name: Benchmark
-description: A multi-step workflow to evaluate processing steps for a specific task.
+description: A multi-stage workflow to evaluate processing stage for a specific task.
from_schema: https://w3id.org/omnibenchmark/omni-schema
is_a: IdentifiableEntity
slots:
- version
-- platform
+- benchmarker
- storage
-- orchestrator
-- validator
-- steps
+- storage_api
+- software_environments
+- benchmark_yaml_spec
+- stages
tree_root: true
@@ -352,7 +361,7 @@
Direct
Induced
name: Benchmark
-description: A multi-step workflow to evaluate processing steps for a specific task.
+description: A multi-stage workflow to evaluate processing stage for a specific task.
from_schema: https://w3id.org/omnibenchmark/omni-schema
is_a: IdentifiableEntity
attributes:
@@ -367,12 +376,12 @@
Induced
- Benchmark
range: string
required: true
- platform:
- name: platform
- description: The place hosting all benchmark components
+ benchmarker:
+ name: benchmarker
+ description: The name and contact details of the person responsible for this benchmark.
from_schema: https://w3id.org/omnibenchmark/omni-schema
rank: 1000
- alias: platform
+ alias: benchmarker
owner: Benchmark
domain_of:
- Benchmark
@@ -389,38 +398,51 @@
name: Module
-description: A single benchmark component assigned to a specific step.
+description: A single benchmark component assigned to a specific stage.
from_schema: https://w3id.org/omnibenchmark/omni-schema
is_a: IdentifiableEntity
slots:
-- repo
+- software_environment
+- repository
- exclude
- parameters
@@ -352,20 +365,31 @@
Direct
Induced
name: Module
-description: A single benchmark component assigned to a specific step.
+description: A single benchmark component assigned to a specific stage.
from_schema: https://w3id.org/omnibenchmark/omni-schema
is_a: IdentifiableEntity
attributes:
- repo:
- name: repo
+ software_environment:
+ name: software_environment
+ description: Reference to a software environment by key.
+ from_schema: https://w3id.org/omnibenchmark/omni-schema
+ rank: 1000
+ alias: software_environment
+ owner: Module
+ domain_of:
+ - Module
+ range: SoftwareEnvironment
+ required: true
+ repository:
+ name: repository
description: The code repository hosting the module.
from_schema: https://w3id.org/omnibenchmark/omni-schema
rank: 1000
- alias: repo
+ alias: repository
owner: Module
domain_of:
- Module
- range: string
+ range: Repository
required: true
exclude:
name: exclude
@@ -411,10 +435,7 @@
Induced
owner: Module
domain_of:
- IdentifiableEntity
- - Orchestrator
- - Validator
range: string
- required: true
description:
name: description
description: A human-readable description for a thing
diff --git a/Orchestrator/index.html b/Repository/index.html
similarity index 89%
rename from Orchestrator/index.html
rename to Repository/index.html
index a33531a..c5aca18 100644
--- a/Orchestrator/index.html
+++ b/Repository/index.html
@@ -5,10 +5,10 @@
-
+
-Class: Orchestrator - omni-schema
+Class: Repository - omni-schema
@@ -21,7 +21,7 @@
diff --git a/search/search_index.json b/search/search_index.json
index d85b4b8..43d7b96 100644
--- a/search/search_index.json
+++ b/search/search_index.json
@@ -1 +1 @@
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IdentifiableEntity range: string class_uri: schema:Thing","title":"Class: IdentifiableEntity"},{"location":"IdentifiableEntity/#class-identifiableentity","text":"A generic grouping for any identifiable entity NOTE : this is an abstract class and should not be instantiated directly URI: schema:Thing classDiagram class IdentifiableEntity IdentifiableEntity <|-- Benchmark IdentifiableEntity <|-- Step IdentifiableEntity <|-- Module IdentifiableEntity <|-- IOFile IdentifiableEntity : description IdentifiableEntity : id IdentifiableEntity : name","title":"Class: IdentifiableEntity"},{"location":"IdentifiableEntity/#inheritance","text":"IdentifiableEntity Benchmark Step Module IOFile","title":"Inheritance"},{"location":"IdentifiableEntity/#slots","text":"Name Cardinality and Range Description Inheritance id 1..1 Uriorcurie A unique identifier for a thing direct name 1..1 String A human-readable name for a thing direct description 0..1 String A human-readable description for a thing direct","title":"Slots"},{"location":"IdentifiableEntity/#identifier-and-mapping-information","text":"","title":"Identifier and Mapping Information"},{"location":"IdentifiableEntity/#schema-source","text":"from schema: https://w3id.org/omnibenchmark/omni-schema","title":"Schema Source"},{"location":"IdentifiableEntity/#mappings","text":"Mapping Type Mapped Value self schema:Thing native omni_schema:IdentifiableEntity","title":"Mappings"},{"location":"IdentifiableEntity/#linkml-source","text":"","title":"LinkML Source"},{"location":"IdentifiableEntity/#direct","text":"name: IdentifiableEntity description: A generic grouping for any identifiable entity from_schema: https://w3id.org/omnibenchmark/omni-schema abstract: true slots: - id - name - description class_uri: schema:Thing","title":"Direct"},{"location":"IdentifiableEntity/#induced","text":"name: IdentifiableEntity description: A generic grouping for any identifiable entity from_schema: https://w3id.org/omnibenchmark/omni-schema abstract: true attributes: id: name: id description: A unique identifier for a thing from_schema: https://w3id.org/omnibenchmark/omni-schema rank: 1000 slot_uri: schema:identifier identifier: true alias: id owner: IdentifiableEntity domain_of: - IdentifiableEntity range: uriorcurie required: true name: name: name description: A human-readable name for a thing from_schema: https://w3id.org/omnibenchmark/omni-schema rank: 1000 slot_uri: schema:name alias: name owner: IdentifiableEntity domain_of: - IdentifiableEntity - Orchestrator - Validator range: string required: true description: name: description description: A human-readable description for a thing from_schema: https://w3id.org/omnibenchmark/omni-schema rank: 1000 slot_uri: schema:description alias: description owner: IdentifiableEntity domain_of: - IdentifiableEntity range: string class_uri: schema:Thing","title":"Induced"},{"location":"InputCollection/","text":"Class: InputCollection A holder for valid input combinations. URI: omni_schema:InputCollection classDiagram class InputCollection InputCollection : entries InputCollection --> IOFile : entries Slots Name Cardinality and Range Description Inheritance entries 0..* IOFile direct Usages used by used in type used Step inputs range InputCollection Identifier and Mapping Information Schema Source from schema: https://w3id.org/omnibenchmark/omni-schema Mappings Mapping Type Mapped Value self omni_schema:InputCollection native omni_schema:InputCollection LinkML Source Direct name: InputCollection description: A holder for valid input combinations. from_schema: https://w3id.org/omnibenchmark/omni-schema slots: - entries Induced name: InputCollection description: A holder for valid input combinations. from_schema: https://w3id.org/omnibenchmark/omni-schema attributes: entries: name: entries from_schema: https://w3id.org/omnibenchmark/omni-schema rank: 1000 multivalued: true alias: entries owner: InputCollection domain_of: - InputCollection range: IOFile","title":"Class: InputCollection"},{"location":"InputCollection/#class-inputcollection","text":"A holder for valid input combinations. 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URI: omni_schema:Module classDiagram class Module IdentifiableEntity <|-- Module Module : description Module : exclude Module --> Module : exclude Module : id Module : name Module : parameters Module --> Parameter : parameters Module : repo Inheritance IdentifiableEntity Module Slots Name Cardinality and Range Description Inheritance repo 1..1 String The code repository hosting the module direct exclude 0..* Module Ignore these module's outputs as input direct parameters 0..* Parameter direct id 1..1 Uriorcurie A unique identifier for a thing IdentifiableEntity name 1..1 String A human-readable name for a thing IdentifiableEntity description 0..1 String A human-readable description for a thing IdentifiableEntity Usages used by used in type used Step members range Module Module exclude range Module Identifier and Mapping Information Schema Source from schema: https://w3id.org/omnibenchmark/omni-schema Mappings Mapping Type Mapped Value self omni_schema:Module native omni_schema:Module LinkML Source Direct name: Module description: A single benchmark component assigned to a specific step. from_schema: https://w3id.org/omnibenchmark/omni-schema is_a: IdentifiableEntity slots: - repo - exclude - parameters Induced name: Module description: A single benchmark component assigned to a specific step. from_schema: https://w3id.org/omnibenchmark/omni-schema is_a: IdentifiableEntity attributes: repo: name: repo description: The code repository hosting the module. from_schema: https://w3id.org/omnibenchmark/omni-schema rank: 1000 alias: repo owner: Module domain_of: - Module range: string required: true exclude: name: exclude description: Ignore these module's outputs as input. from_schema: https://w3id.org/omnibenchmark/omni-schema rank: 1000 multivalued: true alias: exclude owner: Module domain_of: - Module range: Module parameters: name: parameters from_schema: https://w3id.org/omnibenchmark/omni-schema rank: 1000 multivalued: true alias: parameters owner: Module domain_of: - Module range: Parameter id: name: id description: A unique identifier for a thing from_schema: https://w3id.org/omnibenchmark/omni-schema rank: 1000 slot_uri: schema:identifier identifier: true alias: id owner: Module domain_of: - IdentifiableEntity range: uriorcurie required: true name: name: name description: A human-readable name for a thing from_schema: https://w3id.org/omnibenchmark/omni-schema rank: 1000 slot_uri: schema:name alias: name owner: Module domain_of: - IdentifiableEntity - Orchestrator - Validator range: string required: true description: name: description description: A human-readable description for a thing from_schema: https://w3id.org/omnibenchmark/omni-schema rank: 1000 slot_uri: schema:description alias: description owner: Module domain_of: - IdentifiableEntity range: string","title":"Class: Module"},{"location":"Module/#class-module","text":"A single benchmark component assigned to a specific step. 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processing stage for a specific task. from_schema: https://w3id.org/omnibenchmark/omni-schema is_a: IdentifiableEntity slots: - version - benchmarker - storage - storage_api - software_environments - benchmark_yaml_spec - stages tree_root: true","title":"Direct"},{"location":"Benchmark/#induced","text":"name: Benchmark description: A multi-stage workflow to evaluate processing stage for a specific task. from_schema: https://w3id.org/omnibenchmark/omni-schema is_a: IdentifiableEntity attributes: version: name: version description: The version of the benchmark. from_schema: https://w3id.org/omnibenchmark/omni-schema rank: 1000 alias: version owner: Benchmark domain_of: - Benchmark range: string required: true benchmarker: name: benchmarker description: The name and contact details of the person responsible for this benchmark. from_schema: https://w3id.org/omnibenchmark/omni-schema rank: 1000 alias: benchmarker owner: Benchmark domain_of: - Benchmark range: string required: true storage: name: storage description: The place hosting all benchmark data. from_schema: https://w3id.org/omnibenchmark/omni-schema rank: 1000 alias: storage owner: Benchmark domain_of: - Benchmark range: string required: true storage_api: name: storage_api description: The type of the storage API (i.e. S3) from_schema: https://w3id.org/omnibenchmark/omni-schema rank: 1000 alias: storage_api owner: Benchmark domain_of: - Benchmark range: StorageAPIEnum required: true software_environments: name: software_environments description: Dictionary of software environments keyed by their identifiers from_schema: https://w3id.org/omnibenchmark/omni-schema rank: 1000 multivalued: true alias: software_environments owner: Benchmark domain_of: - Benchmark range: SoftwareEnvironment required: true inlined: true inlined_as_list: true benchmark_yaml_spec: name: benchmark_yaml_spec description: Benchmark Specification version. from_schema: https://w3id.org/omnibenchmark/omni-schema rank: 1000 alias: 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https://w3id.org/omnibenchmark/omni-schema","title":"Type: Double"},{"location":"Double/#type-double","text":"A real number that conforms to the xsd:double specification URI: xsd:double base : float uri : xsd:double","title":"Type: Double"},{"location":"Double/#identifier-and-mapping-information","text":"","title":"Identifier and Mapping Information"},{"location":"Double/#schema-source","text":"from schema: https://w3id.org/omnibenchmark/omni-schema","title":"Schema Source"},{"location":"Float/","text":"Type: Float A real number that conforms to the xsd:float specification URI: xsd:float base : float uri : xsd:float Identifier and Mapping Information Schema Source from schema: https://w3id.org/omnibenchmark/omni-schema","title":"Type: Float"},{"location":"Float/#type-float","text":"A real number that conforms to the xsd:float specification URI: xsd:float base : float uri : xsd:float","title":"Type: Float"},{"location":"Float/#identifier-and-mapping-information","text":"","title":"Identifier and Mapping Information"},{"location":"Float/#schema-source","text":"from schema: https://w3id.org/omnibenchmark/omni-schema","title":"Schema Source"},{"location":"IOFile/","text":"Class: IOFile Represents an input / output file. URI: omni_schema:IOFile classDiagram class IOFile IdentifiableEntity <|-- IOFile IOFile : description IOFile : id IOFile : name IOFile : path Inheritance IdentifiableEntity IOFile Slots Name Cardinality and Range Description Inheritance path 0..1 String The output path pattern for the IO file direct id 1..1 Uriorcurie A unique identifier for a thing IdentifiableEntity name 0..1 String A human-readable name for a thing IdentifiableEntity description 0..1 String A human-readable description for a thing IdentifiableEntity Usages used by used in type used Stage outputs range IOFile InputCollection entries range IOFile Identifier and Mapping Information Schema Source from schema: https://w3id.org/omnibenchmark/omni-schema Mappings Mapping Type Mapped Value self omni_schema:IOFile native omni_schema:IOFile LinkML Source Direct name: IOFile description: Represents an input / output file. from_schema: https://w3id.org/omnibenchmark/omni-schema is_a: IdentifiableEntity slots: - path Induced name: IOFile description: Represents an input / output file. from_schema: https://w3id.org/omnibenchmark/omni-schema is_a: IdentifiableEntity attributes: path: name: path description: The output path pattern for the IO file. from_schema: https://w3id.org/omnibenchmark/omni-schema rank: 1000 alias: path owner: IOFile domain_of: - IOFile range: string id: name: id description: A unique identifier for a thing from_schema: https://w3id.org/omnibenchmark/omni-schema rank: 1000 slot_uri: schema:identifier identifier: true alias: id owner: IOFile domain_of: - IdentifiableEntity range: uriorcurie required: true name: name: name description: A human-readable name for a thing from_schema: https://w3id.org/omnibenchmark/omni-schema rank: 1000 slot_uri: schema:name alias: name owner: IOFile domain_of: - IdentifiableEntity range: string description: name: description description: A human-readable description for a thing from_schema: https://w3id.org/omnibenchmark/omni-schema rank: 1000 slot_uri: schema:description alias: description owner: IOFile domain_of: - IdentifiableEntity range: string","title":"Class: IOFile"},{"location":"IOFile/#class-iofile","text":"Represents an input / output file. 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IdentifiableEntity range: string","title":"Induced"},{"location":"IdentifiableEntity/","text":"Class: IdentifiableEntity A generic grouping for any identifiable entity NOTE : this is an abstract class and should not be instantiated directly URI: schema:Thing classDiagram class IdentifiableEntity IdentifiableEntity <|-- Benchmark IdentifiableEntity <|-- Stage IdentifiableEntity <|-- Module IdentifiableEntity <|-- IOFile IdentifiableEntity <|-- SoftwareEnvironment IdentifiableEntity : description IdentifiableEntity : id IdentifiableEntity : name Inheritance IdentifiableEntity Benchmark Stage Module IOFile SoftwareEnvironment Slots Name Cardinality and Range Description Inheritance id 1..1 Uriorcurie A unique identifier for a thing direct name 0..1 String A human-readable name for a thing direct description 0..1 String A human-readable description for a thing direct Identifier and Mapping Information Schema Source from schema: https://w3id.org/omnibenchmark/omni-schema Mappings Mapping Type Mapped Value self schema:Thing native omni_schema:IdentifiableEntity LinkML Source Direct name: IdentifiableEntity description: A generic grouping for any identifiable entity from_schema: https://w3id.org/omnibenchmark/omni-schema abstract: true slots: - 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IdentifiableEntity range: string class_uri: schema:Thing","title":"Induced"},{"location":"InputCollection/","text":"Class: InputCollection A holder for valid input combinations. URI: omni_schema:InputCollection classDiagram class InputCollection InputCollection : entries InputCollection --> IOFile : entries Slots Name Cardinality and Range Description Inheritance entries 0..* IOFile direct Usages used by used in type used Stage inputs range InputCollection Identifier and Mapping Information Schema Source from schema: https://w3id.org/omnibenchmark/omni-schema Mappings Mapping Type Mapped Value self omni_schema:InputCollection native omni_schema:InputCollection LinkML Source Direct name: InputCollection description: A holder for valid input combinations. from_schema: https://w3id.org/omnibenchmark/omni-schema slots: - entries Induced name: InputCollection description: A holder for valid input combinations. from_schema: https://w3id.org/omnibenchmark/omni-schema attributes: entries: name: entries from_schema: https://w3id.org/omnibenchmark/omni-schema rank: 1000 multivalued: true alias: entries owner: InputCollection domain_of: - InputCollection range: IOFile","title":"Class: InputCollection"},{"location":"InputCollection/#class-inputcollection","text":"A holder for valid input combinations. URI: omni_schema:InputCollection classDiagram class InputCollection InputCollection : entries InputCollection --> IOFile : entries","title":"Class: InputCollection"},{"location":"InputCollection/#slots","text":"Name Cardinality and Range Description Inheritance entries 0..* IOFile direct","title":"Slots"},{"location":"InputCollection/#usages","text":"used by used in type used Stage inputs range InputCollection","title":"Usages"},{"location":"InputCollection/#identifier-and-mapping-information","text":"","title":"Identifier and Mapping Information"},{"location":"InputCollection/#schema-source","text":"from schema: https://w3id.org/omnibenchmark/omni-schema","title":"Schema Source"},{"location":"InputCollection/#mappings","text":"Mapping Type Mapped Value self omni_schema:InputCollection native omni_schema:InputCollection","title":"Mappings"},{"location":"InputCollection/#linkml-source","text":"","title":"LinkML Source"},{"location":"InputCollection/#direct","text":"name: InputCollection description: A holder for valid input combinations. from_schema: https://w3id.org/omnibenchmark/omni-schema slots: - entries","title":"Direct"},{"location":"InputCollection/#induced","text":"name: InputCollection description: A holder for valid input combinations. from_schema: https://w3id.org/omnibenchmark/omni-schema attributes: entries: name: entries from_schema: https://w3id.org/omnibenchmark/omni-schema rank: 1000 multivalued: true alias: entries owner: InputCollection domain_of: - InputCollection range: IOFile","title":"Induced"},{"location":"Integer/","text":"Type: Integer An integer URI: xsd:integer base : int uri : xsd:integer Identifier and Mapping Information Schema Source from schema: https://w3id.org/omnibenchmark/omni-schema","title":"Type: Integer"},{"location":"Integer/#type-integer","text":"An integer URI: xsd:integer base : int uri : xsd:integer","title":"Type: Integer"},{"location":"Integer/#identifier-and-mapping-information","text":"","title":"Identifier and Mapping Information"},{"location":"Integer/#schema-source","text":"from schema: https://w3id.org/omnibenchmark/omni-schema","title":"Schema Source"},{"location":"Jsonpath/","text":"Type: Jsonpath A string encoding a JSON Path. 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URI: xsd:string base : str uri : xsd:string repr : str","title":"Type: Jsonpath"},{"location":"Jsonpath/#identifier-and-mapping-information","text":"","title":"Identifier and Mapping Information"},{"location":"Jsonpath/#schema-source","text":"from schema: https://w3id.org/omnibenchmark/omni-schema","title":"Schema Source"},{"location":"Jsonpointer/","text":"Type: Jsonpointer A string encoding a JSON Pointer. The value of the string MUST conform to JSON Point syntax and SHOULD dereference to a valid object within the current instance document when encoded in tree form. URI: xsd:string base : str uri : xsd:string repr : str Identifier and Mapping Information Schema Source from schema: https://w3id.org/omnibenchmark/omni-schema","title":"Type: Jsonpointer"},{"location":"Jsonpointer/#type-jsonpointer","text":"A string encoding a JSON Pointer. The value of the string MUST conform to JSON Point syntax and SHOULD dereference to a valid object within the current instance document when encoded in tree form. URI: xsd:string base : str uri : xsd:string repr : str","title":"Type: Jsonpointer"},{"location":"Jsonpointer/#identifier-and-mapping-information","text":"","title":"Identifier and Mapping Information"},{"location":"Jsonpointer/#schema-source","text":"from schema: https://w3id.org/omnibenchmark/omni-schema","title":"Schema Source"},{"location":"Module/","text":"Class: Module A single benchmark component assigned to a specific stage. URI: omni_schema:Module classDiagram class Module IdentifiableEntity <|-- Module Module : description Module : exclude Module --> Module : exclude Module : id Module : name Module : parameters Module --> Parameter : parameters Module : repository Module --> Repository : repository Module : software_environment Module --> SoftwareEnvironment : software_environment Inheritance IdentifiableEntity Module Slots Name Cardinality and Range Description Inheritance software_environment 1..1 SoftwareEnvironment Reference to a software environment by key direct repository 1..1 Repository The code repository hosting the module direct exclude 0..* Module Ignore these module's outputs as input direct parameters 0..* Parameter direct id 1..1 Uriorcurie A unique identifier for a thing IdentifiableEntity name 0..1 String A human-readable name for a thing IdentifiableEntity description 0..1 String A human-readable description for a thing IdentifiableEntity Usages used by used in type used Stage modules range Module Module exclude range Module Identifier and Mapping Information Schema Source from schema: https://w3id.org/omnibenchmark/omni-schema Mappings Mapping Type Mapped Value self omni_schema:Module native omni_schema:Module LinkML Source Direct name: Module description: A single benchmark component assigned to a specific stage. from_schema: https://w3id.org/omnibenchmark/omni-schema is_a: IdentifiableEntity slots: - software_environment - repository - exclude - parameters Induced name: Module description: A single benchmark component assigned to a specific stage. from_schema: https://w3id.org/omnibenchmark/omni-schema is_a: IdentifiableEntity attributes: software_environment: name: software_environment description: Reference to a software environment by key. from_schema: https://w3id.org/omnibenchmark/omni-schema rank: 1000 alias: software_environment owner: Module domain_of: - Module range: SoftwareEnvironment required: true repository: name: repository description: The code repository hosting the module. from_schema: https://w3id.org/omnibenchmark/omni-schema rank: 1000 alias: repository owner: Module domain_of: - Module range: Repository required: true exclude: name: exclude description: Ignore these module's outputs as input. from_schema: https://w3id.org/omnibenchmark/omni-schema rank: 1000 multivalued: true alias: exclude owner: Module domain_of: - Module range: Module parameters: name: parameters from_schema: https://w3id.org/omnibenchmark/omni-schema rank: 1000 multivalued: true alias: parameters owner: Module domain_of: - Module range: Parameter id: name: id description: A unique identifier for a thing from_schema: https://w3id.org/omnibenchmark/omni-schema rank: 1000 slot_uri: schema:identifier identifier: true alias: id owner: Module domain_of: - IdentifiableEntity range: uriorcurie required: true name: name: name description: A human-readable name for a thing from_schema: https://w3id.org/omnibenchmark/omni-schema rank: 1000 slot_uri: schema:name alias: name owner: Module domain_of: - IdentifiableEntity range: string description: name: description description: A human-readable description for a thing from_schema: https://w3id.org/omnibenchmark/omni-schema rank: 1000 slot_uri: schema:description alias: description owner: Module domain_of: - IdentifiableEntity range: string","title":"Class: Module"},{"location":"Module/#class-module","text":"A single benchmark component assigned to a specific stage. URI: omni_schema:Module classDiagram class Module IdentifiableEntity <|-- Module Module : description Module : exclude Module --> Module : exclude Module : id Module : name Module : parameters Module --> Parameter : parameters Module : repository Module --> Repository : repository Module : software_environment Module --> SoftwareEnvironment : software_environment","title":"Class: Module"},{"location":"Module/#inheritance","text":"IdentifiableEntity Module","title":"Inheritance"},{"location":"Module/#slots","text":"Name Cardinality and Range Description Inheritance software_environment 1..1 SoftwareEnvironment Reference to a software environment by key direct repository 1..1 Repository The code repository hosting the module direct exclude 0..* Module Ignore these module's outputs as input direct parameters 0..* Parameter direct id 1..1 Uriorcurie A unique identifier for a thing IdentifiableEntity name 0..1 String A human-readable name for a thing IdentifiableEntity description 0..1 String A human-readable description for a thing IdentifiableEntity","title":"Slots"},{"location":"Module/#usages","text":"used by used in type used Stage modules range Module Module exclude range Module","title":"Usages"},{"location":"Module/#identifier-and-mapping-information","text":"","title":"Identifier and Mapping Information"},{"location":"Module/#schema-source","text":"from schema: https://w3id.org/omnibenchmark/omni-schema","title":"Schema Source"},{"location":"Module/#mappings","text":"Mapping Type Mapped Value self omni_schema:Module native omni_schema:Module","title":"Mappings"},{"location":"Module/#linkml-source","text":"","title":"LinkML Source"},{"location":"Module/#direct","text":"name: Module description: A single benchmark component assigned to a specific stage. from_schema: https://w3id.org/omnibenchmark/omni-schema is_a: IdentifiableEntity slots: - software_environment - repository - exclude - parameters","title":"Direct"},{"location":"Module/#induced","text":"name: Module description: A single benchmark component assigned to a specific stage. from_schema: https://w3id.org/omnibenchmark/omni-schema is_a: IdentifiableEntity attributes: software_environment: name: software_environment description: Reference to a software environment by key. from_schema: https://w3id.org/omnibenchmark/omni-schema rank: 1000 alias: software_environment owner: Module domain_of: - Module range: SoftwareEnvironment required: true repository: name: repository description: The code repository hosting the module. from_schema: https://w3id.org/omnibenchmark/omni-schema rank: 1000 alias: repository owner: Module domain_of: - Module range: Repository required: true exclude: name: exclude description: Ignore these module's outputs as input. from_schema: https://w3id.org/omnibenchmark/omni-schema rank: 1000 multivalued: true alias: exclude owner: Module domain_of: - Module range: Module parameters: name: parameters from_schema: https://w3id.org/omnibenchmark/omni-schema rank: 1000 multivalued: true alias: parameters owner: Module domain_of: - Module range: Parameter id: name: id description: A unique identifier for a thing from_schema: https://w3id.org/omnibenchmark/omni-schema rank: 1000 slot_uri: schema:identifier identifier: true alias: id owner: Module domain_of: - IdentifiableEntity range: uriorcurie required: true name: name: name description: A human-readable name for a thing from_schema: https://w3id.org/omnibenchmark/omni-schema rank: 1000 slot_uri: schema:name alias: name owner: Module domain_of: - IdentifiableEntity range: string description: name: description description: A human-readable description for a thing from_schema: https://w3id.org/omnibenchmark/omni-schema rank: 1000 slot_uri: schema:description alias: description owner: Module domain_of: - IdentifiableEntity range: string","title":"Induced"},{"location":"Ncname/","text":"Type: Ncname Prefix part of CURIE URI: xsd:string base : NCName uri : xsd:string repr : str Identifier and Mapping Information Schema Source from schema: https://w3id.org/omnibenchmark/omni-schema","title":"Type: Ncname"},{"location":"Ncname/#type-ncname","text":"Prefix part of CURIE URI: xsd:string base : NCName uri : xsd:string repr : str","title":"Type: Ncname"},{"location":"Ncname/#identifier-and-mapping-information","text":"","title":"Identifier and Mapping Information"},{"location":"Ncname/#schema-source","text":"from schema: https://w3id.org/omnibenchmark/omni-schema","title":"Schema Source"},{"location":"Nodeidentifier/","text":"Type: Nodeidentifier A URI, CURIE or BNODE that represents a node in a model. URI: shex:nonLiteral base : NodeIdentifier uri : shex:nonLiteral repr : str Identifier and Mapping Information Schema Source from schema: https://w3id.org/omnibenchmark/omni-schema","title":"Type: Nodeidentifier"},{"location":"Nodeidentifier/#type-nodeidentifier","text":"A URI, CURIE or BNODE that represents a node in a model. URI: shex:nonLiteral base : NodeIdentifier uri : shex:nonLiteral repr : str","title":"Type: Nodeidentifier"},{"location":"Nodeidentifier/#identifier-and-mapping-information","text":"","title":"Identifier and Mapping Information"},{"location":"Nodeidentifier/#schema-source","text":"from schema: https://w3id.org/omnibenchmark/omni-schema","title":"Schema Source"},{"location":"Objectidentifier/","text":"Type: Objectidentifier A URI or CURIE that represents an object in the model. URI: shex:iri base : ElementIdentifier uri : shex:iri repr : str Comments Used for inheritance and type checking Identifier and Mapping Information Schema Source from schema: https://w3id.org/omnibenchmark/omni-schema","title":"Type: Objectidentifier"},{"location":"Objectidentifier/#type-objectidentifier","text":"A URI or CURIE that represents an object in the model. URI: shex:iri base : ElementIdentifier uri : shex:iri repr : str","title":"Type: Objectidentifier"},{"location":"Objectidentifier/#comments","text":"Used for inheritance and type checking","title":"Comments"},{"location":"Objectidentifier/#identifier-and-mapping-information","text":"","title":"Identifier and Mapping Information"},{"location":"Objectidentifier/#schema-source","text":"from schema: https://w3id.org/omnibenchmark/omni-schema","title":"Schema Source"},{"location":"Parameter/","text":"Class: Parameter A parameter and its scope. URI: omni_schema:Parameter classDiagram class Parameter Parameter : values Slots Name Cardinality and Range Description Inheritance values 0..* String direct Usages used by used in type used Module parameters range Parameter Identifier and Mapping Information Schema Source from schema: https://w3id.org/omnibenchmark/omni-schema Mappings Mapping Type Mapped Value self omni_schema:Parameter native omni_schema:Parameter LinkML Source Direct name: Parameter description: A parameter and its scope. from_schema: https://w3id.org/omnibenchmark/omni-schema slots: - values Induced name: Parameter description: A parameter and its scope. from_schema: https://w3id.org/omnibenchmark/omni-schema attributes: values: name: values from_schema: https://w3id.org/omnibenchmark/omni-schema rank: 1000 multivalued: true alias: values owner: Parameter domain_of: - Parameter range: string","title":"Class: Parameter"},{"location":"Parameter/#class-parameter","text":"A parameter and its scope. URI: omni_schema:Parameter classDiagram class Parameter Parameter : values","title":"Class: Parameter"},{"location":"Parameter/#slots","text":"Name Cardinality and Range Description Inheritance values 0..* String direct","title":"Slots"},{"location":"Parameter/#usages","text":"used by used in type used Module parameters range Parameter","title":"Usages"},{"location":"Parameter/#identifier-and-mapping-information","text":"","title":"Identifier and Mapping Information"},{"location":"Parameter/#schema-source","text":"from schema: https://w3id.org/omnibenchmark/omni-schema","title":"Schema Source"},{"location":"Parameter/#mappings","text":"Mapping Type Mapped Value self omni_schema:Parameter native omni_schema:Parameter","title":"Mappings"},{"location":"Parameter/#linkml-source","text":"","title":"LinkML Source"},{"location":"Parameter/#direct","text":"name: Parameter description: A parameter and its scope. from_schema: https://w3id.org/omnibenchmark/omni-schema slots: - values","title":"Direct"},{"location":"Parameter/#induced","text":"name: Parameter description: A parameter and its scope. from_schema: https://w3id.org/omnibenchmark/omni-schema attributes: values: name: values from_schema: https://w3id.org/omnibenchmark/omni-schema rank: 1000 multivalued: true alias: values owner: Parameter domain_of: - Parameter range: string","title":"Induced"},{"location":"Repository/","text":"Class: Repository A reference to code repository containing the module's executable code. URI: omni_schema:Repository classDiagram class Repository Repository : commit Repository : url Slots Name Cardinality and Range Description Inheritance url 1..1 String The git compatible url direct commit 1..1 String The commit hash direct Usages used by used in type used Module repository range Repository Identifier and Mapping Information Schema Source from schema: https://w3id.org/omnibenchmark/omni-schema Mappings Mapping Type Mapped Value self omni_schema:Repository native omni_schema:Repository LinkML Source Direct name: Repository description: A reference to code repository containing the module's executable code. from_schema: https://w3id.org/omnibenchmark/omni-schema slots: - url - commit Induced name: Repository description: A reference to code repository containing the module's executable code. from_schema: https://w3id.org/omnibenchmark/omni-schema attributes: url: name: url description: The git compatible url. from_schema: https://w3id.org/omnibenchmark/omni-schema rank: 1000 alias: url owner: Repository domain_of: - Repository range: string required: true commit: name: commit description: The commit hash. from_schema: https://w3id.org/omnibenchmark/omni-schema rank: 1000 alias: commit owner: Repository domain_of: - Repository range: string required: true","title":"Class: Repository"},{"location":"Repository/#class-repository","text":"A reference to code repository containing the module's executable code. URI: omni_schema:Repository classDiagram class Repository Repository : commit Repository : url","title":"Class: Repository"},{"location":"Repository/#slots","text":"Name Cardinality and Range Description Inheritance url 1..1 String The git compatible url direct commit 1..1 String The commit hash direct","title":"Slots"},{"location":"Repository/#usages","text":"used by used in type used Module repository range Repository","title":"Usages"},{"location":"Repository/#identifier-and-mapping-information","text":"","title":"Identifier and Mapping Information"},{"location":"Repository/#schema-source","text":"from schema: https://w3id.org/omnibenchmark/omni-schema","title":"Schema Source"},{"location":"Repository/#mappings","text":"Mapping Type Mapped Value self omni_schema:Repository native omni_schema:Repository","title":"Mappings"},{"location":"Repository/#linkml-source","text":"","title":"LinkML Source"},{"location":"Repository/#direct","text":"name: Repository description: A reference to code repository containing the module's executable code. from_schema: https://w3id.org/omnibenchmark/omni-schema slots: - url - commit","title":"Direct"},{"location":"Repository/#induced","text":"name: Repository description: A reference to code repository containing the module's executable code. from_schema: https://w3id.org/omnibenchmark/omni-schema attributes: url: name: url description: The git compatible url. from_schema: https://w3id.org/omnibenchmark/omni-schema rank: 1000 alias: url owner: Repository domain_of: - Repository range: string required: true commit: name: commit description: The commit hash. from_schema: https://w3id.org/omnibenchmark/omni-schema rank: 1000 alias: commit owner: Repository domain_of: - Repository range: string required: true","title":"Induced"},{"location":"SoftwareEnvironment/","text":"Class: SoftwareEnvironment Contains snapshots of the software environment required for the modules to run. URI: omni_schema:SoftwareEnvironment classDiagram class SoftwareEnvironment IdentifiableEntity <|-- SoftwareEnvironment SoftwareEnvironment : apptainer SoftwareEnvironment : conda SoftwareEnvironment : description SoftwareEnvironment : easyconfig SoftwareEnvironment : envmodule SoftwareEnvironment : id SoftwareEnvironment : name Inheritance IdentifiableEntity SoftwareEnvironment Slots Name Cardinality and Range Description Inheritance easyconfig 0..1 String Easybuild configuration file direct envmodule 0..1 String Environment module name direct conda 0..1 String Conda environment file direct apptainer 0..1 String Apptainer image URL direct id 1..1 Uriorcurie A unique identifier for a thing IdentifiableEntity name 0..1 String A human-readable name for a thing IdentifiableEntity description 0..1 String A human-readable description for a thing IdentifiableEntity Usages used by used in type used Benchmark software_environments range SoftwareEnvironment Module software_environment range SoftwareEnvironment Identifier and Mapping Information Schema Source from schema: https://w3id.org/omnibenchmark/omni-schema Mappings Mapping Type Mapped Value self omni_schema:SoftwareEnvironment native omni_schema:SoftwareEnvironment LinkML Source Direct name: SoftwareEnvironment description: Contains snapshots of the software environment required for the modules to run. from_schema: https://w3id.org/omnibenchmark/omni-schema is_a: IdentifiableEntity slots: - easyconfig - envmodule - conda - apptainer Induced name: SoftwareEnvironment description: Contains snapshots of the software environment required for the modules to run. from_schema: https://w3id.org/omnibenchmark/omni-schema is_a: IdentifiableEntity attributes: easyconfig: name: easyconfig description: Easybuild configuration file. from_schema: https://w3id.org/omnibenchmark/omni-schema rank: 1000 alias: easyconfig owner: SoftwareEnvironment domain_of: - SoftwareEnvironment range: string envmodule: name: envmodule description: Environment module name. from_schema: https://w3id.org/omnibenchmark/omni-schema rank: 1000 alias: envmodule owner: SoftwareEnvironment domain_of: - SoftwareEnvironment range: string conda: name: conda description: Conda environment file. from_schema: https://w3id.org/omnibenchmark/omni-schema rank: 1000 alias: conda owner: SoftwareEnvironment domain_of: - SoftwareEnvironment range: string apptainer: name: apptainer description: Apptainer image URL. from_schema: https://w3id.org/omnibenchmark/omni-schema rank: 1000 alias: apptainer owner: SoftwareEnvironment domain_of: - SoftwareEnvironment range: string id: name: id description: A unique identifier for a thing from_schema: https://w3id.org/omnibenchmark/omni-schema rank: 1000 slot_uri: schema:identifier identifier: true alias: id owner: SoftwareEnvironment domain_of: - IdentifiableEntity range: uriorcurie required: true name: name: name description: A human-readable name for a thing from_schema: https://w3id.org/omnibenchmark/omni-schema rank: 1000 slot_uri: schema:name alias: name owner: SoftwareEnvironment domain_of: - IdentifiableEntity range: string description: name: description description: A human-readable description for a thing from_schema: https://w3id.org/omnibenchmark/omni-schema rank: 1000 slot_uri: schema:description alias: description owner: SoftwareEnvironment domain_of: - IdentifiableEntity range: string","title":"Class: SoftwareEnvironment"},{"location":"SoftwareEnvironment/#class-softwareenvironment","text":"Contains snapshots of the software environment required for the modules to run. URI: omni_schema:SoftwareEnvironment classDiagram class SoftwareEnvironment IdentifiableEntity <|-- SoftwareEnvironment SoftwareEnvironment : apptainer SoftwareEnvironment : conda SoftwareEnvironment : description SoftwareEnvironment : easyconfig SoftwareEnvironment : envmodule SoftwareEnvironment : id SoftwareEnvironment : name","title":"Class: SoftwareEnvironment"},{"location":"SoftwareEnvironment/#inheritance","text":"IdentifiableEntity SoftwareEnvironment","title":"Inheritance"},{"location":"SoftwareEnvironment/#slots","text":"Name Cardinality and Range Description Inheritance easyconfig 0..1 String Easybuild configuration file direct envmodule 0..1 String Environment module name direct conda 0..1 String Conda environment file direct apptainer 0..1 String Apptainer image URL direct id 1..1 Uriorcurie A unique identifier for a thing IdentifiableEntity name 0..1 String A human-readable name for a thing IdentifiableEntity description 0..1 String A human-readable description for a thing IdentifiableEntity","title":"Slots"},{"location":"SoftwareEnvironment/#usages","text":"used by used in type used Benchmark software_environments range SoftwareEnvironment Module software_environment range SoftwareEnvironment","title":"Usages"},{"location":"SoftwareEnvironment/#identifier-and-mapping-information","text":"","title":"Identifier and Mapping Information"},{"location":"SoftwareEnvironment/#schema-source","text":"from schema: https://w3id.org/omnibenchmark/omni-schema","title":"Schema Source"},{"location":"SoftwareEnvironment/#mappings","text":"Mapping Type Mapped Value self omni_schema:SoftwareEnvironment native omni_schema:SoftwareEnvironment","title":"Mappings"},{"location":"SoftwareEnvironment/#linkml-source","text":"","title":"LinkML Source"},{"location":"SoftwareEnvironment/#direct","text":"name: SoftwareEnvironment description: Contains snapshots of the software environment required for the modules to run. from_schema: https://w3id.org/omnibenchmark/omni-schema is_a: IdentifiableEntity slots: - easyconfig - envmodule - conda - apptainer","title":"Direct"},{"location":"SoftwareEnvironment/#induced","text":"name: SoftwareEnvironment description: Contains snapshots of the software environment required for the modules to run. from_schema: https://w3id.org/omnibenchmark/omni-schema is_a: IdentifiableEntity attributes: easyconfig: name: easyconfig description: Easybuild configuration file. from_schema: https://w3id.org/omnibenchmark/omni-schema rank: 1000 alias: easyconfig owner: SoftwareEnvironment domain_of: - SoftwareEnvironment range: string envmodule: name: envmodule description: Environment module name. from_schema: https://w3id.org/omnibenchmark/omni-schema rank: 1000 alias: envmodule owner: SoftwareEnvironment domain_of: - SoftwareEnvironment range: string conda: name: conda description: Conda environment file. from_schema: https://w3id.org/omnibenchmark/omni-schema rank: 1000 alias: conda owner: SoftwareEnvironment domain_of: - SoftwareEnvironment range: string apptainer: name: apptainer description: Apptainer image URL. from_schema: https://w3id.org/omnibenchmark/omni-schema rank: 1000 alias: apptainer owner: SoftwareEnvironment domain_of: - SoftwareEnvironment range: string id: name: id description: A unique identifier for a thing from_schema: https://w3id.org/omnibenchmark/omni-schema rank: 1000 slot_uri: schema:identifier identifier: true alias: id owner: SoftwareEnvironment domain_of: - IdentifiableEntity range: uriorcurie required: true name: name: name description: A human-readable name for a thing from_schema: https://w3id.org/omnibenchmark/omni-schema rank: 1000 slot_uri: schema:name alias: name owner: SoftwareEnvironment domain_of: - IdentifiableEntity range: string description: name: description description: A human-readable description for a thing from_schema: https://w3id.org/omnibenchmark/omni-schema rank: 1000 slot_uri: schema:description alias: description owner: SoftwareEnvironment domain_of: - IdentifiableEntity range: string","title":"Induced"},{"location":"Sparqlpath/","text":"Type: Sparqlpath A string encoding a SPARQL Property Path. The value of the string MUST conform to SPARQL syntax and SHOULD dereference to zero or more valid objects within the current instance document when encoded as RDF. URI: xsd:string base : str uri : xsd:string repr : str Identifier and Mapping Information Schema Source from schema: https://w3id.org/omnibenchmark/omni-schema","title":"Type: Sparqlpath"},{"location":"Sparqlpath/#type-sparqlpath","text":"A string encoding a SPARQL Property Path. The value of the string MUST conform to SPARQL syntax and SHOULD dereference to zero or more valid objects within the current instance document when encoded as RDF. URI: xsd:string base : str uri : xsd:string repr : str","title":"Type: Sparqlpath"},{"location":"Sparqlpath/#identifier-and-mapping-information","text":"","title":"Identifier and Mapping Information"},{"location":"Sparqlpath/#schema-source","text":"from schema: https://w3id.org/omnibenchmark/omni-schema","title":"Schema Source"},{"location":"Stage/","text":"Class: Stage A benchmark subtask with equivalent and independent modules. URI: omni_schema:Stage classDiagram class Stage IdentifiableEntity <|-- Stage Stage : description Stage : id Stage : inputs Stage --> InputCollection : inputs Stage : modules Stage --> Module : modules Stage : name Stage : outputs Stage --> IOFile : outputs Inheritance IdentifiableEntity Stage Slots Name Cardinality and Range Description Inheritance modules 1..* Module direct inputs 0..* InputCollection direct outputs 0..* IOFile direct id 1..1 Uriorcurie A unique identifier for a thing IdentifiableEntity name 0..1 String A human-readable name for a thing IdentifiableEntity description 0..1 String A human-readable description for a thing IdentifiableEntity Usages used by used in type used Benchmark stages range Stage Identifier and Mapping Information Schema Source from schema: https://w3id.org/omnibenchmark/omni-schema Mappings Mapping Type Mapped Value self omni_schema:Stage native omni_schema:Stage LinkML Source Direct name: Stage description: A benchmark subtask with equivalent and independent modules. from_schema: https://w3id.org/omnibenchmark/omni-schema is_a: IdentifiableEntity slots: - modules - inputs - outputs Induced name: Stage description: A benchmark subtask with equivalent and independent modules. from_schema: https://w3id.org/omnibenchmark/omni-schema is_a: IdentifiableEntity attributes: modules: name: modules from_schema: https://w3id.org/omnibenchmark/omni-schema rank: 1000 multivalued: true alias: modules owner: Stage domain_of: - Stage range: Module required: true inlined: true inlined_as_list: true inputs: name: inputs from_schema: https://w3id.org/omnibenchmark/omni-schema rank: 1000 multivalued: true alias: inputs owner: Stage domain_of: - Stage range: InputCollection inlined: true inlined_as_list: true outputs: name: outputs from_schema: https://w3id.org/omnibenchmark/omni-schema rank: 1000 multivalued: true alias: outputs owner: Stage domain_of: - Stage range: IOFile inlined: true inlined_as_list: true id: name: id description: A unique identifier for a thing from_schema: https://w3id.org/omnibenchmark/omni-schema rank: 1000 slot_uri: schema:identifier identifier: true alias: id owner: Stage domain_of: - IdentifiableEntity range: uriorcurie required: true name: name: name description: A human-readable name for a thing from_schema: https://w3id.org/omnibenchmark/omni-schema rank: 1000 slot_uri: schema:name alias: name owner: Stage domain_of: - IdentifiableEntity range: string description: name: description description: A human-readable description for a thing from_schema: https://w3id.org/omnibenchmark/omni-schema rank: 1000 slot_uri: schema:description alias: description owner: Stage domain_of: - IdentifiableEntity range: string","title":"Class: Stage"},{"location":"Stage/#class-stage","text":"A benchmark subtask with equivalent and independent modules. URI: omni_schema:Stage classDiagram class Stage IdentifiableEntity <|-- Stage Stage : description Stage : id Stage : inputs Stage --> InputCollection : inputs Stage : modules Stage --> Module : modules Stage : name Stage : outputs Stage --> IOFile : outputs","title":"Class: Stage"},{"location":"Stage/#inheritance","text":"IdentifiableEntity Stage","title":"Inheritance"},{"location":"Stage/#slots","text":"Name Cardinality and Range Description Inheritance modules 1..* Module direct inputs 0..* InputCollection direct outputs 0..* IOFile direct id 1..1 Uriorcurie A unique identifier for a thing IdentifiableEntity name 0..1 String A human-readable name for a thing IdentifiableEntity description 0..1 String A human-readable description for a thing IdentifiableEntity","title":"Slots"},{"location":"Stage/#usages","text":"used by used in type used Benchmark stages range Stage","title":"Usages"},{"location":"Stage/#identifier-and-mapping-information","text":"","title":"Identifier and Mapping Information"},{"location":"Stage/#schema-source","text":"from schema: https://w3id.org/omnibenchmark/omni-schema","title":"Schema Source"},{"location":"Stage/#mappings","text":"Mapping Type Mapped Value self omni_schema:Stage native omni_schema:Stage","title":"Mappings"},{"location":"Stage/#linkml-source","text":"","title":"LinkML Source"},{"location":"Stage/#direct","text":"name: Stage description: A benchmark subtask with equivalent and independent modules. from_schema: https://w3id.org/omnibenchmark/omni-schema is_a: IdentifiableEntity slots: - modules - inputs - outputs","title":"Direct"},{"location":"Stage/#induced","text":"name: Stage description: A benchmark subtask with equivalent and independent modules. from_schema: https://w3id.org/omnibenchmark/omni-schema is_a: IdentifiableEntity attributes: modules: name: modules from_schema: https://w3id.org/omnibenchmark/omni-schema rank: 1000 multivalued: true alias: modules owner: Stage domain_of: - Stage range: Module required: true 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URI: https://w3id.org/omnibenchmark/omni-schema","title":"omni-schema"},{"location":"outputs/","text":"Slot: outputs URI: omni_schema:outputs Applicable Classes Name Description Modifies Slot Stage A benchmark subtask with equivalent and independent modules no Properties Range: IOFile Multivalued: True Identifier and Mapping Information Schema Source from schema: https://w3id.org/omnibenchmark/omni-schema LinkML Source name: outputs from_schema: https://w3id.org/omnibenchmark/omni-schema rank: 1000 multivalued: true alias: outputs domain_of: - Stage range: IOFile inlined: true inlined_as_list: true","title":"Slot: outputs"},{"location":"outputs/#slot-outputs","text":"URI: omni_schema:outputs","title":"Slot: outputs"},{"location":"outputs/#applicable-classes","text":"Name Description Modifies Slot Stage A benchmark subtask with equivalent and independent modules no","title":"Applicable Classes"},{"location":"outputs/#properties","text":"Range: IOFile Multivalued: True","title":"Properties"},{"location":"outputs/#identifier-and-mapping-information","text":"","title":"Identifier and Mapping Information"},{"location":"outputs/#schema-source","text":"from schema: https://w3id.org/omnibenchmark/omni-schema","title":"Schema Source"},{"location":"outputs/#linkml-source","text":"name: outputs from_schema: https://w3id.org/omnibenchmark/omni-schema rank: 1000 multivalued: true alias: outputs domain_of: - Stage range: IOFile inlined: true inlined_as_list: true","title":"LinkML Source"},{"location":"parameters/","text":"Slot: parameters URI: omni_schema:parameters Applicable Classes Name Description Modifies Slot Module A single benchmark component assigned to a specific stage no Properties Range: Parameter Multivalued: True Identifier and Mapping Information Schema Source from schema: https://w3id.org/omnibenchmark/omni-schema LinkML Source name: parameters from_schema: https://w3id.org/omnibenchmark/omni-schema rank: 1000 multivalued: true alias: parameters domain_of: - Module range: Parameter","title":"Slot: parameters"},{"location":"parameters/#slot-parameters","text":"URI: omni_schema:parameters","title":"Slot: parameters"},{"location":"parameters/#applicable-classes","text":"Name Description Modifies Slot Module A single benchmark component assigned to a specific stage no","title":"Applicable Classes"},{"location":"parameters/#properties","text":"Range: Parameter Multivalued: True","title":"Properties"},{"location":"parameters/#identifier-and-mapping-information","text":"","title":"Identifier and Mapping Information"},{"location":"parameters/#schema-source","text":"from schema: https://w3id.org/omnibenchmark/omni-schema","title":"Schema Source"},{"location":"parameters/#linkml-source","text":"name: parameters from_schema: https://w3id.org/omnibenchmark/omni-schema rank: 1000 multivalued: true alias: parameters domain_of: - Module range: Parameter","title":"LinkML Source"},{"location":"path/","text":"Slot: path The output path pattern for the IO file. URI: omni_schema:path Applicable Classes Name Description Modifies Slot IOFile Represents an input / output file no Properties Range: String Identifier and Mapping Information Schema Source from schema: https://w3id.org/omnibenchmark/omni-schema LinkML Source name: path description: The output path pattern for the IO file. from_schema: https://w3id.org/omnibenchmark/omni-schema rank: 1000 alias: path domain_of: - IOFile range: string","title":"Slot: path"},{"location":"path/#slot-path","text":"The output path pattern for the IO file. URI: omni_schema:path","title":"Slot: path"},{"location":"path/#applicable-classes","text":"Name Description Modifies Slot IOFile Represents an input / output file no","title":"Applicable Classes"},{"location":"path/#properties","text":"Range: String","title":"Properties"},{"location":"path/#identifier-and-mapping-information","text":"","title":"Identifier and Mapping Information"},{"location":"path/#schema-source","text":"from schema: https://w3id.org/omnibenchmark/omni-schema","title":"Schema Source"},{"location":"path/#linkml-source","text":"name: path description: The output path pattern for the IO file. from_schema: https://w3id.org/omnibenchmark/omni-schema rank: 1000 alias: path domain_of: - IOFile range: string","title":"LinkML Source"},{"location":"repository/","text":"Slot: repository The code repository hosting the module. URI: omni_schema:repository Applicable Classes Name Description Modifies Slot Module A single benchmark component assigned to a specific stage no Properties Range: Repository Required: True Identifier and Mapping Information Schema Source from schema: https://w3id.org/omnibenchmark/omni-schema LinkML Source name: repository description: The code repository hosting the module. from_schema: https://w3id.org/omnibenchmark/omni-schema rank: 1000 alias: repository domain_of: - Module range: Repository required: true","title":"Slot: repository"},{"location":"repository/#slot-repository","text":"The code repository hosting the module. URI: omni_schema:repository","title":"Slot: repository"},{"location":"repository/#applicable-classes","text":"Name Description Modifies Slot Module A single benchmark component assigned to a specific stage no","title":"Applicable Classes"},{"location":"repository/#properties","text":"Range: Repository Required: True","title":"Properties"},{"location":"repository/#identifier-and-mapping-information","text":"","title":"Identifier and Mapping Information"},{"location":"repository/#schema-source","text":"from schema: https://w3id.org/omnibenchmark/omni-schema","title":"Schema Source"},{"location":"repository/#linkml-source","text":"name: repository description: The code repository hosting the module. from_schema: https://w3id.org/omnibenchmark/omni-schema rank: 1000 alias: repository domain_of: - Module range: Repository required: true","title":"LinkML Source"},{"location":"software_environment/","text":"Slot: software_environment Reference to a software environment by key. URI: omni_schema:software_environment Applicable Classes Name Description Modifies Slot Module A single benchmark component assigned to a specific stage no Properties Range: SoftwareEnvironment Required: True Identifier and Mapping Information Schema Source from schema: https://w3id.org/omnibenchmark/omni-schema LinkML Source name: software_environment description: Reference to a software environment by key. from_schema: https://w3id.org/omnibenchmark/omni-schema rank: 1000 alias: software_environment domain_of: - Module range: SoftwareEnvironment required: true","title":"Slot: software_environment"},{"location":"software_environment/#slot-software_environment","text":"Reference to a software environment by key. URI: omni_schema:software_environment","title":"Slot: software_environment"},{"location":"software_environment/#applicable-classes","text":"Name Description Modifies Slot Module A single benchmark component assigned to a specific stage no","title":"Applicable Classes"},{"location":"software_environment/#properties","text":"Range: SoftwareEnvironment Required: True","title":"Properties"},{"location":"software_environment/#identifier-and-mapping-information","text":"","title":"Identifier and Mapping Information"},{"location":"software_environment/#schema-source","text":"from schema: https://w3id.org/omnibenchmark/omni-schema","title":"Schema Source"},{"location":"software_environment/#linkml-source","text":"name: software_environment description: Reference to a software environment by key. from_schema: https://w3id.org/omnibenchmark/omni-schema rank: 1000 alias: software_environment domain_of: - Module range: SoftwareEnvironment required: true","title":"LinkML Source"},{"location":"software_environments/","text":"Slot: software_environments Dictionary of software environments keyed by their identifiers URI: omni_schema:software_environments Applicable Classes Name Description Modifies Slot Benchmark A multi-stage workflow to evaluate processing stage for a specific task no Properties Range: SoftwareEnvironment Multivalued: True Required: True Identifier and Mapping Information Schema Source from schema: https://w3id.org/omnibenchmark/omni-schema LinkML Source name: software_environments description: Dictionary of software environments keyed by their identifiers from_schema: https://w3id.org/omnibenchmark/omni-schema rank: 1000 multivalued: true alias: software_environments domain_of: - Benchmark range: SoftwareEnvironment required: true inlined: true inlined_as_list: true","title":"Slot: software_environments"},{"location":"software_environments/#slot-software_environments","text":"Dictionary of software environments keyed by their identifiers URI: omni_schema:software_environments","title":"Slot: software_environments"},{"location":"software_environments/#applicable-classes","text":"Name Description Modifies Slot Benchmark A multi-stage workflow to evaluate processing stage for a specific task no","title":"Applicable Classes"},{"location":"software_environments/#properties","text":"Range: SoftwareEnvironment Multivalued: True Required: True","title":"Properties"},{"location":"software_environments/#identifier-and-mapping-information","text":"","title":"Identifier and Mapping Information"},{"location":"software_environments/#schema-source","text":"from schema: https://w3id.org/omnibenchmark/omni-schema","title":"Schema Source"},{"location":"software_environments/#linkml-source","text":"name: software_environments description: Dictionary of software environments keyed by their identifiers from_schema: https://w3id.org/omnibenchmark/omni-schema rank: 1000 multivalued: true alias: software_environments domain_of: - Benchmark range: SoftwareEnvironment required: true inlined: true inlined_as_list: true","title":"LinkML Source"},{"location":"stages/","text":"Slot: stages URI: omni_schema:stages Applicable Classes Name Description Modifies Slot Benchmark A multi-stage workflow to evaluate processing stage for a specific task no Properties Range: Stage Multivalued: True Required: True Identifier and Mapping Information Schema Source from schema: https://w3id.org/omnibenchmark/omni-schema LinkML Source name: stages from_schema: https://w3id.org/omnibenchmark/omni-schema rank: 1000 multivalued: true alias: stages domain_of: - Benchmark range: Stage required: true inlined: true inlined_as_list: true","title":"Slot: stages"},{"location":"stages/#slot-stages","text":"URI: omni_schema:stages","title":"Slot: stages"},{"location":"stages/#applicable-classes","text":"Name Description Modifies Slot Benchmark A multi-stage workflow to evaluate processing stage for a specific task no","title":"Applicable Classes"},{"location":"stages/#properties","text":"Range: Stage Multivalued: True Required: True","title":"Properties"},{"location":"stages/#identifier-and-mapping-information","text":"","title":"Identifier and Mapping Information"},{"location":"stages/#schema-source","text":"from schema: https://w3id.org/omnibenchmark/omni-schema","title":"Schema Source"},{"location":"stages/#linkml-source","text":"name: stages from_schema: https://w3id.org/omnibenchmark/omni-schema rank: 1000 multivalued: true alias: stages domain_of: - Benchmark range: Stage required: true inlined: true inlined_as_list: true","title":"LinkML Source"},{"location":"storage/","text":"Slot: storage The place hosting all benchmark data. URI: omni_schema:storage Applicable Classes Name Description Modifies Slot Benchmark A multi-stage workflow to evaluate processing stage for a specific task no Properties Range: String Required: True Identifier and Mapping Information Schema Source from schema: https://w3id.org/omnibenchmark/omni-schema LinkML Source name: storage description: The place hosting all benchmark data. from_schema: https://w3id.org/omnibenchmark/omni-schema rank: 1000 alias: storage domain_of: - Benchmark range: string required: true","title":"Slot: storage"},{"location":"storage/#slot-storage","text":"The place hosting all benchmark data. URI: omni_schema:storage","title":"Slot: storage"},{"location":"storage/#applicable-classes","text":"Name Description Modifies Slot Benchmark A multi-stage workflow to evaluate processing stage for a specific task no","title":"Applicable Classes"},{"location":"storage/#properties","text":"Range: String Required: True","title":"Properties"},{"location":"storage/#identifier-and-mapping-information","text":"","title":"Identifier and Mapping Information"},{"location":"storage/#schema-source","text":"from schema: https://w3id.org/omnibenchmark/omni-schema","title":"Schema Source"},{"location":"storage/#linkml-source","text":"name: storage description: The place hosting all benchmark data. from_schema: https://w3id.org/omnibenchmark/omni-schema rank: 1000 alias: storage domain_of: - Benchmark range: string required: true","title":"LinkML Source"},{"location":"storage_api/","text":"Slot: storage_api The type of the storage API (i.e. S3) URI: omni_schema:storage_api Applicable Classes Name Description Modifies Slot Benchmark A multi-stage workflow to evaluate processing stage for a specific task no Properties Range: StorageAPIEnum Required: True Identifier and Mapping Information Schema Source from schema: https://w3id.org/omnibenchmark/omni-schema LinkML Source name: storage_api description: The type of the storage API (i.e. S3) from_schema: https://w3id.org/omnibenchmark/omni-schema rank: 1000 alias: storage_api domain_of: - Benchmark range: StorageAPIEnum required: true","title":"Slot: storage_api"},{"location":"storage_api/#slot-storage_api","text":"The type of the storage API (i.e. S3) URI: omni_schema:storage_api","title":"Slot: storage_api"},{"location":"storage_api/#applicable-classes","text":"Name Description Modifies Slot Benchmark A multi-stage workflow to evaluate processing stage for a specific task no","title":"Applicable Classes"},{"location":"storage_api/#properties","text":"Range: StorageAPIEnum Required: True","title":"Properties"},{"location":"storage_api/#identifier-and-mapping-information","text":"","title":"Identifier and Mapping Information"},{"location":"storage_api/#schema-source","text":"from schema: https://w3id.org/omnibenchmark/omni-schema","title":"Schema Source"},{"location":"storage_api/#linkml-source","text":"name: storage_api description: The type of the storage API (i.e. S3) from_schema: https://w3id.org/omnibenchmark/omni-schema rank: 1000 alias: storage_api domain_of: - Benchmark range: StorageAPIEnum required: true","title":"LinkML Source"},{"location":"url/","text":"Slot: url The git compatible url. URI: omni_schema:url Applicable Classes Name Description Modifies Slot Repository A reference to code repository containing the module's executable code no Properties Range: String Required: True Identifier and Mapping Information Schema Source from schema: https://w3id.org/omnibenchmark/omni-schema LinkML Source name: url description: The git compatible url. from_schema: https://w3id.org/omnibenchmark/omni-schema rank: 1000 alias: url domain_of: - Repository range: string required: true","title":"Slot: url"},{"location":"url/#slot-url","text":"The git compatible url. URI: omni_schema:url","title":"Slot: url"},{"location":"url/#applicable-classes","text":"Name Description Modifies Slot Repository A reference to code repository containing the module's executable code no","title":"Applicable Classes"},{"location":"url/#properties","text":"Range: String Required: True","title":"Properties"},{"location":"url/#identifier-and-mapping-information","text":"","title":"Identifier and Mapping Information"},{"location":"url/#schema-source","text":"from schema: https://w3id.org/omnibenchmark/omni-schema","title":"Schema Source"},{"location":"url/#linkml-source","text":"name: url description: The git compatible url. from_schema: https://w3id.org/omnibenchmark/omni-schema rank: 1000 alias: url domain_of: - Repository range: string required: true","title":"LinkML Source"},{"location":"values/","text":"Slot: values URI: omni_schema:values Applicable Classes Name Description Modifies Slot Parameter A parameter and its scope no Properties Range: String Multivalued: True Identifier and Mapping Information Schema Source from schema: https://w3id.org/omnibenchmark/omni-schema LinkML Source name: values from_schema: https://w3id.org/omnibenchmark/omni-schema rank: 1000 multivalued: true alias: values domain_of: - Parameter range: string","title":"Slot: values"},{"location":"values/#slot-values","text":"URI: omni_schema:values","title":"Slot: values"},{"location":"values/#applicable-classes","text":"Name Description Modifies Slot Parameter A parameter and its scope no","title":"Applicable Classes"},{"location":"values/#properties","text":"Range: String Multivalued: True","title":"Properties"},{"location":"values/#identifier-and-mapping-information","text":"","title":"Identifier and Mapping Information"},{"location":"values/#schema-source","text":"from schema: https://w3id.org/omnibenchmark/omni-schema","title":"Schema Source"},{"location":"values/#linkml-source","text":"name: values from_schema: https://w3id.org/omnibenchmark/omni-schema rank: 1000 multivalued: true alias: values domain_of: - Parameter range: string","title":"LinkML Source"},{"location":"version/","text":"Slot: version The version of the benchmark. URI: omni_schema:version Applicable Classes Name Description Modifies Slot Benchmark A multi-stage workflow to evaluate processing stage for a specific task no Properties Range: String Required: True Identifier and Mapping Information Schema Source from schema: https://w3id.org/omnibenchmark/omni-schema LinkML Source name: version description: The version of the benchmark. from_schema: https://w3id.org/omnibenchmark/omni-schema rank: 1000 alias: version domain_of: - Benchmark range: string required: true","title":"Slot: version"},{"location":"version/#slot-version","text":"The version of the benchmark. URI: omni_schema:version","title":"Slot: version"},{"location":"version/#applicable-classes","text":"Name Description Modifies Slot Benchmark A multi-stage workflow to evaluate processing stage for a specific task no","title":"Applicable Classes"},{"location":"version/#properties","text":"Range: String Required: True","title":"Properties"},{"location":"version/#identifier-and-mapping-information","text":"","title":"Identifier and Mapping Information"},{"location":"version/#schema-source","text":"from schema: https://w3id.org/omnibenchmark/omni-schema","title":"Schema Source"},{"location":"version/#linkml-source","text":"name: version description: The version of the benchmark. from_schema: https://w3id.org/omnibenchmark/omni-schema rank: 1000 alias: version domain_of: - Benchmark range: string required: true","title":"LinkML Source"}]}
\ No newline at end of file
diff --git a/sitemap.xml b/sitemap.xml
index 14dcbb8..a964285 100644
--- a/sitemap.xml
+++ b/sitemap.xml
@@ -2,272 +2,292 @@
https://omnibenchmark.github.io/omni-schema/
- 2024-03-17
+ 2024-06-21dailyhttps://omnibenchmark.github.io/omni-schema/Benchmark/
- 2024-03-17
+ 2024-06-21dailyhttps://omnibenchmark.github.io/omni-schema/Boolean/
- 2024-03-17
+ 2024-06-21dailyhttps://omnibenchmark.github.io/omni-schema/Curie/
- 2024-03-17
+ 2024-06-21dailyhttps://omnibenchmark.github.io/omni-schema/Date/
- 2024-03-17
+ 2024-06-21dailyhttps://omnibenchmark.github.io/omni-schema/DateOrDatetime/
- 2024-03-17
+ 2024-06-21dailyhttps://omnibenchmark.github.io/omni-schema/Datetime/
- 2024-03-17
+ 2024-06-21dailyhttps://omnibenchmark.github.io/omni-schema/Decimal/
- 2024-03-17
+ 2024-06-21dailyhttps://omnibenchmark.github.io/omni-schema/Double/
- 2024-03-17
+ 2024-06-21dailyhttps://omnibenchmark.github.io/omni-schema/Float/
- 2024-03-17
+ 2024-06-21dailyhttps://omnibenchmark.github.io/omni-schema/IOFile/
- 2024-03-17
+ 2024-06-21dailyhttps://omnibenchmark.github.io/omni-schema/IdentifiableEntity/
- 2024-03-17
+ 2024-06-21dailyhttps://omnibenchmark.github.io/omni-schema/InputCollection/
- 2024-03-17
+ 2024-06-21dailyhttps://omnibenchmark.github.io/omni-schema/Integer/
- 2024-03-17
+ 2024-06-21dailyhttps://omnibenchmark.github.io/omni-schema/Jsonpath/
- 2024-03-17
+ 2024-06-21dailyhttps://omnibenchmark.github.io/omni-schema/Jsonpointer/
- 2024-03-17
+ 2024-06-21dailyhttps://omnibenchmark.github.io/omni-schema/Module/
- 2024-03-17
+ 2024-06-21dailyhttps://omnibenchmark.github.io/omni-schema/Ncname/
- 2024-03-17
+ 2024-06-21dailyhttps://omnibenchmark.github.io/omni-schema/Nodeidentifier/
- 2024-03-17
+ 2024-06-21dailyhttps://omnibenchmark.github.io/omni-schema/Objectidentifier/
- 2024-03-17
+ 2024-06-21daily
- https://omnibenchmark.github.io/omni-schema/Orchestrator/
- 2024-03-17
+ https://omnibenchmark.github.io/omni-schema/Parameter/
+ 2024-06-21daily
- https://omnibenchmark.github.io/omni-schema/Parameter/
- 2024-03-17
+ https://omnibenchmark.github.io/omni-schema/Repository/
+ 2024-06-21
+ daily
+
+
+ https://omnibenchmark.github.io/omni-schema/SoftwareEnvironment/
+ 2024-06-21dailyhttps://omnibenchmark.github.io/omni-schema/Sparqlpath/
- 2024-03-17
+ 2024-06-21
+ daily
+
+
+ https://omnibenchmark.github.io/omni-schema/Stage/
+ 2024-06-21daily
- https://omnibenchmark.github.io/omni-schema/Step/
- 2024-03-17
+ https://omnibenchmark.github.io/omni-schema/StorageAPIEnum/
+ 2024-06-21dailyhttps://omnibenchmark.github.io/omni-schema/String/
- 2024-03-17
+ 2024-06-21dailyhttps://omnibenchmark.github.io/omni-schema/Time/
- 2024-03-17
+ 2024-06-21dailyhttps://omnibenchmark.github.io/omni-schema/Uri/
- 2024-03-17
+ 2024-06-21dailyhttps://omnibenchmark.github.io/omni-schema/Uriorcurie/
- 2024-03-17
+ 2024-06-21daily
- https://omnibenchmark.github.io/omni-schema/Validator/
- 2024-03-17
+ https://omnibenchmark.github.io/omni-schema/about/
+ 2024-06-21daily
- https://omnibenchmark.github.io/omni-schema/about/
- 2024-03-17
+ https://omnibenchmark.github.io/omni-schema/apptainer/
+ 2024-06-21
+ daily
+
+
+ https://omnibenchmark.github.io/omni-schema/benchmark_yaml_spec/
+ 2024-06-21
+ daily
+
+
+ https://omnibenchmark.github.io/omni-schema/benchmarker/
+ 2024-06-21daily
- https://omnibenchmark.github.io/omni-schema/after/
- 2024-03-17
+ https://omnibenchmark.github.io/omni-schema/commit/
+ 2024-06-21
+ daily
+
+
+ https://omnibenchmark.github.io/omni-schema/conda/
+ 2024-06-21dailyhttps://omnibenchmark.github.io/omni-schema/description/
- 2024-03-17
+ 2024-06-21
+ daily
+
+
+ https://omnibenchmark.github.io/omni-schema/easyconfig/
+ 2024-06-21dailyhttps://omnibenchmark.github.io/omni-schema/entries/
- 2024-03-17
+ 2024-06-21daily
- https://omnibenchmark.github.io/omni-schema/exclude/
- 2024-03-17
+ https://omnibenchmark.github.io/omni-schema/envmodule/
+ 2024-06-21daily
- https://omnibenchmark.github.io/omni-schema/id/
- 2024-03-17
+ https://omnibenchmark.github.io/omni-schema/exclude/
+ 2024-06-21daily
- https://omnibenchmark.github.io/omni-schema/initial/
- 2024-03-17
+ https://omnibenchmark.github.io/omni-schema/id/
+ 2024-06-21dailyhttps://omnibenchmark.github.io/omni-schema/inputs/
- 2024-03-17
+ 2024-06-21daily
- https://omnibenchmark.github.io/omni-schema/members/
- 2024-03-17
+ https://omnibenchmark.github.io/omni-schema/modules/
+ 2024-06-21dailyhttps://omnibenchmark.github.io/omni-schema/name/
- 2024-03-17
+ 2024-06-21dailyhttps://omnibenchmark.github.io/omni-schema/omni-schema/
- 2024-03-17
- daily
-
-
- https://omnibenchmark.github.io/omni-schema/orchestrator/
- 2024-03-17
+ 2024-06-21dailyhttps://omnibenchmark.github.io/omni-schema/outputs/
- 2024-03-17
+ 2024-06-21dailyhttps://omnibenchmark.github.io/omni-schema/parameters/
- 2024-03-17
+ 2024-06-21dailyhttps://omnibenchmark.github.io/omni-schema/path/
- 2024-03-17
+ 2024-06-21daily
- https://omnibenchmark.github.io/omni-schema/platform/
- 2024-03-17
+ https://omnibenchmark.github.io/omni-schema/repository/
+ 2024-06-21daily
- https://omnibenchmark.github.io/omni-schema/repo/
- 2024-03-17
+ https://omnibenchmark.github.io/omni-schema/software_environment/
+ 2024-06-21daily
- https://omnibenchmark.github.io/omni-schema/schema_url/
- 2024-03-17
+ https://omnibenchmark.github.io/omni-schema/software_environments/
+ 2024-06-21daily
- https://omnibenchmark.github.io/omni-schema/steps/
- 2024-03-17
+ https://omnibenchmark.github.io/omni-schema/stages/
+ 2024-06-21dailyhttps://omnibenchmark.github.io/omni-schema/storage/
- 2024-03-17
+ 2024-06-21daily
- https://omnibenchmark.github.io/omni-schema/terminal/
- 2024-03-17
+ https://omnibenchmark.github.io/omni-schema/storage_api/
+ 2024-06-21dailyhttps://omnibenchmark.github.io/omni-schema/url/
- 2024-03-17
- daily
-
-
- https://omnibenchmark.github.io/omni-schema/validator/
- 2024-03-17
+ 2024-06-21dailyhttps://omnibenchmark.github.io/omni-schema/values/
- 2024-03-17
+ 2024-06-21dailyhttps://omnibenchmark.github.io/omni-schema/version/
- 2024-03-17
+ 2024-06-21daily
\ No newline at end of file
diff --git a/sitemap.xml.gz b/sitemap.xml.gz
index ce6dd9eea3fffae49cd23493c6ad261aeaaebdca..4a474b58d9b01b524369f1bd7862bd3f5a42cd8a 100644
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