eukrhythmic/cluster-pbs.yaml at master · MichielPerneel/eukrhythmic · GitHub

1
2
3
4
5
6
7
8
9
10
11
12
13
14
15
16
17
18
19
20
21
22
23
24
25
26
27
28
29
30
31
32
33
34
35
36
37
38
39
40
41
42
43
44
45
46
47
48
49
50
51
52
53
54
55
56
57
58
59
60
61
62
63
64
65
66
67
68
69
70
71
72
73
74
__default__:
  account: haleysh
  command_options:
    slurm:
      account: --account={}
      command: sbatch --parsable --qos=unlim
      key_mapping: null
      mem: --mem={}gb
      name: --job-name={}
      nodes: -N {}
      queue: --partition={}
      threads: -n {}
      time: --time={}
    pbs:
      command: qsub
      key_mapping: null
      mem: -l vmem={}gb
      name: -N {}
      nodes: -l nodes={}
      queue: –partition={}
      threads: -l ppn={}
      time: -l walltime={}
  cpupertask: 18
  mem: 180
  nodes: 1
  queue: scavenger
  tasks: 1
  time: 14:00:00
fastqc:
  cpupertask: 5
  mem: 1
  queue: scavenger
  tasks: 1
  time: 6:00:00
fastqc_trimmed:
  cpupertask: 5
  mem: 1
  queue: scavenger
  tasks: 1
  time: 6:00:00
required:
  defaultqueue: scavenger
  maxcores: 1
  maxcpuspertask: 18
  maxmemory: 180
  maxtasks: 1
transabyssmerge:
  cpupertask: 18
  mem: 180
  nodes: 1
  queue: scavenger
  tasks: 1
  time: 10000
trimmomatic:
  cpupertask: 5
  mem: 48
  nodes: 1
  queue: scavenger
  tasks: 1
  time: 24:00:00
trinity:
  cpupertask: 20
  mem: 500
  nodes: 1
  queue: bigmem
  tasks: 1
  time: 48:00:00
velvet:
  cpupertask: 18
  mem: 180
  nodes: 1
  queue: scavenger
  tasks: 1
  time: 48:00:00