Mito_Assembler_Megahit.yaml 967 Bytes
Newer Older
1
2
{
  name: Mito_Assembler_Megahit,
3
  docker_name: mitoassemblermegahit,
4
5
6
  description: ,
  version: "0.0.1",
  author: "MBB",
7
  input: raw_reads,
8
9
  steps:
    [
10
        { title: Quality check, name: quality_check, tools: [fastqc,"null"], default: fastqc },
11
        { title: Assembling, name: assembling, tools: [megahit], default: megahit },
mmassaviol's avatar
mmassaviol committed
12
13
14
        { title: Find mitochondrion scaffold, name: find_mitoscaf, tools: [mitoz_findmitoscaf], default: mitoz_findmitoscaf },
        { title: Annotate, name: annotate, tools: [mitoz_annotate], default: mitoz_annotate },
        { title: Visualize, name: visualize, tools: [igv_visualize], default: igv_visualize },
15
16
17
    ],
  options:
    [
mmassaviol's avatar
typo    
mmassaviol committed
18
      {
19
20
        name: "results_dir",
        type: "output_dir",
21
        value: "/Results",
22
        label: "Results directory: ",
23
        volumes:  [Results: "/Results"]
24
25
      },
    ],
26
27
28
    params_equals: [
      { param_A: find_mitoscaf_clade, param_B: mitoz_annotate_clade },
    ]
29
}