Class: EdgeObsoletion

name: EdgeObsoletion
description: An edge change in which an edge is obsoleted.
comments:
- Note there is not yet consensus in how this should be done in rdf/owl implementations.
  Simply marking the edge deprecated with render it visible to most clients. Care
  must be taken because simply adding a deprecation tag to an axiom does not silence
  it -- it is still asserted. It is therefore more common to obsolete an edge by shadowing
  the axiom as an annotation. See the Mondo docs for example
from_schema: https://w3id.org/kgcl
see_also:
- https://mondo.readthedocs.io/en/latest/editors-guide/g-logical-axioms/#excluded-subclassof
aliases:
- relationship obsoletion
is_a: EdgeChange
mixins:
- Obsoletion
slots:
- subject
- predicate
- object
- annotation_set
slot_usage:
  change_description:
    name: change_description
    string_serialization: obsolete edge {edge.subject} {edge.predicate} {edge.object}

name: EdgeObsoletion
description: An edge change in which an edge is obsoleted.
comments:
- Note there is not yet consensus in how this should be done in rdf/owl implementations.
  Simply marking the edge deprecated with render it visible to most clients. Care
  must be taken because simply adding a deprecation tag to an axiom does not silence
  it -- it is still asserted. It is therefore more common to obsolete an edge by shadowing
  the axiom as an annotation. See the Mondo docs for example
from_schema: https://w3id.org/kgcl
see_also:
- https://mondo.readthedocs.io/en/latest/editors-guide/g-logical-axioms/#excluded-subclassof
aliases:
- relationship obsoletion
is_a: EdgeChange
mixins:
- Obsoletion
slot_usage:
  change_description:
    name: change_description
    string_serialization: obsolete edge {edge.subject} {edge.predicate} {edge.object}
attributes:
  subject:
    name: subject
    from_schema: https://w3id.org/kgcl
    rank: 1000
    alias: subject
    owner: EdgeObsoletion
    domain_of:
    - EdgeCreation
    - EdgeDeletion
    - EdgeObsoletion
    - MappingCreation
    - Edge
    range: Node
  predicate:
    name: predicate
    from_schema: https://w3id.org/kgcl
    rank: 1000
    alias: predicate
    owner: EdgeObsoletion
    domain_of:
    - EdgeCreation
    - EdgeDeletion
    - EdgeObsoletion
    - MappingCreation
    - NewSynonym
    - NewMapping
    - RemoveMapping
    - NewMetadataAssertion
    - RemoveMetadataAssertion
    - Edge
    range: Node
  object:
    name: object
    from_schema: https://w3id.org/kgcl
    rank: 1000
    alias: object
    owner: EdgeObsoletion
    domain_of:
    - EdgeCreation
    - EdgeDeletion
    - EdgeObsoletion
    - MappingCreation
    - NewMapping
    - RemoveMapping
    - NewMetadataAssertion
    - RemoveMetadataAssertion
    - Edge
    range: Node
  annotation_set:
    name: annotation_set
    from_schema: https://w3id.org/kgcl
    rank: 1000
    alias: annotation_set
    owner: EdgeObsoletion
    domain_of:
    - EdgeCreation
    - EdgeDeletion
    - EdgeObsoletion
    - MappingCreation
    - NodeCreation
    - Annotation
    - Node
    - Edge
    range: Annotation
  about_edge:
    name: about_edge
    comments:
    - if subject is empty, use the about field of the last node change
    from_schema: https://w3id.org/kgcl
    rank: 1000
    is_a: about
    alias: about_edge
    owner: EdgeObsoletion
    domain_of:
    - EdgeChange
    range: Edge
    multivalued: false
  object_type:
    name: object_type
    description: The type (IRI or Literal) of an object
    deprecated: no longer required
    from_schema: https://w3id.org/kgcl
    rank: 1000
    alias: object_type
    owner: EdgeObsoletion
    domain_of:
    - EdgeChange
    - EdgeCreation
    - EdgeDeletion
    range: string
  language:
    name: language
    description: The language tag of a literal
    from_schema: https://w3id.org/kgcl
    rank: 1000
    alias: language
    owner: EdgeObsoletion
    domain_of:
    - EdgeChange
    - NodeChange
    - NewSynonym
    - NodeCreation
    range: LanguageTag
  datatype:
    name: datatype
    description: The datatype of a literal
    from_schema: https://w3id.org/kgcl
    rank: 1000
    alias: datatype
    owner: EdgeObsoletion
    domain_of:
    - EdgeChange
    range: string
  old_value:
    name: old_value
    description: The value of a property held in the old instance of the ontology
    from_schema: https://w3id.org/kgcl
    rank: 1000
    alias: old_value
    owner: EdgeObsoletion
    domain_of:
    - SimpleChange
    - ChangeMixin
    - NodeRename
    - SetLanguageForName
    - RemoveSynonym
    - SynonymReplacement
    - SynonymPredicateChange
    - MappingReplacement
    - MappingPredicateChange
    - MetadataAssertionReplacement
    - MetadataAssertionPredicateChange
    - RemoveTextDefinition
    - TextDefinitionReplacement
    range: string
  new_value:
    name: new_value
    description: The value of a property held in the new instance of the ontology
    from_schema: https://w3id.org/kgcl
    rank: 1000
    alias: new_value
    owner: EdgeObsoletion
    domain_of:
    - SimpleChange
    - ChangeMixin
    - NodeRename
    - SetLanguageForName
    - NewSynonym
    - SynonymReplacement
    - SynonymPredicateChange
    - MappingReplacement
    - MappingPredicateChange
    - MetadataAssertionReplacement
    - MetadataAssertionPredicateChange
    - NewTextDefinition
    - TextDefinitionReplacement
    range: string
  old_value_type:
    name: old_value_type
    description: The type (IRI or Literal) of an old value
    deprecated: no longer required
    from_schema: https://w3id.org/kgcl
    rank: 1000
    alias: old_value_type
    owner: EdgeObsoletion
    domain_of:
    - SimpleChange
    range: string
  new_value_type:
    name: new_value_type
    description: The type (IRI or Literal) of a new value
    deprecated: no longer required
    from_schema: https://w3id.org/kgcl
    rank: 1000
    alias: new_value_type
    owner: EdgeObsoletion
    domain_of:
    - SimpleChange
    range: string
  new_language:
    name: new_language
    description: The new language tag of a literal
    from_schema: https://w3id.org/kgcl
    rank: 1000
    alias: new_language
    owner: EdgeObsoletion
    domain_of:
    - SimpleChange
    - NodeRename
    range: string
  old_language:
    name: old_language
    description: The old language tag of a literal
    from_schema: https://w3id.org/kgcl
    rank: 1000
    alias: old_language
    owner: EdgeObsoletion
    domain_of:
    - SimpleChange
    - NodeRename
    range: string
  new_datatype:
    name: new_datatype
    description: The new datatype of a literal
    from_schema: https://w3id.org/kgcl
    rank: 1000
    alias: new_datatype
    owner: EdgeObsoletion
    domain_of:
    - SimpleChange
    range: string
  old_datatype:
    name: old_datatype
    description: The old datatype of a literal
    from_schema: https://w3id.org/kgcl
    rank: 1000
    alias: old_datatype
    owner: EdgeObsoletion
    domain_of:
    - SimpleChange
    range: string
  id:
    name: id
    from_schema: https://w3id.org/kgcl
    rank: 1000
    identifier: true
    alias: id
    owner: EdgeObsoletion
    domain_of:
    - Change
    - Node
    - Activity
    - Agent
    range: string
    required: true
  type:
    name: type
    from_schema: https://w3id.org/kgcl
    rank: 1000
    slot_uri: rdf:type
    designates_type: true
    alias: type
    owner: EdgeObsoletion
    domain_of:
    - Change
    range: string
  was_generated_by:
    name: was_generated_by
    comments:
    - we use the PROV model to represent the agent making a change
    from_schema: https://w3id.org/kgcl
    rank: 1000
    slot_uri: prov:wasGeneratedBy
    alias: was_generated_by
    owner: EdgeObsoletion
    domain_of:
    - Change
    range: Activity
  see_also:
    name: see_also
    comments:
    - If this change is in relationship to an issue on a system like github, include
      the URL here
    from_schema: https://w3id.org/kgcl
    rank: 1000
    slot_uri: rdfs:seeAlso
    alias: see_also
    owner: EdgeObsoletion
    domain_of:
    - Change
    range: string
  pull_request:
    name: pull_request
    comments:
    - If this change has a pull request on a system like github, include the URL here
    from_schema: https://w3id.org/kgcl
    rank: 1000
    alias: pull_request
    owner: EdgeObsoletion
    domain_of:
    - Change
    range: string
  term_tracker_issue:
    name: term_tracker_issue
    comments:
    - If this change has an issue on a system like github, include the URL here
    from_schema: https://w3id.org/kgcl
    exact_mappings:
    - IAO:0000233
    rank: 1000
    alias: term_tracker_issue
    owner: EdgeObsoletion
    domain_of:
    - Change
    range: string
  creator:
    name: creator
    comments:
    - This should be the composition of 'was generated by' and 'was associated with'
    from_schema: https://w3id.org/kgcl
    rank: 1000
    slot_uri: dcterms:creator
    alias: creator
    owner: EdgeObsoletion
    domain_of:
    - Change
    range: string
  change_date:
    name: change_date
    comments:
    - This should be the composition of 'was generated by' and 'ended at time'
    from_schema: https://w3id.org/kgcl
    rank: 1000
    slot_uri: dcterms:date
    alias: change_date
    owner: EdgeObsoletion
    domain_of:
    - Change
    range: string
  contributor:
    name: contributor
    from_schema: https://w3id.org/kgcl
    rank: 1000
    slot_uri: dcterms:creator
    alias: contributor
    owner: EdgeObsoletion
    domain_of:
    - Change
    range: string
  has_undo:
    name: has_undo
    description: A change that reverses this change
    from_schema: https://w3id.org/kgcl
    rank: 1000
    domain: Change
    alias: has_undo
    owner: EdgeObsoletion
    domain_of:
    - Change
    - ChangeMixin
    range: Obsoletion
    multivalued: false
  change_description:
    name: change_description
    description: A string serialization of the change. This should be both human-readable,
      and parseable.
    comments:
    - '{''Form 1'': ''IRIs are denoted by CURIEs, optionally followed by label in
      parenthesis''}'
    - '{''Form 2'': "IRIs are denoted by the rdfs:label in single quotes, e.g. ''nervous
      system''"}'
    examples:
    - value: rename UBERON:0002398 from 'manus' to 'hand'
    - value: move 'hand' from 'part of' 'hindlimb' to 'part of' 'forelimb'
    - value: merge 'cellular metabolic process' into 'metabolic process'
    - value: search and replace 'metabolic process' with 'metabolism' in all labels
        under 'biological process'
    - value: search and replace 'metabolic process' with 'metabolism' in all labels
        under 'biological process' retaining as 'exact synonym'
    from_schema: https://w3id.org/kgcl
    rank: 1000
    string_serialization: obsolete edge {edge.subject} {edge.predicate} {edge.object}
    alias: change_description
    owner: EdgeObsoletion
    domain_of:
    - Change
    range: string
  associated_change_set:
    name: associated_change_set
    description: 'All changes forced as a result of this obsoletion. For example,
      starting with `A subClassOf B subClassOf C`, if we obsolete node B, then we
      may decide to bundle in a node move change of A from B to C. Note: this change
      set is not considered a part of the obsoletion, as obsoletion is considered
      atomic/simple. Instead this is a reference to a change set that may exist elsewhere'
    from_schema: https://w3id.org/kgcl
    rank: 1000
    is_a: change_set
    alias: associated_change_set
    owner: EdgeObsoletion
    domain_of:
    - Change
    range: Change
    multivalued: true
    inlined: true
    inlined_as_list: true
  about:
    name: about
    description: The element that is obsoleted by this change.
    from_schema: https://w3id.org/kgcl
    rank: 1000
    alias: about
    owner: EdgeObsoletion
    domain_of:
    - ChangeMixin
    range: OntologyElement
    multivalued: false