@prefix LoadListingRequirement: .
@prefix NetworkAccess: .
@prefix xsd: .
@prefix cwl: .
@prefix Workflow: .
@prefix sld: .
@prefix ns1: .
@prefix ExpressionTool: .
cwl:source .
cwl:valueFrom "${ return inputs.pair.tumor_id + \".\" + inputs.pair.normal_id; }" .
cwl:outputSource ;
sld:type cwl:Directory .
sld:type xsd:string .
cwl:in , , ;
cwl:out ;
cwl:run .
sld:type [ sld:items cwl:File , xsd:string , sld:null ;
sld:type sld:array
] .
a cwl:Workflow ;
ns1:original_cwlVersion "v1.0" ;
Workflow:steps ;
cwl:cwlVersion ;
cwl:hints [ a ;
LoadListingRequirement:loadListing
"deep_listing"
] ;
cwl:hints [ a ;
NetworkAccess:networkAccess true
] ;
cwl:inputs ;
cwl:outputs ;
cwl:requirements [ a cwl:StepInputExpressionRequirement ] ;
cwl:requirements [ a cwl:MultipleInputFeatureRequirement ] ;
cwl:requirements [ a cwl:ScatterFeatureRequirement ] ;
cwl:requirements [ a cwl:InlineJavascriptRequirement ] ;
cwl:requirements [ a cwl:SubworkflowFeatureRequirement ] .
cwl:valueFrom "${ return inputs.pair.files; }" .
sld:type xsd:string .
sld:type [ sld:items cwl:File ;
sld:type sld:array
] .
sld:type [ sld:fields , , ;
sld:type sld:record
] .
a cwl:ExpressionTool ;
ns1:original_cwlVersion "v1.0" ;
ExpressionTool:expression "${\n var output_files = [];\n var input_files = inputs.files.filter(single_file => String(single_file).toUpperCase() != 'NONE');\n\n\n for (var i = 0; i < inputs.files.length; i++) {\n if(input_files[i]){\n output_files.push(inputs.files[i]);\n }\n }\n\n return {\n 'directory': {\n 'class': 'Directory',\n 'basename': inputs.output_directory_name,\n 'listing': output_files\n }\n };\n}\n" ;
cwl:cwlVersion ;
cwl:hints [ a ;
NetworkAccess:networkAccess true
] ;
cwl:hints [ a ;
LoadListingRequirement:loadListing
"deep_listing"
] ;
cwl:inputs , ;
cwl:outputs ;
cwl:requirements [ a cwl:InlineJavascriptRequirement ] .
sld:type cwl:Directory .
sld:type xsd:string .