Skip to content
GitLab
Switch branch/tag
Find file Normal viewHistoryPermalink
music_punctate.yaml 1.5 KB
Newer Older
aknecht2's avatar
Added job yaml file. Updated workflow_job parsing to handle rawfolder argument.  
aknecht2 committed
1
2 
music_punctate:
  inputs:
aknecht2's avatar
Updated all workflow job yaml files for peak calling jobs.    
aknecht2 committed
3 
    prefix:
aknecht2's avatar
Added job yaml file. Updated workflow_job parsing to handle rawfolder argument.  
aknecht2 committed
4 
      type: string
aknecht2's avatar
Updated all workflow job yaml files for peak calling jobs.    
aknecht2 committed
5 
    control.bed:
aknecht2's avatar
Added job yaml file. Updated workflow_job parsing to handle rawfolder argument.  
aknecht2 committed
6
7 
      type: file
      file_type: bed
aknecht2's avatar
Updated all workflow job yaml files for peak calling jobs.    
aknecht2 committed
8 
    signal.bed:
aknecht2's avatar
Added job yaml file. Updated workflow_job parsing to handle rawfolder argument.  
aknecht2 committed
9
10
11 
      type: file
      file_type: bed
  outputs:
aknecht2's avatar
Updated all workflow job yaml files for peak calling jobs.    
aknecht2 committed
12 
    scale_129.bed:
aknecht2's avatar
Added job yaml file. Updated workflow_job parsing to handle rawfolder argument.  
aknecht2 committed
13
14 
      type: file
      file_type: bed
aknecht2's avatar
Updated all workflow job yaml files for peak calling jobs.    
aknecht2 committed
15 
    scale_194.bed:
aknecht2's avatar
Added job yaml file. Updated workflow_job parsing to handle rawfolder argument.  
aknecht2 committed
16
17 
      type: file
      file_type: bed
aknecht2's avatar
Updated all workflow job yaml files for peak calling jobs.    
aknecht2 committed
18 
    scale_291.bed:
aknecht2's avatar
Added job yaml file. Updated workflow_job parsing to handle rawfolder argument.  
aknecht2 committed
19
20 
      type: file
      file_type: bed
aknecht2's avatar
Updated all workflow job yaml files for peak calling jobs.    
aknecht2 committed
21 
    scale_437.bed:
aknecht2's avatar
Added job yaml file. Updated workflow_job parsing to handle rawfolder argument.  
aknecht2 committed
22
23 
      type: file
      file_type: bed
aknecht2's avatar
Updated all workflow job yaml files for peak calling jobs.    
aknecht2 committed
24 
    scale_656.bed:
aknecht2's avatar
Added job yaml file. Updated workflow_job parsing to handle rawfolder argument.  
aknecht2 committed
25
26 
      type: file
      file_type: bed
aknecht2's avatar
Updated all workflow job yaml files for peak calling jobs.    
aknecht2 committed
27 
    scale_985.bed:
aknecht2's avatar
Added job yaml file. Updated workflow_job parsing to handle rawfolder argument.  
aknecht2 committed
28
29 
      type: file
      file_type: bed
aknecht2's avatar
Updated all workflow job yaml files for peak calling jobs.    
aknecht2 committed
30 
    scale_1477.bed:
aknecht2's avatar
Added job yaml file. Updated workflow_job parsing to handle rawfolder argument.  
aknecht2 committed
31
32 
      type: file
      file_type: bed
aknecht2's avatar
Updated all workflow job yaml files for peak calling jobs.    
aknecht2 committed
33 
    scale_2216.bed:
aknecht2's avatar
Added job yaml file. Updated workflow_job parsing to handle rawfolder argument.  
aknecht2 committed
34
35 
      type: file
      file_type: bed
aknecht2's avatar
Fixed incorrect command in music_puncatte. Added print statement when...    
aknecht2 committed
36 
  command: chip-job-music
aknecht2's avatar
Added job yaml file. Updated workflow_job parsing to handle rawfolder argument.  
aknecht2 committed
37
38
39
40
41
42 
  arguments:
    - "--prefix":
        type: string
        changeable: false
        required: true
        has_value: true
aknecht2's avatar
Updated all workflow job yaml files for peak calling jobs.    
aknecht2 committed
43 
        default: "$prefix"
aknecht2's avatar
Added job yaml file. Updated workflow_job parsing to handle rawfolder argument.  
aknecht2 committed
44
45
46
47
48
49
50
51
52
53
54 
    - "--peak_type":
        type: string
        changeable: false
        required: true
        has_value: true
        default: "punctate"
    - "--controls":
        type: file
        changeable: false
        required: true
        has_value: true
aknecht2's avatar
Updated all workflow job yaml files for peak calling jobs.    
aknecht2 committed
55 
        default: "$control.bed"
aknecht2's avatar
Added job yaml file. Updated workflow_job parsing to handle rawfolder argument.  
aknecht2 committed
56
57
58
59
60 
    - "--signals":
        type: file
        changeable: false
        required: true
        has_value: true
aknecht2's avatar
Updated all workflow job yaml files for peak calling jobs.    
aknecht2 committed
61 
        default: "$signal.bed"
aknecht2's avatar
Added job yaml file. Updated workflow_job parsing to handle rawfolder argument.  
aknecht2 committed
62
63
64
65
66
67
68
69
70
71
72
73 
    - "--mapp":
        type: rawfolder
        changeable: true
        required: true
        has_value: true
    - "--lmapp":
        type: numeric
        changeable: true
        required: true
        has_value: true
        default: 50
  walltime: 240
aknecht2's avatar
Doubled the memory requirement for music jobs to keep them from crashing silently.    
aknecht2 committed
74 
  memory: 16000
aknecht2's avatar
Added job yaml file. Updated workflow_job parsing to handle rawfolder argument.  
aknecht2 committed
75
76 
  cores: 1
  nodes: 1