How to create nested workflows
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
75
76
77
78
79
80
81
82
83
84
85
86
87
88
89
90
91
92
93
94
95
96
97
98
99
100
101
102
103
104
105
106
107
108
109
110
111
112
113
114
115
116
117
118
119
120
121
122
123
124
125
126
127
128
129
130
131
132
133 | cwlVersion: v1.0
$graph:
- class: Workflow
id: main
requirements:
- class: ScatterFeatureRequirement
- class: SubworkflowFeatureRequirement
inputs:
red:
type: string
green:
type: string
blue:
type: string
product:
type: string[]
outputs:
preview:
outputSource: node_clip/preview
type:
type: array
items:
type: array
items: File
steps:
node_clip:
run: "#clipper"
in:
red: red
green: green
blue: blue
product: product
out:
- preview
scatter: product
scatterMethod: dotproduct
- class: Workflow
id: clipper
requirements:
- class: MultipleInputFeatureRequirement
- class: ScatterFeatureRequirement
inputs:
red:
type: string
green:
type: string
blue:
type: string
product:
type: string
outputs:
preview:
outputSource: node_gdal/preview
type: File[]
steps:
node_gdal:
in:
band: [red, green, blue]
product: product
out:
- preview
run:
"#gdal"
scatter: band
scatterMethod: dotproduct
- class: CommandLineTool
id: gdal
requirements:
InlineJavascriptRequirement: {}
EnvVarRequirement:
envDef:
PROJ_LIB: /srv/conda/envs/notebook/share/proj
hints:
DockerRequirement:
dockerPull: docker.io/osgeo/gdal
baseCommand: gdal_translate
arguments:
- -of
- PNG
- -ot
- Byte
- -srcwin
- "1000"
- "1000"
- "500"
- "500"
- valueFrom: $( inputs.product + "/" + inputs.band + ".tif")
- valueFrom: $( inputs.product.split("/").slice(-1)[0] + "_" + inputs.band + ".png" )
inputs:
product:
type: string
band:
type: string
outputs:
preview:
type: File
outputBinding:
glob: "*.png"
|
product:
- 'https://sentinel-cogs.s3.us-west-2.amazonaws.com/sentinel-s2-l2a-cogs/10/T/FK/2021/7/S2B_10TFK_20210713_0_L2A'
- 'https://sentinel-cogs.s3.us-west-2.amazonaws.com/sentinel-s2-l2a-cogs/10/T/FK/2021/7/S2B_10TFK_20210723_0_L2A'
red: "B04"
green: "B03"
blue: "B02"