How to create conditional workflows
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147 | cwlVersion: v1.2
$graph:
- class: Workflow
id: main
requirements:
- class: MultipleInputFeatureRequirement
- class: ScatterFeatureRequirement
- class: InlineJavascriptRequirement
inputs:
red:
type: string
green:
type: string
blue:
type: string
epsg_code:
type: string
outputs:
preview:
type: File[]
outputSource:
- node_warp/preview
- node_translate/preview
pickValue: all_non_null
linkMerge: merge_flattened
steps:
node_translate:
in:
band: [red, green, blue]
epsg_code: epsg_code
out:
- preview
run:
"#translate"
when: $( inputs.epsg_code == "native")
scatter: band
scatterMethod: dotproduct
node_warp:
in:
band: [red, green, blue]
epsg_code: epsg_code
out:
- preview
run:
"#warp"
when: $( inputs.epsg_code != "native")
scatter: band
scatterMethod: dotproduct
- class: CommandLineTool
id: translate
requirements:
InlineJavascriptRequirement: {}
EnvVarRequirement:
envDef:
PROJ_LIB: /srv/conda/envs/notebook/share/proj
NetworkAccess:
networkAccess: true
hints:
DockerRequirement:
dockerPull: docker.io/osgeo/gdal
baseCommand: gdal_translate
arguments:
- -of
- COG
- -ot
- Byte
- valueFrom: $( inputs.band )
- valueFrom: $( inputs.band.split("/").slice(-1)[0] )
inputs:
band:
type: string
outputs:
preview:
type: File
outputBinding:
glob: "*.tif"
- class: CommandLineTool
id: warp
requirements:
InlineJavascriptRequirement: {}
EnvVarRequirement:
envDef:
PROJ_LIB: /srv/conda/envs/notebook/share/proj
NetworkAccess:
networkAccess: true
hints:
DockerRequirement:
dockerPull: docker.io/osgeo/gdal
baseCommand: gdalwarp
arguments:
- -of
- COG
- -ot
- Byte
- -t_srs
- valueFrom: $( inputs.epsg_code )
- valueFrom: $( inputs.band )
- valueFrom: $( inputs.band.split("/").slice(-1)[0].replace(".TIF", ".tif") )
inputs:
band:
type: string
epsg_code:
type: string
outputs:
preview:
type: File
outputBinding:
glob: "*.tif"
|
red: '/vsicurl/https://sentinel-cogs.s3.us-west-2.amazonaws.com/sentinel-s2-l2a-cogs/10/T/FK/2021/7/S2B_10TFK_20210713_0_L2A/B04.tif'
green: '/vsicurl/https://sentinel-cogs.s3.us-west-2.amazonaws.com/sentinel-s2-l2a-cogs/10/T/FK/2021/7/S2B_10TFK_20210713_0_L2A/B03.tif'
blue: '/vsicurl/https://sentinel-cogs.s3.us-west-2.amazonaws.com/sentinel-s2-l2a-cogs/10/T/FK/2021/7/S2B_10TFK_20210713_0_L2A/B02.tif'
epsg_code: "EPSG:4326"
# epsg_code: "native"
Reference