@prefix LoadListingRequirement: .
@prefix NetworkAccess: .
@prefix xsd: .
@prefix cwl: .
@prefix Workflow: .
@prefix sld: .
@prefix rdfs: .
@prefix ns1: .
@prefix ExpressionTool: .
a cwl:Workflow ;
ns1:original_cwlVersion "v1.0" ;
Workflow:steps , , , , ;
cwl:cwlVersion ;
cwl:hints [ a ;
LoadListingRequirement:loadListing
"deep_listing"
] ;
cwl:hints [ a ;
NetworkAccess:networkAccess true
] ;
cwl:inputs , , , , ;
cwl:outputs , , , , .
sld:type [ sld:items cwl:File ;
sld:type sld:array
] .
sld:type [ sld:items cwl:File ;
sld:type sld:array
] ;
sld:type [ sld:items cwl:File ;
sld:type sld:array
] ;
sld:type [ sld:items cwl:File ;
sld:type sld:array
] .
cwl:source .
sld:type [ sld:items [ sld:items cwl:File ;
sld:type sld:array
] ;
sld:type sld:array
] .
cwl:source .
cwl:outputSource ;
sld:type cwl:Directory .
cwl:default "gvcfs" .
cwl:default "trim-reports" .
cwl:outputSource ;
sld:type cwl:Directory .
cwl:source .
a cwl:ExpressionTool ;
rdfs:label "Moves an array of Files into a named directory" ;
ns1:original_cwlVersion "v1.2" ;
ExpressionTool:expression "${\n var result = {\n outdir: {\n class: 'Directory',\n basename: inputs.name,\n listing: inputs.files\n }\n };\n\n return result;\n}\n" ;
cwl:cwlVersion ;
cwl:hints [ a ;
NetworkAccess:networkAccess true
] ;
cwl:hints [ a ;
LoadListingRequirement:loadListing
"deep_listing"
] ;
cwl:hints [ a ;
LoadListingRequirement:loadListing
"deep_listing"
] ;
cwl:hints [ a ;
NetworkAccess:networkAccess true
] ;
cwl:hints [ a ;
LoadListingRequirement:loadListing
"deep_listing"
] ;
cwl:hints [ a ;
NetworkAccess:networkAccess true
] ;
cwl:inputs , ;
cwl:outputs ;
cwl:requirements [ a cwl:InlineJavascriptRequirement ] ;
cwl:requirements [ a cwl:InlineJavascriptRequirement ] ;
cwl:requirements [ a cwl:InlineJavascriptRequirement ] .
cwl:outputSource ;
sld:type cwl:Directory .
sld:type [ sld:items cwl:File ;
sld:type sld:array
] .
cwl:outputSource ;
sld:type cwl:Directory .
cwl:outputSource ;
sld:type cwl:Directory .
sld:type [ sld:items [ sld:items cwl:File ;
sld:type sld:array
] ;
sld:type sld:array
] ;
sld:type [ sld:items [ sld:items cwl:File ;
sld:type sld:array
] ;
sld:type sld:array
] .
cwl:default "fastqc-reports" .
sld:type xsd:string .
cwl:default "bams-markduplicates" .
a cwl:ExpressionTool ;
rdfs:label "Moves an array of File pairs into a named directory" ;
ns1:original_cwlVersion "v1.2" ;
ExpressionTool:expression "${\n var files = inputs.file_pairs.reduce(function(a,b) {\n return a.concat(b);\n }, []);\n\n var result = {\n outdir: {\n class: 'Directory',\n basename: inputs.name,\n listing: files\n }\n };\n\n return result;\n}\n" ;
cwl:cwlVersion ;
cwl:hints [ a ;
LoadListingRequirement:loadListing
"deep_listing"
] ;
cwl:hints [ a ;
NetworkAccess:networkAccess true
] ;
cwl:hints [ a ;
LoadListingRequirement:loadListing
"deep_listing"
] ;
cwl:hints [ a ;
NetworkAccess:networkAccess true
] ;
cwl:inputs , ;
cwl:outputs ;
cwl:requirements [ a cwl:InlineJavascriptRequirement ] ;
cwl:requirements [ a cwl:InlineJavascriptRequirement ] .
cwl:in , ;
cwl:out ;
cwl:run .
cwl:in , ;
cwl:out ;
cwl:run .
cwl:in , ;
cwl:out ;
cwl:run .
sld:type cwl:Directory .
cwl:in , ;
cwl:out ;
cwl:run .
cwl:source .
sld:type [ sld:items [ sld:items cwl:File ;
sld:type sld:array
] ;
sld:type sld:array
] .
cwl:in , ;
cwl:out ;
cwl:run .
sld:type xsd:string .
cwl:source .
sld:type [ sld:items cwl:File ;
sld:type sld:array
] .
cwl:default "bams-recalibrated" .
sld:type cwl:Directory .