Class: NodeDeletion
Deletion of a node from the graph. Note it is recommended nodes are obsoleted and never merged, but this operation exists to represent deletions in ontologies, accidental or otherwise
URI: kgcl:NodeDeletion
classDiagram
class NodeDeletion
click NodeDeletion href "../NodeDeletion"
Deletion <|-- NodeDeletion
click Deletion href "../Deletion"
NodeChange <|-- NodeDeletion
click NodeChange href "../NodeChange"
NodeDeletion : about
NodeDeletion --> "0..1" OntologyElement : about
click OntologyElement href "../OntologyElement"
NodeDeletion : about_node
NodeDeletion --> "0..1" Node : about_node
click Node href "../Node"
NodeDeletion : about_node_representation
NodeDeletion : associated_change_set
NodeDeletion --> "*" Change : associated_change_set
click Change href "../Change"
NodeDeletion : change_date
NodeDeletion : change_description
NodeDeletion : contributor
NodeDeletion : creator
NodeDeletion : has_undo
NodeDeletion --> "0..1" Change : has_undo
click Change href "../Change"
NodeDeletion : id
NodeDeletion : language
NodeDeletion : new_datatype
NodeDeletion : new_language
NodeDeletion : new_value
NodeDeletion : new_value_type
NodeDeletion : old_datatype
NodeDeletion : old_language
NodeDeletion : old_value
NodeDeletion : old_value_type
NodeDeletion : pull_request
NodeDeletion : see_also
NodeDeletion : term_tracker_issue
NodeDeletion : type
NodeDeletion : was_generated_by
NodeDeletion --> "0..1" Activity : was_generated_by
click Activity href "../Activity"
Inheritance
- ChangeLanguageElement
- Change
- SimpleChange
- NodeChange
- NodeDeletion [ Deletion]
- NodeChange
- SimpleChange
- Change
Slots
Name | Cardinality and Range | Description | Inheritance |
---|---|---|---|
about_node | 0..1 Node |
NodeChange | |
about_node_representation | 0..1 String |
The representation of a node (URI, CURIE, label) | NodeChange |
language | 0..1 LanguageTag |
The language tag of a literal | NodeChange |
old_value | 0..1 String |
The value of a property held in the old instance of the ontology | ChangeMixin, SimpleChange |
new_value | 0..1 String |
The value of a property held in the new instance of the ontology | ChangeMixin, SimpleChange |
old_value_type | 0..1 String |
The type (IRI or Literal) of an old value | SimpleChange |
new_value_type | 0..1 String |
The type (IRI or Literal) of a new value | SimpleChange |
new_language | 0..1 String |
The new language tag of a literal | SimpleChange |
old_language | 0..1 String |
The old language tag of a literal | SimpleChange |
new_datatype | 0..1 String |
The new datatype of a literal | SimpleChange |
old_datatype | 0..1 String |
The old datatype of a literal | SimpleChange |
id | 1 String |
Change | |
type | 0..1 String |
Change | |
was_generated_by | 0..1 Activity |
Change | |
see_also | 0..1 String |
Change | |
pull_request | 0..1 String |
Change | |
term_tracker_issue | 0..1 String |
Change | |
creator | 0..1 String |
Change | |
change_date | 0..1 String |
Change | |
contributor | 0..1 String |
Change | |
has_undo | 0..1 Change |
A change that reverses this change | ChangeMixin, Change |
change_description | 0..1 String |
A string serialization of the change | Change |
associated_change_set | * Change |
All changes forced as a result of this obsoletion | Change |
about | 0..1 OntologyElement |
The 'focus' entity on which the change operates | ChangeMixin |
Identifier and Mapping Information
Schema Source
- from schema: https://w3id.org/kgcl
Mappings
Mapping Type | Mapped Value |
---|---|
self | kgcl:NodeDeletion |
native | kgcl:NodeDeletion |
LinkML Source
Direct
name: NodeDeletion
description: Deletion of a node from the graph. Note it is recommended nodes are obsoleted
and never merged, but this operation exists to represent deletions in ontologies,
accidental or otherwise
from_schema: https://w3id.org/kgcl
is_a: NodeChange
mixins:
- Deletion
slot_usage:
change_description:
name: change_description
string_serialization: delete {about_node}
Induced
name: NodeDeletion
description: Deletion of a node from the graph. Note it is recommended nodes are obsoleted
and never merged, but this operation exists to represent deletions in ontologies,
accidental or otherwise
from_schema: https://w3id.org/kgcl
is_a: NodeChange
mixins:
- Deletion
slot_usage:
change_description:
name: change_description
string_serialization: delete {about_node}
attributes:
about_node:
name: about_node
from_schema: https://w3id.org/kgcl
rank: 1000
is_a: about
alias: about_node
owner: NodeDeletion
domain_of:
- NodeChange
range: Node
multivalued: false
about_node_representation:
name: about_node_representation
description: 'The representation of a node (URI, CURIE, label) '
deprecated: no longer required
from_schema: https://w3id.org/kgcl
rank: 1000
alias: about_node_representation
owner: NodeDeletion
domain_of:
- NodeChange
range: string
language:
name: language
description: The language tag of a literal
from_schema: https://w3id.org/kgcl
rank: 1000
alias: language
owner: NodeDeletion
domain_of:
- EdgeChange
- NodeChange
- NewSynonym
- NodeCreation
range: LanguageTag
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: NodeDeletion
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: NodeDeletion
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: NodeDeletion
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: NodeDeletion
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: NodeDeletion
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: NodeDeletion
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: NodeDeletion
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: NodeDeletion
domain_of:
- SimpleChange
range: string
id:
name: id
from_schema: https://w3id.org/kgcl
rank: 1000
identifier: true
alias: id
owner: NodeDeletion
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: NodeDeletion
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: NodeDeletion
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: NodeDeletion
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: NodeDeletion
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: NodeDeletion
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: NodeDeletion
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: NodeDeletion
domain_of:
- Change
range: string
contributor:
name: contributor
from_schema: https://w3id.org/kgcl
rank: 1000
slot_uri: dcterms:creator
alias: contributor
owner: NodeDeletion
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: NodeDeletion
domain_of:
- Change
- ChangeMixin
range: Change
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: delete {about_node}
alias: change_description
owner: NodeDeletion
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: NodeDeletion
domain_of:
- Change
range: Change
multivalued: true
inlined: true
inlined_as_list: true
about:
name: about
description: The 'focus' entity on which the change operates
from_schema: https://w3id.org/kgcl
rank: 1000
alias: about
owner: NodeDeletion
domain_of:
- ChangeMixin
range: OntologyElement
multivalued: false