publication-visium_preprocessing/config_cluster.yaml at main · CollinsLabBioComp/publication-visium_preprocessing · GitHub

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__default__:
  mem: "50G"
  cpus: "20"
  ntasks: "1"
  name: "{rule}.{wildcards}"
  output: "logs/{rule}/smk.{rule}.{wildcards}.out"
  time: "3:00:00"
  partition: "quick,norm"
  gres: "lscratch:10"

make_fastqs:
  mem: "50G"
  cpus: "20"
  ntasks: "1"
  gres: "lscratch:100"
  name: "{rule}.{wildcards}"
  output: "logs/{rule}/smk.{rule}.{wildcards}.out"
  time: "24:00:00"
  partition: "norm"

spaceranger_count:
  mem: "50G"
  cpus: "32"
  ntasks: "1"
  gres: "lscratch:100"
  name: "{rule}.{wildcards}"
  output: "logs/{rule}/smk.{rule}.{wildcards}.out"
  time: "24:00:00"
  partition: "norm"

correct_bleed:
  mem: "100G"
  cpus: "20"
  ntasks: "1"
  gres: "lscratch:100"
  name: "{rule}.{wildcards}"
  output: "logs/{rule}/smk.{rule}.{wildcards}.out"
  time: "3:00:00"
  partition: "quick,norm"

convert_anndata:
  mem: "100G"
  cpus: "20"
  ntasks: "1"
  gres: "lscratch:100"
  name: "{rule}.{wildcards}"
  output: "logs/{rule}/smk.{rule}.{wildcards}.out"
  time: "3:00:00"
  partition: "quick,norm"