=gpu:1"

fastp_sr:
    time: "00-01:00:00"
    partition: "batch"
    qos: "qos-batch"
    nodes: 1
    n: 1
    explicit: ""

rm_rrna_bbmap:
    time: "00-6:00:00"
    partition: "batch"
    qos: "qos-batch"
    nodes: 1
    n: 1
    explicit: ""

# Assembly
assembly_lr_flye:
    time: "00-10:00:00"
    partition: "bigmem"
    qos: "qos-bigmem"
    nodes: 1
    n: 1
    explicit: ""

assembly_lr_wtdbg2:
    time: "00-10:00:00"
    partition: "bigmem"
    qos: "qos-bigmem"
    nodes: 1
    n: 1
    explicit: ""

assembly_lr_canu:
    time: "05-00:00:00"
    partition: "bigmem"
    qos: "qos-bigmem"
    nodes: 1
    n: 1
    explicit: ""

assembly_sr_megahit:
    time: "01-4:00:00"
    partition: "bigmem"
    qos: "qos-bigmem"
    nodes: 1
    n: 1
    explicit: ""