{
  "@context": [
    "https://w3id.org/ro/crate/1.2/context",
    {
      "@vocab": "http://schema.org/"
    }
  ],
  "@graph": [
    {
      "@id": "https://w3id.org/ro/workflow-crate/",
      "@type": [
        "Dataset",
        "Profile"
      ],
      "name": "Workflow Profile",
      "description": "This is an experimental port of the RO-Crate Workflow Profile to a proposed 'RO-Crate Schema' format.",
      "version": "0.1.0",
      "isProfileOf": [
        {
          "@id": "https://w3id.org/ro/crate/1.2"
        }
      ],
      "author": {
        "@id": "#author"
      },
      "license": "GPL-3.0",
      "hasResource": [
        {
          "@id": "#hasSpecializedSchema"
        },
        {
          "@id": "#hasExampleWorkflow"
        },
        {
          "@id": "#hasSpecification"
        },
        {
          "@id": "#hasGuidance"
        },
        {
          "@id": "#hasEditorMode"
        }
      ],
      "hasPart": [
        {
          "@id": "index.html"
        },
        {
          "@id": "profile-documentation.md"
        }
      ]
    },
    {
      "@id": "#hasSpecification",
      "@type": "ResourceDescriptor",
      "name": "Profile Description",
      "hasRole": {
        "@id": "http://www.w3.org/ns/dx/prof/role/specification"
      },
      "hasArtifact": {
        "@id": "index.html"
      }
    },
    {
      "@id": "#hasGuidance",
      "@type": "ResourceDescriptor",
      "name": "Profile Documentation (Markdown source)",
      "hasRole": {
        "@id": "http://www.w3.org/ns/dx/prof/role/guidance"
      },
      "hasArtifact": {
        "@id": "profile-documentation.md"
      }
    },
    {
      "@id": "index.html",
      "@type": "File",
      "name": "Workflow Profile description",
      "encodingFormat": "text/html",
      "about": {
        "@id": "https://w3id.org/ro/workflow-crate/"
      }
    },
    {
      "@id": "#author",
      "@type": "Organization",
      "name": "University of Queensland"
    },
    {
      "@id": "#hasSpecializedSchema",
      "@type": "ResourceDescriptor",
      "name": "Specialized Schema Terms",
      "hasRole": {
        "@id": "http://www.w3.org/ns/dx/prof/role/schema"
      },
      "hasPart": [
        {
          "@id": "#RO-Crate_Metadata_Descriptor"
        },
        {
          "@id": "#Root_Data_Entity"
        },
        {
          "@id": "#Class_MainWorkflow"
        },
        {
          "@id": "#Class_MainWorkflow_Description"
        },
        {
          "@id": "#class_CreativeWork_README"
        },
        {
          "@id": "#class_Dataset_Test_Directory"
        },
        {
          "@id": "#class_Dataset_Examples_Directory"
        },
        {
          "@id": "#Class_ImageObject_Diagram"
        },
        {
          "@id": "#RO-Crate_Metadata_Descriptor.id"
        },
        {
          "@id": "#RO-Crate_Metadata_Descriptor.about"
        },
        {
          "@id": "#prop_description_Dataset"
        },
        {
          "@id": "#prop_datePublised_Dataset"
        },
        {
          "@id": "#prop_license_Dataset"
        },
        {
          "@id": "#Property_mainEntity_Workflow"
        },
        {
          "@id": "#Property_programmingLanguage_Workflow"
        },
        {
          "@id": "#Property_programmingLanguage_WorkflowDescription"
        },
        {
          "@id": "#prop_conformsTo_Root_Data_Entity"
        },
        {
          "@id": "#Root_Data_Entity_profile_itemList"
        },
        {
          "@id": "#property_CreativeWork_README.id"
        },
        {
          "@id": "#property_CreativeWork_README.encodingFormat"
        },
        {
          "@id": "#property_CreativeWork_README.about"
        },
        {
          "@id": "#property_Dataset_Test_Directory.id"
        },
        {
          "@id": "#property_Dataset_Examples_Directory.id"
        },
        {
          "@id": "#Property_MainWorkflow_subjectOf"
        },
        {
          "@id": "http://schema.org/name"
        },
        {
          "@id": "#Property_MainWorkflow_image"
        },
        {
          "@id": "#programmingLanguages"
        }
      ]
    },
    {
      "@id": "#hasExampleWorkflow",
      "@type": "ResourceDescriptor",
      "name": "Example: Workflow",
      "hasRole": {
        "@id": "http://www.w3.org/ns/dx/prof/role/example"
      },
      "hasArtifact": {
        "@id": "#WorkflowExample"
      }
    },
    {
      "@id": "profile-documentation.md",
      "@type": "File",
      "name": "profile-documentation.md",
      "description": "",
      "dateModified": "2025-11-28T06:15:09+11:00",
      "encodingFormat": [
        {
          "@id": "https://www.nationalarchives.gov.uk/PRONOM/fmt/1149"
        },
        "text/markdown"
      ],
      "about": {
        "@id": "https://w3id.org/ro/workflow-crate/"
      },
      "isPartOf": {
        "@id": "https://w3id.org/ro/workflow-crate/"
      }
    },
    {
      "@id": "#RO-Crate_Metadata_Descriptor",
      "@type": "rdfs:Class",
      "name": "RO-Crate Metadadata Descriptor",
      "prov:specializationOf": {
        "@id": "http://schema.org/CreativeWork"
      },
      "Description": "An RO-Crate @graph must contain an entity of Type @CreativeWork which is known as the RO-Crate Metadata descriptor.",
      "sh:minCount": 1,
      "sh:maxCount": 1
    },
    {
      "@id": "#Root_Data_Entity",
      "@type": "rdfs:Class",
      "prov:specializationOf": {
        "@id": "http://schema.org/Dataset"
      },
      "description": "The Root Data Entity for an RO-Crate. This is the main entity of the RO-Crate and is the one that is referenced by the RO-Crate Metadata Descriptor.",
      "name": "Root Data Entity",
      "sh:minCount": 1,
      "sh:maxCount": 1
    },
    {
      "@id": "#Class_MainWorkflow",
      "@type": "rdfs:Class",
      "prov:specializationOf": [
        {
          "@id": "http://schema.org/MediaObject"
        },
        {
          "@id": "http://schema.org/SoftwareSourceCode"
        },
        {
          "@id": "https://bioschemas.org/ComputationalWorkflow"
        }
      ],
      "description": "The Main Workflow is the primary workflow of the RO-Crate. It represents the computational process that is described by the RO-Crate.",
      "name": "Main Workflow",
      "sh:minCount": 1
    },
    {
      "@id": "#Class_MainWorkflow_Description",
      "@type": "rdfs:Class",
      "prov:specializationOf": [
        {
          "@id": "http://schema.org/MediaObject"
        },
        {
          "@id": "http://schema.org/SoftwareSourceCode"
        },
        {
          "@id": "http://schema.org/HowTo"
        }
      ],
      "description": "The _Crate_ COULD contain a data entity of type `[File, SoftwareSourceCode, HowTo]` as the _Main Workflow CWL Description_.",
      "name": "Main Workflow Description",
      "sh:maxCount": 1
    },
    {
      "@id": "#class_CreativeWork_README",
      "@type": "rdfs:Class",
      "name": "README File",
      "prov:specializationOf": [
        {
          "@id": "http://schema.org/CreativeWork"
        },
        {
          "@id": "http://schema.org/MediaObject"
        }
      ],
      "Description": "The _Crate_ SHOULD contain a File README.md at the root level. If present, it SHOULD have an about property referencing the Root Data Entity and SHOULD have `text/markdown` as its `encodingFormat`.",
      "sh:minCount": 0,
      "sh:maxCount": 1
    },
    {
      "@id": "#class_Dataset_Test_Directory",
      "@type": "rdfs:Class",
      "name": "Test Directory",
      "prov:specializationOf": {
        "@id": "http://schema.org/Dataset"
      },
      "Description": "The Crate SHOULD contain a directory for test files at the root level.",
      "sh:minCount": 0,
      "sh:maxCount": 1
    },
    {
      "@id": "#class_Dataset_Examples_Directory",
      "@type": "rdfs:Class",
      "name": "Examples Directory",
      "prov:specializationOf": {
        "@id": "http://schema.org/Dataset"
      },
      "Description": "The Crate SHOULD contain a directory for example files at the root level.",
      "sh:minCount": 0,
      "sh:maxCount": 1
    },
    {
      "@id": "#Class_ImageObject_Diagram",
      "@type": "rdfs:Class",
      "name": "Main Workflow Diagram",
      "prov:specializationOf": [
        {
          "@id": "http://schema.org/ImageObject"
        },
        {
          "@id": "http://schema.org/MediaObject"
        }
      ],
      "Description": "The _Crate_ COULD contain a _Main Workflow Diagram_, indicated as a data entity of type `[\"File\", \"ImageObject\"]"
    },
    {
      "@id": "#RO-Crate_Metadata_Descriptor.id",
      "@type": "rdf:Property",
      "value": "ro-crate-metadata.json",
      "description": "The RO-Crate Metadata ",
      "rdfs:label": "@id",
      "domainIncludes": {
        "@id": "#RO-Crate_Metadata_Descriptor"
      },
      "sh:minCount": 1,
      "sh:maxCount": 1
    },
    {
      "@id": "#RO-Crate_Metadata_Descriptor.about",
      "@type": "rdf:Property",
      "prov:specializationOf": {
        "@id": "http://schema.org/about"
      },
      "description": "This property on the RO-Crate Metadata Descriptor references the Root Data Entity.",
      "name": "about",
      "domainIncludes": {
        "@id": "#RO-Crate_Metadata_Descriptor"
      },
      "rangeIncludes": {
        "@id": "#Root_Data_Entity"
      },
      "sh:minCount": 1,
      "sh:maxCount": 1
    },
    {
      "@id": "#prop_description_Dataset",
      "@type": "rdf:Property",
      "rdfs:label": "description",
      "name": "description",
      "prov:specializationOf": {
        "@id": "http://schema.org/description"
      },
      "domainIncludes": {
        "@id": "#Root_Data_Entity"
      },
      "rdfs:comment": "(In addition to the name) SHOULD further elaborate on the name to provide a summary of the context in which the dataset is important.",
      "rangeIncludes": {
        "@id": "Text"
      },
      "sh:minCount": 1
    },
    {
      "@id": "#prop_datePublised_Dataset",
      "@type": "rdf:Property",
      "rdfs:label": "datePublished",
      "name": "datePublished",
      "prov:specializationOf": {
        "@id": "http://schema.org/datePubished"
      },
      "domainIncludes": {
        "@id": "#Root_Data_Entity"
      },
      "rdfs:comment": "MUST be a string in ISO 8601 date format and SHOULD be specified to at least the precision of a day, MAY be a timestamp down to the millisecond.",
      "rangeIncludes": {
        "@id": "schema:Date"
      },
      "sh:minCount": 1
    },
    {
      "@id": "#prop_license_Dataset",
      "@type": "rdf:Property",
      "rdfs:label": "license",
      "name": "license",
      "prov:specializationOf": {
        "@id": "http://schema.org/license"
      },
      "domainIncludes": {
        "@id": "#Root_Data_Entity"
      },
      "rdfs:comment": "TODO: Deal with the supplied list of licenses (string values) SHOULD link to a Contextual Entity in the RO-Crate Metadata File with a name and description. MAY have a URI (eg for Creative Commons or Open Source licenses). MAY if necessary be a textual description of how the RO-Crate may be used",
      "rangeIncludes": [
        {
          "@id": "#class_CreativeWork"
        },
        {
          "@id": "schema:URL"
        },
        {
          "@id": "schema:Text"
        }
      ],
      "sh:minCount": 1
    },
    {
      "@id": "#Property_mainEntity_Workflow",
      "@type": "rdf:Property",
      "prov:specializationOf": {
        "@id": "http://schema.org/mainEntity"
      },
      "description": "Links the Root Data Entity to the Main Workflow. The RO-Crate MUST contain exactly one Main Workflow.",
      "name": "mainEntity",
      "rdfs:label": "mainEntity",
      "domainIncludes": {
        "@id": "#Root_Data_Entity"
      },
      "rangeIncludes": {
        "@id": "#Class_MainWorkflow"
      },
      "sh:minCount": 1,
      "sh:maxCount": 1
    },
    {
      "@id": "#Property_programmingLanguage_Workflow",
      "@type": "rdf:Property",
      "prov:specializationOf": {
        "@id": "http://schema.org/programmingLanguage"
      },
      "description": "The programming language used to implement the Main Workflow. This is a string that should be a valid programming language name.",
      "name": "programmingLanguage",
      "rdfs:label": "programmingLanguage",
      "domainIncludes": {
        "@id": "#Class_MainWorkflow"
      },
      "rangeIncludes": {
        "@id": "#programmingLanguages"
      },
      "sh:minCount": 1,
      "sh:maxCount": 1
    },
    {
      "@id": "#Property_programmingLanguage_WorkflowDescription",
      "@type": "rdf:Property",
      "prov:specializationOf": {
        "@id": "http://schema.org/programmingLanguage"
      },
      "description": "The programming language used to implement the Main Workflow. This is a string that should be a valid programming language name.",
      "name": "programmingLanguage",
      "rdfs:label": "programmingLanguage",
      "domainIncludes": {
        "@id": "#Class_MainWorkflow_Description"
      },
      "rangeIncludes": {
        "@id": "#programmingLanguageCWLList"
      },
      "sh:minCount": 1,
      "sh:maxCount": 1
    },
    {
      "@id": "#prop_conformsTo_Root_Data_Entity",
      "@type": "rdf:Property",
      "name": "conformsTo",
      "rdfs:label": "conformsTo",
      "description": "The RO-Crate conforms to this profile. This is a link to to the profile entity",
      "rangeIncludes": {
        "@id": "#Root_Data_Entity_profile_itemList"
      },
      "domainIncludes": {
        "@id": "#Root_Data_Entity"
      },
      "sh:minCount": 1,
      "sh:maxCount": 1
    },
    {
      "@id": "#Root_Data_Entity_profile_itemList",
      "@type": "ItemList",
      "name": "Profile Item List",
      "description": "A list of valid profile values for this RO-Crate Profile",
      "itemListElement": {
        "@id": "https://w3id.org/workflowhub/workflow-ro-crate/1.0"
      }
    },
    {
      "@id": "#property_CreativeWork_README.id",
      "@type": "rdf:Property",
      "value": "README.md",
      "description": "README file must have @id of `README.md`.",
      "rdfs:label": "@id",
      "domainIncludes": {
        "@id": "#class_CreativeWork_README"
      },
      "sh:minCount": 1,
      "sh:maxCount": 1
    },
    {
      "@id": "#property_CreativeWork_README.encodingFormat",
      "@type": "rdf:Property",
      "value": "text/markdown",
      "description": "Readme file must have an encodingFormat of `text/markdown`.",
      "rdfs:label": "encodingFormat",
      "prov:specializationOf": {
        "@id": "http://schema.org/encodingFormat"
      },
      "domainIncludes": {
        "@id": "#class_CreativeWork_README"
      },
      "sh:minCount": 1,
      "sh:maxCount": 1
    },
    {
      "@id": "#property_CreativeWork_README.about",
      "@type": "rdf:Property",
      "prov:specializationOf": {
        "@id": "http://schema.org/about"
      },
      "description": "The README.md file SHOULD have an about property referencing the Root Data Entity.",
      "name": "about",
      "domainIncludes": {
        "@id": "#class_CreativeWork_README"
      },
      "rangeIncludes": {
        "@id": "#Root_Data_Entity"
      },
      "sh:minCount": 1,
      "sh:maxCount": 1
    },
    {
      "@id": "#property_Dataset_Test_Directory.id",
      "@type": "rdf:Property",
      "value": "test/",
      "description": "The RO-Crate Metadata ",
      "rdfs:label": "@id",
      "domainIncludes": {
        "@id": "#class_Dataset_Test_Directory"
      },
      "sh:minCount": 1,
      "sh:maxCount": 1
    },
    {
      "@id": "#property_Dataset_Examples_Directory.id",
      "@type": "rdf:Property",
      "value": "examples/",
      "description": "The RO-Crate Metadata ",
      "rdfs:label": "@id",
      "domainIncludes": {
        "@id": "#class_Dataset_Examples_Directory"
      },
      "sh:minCount": 1,
      "sh:maxCount": 1
    },
    {
      "@id": "#Property_MainWorkflow_subjectOf",
      "@type": "rdf:Property",
      "prov:specializationOf": {
        "@id": "http://schema.org/subjectOf"
      },
      "description": "Main Workflow to a workflow description. The RO-Crate MUST contain exactly one Main Workflow Description.",
      "name": "subjectOf",
      "rdfs:label": "subjectOf",
      "rangeIncludes": {
        "@id": "#Class_MainWorkflow_Description"
      },
      "domainIncludes": {
        "@id": "#Class_MainWorkflow"
      },
      "sh:minCount": 0,
      "sh:maxCount": 1
    },
    {
      "@id": "http://schema.org/name",
      "@type": "rdf:Property",
      "rdfs:label": "name",
      "name": "name",
      "prov:specializationOf": {
        "@id": "http://schema.org/name"
      },
      "domainIncludes": {
        "@id": "#Root_Data_Entity"
      },
      "rdfs:comment": "SHOULD identify the dataset to humans well enough to disambiguate it from other RO-Crates",
      "rangeIncludes": {
        "@id": "Text"
      },
      "sh:minCount": 1
    },
    {
      "@id": "#Property_MainWorkflow_image",
      "@type": "rdf:Property",
      "prov:specializationOf": {
        "@id": "http://schema.org/image"
      },
      "description": "If  _Main Workflow Diagram_ is present, the _Main Workflow_ MUST refer to it via `image`.",
      "name": "image",
      "rdfs:label": "image",
      "rangeIncludes": {
        "@id": "#Class_ImageObject_Diagram"
      },
      "domainIncludes": {
        "@id": "#Class_MainWorkflow"
      },
      "sh:minCount": 0,
      "sh:maxCount": 1
    },
    {
      "@id": "#programmingLanguages",
      "@type": "ItemList",
      "name": "Programming Languages",
      "description": "A list of programming languages that can be used to implement the Main Workflow",
      "itemListElement": [
        {
          "@id": "https://w3id.org/workflowhub/workflow-ro-crate#cwl"
        },
        {
          "@id": "https://w3id.org/workflowhub/workflow-ro-crate#galaxy"
        },
        {
          "@id": "https://w3id.org/workflowhub/workflow-ro-crate#knime"
        },
        {
          "@id": "https://w3id.org/workflowhub/workflow-ro-crate#nextflow"
        },
        {
          "@id": "https://w3id.org/workflowhub/workflow-ro-crate#snakemake"
        }
      ]
    },
    {
      "@id": "#WorkflowExample",
      "@type": "LearningResource",
      "name": "An example workflow RO-Crate",
      "mainEntity": {
        "@id": "./"
      },
      "hasPart": [
        {
          "@id": "./"
        },
        {
          "@id": "https://w3id.org/workflowhub/workflow-ro-crate/1.0"
        },
        {
          "@id": "example_workflow.cwl"
        },
        {
          "@id": "diagram.svg"
        },
        {
          "@id": "README.md"
        }
      ]
    },
    {
      "@id": "https://www.nationalarchives.gov.uk/PRONOM/fmt/1149",
      "@type": "DigitalFormat",
      "name": "Markdown"
    },
    {
      "@id": "./",
      "@type": "Dataset",
      "name": "Example Workflow",
      "conformsTo": {
        "@id": "https://w3id.org/workflowhub/workflow-ro-crate/1.0"
      },
      "description": "An example workflow RO-Crate",
      "license": "Apache-2.0",
      "datePublished": "2025-10-15",
      "mainEntity": {
        "@id": "example_workflow.cwl"
      },
      "hasPart": [
        {
          "@id": "example_workflow.cwl"
        },
        {
          "@id": "diagram.svg"
        },
        {
          "@id": "README.md"
        },
        {
          "@id": "profile-documentation.md"
        }
      ]
    },
    {
      "@id": "https://w3id.org/workflowhub/workflow-ro-crate/1.0",
      "@type": [
        "CreativeWork",
        "Profile"
      ],
      "name": "Workflow RO-Crate Profile (experimental)",
      "version": "0.4.0",
      "description": "This is a profile for RO-Crates that are used to describe workflows -- NOTE have moved the conformsTo to the ROOT Data Entity  as per RO-Crate 1.2"
    },
    {
      "@id": "example_workflow.cwl",
      "@type": [
        "File",
        "SoftwareSourceCode",
        "ComputationalWorkflow"
      ],
      "programmingLanguage": {
        "@id": "https://w3id.org/workflowhub/workflow-ro-crate#cwl"
      },
      "name": "Example Workflow",
      "image": {
        "@id": "diagram.svg"
      }
    },
    {
      "@id": "diagram.svg",
      "name": "Example Workflow Diagram",
      "@type": [
        "File",
        "ImageObject"
      ]
    },
    {
      "@id": "README.md",
      "@type": "File",
      "about": "./",
      "encodingFormat": "text/markdown"
    },
    {
      "@id": "https://w3id.org/workflowhub/workflow-ro-crate#cwl",
      "@type": "ComputerLanguage",
      "name": "Common Workflow Language",
      "alternateName": "CWL",
      "identifier": {
        "@id": "https://w3id.org/cwl/v1.2/"
      },
      "url": {
        "@id": "https://www.commonwl.org/"
      }
    },
    {
      "@id": "https://w3id.org/workflowhub/workflow-ro-crate#galaxy",
      "@type": "ComputerLanguage",
      "name": "Galaxy",
      "identifier": {
        "@id": "https://galaxyproject.org/"
      },
      "url": {
        "@id": "https://galaxyproject.org/"
      }
    },
    {
      "@id": "https://w3id.org/workflowhub/workflow-ro-crate#knime",
      "@type": "ComputerLanguage",
      "name": "KNIME",
      "identifier": {
        "@id": "https://www.knime.com/"
      },
      "url": {
        "@id": "https://www.knime.com/"
      }
    },
    {
      "@id": "https://w3id.org/workflowhub/workflow-ro-crate#nextflow",
      "@type": "ComputerLanguage",
      "name": "Nextflow",
      "identifier": {
        "@id": "https://www.nextflow.io/"
      },
      "url": {
        "@id": "https://www.nextflow.io/"
      }
    },
    {
      "@id": "https://w3id.org/workflowhub/workflow-ro-crate#snakemake",
      "@type": "ComputerLanguage",
      "name": "Snakemake",
      "identifier": {
        "@id": "https://doi.org/10.1093/bioinformatics/bts480"
      },
      "url": {
        "@id": "https://snakemake.readthedocs.io"
      }
    },
    {
      "@id": "#programmingLanguageCWLList",
      "@type": "ItemList",
      "name": "Common Workflow Language",
      "description": "A list containing only the Common Workflow Language (CWL) as a programming language for the WWorkflow Description.",
      "itemListElement": {
        "@id": "https://w3id.org/workflowhub/workflow-ro-crate#cwl"
      }
    },
    {
      "@id": "ro-crate-metadata.json",
      "@type": "CreativeWork",
      "identifier": "ro-crate-metadata.json",
      "conformsTo": {
        "@id": "https://w3id.org/ro/crate/1.2"
      },
      "about": {
        "@id": "https://w3id.org/ro/workflow-crate/"
      }
    },
    {
      "@id": "crate-o-mode.json",
      "@type": "File",
      "name": "Crate-O Editor Mode File",
      "encodingFormat": "application/json",
      "description": "Mini Crate-O mode file for this profile (metadata, input groups, lookup and enabled classes — the schema/grammar is provided by the MASP profile crate itself)."
    },
    {
      "@id": "#hasEditorMode",
      "@type": "ResourceDescriptor",
      "name": "Crate-O Editor Mode",
      "hasRole": {
        "@id": "https://purl.org/ro/mode"
      },
      "hasArtifact": {
        "@id": "crate-o-mode.json"
      }
    },
    {
      "@id": "https://purl.org/ro/mode",
      "@type": "DefinedTerm",
      "name": "Editor Mode",
      "description": "Role indicating a resource is an editor configuration mode file."
    }
  ]
}