person_and_qualified_identifier_sets_data.yaml

person_set:
  - id: example:ck1
    name: Clark Kent
    primary_email: clark.kent@example.com
    age_in_years: 33
  - id: example:superman1
    name: Superman
    primary_email: superman@example.com
    age_in_years: 33
  - id: example:kalel1
    name: Kal-El
    primary_email: kal-el@example.com
    age_in_years: 33
qualified_identifier__set:
  - maps_from: example:ck1
    maps_to: example:superman1
    provenance: related
    assertion_date: '2021-09-15'
  - maps_from: example:ck1
    maps_to: example:kalel1
    provenance: alternative
    assertion_date: '2024-01-01'

qualified_identifier_collection_schema.yaml

name: qualified_identifier_collection_schema

id: http://example.com/qualified_identifier_collection_schema

prefixes:
  qualified_identifier_collection_schema: http://example.com/qualified_identifier_collection_schema/
  linkml: https://w3id.org/linkml/
  example: https://example.org/
  PATO: http://purl.obolibrary.org/obo/PATO_
  xsd: http://www.w3.org/2001/XMLSchema#
  shex: http://www.w3.org/ns/shex#
  schema: http://schema.org/

imports:
  - linkml:types

default_prefix: qualified_identifier_collection_schema
default_range: string

enums:
  PersonStatus:
    permissible_values:
      ALIVE:
        description: the person is living
        meaning: PATO:0001421
      DEAD:
        description: the person is deceased
        meaning: PATO:0001422
      UNKNOWN:
        description: the vital status is not known
        todos:
        - map this to an ontology
slots:
  maps_from:
    description: The identifier for something in the NMDC database
    range: uriorcurie
  maps_to:
    description: The identifier for something in an external system that has a near-equivalence relation with somehting in the NMDC database
    range: uriorcurie
  provenance:
    description: comments about whether the mapping is 1:1 (from NMDC to the external
      system), many:1, 1:many, or many:many. - would we ever assert a many:many mapping?
      - use an enumeration and add some other comment-like string field?
    range: string
  assertion_date:
    description: A string representation of an ISO-8601 data when the mapping was
      asserted.
    comments:
    - provide a pattern? see if date/time objects work in LinkML now?
    range: string
  id:
    description: A unique identifier for a thing
    slot_uri: schema:identifier
    identifier: true
    range: uriorcurie
  name:
    description: A human-readable name for a thing
    slot_uri: schema:name
  description:
    description: A human-readable description for a thing
    slot_uri: schema:description
  primary_email:
    description: The main email address of a person
    slot_uri: schema:email
  birth_date:
    description: Date on which a person is born
    slot_uri: schema:birthDate
    range: date
  age_in_years:
    description: Number of years since birth
    range: integer
  vital_status:
    description: living or dead status
    range: PersonStatus
classes:
  NamedThing:
    description: A generic grouping for any identifiable entity
    slots:
    - id
    - name
    - description
    class_uri: schema:Thing
  Person:
    description: Represents a Person
    is_a: NamedThing
    slots:
    - primary_email
    - birth_date
    - age_in_years
    - vital_status
    slot_usage:
      primary_email:
        name: primary_email
        pattern: ^\S+@[\S+\.]+\S+
  Database:
    attributes:
      person_set:
        multivalued: true
        range: Person
        inlined: true
        inlined_as_list: true
      qualified_identifier__set:
        multivalued: true
        range: QualifiedIdentifier
        inlined: true
        inlined_as_list: true
    tree_root: true
  QualifiedIdentifier:
    description: A non-NMDC identifier for something that is also present in the NMDC
      database. Provides support for saying when the identifier was asserted and assessments
      about the quality of the identifier.
    slots:
    - maps_from
    - maps_to
    - provenance
    - assertion_date
    class_uri: linkml:QualifiedIdentifier