@prefix LoadListingRequirement: <http://commonwl.org/cwltool#LoadListingRequirement/> .
@prefix NetworkAccess: <http://commonwl.org/cwltool#NetworkAccess/> .
@prefix rdf:   <http://www.w3.org/1999/02/22-rdf-syntax-ns#> .
@prefix CommandLineBinding: <https://w3id.org/cwl/cwl#CommandLineBinding/> .
@prefix xsd:   <http://www.w3.org/2001/XMLSchema#> .
@prefix cwl:   <https://w3id.org/cwl/cwl#> .
@prefix Workflow: <https://w3id.org/cwl/cwl#Workflow/> .
@prefix sld:   <https://w3id.org/cwl/salad#> .
@prefix CommandOutputBinding: <https://w3id.org/cwl/cwl#CommandOutputBinding/> .
@prefix ns1:   <http://commonwl.org/cwltool#> .

<https://w3id.org/cwl/view/git/260a9b71a3372a466d67886d482478fb3060db4d/Tools/pia_run.cwl#proteinExport>
        cwl:inputBinding  [ CommandLineBinding:position  4 ;
                            CommandLineBinding:prefix    "-proteinExport"
                          ] ;
        sld:type          xsd:string .

<https://w3id.org/cwl/view/git/260a9b71a3372a466d67886d482478fb3060db4d/Protein_Inference_workflow.cwl#pia_run/proteinExport>
        cwl:source  <https://w3id.org/cwl/view/git/260a9b71a3372a466d67886d482478fb3060db4d/Protein_Inference_workflow.cwl#proteinExport> .

<https://w3id.org/cwl/view/git/260a9b71a3372a466d67886d482478fb3060db4d/Protein_Inference_workflow.cwl#mztab_to_csv/mztab>
        cwl:source  <https://w3id.org/cwl/view/git/260a9b71a3372a466d67886d482478fb3060db4d/Protein_Inference_workflow.cwl#pia_run/mztab> .

<https://w3id.org/cwl/view/git/260a9b71a3372a466d67886d482478fb3060db4d/Protein_Inference_workflow.cwl#mztab_to_csv/bait>
        cwl:source  <https://w3id.org/cwl/view/git/260a9b71a3372a466d67886d482478fb3060db4d/Protein_Inference_workflow.cwl#bait> .

<https://w3id.org/cwl/view/git/260a9b71a3372a466d67886d482478fb3060db4d/Protein_Inference_workflow.cwl#pia_run/bait>
        cwl:source  <https://w3id.org/cwl/view/git/260a9b71a3372a466d67886d482478fb3060db4d/Protein_Inference_workflow.cwl#bait> .

<https://w3id.org/cwl/view/git/260a9b71a3372a466d67886d482478fb3060db4d/Tools/pia_proteins.cwl#pia_proteins_R>
        cwl:inputBinding  [ CommandLineBinding:position
                          1 ] ;
        sld:type          cwl:File .

<https://w3id.org/cwl/view/git/260a9b71a3372a466d67886d482478fb3060db4d/Protein_Inference_workflow.cwl#pia_run/xml>
        cwl:source  <https://w3id.org/cwl/view/git/260a9b71a3372a466d67886d482478fb3060db4d/Protein_Inference_workflow.cwl#pia_xml/xml> .

<https://w3id.org/cwl/view/git/260a9b71a3372a466d67886d482478fb3060db4d/Tools/pia_run.cwl>
        a                        cwl:CommandLineTool ;
        ns1:original_cwlVersion  "v1.0" ;
        cwl:baseCommand          ( "java" ) ;
        cwl:cwlVersion           <https://w3id.org/cwl/view/git/260a9b71a3372a466d67886d482478fb3060db4d/Tools/v1.2> ;
        cwl:hints                [ a       <https://w3id.org/cwl/view/git/260a9b71a3372a466d67886d482478fb3060db4d/Tools/LoadListingRequirement> ;
                                   LoadListingRequirement:loadListing
                                           "deep_listing"
                                 ] ;
        cwl:hints                [ a                            <https://w3id.org/cwl/view/git/260a9b71a3372a466d67886d482478fb3060db4d/Tools/NetworkAccess> ;
                                   NetworkAccess:networkAccess  true
                                 ] ;
        cwl:inputs               <https://w3id.org/cwl/view/git/260a9b71a3372a466d67886d482478fb3060db4d/Tools/pia_run.cwl#fileType> , <https://w3id.org/cwl/view/git/260a9b71a3372a466d67886d482478fb3060db4d/Tools/pia_run.cwl#bait> , <https://w3id.org/cwl/view/git/260a9b71a3372a466d67886d482478fb3060db4d/Tools/pia_run.cwl#jar> , <https://w3id.org/cwl/view/git/260a9b71a3372a466d67886d482478fb3060db4d/Tools/pia_run.cwl#proteinExport> , <https://w3id.org/cwl/view/git/260a9b71a3372a466d67886d482478fb3060db4d/Tools/pia_run.cwl#xml> , <https://w3id.org/cwl/view/git/260a9b71a3372a466d67886d482478fb3060db4d/Tools/pia_run.cwl#paramFile> ;
        cwl:outputs              <https://w3id.org/cwl/view/git/260a9b71a3372a466d67886d482478fb3060db4d/Tools/pia_run.cwl#mztab> ;
        cwl:requirements         [ a  cwl:InlineJavascriptRequirement ] .

<https://w3id.org/cwl/view/git/260a9b71a3372a466d67886d482478fb3060db4d/Protein_Inference_workflow.cwl#compiler>
        sld:type  xsd:string .

<https://w3id.org/cwl/view/git/260a9b71a3372a466d67886d482478fb3060db4d/Tools/pia_proteins.cwl>
        a                        cwl:CommandLineTool ;
        ns1:original_cwlVersion  "v1.0" ;
        cwl:baseCommand          ( "Rscript" ) ;
        cwl:cwlVersion           <https://w3id.org/cwl/view/git/260a9b71a3372a466d67886d482478fb3060db4d/Tools/v1.2> ;
        cwl:hints                [ a       <https://w3id.org/cwl/view/git/260a9b71a3372a466d67886d482478fb3060db4d/Tools/LoadListingRequirement> ;
                                   LoadListingRequirement:loadListing
                                           "deep_listing"
                                 ] ;
        cwl:hints                [ a                            <https://w3id.org/cwl/view/git/260a9b71a3372a466d67886d482478fb3060db4d/Tools/NetworkAccess> ;
                                   NetworkAccess:networkAccess  true
                                 ] ;
        cwl:inputs               <https://w3id.org/cwl/view/git/260a9b71a3372a466d67886d482478fb3060db4d/Tools/pia_proteins.cwl#csv> , <https://w3id.org/cwl/view/git/260a9b71a3372a466d67886d482478fb3060db4d/Tools/pia_proteins.cwl#bait> , <https://w3id.org/cwl/view/git/260a9b71a3372a466d67886d482478fb3060db4d/Tools/pia_proteins.cwl#pia_proteins_R> ;
        cwl:outputs              <https://w3id.org/cwl/view/git/260a9b71a3372a466d67886d482478fb3060db4d/Tools/pia_proteins.cwl#proteins_csv> ;
        cwl:requirements         [ a  cwl:InlineJavascriptRequirement ] .

<https://w3id.org/cwl/view/git/260a9b71a3372a466d67886d482478fb3060db4d/Protein_Inference_workflow.cwl#pia_run>
        cwl:in   <https://w3id.org/cwl/view/git/260a9b71a3372a466d67886d482478fb3060db4d/Protein_Inference_workflow.cwl#pia_run/fileType> , <https://w3id.org/cwl/view/git/260a9b71a3372a466d67886d482478fb3060db4d/Protein_Inference_workflow.cwl#pia_run/jar> , <https://w3id.org/cwl/view/git/260a9b71a3372a466d67886d482478fb3060db4d/Protein_Inference_workflow.cwl#pia_run/paramFile> , <https://w3id.org/cwl/view/git/260a9b71a3372a466d67886d482478fb3060db4d/Protein_Inference_workflow.cwl#pia_run/xml> , <https://w3id.org/cwl/view/git/260a9b71a3372a466d67886d482478fb3060db4d/Protein_Inference_workflow.cwl#pia_run/bait> , <https://w3id.org/cwl/view/git/260a9b71a3372a466d67886d482478fb3060db4d/Protein_Inference_workflow.cwl#pia_run/proteinExport> ;
        cwl:out  <https://w3id.org/cwl/view/git/260a9b71a3372a466d67886d482478fb3060db4d/Protein_Inference_workflow.cwl#pia_run/mztab> ;
        cwl:run  <https://w3id.org/cwl/view/git/260a9b71a3372a466d67886d482478fb3060db4d/Tools/pia_run.cwl> .

<https://w3id.org/cwl/view/git/260a9b71a3372a466d67886d482478fb3060db4d/Protein_Inference_workflow.cwl#pia_xml/name>
        cwl:source  <https://w3id.org/cwl/view/git/260a9b71a3372a466d67886d482478fb3060db4d/Protein_Inference_workflow.cwl#name> .

<https://w3id.org/cwl/view/git/260a9b71a3372a466d67886d482478fb3060db4d/Tools/pia_xml.cwl#idxml>
        cwl:inputBinding  [ CommandLineBinding:position  3 ;
                            CommandLineBinding:prefix    "-infile"
                          ] ;
        sld:type          cwl:File .

<https://w3id.org/cwl/view/git/260a9b71a3372a466d67886d482478fb3060db4d/Tools/pia_proteins.cwl#proteins_csv>
        cwl:outputBinding  [ CommandOutputBinding:glob
                          "$(inputs.bait)_proteins.csv" ] ;
        sld:type           cwl:File .

<https://w3id.org/cwl/view/git/260a9b71a3372a466d67886d482478fb3060db4d/Protein_Inference_workflow.cwl#mztab_to_csv_py>
        sld:type  cwl:File .

<https://w3id.org/cwl/view/git/260a9b71a3372a466d67886d482478fb3060db4d/Tools/mztab_to_csv.cwl#mztab>
        cwl:inputBinding  [ CommandLineBinding:position
                          2 ] ;
        sld:type          cwl:File .

<https://w3id.org/cwl/view/git/260a9b71a3372a466d67886d482478fb3060db4d/Protein_Inference_workflow.cwl#pia_xml/cp>
        cwl:source  <https://w3id.org/cwl/view/git/260a9b71a3372a466d67886d482478fb3060db4d/Protein_Inference_workflow.cwl#cp> .

<https://w3id.org/cwl/view/git/260a9b71a3372a466d67886d482478fb3060db4d/Tools/pia_xml.cwl#bait>
        cwl:inputBinding  [ CommandLineBinding:position
                          4 ] ;
        sld:type          xsd:string .

<https://w3id.org/cwl/view/git/260a9b71a3372a466d67886d482478fb3060db4d/Tools/pia_xml.cwl#compiler>
        cwl:inputBinding  [ CommandLineBinding:position
                          2 ] ;
        sld:type          xsd:string .

<https://w3id.org/cwl/view/git/260a9b71a3372a466d67886d482478fb3060db4d/Protein_Inference_workflow.cwl>
        a                        cwl:Workflow ;
        ns1:original_cwlVersion  "v1.0" ;
        Workflow:steps           <https://w3id.org/cwl/view/git/260a9b71a3372a466d67886d482478fb3060db4d/Protein_Inference_workflow.cwl#pia_xml> , <https://w3id.org/cwl/view/git/260a9b71a3372a466d67886d482478fb3060db4d/Protein_Inference_workflow.cwl#mztab_to_csv> , <https://w3id.org/cwl/view/git/260a9b71a3372a466d67886d482478fb3060db4d/Protein_Inference_workflow.cwl#pia_proteins> , <https://w3id.org/cwl/view/git/260a9b71a3372a466d67886d482478fb3060db4d/Protein_Inference_workflow.cwl#pia_run> ;
        cwl:cwlVersion           <https://w3id.org/cwl/view/git/260a9b71a3372a466d67886d482478fb3060db4d/v1.2> ;
        cwl:hints                [ a                            <https://w3id.org/cwl/view/git/260a9b71a3372a466d67886d482478fb3060db4d/NetworkAccess> ;
                                   NetworkAccess:networkAccess  true
                                 ] ;
        cwl:hints                [ a       <https://w3id.org/cwl/view/git/260a9b71a3372a466d67886d482478fb3060db4d/LoadListingRequirement> ;
                                   LoadListingRequirement:loadListing
                                           "deep_listing"
                                 ] ;
        cwl:inputs               <https://w3id.org/cwl/view/git/260a9b71a3372a466d67886d482478fb3060db4d/Protein_Inference_workflow.cwl#cp> , <https://w3id.org/cwl/view/git/260a9b71a3372a466d67886d482478fb3060db4d/Protein_Inference_workflow.cwl#proteinExport> , <https://w3id.org/cwl/view/git/260a9b71a3372a466d67886d482478fb3060db4d/Protein_Inference_workflow.cwl#name> , <https://w3id.org/cwl/view/git/260a9b71a3372a466d67886d482478fb3060db4d/Protein_Inference_workflow.cwl#mztab_to_csv_py> , <https://w3id.org/cwl/view/git/260a9b71a3372a466d67886d482478fb3060db4d/Protein_Inference_workflow.cwl#paramFile> , <https://w3id.org/cwl/view/git/260a9b71a3372a466d67886d482478fb3060db4d/Protein_Inference_workflow.cwl#outfile> , <https://w3id.org/cwl/view/git/260a9b71a3372a466d67886d482478fb3060db4d/Protein_Inference_workflow.cwl#fileType> , <https://w3id.org/cwl/view/git/260a9b71a3372a466d67886d482478fb3060db4d/Protein_Inference_workflow.cwl#idxml> , <https://w3id.org/cwl/view/git/260a9b71a3372a466d67886d482478fb3060db4d/Protein_Inference_workflow.cwl#pia_proteins_R> , <https://w3id.org/cwl/view/git/260a9b71a3372a466d67886d482478fb3060db4d/Protein_Inference_workflow.cwl#bait> , <https://w3id.org/cwl/view/git/260a9b71a3372a466d67886d482478fb3060db4d/Protein_Inference_workflow.cwl#jar> , <https://w3id.org/cwl/view/git/260a9b71a3372a466d67886d482478fb3060db4d/Protein_Inference_workflow.cwl#compiler> ;
        cwl:outputs              <https://w3id.org/cwl/view/git/260a9b71a3372a466d67886d482478fb3060db4d/Protein_Inference_workflow.cwl#proteins_csv> ;
        cwl:requirements         [ a  cwl:MultipleInputFeatureRequirement ] .

<https://w3id.org/cwl/view/git/260a9b71a3372a466d67886d482478fb3060db4d/Protein_Inference_workflow.cwl#fileType>
        cwl:default  "mzTab" ;
        sld:type     xsd:string .

<https://w3id.org/cwl/view/git/260a9b71a3372a466d67886d482478fb3060db4d/Protein_Inference_workflow.cwl#pia_proteins>
        cwl:in   <https://w3id.org/cwl/view/git/260a9b71a3372a466d67886d482478fb3060db4d/Protein_Inference_workflow.cwl#pia_proteins/bait> , <https://w3id.org/cwl/view/git/260a9b71a3372a466d67886d482478fb3060db4d/Protein_Inference_workflow.cwl#pia_proteins/csv> , <https://w3id.org/cwl/view/git/260a9b71a3372a466d67886d482478fb3060db4d/Protein_Inference_workflow.cwl#pia_proteins/pia_proteins_R> ;
        cwl:out  <https://w3id.org/cwl/view/git/260a9b71a3372a466d67886d482478fb3060db4d/Protein_Inference_workflow.cwl#pia_proteins/proteins_csv> ;
        cwl:run  <https://w3id.org/cwl/view/git/260a9b71a3372a466d67886d482478fb3060db4d/Tools/pia_proteins.cwl> .

<https://w3id.org/cwl/view/git/260a9b71a3372a466d67886d482478fb3060db4d/Protein_Inference_workflow.cwl#bait>
        sld:type  xsd:string .

<https://w3id.org/cwl/view/git/260a9b71a3372a466d67886d482478fb3060db4d/Tools/pia_run.cwl#fileType>
        cwl:inputBinding  [ CommandLineBinding:position
                          5 ] ;
        sld:type          xsd:string .

<https://w3id.org/cwl/view/git/260a9b71a3372a466d67886d482478fb3060db4d/Protein_Inference_workflow.cwl#pia_xml/outfile>
        cwl:source  <https://w3id.org/cwl/view/git/260a9b71a3372a466d67886d482478fb3060db4d/Protein_Inference_workflow.cwl#outfile> .

<https://w3id.org/cwl/view/git/260a9b71a3372a466d67886d482478fb3060db4d/Protein_Inference_workflow.cwl#pia_xml/idxml>
        cwl:source  <https://w3id.org/cwl/view/git/260a9b71a3372a466d67886d482478fb3060db4d/Protein_Inference_workflow.cwl#idxml> .

<https://w3id.org/cwl/view/git/260a9b71a3372a466d67886d482478fb3060db4d/Protein_Inference_workflow.cwl#pia_run/paramFile>
        cwl:source  <https://w3id.org/cwl/view/git/260a9b71a3372a466d67886d482478fb3060db4d/Protein_Inference_workflow.cwl#paramFile> .

<https://w3id.org/cwl/view/git/260a9b71a3372a466d67886d482478fb3060db4d/Protein_Inference_workflow.cwl#pia_proteins/bait>
        cwl:source  <https://w3id.org/cwl/view/git/260a9b71a3372a466d67886d482478fb3060db4d/Protein_Inference_workflow.cwl#bait> .

<https://w3id.org/cwl/view/git/260a9b71a3372a466d67886d482478fb3060db4d/Tools/pia_proteins.cwl#bait>
        cwl:inputBinding  [ CommandLineBinding:position
                          3 ] ;
        sld:type          xsd:string .

<https://w3id.org/cwl/view/git/260a9b71a3372a466d67886d482478fb3060db4d/Tools/pia_run.cwl#paramFile>
        cwl:inputBinding  [ CommandLineBinding:position  3 ;
                            CommandLineBinding:prefix    "-paramFile"
                          ] ;
        sld:type          cwl:File .

<https://w3id.org/cwl/view/git/260a9b71a3372a466d67886d482478fb3060db4d/Protein_Inference_workflow.cwl#jar>
        sld:type  cwl:File .

<https://w3id.org/cwl/view/git/260a9b71a3372a466d67886d482478fb3060db4d/Protein_Inference_workflow.cwl#paramFile>
        sld:type  cwl:File .

<https://w3id.org/cwl/view/git/260a9b71a3372a466d67886d482478fb3060db4d/Protein_Inference_workflow.cwl#idxml>
        sld:type  cwl:File .

<https://w3id.org/cwl/view/git/260a9b71a3372a466d67886d482478fb3060db4d/Protein_Inference_workflow.cwl#pia_proteins_R>
        sld:type  cwl:File .

<https://w3id.org/cwl/view/git/260a9b71a3372a466d67886d482478fb3060db4d/Protein_Inference_workflow.cwl#proteins_csv>
        cwl:outputSource  <https://w3id.org/cwl/view/git/260a9b71a3372a466d67886d482478fb3060db4d/Protein_Inference_workflow.cwl#pia_proteins/proteins_csv> ;
        sld:type          cwl:File .

<https://w3id.org/cwl/view/git/260a9b71a3372a466d67886d482478fb3060db4d/Tools/pia_xml.cwl>
        a                        cwl:CommandLineTool ;
        ns1:original_cwlVersion  "v1.0" ;
        cwl:baseCommand          ( "java" ) ;
        cwl:cwlVersion           <https://w3id.org/cwl/view/git/260a9b71a3372a466d67886d482478fb3060db4d/Tools/v1.2> ;
        cwl:hints                [ a                            <https://w3id.org/cwl/view/git/260a9b71a3372a466d67886d482478fb3060db4d/Tools/NetworkAccess> ;
                                   NetworkAccess:networkAccess  true
                                 ] ;
        cwl:hints                [ a       <https://w3id.org/cwl/view/git/260a9b71a3372a466d67886d482478fb3060db4d/Tools/LoadListingRequirement> ;
                                   LoadListingRequirement:loadListing
                                           "deep_listing"
                                 ] ;
        cwl:inputs               <https://w3id.org/cwl/view/git/260a9b71a3372a466d67886d482478fb3060db4d/Tools/pia_xml.cwl#idxml> , <https://w3id.org/cwl/view/git/260a9b71a3372a466d67886d482478fb3060db4d/Tools/pia_xml.cwl#outfile> , <https://w3id.org/cwl/view/git/260a9b71a3372a466d67886d482478fb3060db4d/Tools/pia_xml.cwl#compiler> , <https://w3id.org/cwl/view/git/260a9b71a3372a466d67886d482478fb3060db4d/Tools/pia_xml.cwl#bait> , <https://w3id.org/cwl/view/git/260a9b71a3372a466d67886d482478fb3060db4d/Tools/pia_xml.cwl#name> , <https://w3id.org/cwl/view/git/260a9b71a3372a466d67886d482478fb3060db4d/Tools/pia_xml.cwl#cp> ;
        cwl:outputs              <https://w3id.org/cwl/view/git/260a9b71a3372a466d67886d482478fb3060db4d/Tools/pia_xml.cwl#xml> ;
        cwl:requirements         [ a  cwl:InlineJavascriptRequirement ] .

<https://w3id.org/cwl/view/git/260a9b71a3372a466d67886d482478fb3060db4d/Protein_Inference_workflow.cwl#pia_xml/bait>
        cwl:source  <https://w3id.org/cwl/view/git/260a9b71a3372a466d67886d482478fb3060db4d/Protein_Inference_workflow.cwl#bait> .

<https://w3id.org/cwl/view/git/260a9b71a3372a466d67886d482478fb3060db4d/Tools/mztab_to_csv.cwl>
        a                        cwl:CommandLineTool ;
        ns1:original_cwlVersion  "v1.0" ;
        cwl:baseCommand          ( "python3" ) ;
        cwl:cwlVersion           <https://w3id.org/cwl/view/git/260a9b71a3372a466d67886d482478fb3060db4d/Tools/v1.2> ;
        cwl:hints                [ a                            <https://w3id.org/cwl/view/git/260a9b71a3372a466d67886d482478fb3060db4d/Tools/NetworkAccess> ;
                                   NetworkAccess:networkAccess  true
                                 ] ;
        cwl:hints                [ a       <https://w3id.org/cwl/view/git/260a9b71a3372a466d67886d482478fb3060db4d/Tools/LoadListingRequirement> ;
                                   LoadListingRequirement:loadListing
                                           "deep_listing"
                                 ] ;
        cwl:inputs               <https://w3id.org/cwl/view/git/260a9b71a3372a466d67886d482478fb3060db4d/Tools/mztab_to_csv.cwl#bait> , <https://w3id.org/cwl/view/git/260a9b71a3372a466d67886d482478fb3060db4d/Tools/mztab_to_csv.cwl#mztab_to_csv_py> , <https://w3id.org/cwl/view/git/260a9b71a3372a466d67886d482478fb3060db4d/Tools/mztab_to_csv.cwl#mztab> ;
        cwl:outputs              <https://w3id.org/cwl/view/git/260a9b71a3372a466d67886d482478fb3060db4d/Tools/mztab_to_csv.cwl#csv> ;
        cwl:requirements         [ a  cwl:InlineJavascriptRequirement ] .

<https://w3id.org/cwl/view/git/260a9b71a3372a466d67886d482478fb3060db4d/Protein_Inference_workflow.cwl#pia_proteins/csv>
        cwl:source  <https://w3id.org/cwl/view/git/260a9b71a3372a466d67886d482478fb3060db4d/Protein_Inference_workflow.cwl#mztab_to_csv/csv> .

<https://w3id.org/cwl/view/git/260a9b71a3372a466d67886d482478fb3060db4d/Tools/pia_run.cwl#jar>
        cwl:inputBinding  [ CommandLineBinding:position  1 ;
                            CommandLineBinding:prefix    "-jar"
                          ] ;
        sld:type          cwl:File .

<https://w3id.org/cwl/view/git/260a9b71a3372a466d67886d482478fb3060db4d/Protein_Inference_workflow.cwl#proteinExport>
        sld:type  xsd:string .

<https://w3id.org/cwl/view/git/260a9b71a3372a466d67886d482478fb3060db4d/Tools/mztab_to_csv.cwl#mztab_to_csv_py>
        cwl:inputBinding  [ CommandLineBinding:position
                          1 ] ;
        sld:type          cwl:File .

<https://w3id.org/cwl/view/git/260a9b71a3372a466d67886d482478fb3060db4d/Tools/pia_xml.cwl#xml>
        cwl:outputBinding  [ CommandOutputBinding:glob
                          "$(inputs.bait).xml" ] ;
        sld:type           cwl:File .

<https://w3id.org/cwl/view/git/260a9b71a3372a466d67886d482478fb3060db4d/Protein_Inference_workflow.cwl#name>
        cwl:default  "test" ;
        sld:type     xsd:string .

<https://w3id.org/cwl/view/git/260a9b71a3372a466d67886d482478fb3060db4d/Protein_Inference_workflow.cwl#mztab_to_csv/mztab_to_csv_py>
        cwl:source  <https://w3id.org/cwl/view/git/260a9b71a3372a466d67886d482478fb3060db4d/Protein_Inference_workflow.cwl#mztab_to_csv_py> .

<https://w3id.org/cwl/view/git/260a9b71a3372a466d67886d482478fb3060db4d/Tools/mztab_to_csv.cwl#bait>
        cwl:inputBinding  [ CommandLineBinding:position
                          3 ] ;
        sld:type          xsd:string .

<https://w3id.org/cwl/view/git/260a9b71a3372a466d67886d482478fb3060db4d/Tools/pia_run.cwl#xml>
        cwl:inputBinding  [ CommandLineBinding:position  2 ;
                            CommandLineBinding:prefix    "-infile"
                          ] ;
        sld:type          cwl:File .

<https://w3id.org/cwl/view/git/260a9b71a3372a466d67886d482478fb3060db4d/Tools/pia_xml.cwl#outfile>
        cwl:inputBinding  [ CommandLineBinding:position  5 ;
                            CommandLineBinding:prefix    "-outfile"
                          ] ;
        sld:type          xsd:string .

<https://w3id.org/cwl/view/git/260a9b71a3372a466d67886d482478fb3060db4d/Tools/pia_proteins.cwl#csv>
        cwl:inputBinding  [ CommandLineBinding:position
                          2 ] ;
        sld:type          cwl:File .

<https://w3id.org/cwl/view/git/260a9b71a3372a466d67886d482478fb3060db4d/Protein_Inference_workflow.cwl#cp>
        sld:type  cwl:File .

<https://w3id.org/cwl/view/git/260a9b71a3372a466d67886d482478fb3060db4d/Tools/pia_run.cwl#mztab>
        cwl:outputBinding  [ CommandOutputBinding:glob
                          "$(inputs.bait).mztab" ] ;
        sld:type           cwl:File .

<https://w3id.org/cwl/view/git/260a9b71a3372a466d67886d482478fb3060db4d/Tools/pia_run.cwl#bait>
        cwl:inputBinding  [ CommandLineBinding:position
                          6 ] ;
        sld:type          xsd:string .

<https://w3id.org/cwl/view/git/260a9b71a3372a466d67886d482478fb3060db4d/Protein_Inference_workflow.cwl#pia_xml/compiler>
        cwl:source  <https://w3id.org/cwl/view/git/260a9b71a3372a466d67886d482478fb3060db4d/Protein_Inference_workflow.cwl#compiler> .

<https://w3id.org/cwl/view/git/260a9b71a3372a466d67886d482478fb3060db4d/Tools/mztab_to_csv.cwl#csv>
        cwl:outputBinding  [ CommandOutputBinding:glob
                          "$(inputs.bait).csv" ] ;
        sld:type           cwl:File .

<https://w3id.org/cwl/view/git/260a9b71a3372a466d67886d482478fb3060db4d/Protein_Inference_workflow.cwl#pia_run/jar>
        cwl:source  <https://w3id.org/cwl/view/git/260a9b71a3372a466d67886d482478fb3060db4d/Protein_Inference_workflow.cwl#jar> .

<https://w3id.org/cwl/view/git/260a9b71a3372a466d67886d482478fb3060db4d/Protein_Inference_workflow.cwl#pia_xml>
        cwl:in   <https://w3id.org/cwl/view/git/260a9b71a3372a466d67886d482478fb3060db4d/Protein_Inference_workflow.cwl#pia_xml/compiler> , <https://w3id.org/cwl/view/git/260a9b71a3372a466d67886d482478fb3060db4d/Protein_Inference_workflow.cwl#pia_xml/bait> , <https://w3id.org/cwl/view/git/260a9b71a3372a466d67886d482478fb3060db4d/Protein_Inference_workflow.cwl#pia_xml/idxml> , <https://w3id.org/cwl/view/git/260a9b71a3372a466d67886d482478fb3060db4d/Protein_Inference_workflow.cwl#pia_xml/outfile> , <https://w3id.org/cwl/view/git/260a9b71a3372a466d67886d482478fb3060db4d/Protein_Inference_workflow.cwl#pia_xml/cp> , <https://w3id.org/cwl/view/git/260a9b71a3372a466d67886d482478fb3060db4d/Protein_Inference_workflow.cwl#pia_xml/name> ;
        cwl:out  <https://w3id.org/cwl/view/git/260a9b71a3372a466d67886d482478fb3060db4d/Protein_Inference_workflow.cwl#pia_xml/xml> ;
        cwl:run  <https://w3id.org/cwl/view/git/260a9b71a3372a466d67886d482478fb3060db4d/Tools/pia_xml.cwl> .

<https://w3id.org/cwl/view/git/260a9b71a3372a466d67886d482478fb3060db4d/Tools/pia_xml.cwl#cp>
        cwl:inputBinding  [ CommandLineBinding:position  1 ;
                            CommandLineBinding:prefix    "-cp"
                          ] ;
        sld:type          cwl:File .

<https://w3id.org/cwl/view/git/260a9b71a3372a466d67886d482478fb3060db4d/Protein_Inference_workflow.cwl#mztab_to_csv>
        cwl:in   <https://w3id.org/cwl/view/git/260a9b71a3372a466d67886d482478fb3060db4d/Protein_Inference_workflow.cwl#mztab_to_csv/mztab_to_csv_py> , <https://w3id.org/cwl/view/git/260a9b71a3372a466d67886d482478fb3060db4d/Protein_Inference_workflow.cwl#mztab_to_csv/bait> , <https://w3id.org/cwl/view/git/260a9b71a3372a466d67886d482478fb3060db4d/Protein_Inference_workflow.cwl#mztab_to_csv/mztab> ;
        cwl:out  <https://w3id.org/cwl/view/git/260a9b71a3372a466d67886d482478fb3060db4d/Protein_Inference_workflow.cwl#mztab_to_csv/csv> ;
        cwl:run  <https://w3id.org/cwl/view/git/260a9b71a3372a466d67886d482478fb3060db4d/Tools/mztab_to_csv.cwl> .

<https://w3id.org/cwl/view/git/260a9b71a3372a466d67886d482478fb3060db4d/Protein_Inference_workflow.cwl#pia_proteins/pia_proteins_R>
        cwl:source  <https://w3id.org/cwl/view/git/260a9b71a3372a466d67886d482478fb3060db4d/Protein_Inference_workflow.cwl#pia_proteins_R> .

<https://w3id.org/cwl/view/git/260a9b71a3372a466d67886d482478fb3060db4d/Protein_Inference_workflow.cwl#pia_run/fileType>
        cwl:source  <https://w3id.org/cwl/view/git/260a9b71a3372a466d67886d482478fb3060db4d/Protein_Inference_workflow.cwl#fileType> .

<https://w3id.org/cwl/view/git/260a9b71a3372a466d67886d482478fb3060db4d/Tools/pia_xml.cwl#name>
        cwl:inputBinding  [ CommandLineBinding:position  6 ;
                            CommandLineBinding:prefix    "-name"
                          ] ;
        sld:type          xsd:string .

<https://w3id.org/cwl/view/git/260a9b71a3372a466d67886d482478fb3060db4d/Protein_Inference_workflow.cwl#outfile>
        sld:type  xsd:string .