fix(linkml): correct invalid ontology property references in slot definitions

- confidence_score: prov:confidence doesn't exist → hc:confidenceScore
- deliverables: schema:result doesn't exist → hc:deliverables
- circumstances_of_death: wikidata:P1196 is identifier, not predicate → hc:circumstancesOfDeath
- deceased: schema:deathDate wrong semantics for boolean → hc:deceased
- death_place: fix sdo prefix to schema, remove wd:P20 as exact mapping
- date_of_death: wikidata:P570 is identifier, not predicate
- martyred: correct prefix inconsistencies
- given_name/literal_name: fix sdo→schema prefix
- occupation/religion/status: standardize prefix declarations

Add comments documenting why Wikidata properties (P-numbers) cannot be
used as slot_uri (they are entity identifiers, not RDF predicates).

schemas/20251121/linkml/modules/slots/circumstances_of_death.yaml

@@ -4,13 +4,13 @@ title: Circumstances of Death Slot
 prefixes:
   schema: http://schema.org/
   dcterms: http://purl.org/dc/terms/
-  wd: http://www.wikidata.org/entity/
+  hc: https://nde.nl/ontology/hc/
 imports:
 - linkml:types
 - ../metadata
 slots:
   circumstances_of_death:
-    slot_uri: wikidata:P1196
+    slot_uri: hc:circumstancesOfDeath
     description: "Textual description of the circumstances surrounding a staff member's death.\n\n**Purpose**:\nProvides narrative\
       \ context for how and why the person died, particularly\nimportant for documenting:\n- Heritage workers killed during\
       \ conflicts\n- Targeted attacks on cultural institutions\n- Occupational hazards and accidents\n- Historical context\
@@ -22,13 +22,12 @@ slots:
       \ standards for reporting deaths\n"
     range: string
     required: false
-    exact_mappings:
-    - wikidata:P1196
     related_mappings:
     - schema:description
     comments:
     - Provide factual, respectful descriptions
     - Include source documentation
     - Particularly important for martyred individuals
+    - Wikidata property P1196 (manner of death) is semantically equivalent but is an identifier, not an RDF predicate
     broad_mappings:
-    - dcterms:relation
+    - dcterms:description

schemas/20251121/linkml/modules/slots/confidence_score.yaml

@@ -1,13 +1,19 @@
 id: https://nde.nl/ontology/hc/slot/confidence_score
 name: confidence_score_slot
+prefixes:
+  hc: https://nde.nl/ontology/hc/
+  prov: http://www.w3.org/ns/prov#
 slots:
   confidence_score:
-    slot_uri: prov:confidence
+    slot_uri: hc:confidenceScore
     range: float
     minimum_value: 0.0
     maximum_value: 1.0
-    description: Confidence in observation accuracy (0.0 = uncertain, 1.0 = certain)
+    description: >-
+      Confidence in observation accuracy (0.0 = uncertain, 1.0 = certain).
+      A domain-specific measure of data quality or extraction confidence.
     related_mappings:
     - prov:value
-    broad_mappings:
+    comments:
-    - prov:value
+    - prov:confidence does not exist as a PROV-O predicate
+    - Use prov:value for generic value assertions in PROV-O context

schemas/20251121/linkml/modules/slots/date_of_death.yaml

@@ -27,11 +27,10 @@ slots:
     required: false
     exact_mappings:
     - schema:deathDate
-    - wikidata:P570
     comments:
     - Only populate when deceased is true
     - Use TimeSpan to handle date uncertainty
     - Combine with circumstances_of_death for context
+    - Wikidata property P570 is semantically equivalent but is an identifier, not an RDF predicate
     broad_mappings:
     - dcterms:date
-    - dcterms:relation

schemas/20251121/linkml/modules/slots/death_place.yaml

@@ -2,16 +2,16 @@ id: https://nde.nl/ontology/hc/slot/death_place
 name: death_place_slot
 title: Death Place Slot
 prefixes:
-  sdo: https://schema.org/
+  schema: http://schema.org/
   pico: https://personsincontext.org/model#
   crm: http://www.cidoc-crm.org/cidoc-crm/
-  wd: http://www.wikidata.org/entity/
   geonames: http://sws.geonames.org/
+  hc: https://nde.nl/ontology/hc/
 imports:
 - linkml:types
 slots:
   death_place:
-    slot_uri: sdo:deathPlace
+    slot_uri: schema:deathPlace
     description: 'The place where a person died.
 
 
@@ -177,8 +177,6 @@ slots:
     range: string
     required: false
     exact_mappings:
-    - sdo:deathPlace
-    - wikidata:P20
     - schema:deathPlace
     close_mappings:
     - crm:P7_took_place_at
@@ -188,3 +186,4 @@ slots:
     - Handle conflict zones and approximate locations gracefully
     - Only populate when deceased is true
     - Use circumstances_of_death for context when location is approximate
+    - Wikidata property P20 is semantically equivalent but is an identifier, not an RDF predicate

schemas/20251121/linkml/modules/slots/deceased.yaml

@@ -12,7 +12,7 @@ title: Deceased Slot
 prefixes:
   schema: http://schema.org/
   dcterms: http://purl.org/dc/terms/
-  wd: http://www.wikidata.org/entity/
+  hc: https://nde.nl/ontology/hc/
 
 imports:
   - linkml:types
@@ -20,7 +20,7 @@ imports:
 
 slots:
   deceased:
-    slot_uri: schema:deathDate
+    slot_uri: hc:deceased
     description: |-
       Boolean flag indicating whether this staff member is deceased.
 
@@ -44,11 +44,10 @@ slots:
     range: boolean
     required: false
     ifabsent: "false"
-    exact_mappings:
-      - schema:deathDate
     related_mappings:
-      - wikidata:P570
+      - schema:deathDate
     comments:
       - "Use TimeSpan (date_of_death) to document when death occurred"
       - "martyred: true implies deceased: true"
       - "Privacy considerations apply for recently deceased individuals"
+      - "Wikidata property P570 is semantically related but is an identifier, not an RDF predicate"

schemas/20251121/linkml/modules/slots/deliverables.yaml

@@ -4,19 +4,24 @@ prefixes:
   linkml: https://w3id.org/linkml/
   hc: https://nde.nl/ontology/hc/
   schema: http://schema.org/
+  prov: http://www.w3.org/ns/prov#
 imports:
 - linkml:types
 default_range: string
 slots:
   deliverables:
-    slot_uri: schema:result
+    slot_uri: hc:deliverables
-    description: "Expected or achieved deliverable outputs from a project or activity.\n\nSchema.org: result - \"The result\
+    description: >-
-      \ produced in the action.\"\n\nMay be URLs, document references, or textual descriptions of \noutcomes from heritage\
+      Expected or achieved deliverable outputs from a project or activity.
-      \ projects, digitization initiatives, or\nresearch activities.\n"
+      May be URLs, document references, or textual descriptions of 
+      outcomes from heritage projects, digitization initiatives, or
+      research activities.
     range: string
     multivalued: true
     close_mappings:
     - schema:workExample
-    - schema:result
     related_mappings:
     - prov:generated
+    comments:
+    - schema:result does not exist as a Schema.org property
+    - Use prov:generated for outputs generated by activities in PROV-O context

schemas/20251121/linkml/modules/slots/given_name.yaml

@@ -3,7 +3,8 @@ name: given_name
 title: Given Name
 prefixes:
   pnv: https://w3id.org/pnv#
-  sdo: https://schema.org/
+  schema: http://schema.org/
+  foaf: http://xmlns.com/foaf/0.1/
 imports:
 - linkml:types
 slots:
@@ -54,7 +55,6 @@ slots:
     - pnv:givenName
     - schema:givenName
     close_mappings:
-    - sdo:givenName
     - foaf:firstName
     related_mappings:
     - foaf:givenName

schemas/20251121/linkml/modules/slots/literal_name.yaml

@@ -4,6 +4,8 @@ title: Literal Name
 
 prefixes:
   pnv: https://w3id.org/pnv#
+  schema: http://schema.org/
+  foaf: http://xmlns.com/foaf/0.1/
 
 imports:
   - linkml:types
@@ -38,5 +40,5 @@ slots:
       - pnv:literalName
     close_mappings:
       - foaf:name
-      - sdo:name
+      - schema:name
       - rdfs:label

schemas/20251121/linkml/modules/slots/martyred.yaml

@@ -16,7 +16,7 @@ title: Martyred Slot
 prefixes:
   schema: http://schema.org/
   dcterms: http://purl.org/dc/terms/
-  wd: http://www.wikidata.org/entity/
+  hc: https://nde.nl/ontology/hc/
 
 imports:
   - linkml:types
@@ -24,7 +24,7 @@ imports:
 
 slots:
   martyred:
-    slot_uri: wikidata:P1196
+    slot_uri: hc:martyred
     description: |
       Boolean flag indicating whether this staff member was martyred (killed as a result
       of conflict, persecution, or targeted violence against heritage institutions).
@@ -59,11 +59,10 @@ slots:
     range: boolean
     required: false
     ifabsent: "false"
-    exact_mappings:
-      - wikidata:P1196
     related_mappings:
       - schema:deathDate
     comments:
       - "Martyred implies deceased - if martyred is true, deceased should also be true"
       - "Requires supporting documentation and provenance"
       - "Use TimeSpan for date_of_death to handle uncertainty in conflict situations"
+      - "Wikidata property P1196 (manner of death) is semantically related but is an identifier, not an RDF predicate"

schemas/20251121/linkml/modules/slots/occupation.yaml

@@ -9,16 +9,16 @@ name: occupation_slot
 title: Occupation Slot
 
 prefixes:
-  sdo: https://schema.org/
+  schema: http://schema.org/
   pico: https://personsincontext.org/model#
-  wd: http://www.wikidata.org/entity/
+  hc: https://nde.nl/ontology/hc/
 
 imports:
   - linkml:types
 
 slots:
   occupation:
-    slot_uri: sdo:hasOccupation
+    slot_uri: schema:hasOccupation
     description: |
       The occupational title or profession of a person as mentioned in the source.
       
@@ -128,10 +128,10 @@ slots:
     required: false
     multivalued: true
     exact_mappings:
-      - sdo:hasOccupation
+      - schema:hasOccupation
-      - wikidata:P106
     comments:
       - "Record occupation as mentioned in source"
       - "Prefer thesaurus links when possible"
       - "Preserve historical/vernacular occupation terms"
       - "Use staff_role for heritage institution positions"
+      - "Wikidata property P106 is semantically equivalent but is an identifier, not an RDF predicate"

schemas/20251121/linkml/modules/slots/religion.yaml

@@ -10,8 +10,8 @@ title: Religion Slot
 
 prefixes:
   pico: https://personsincontext.org/model#
-  sdo: https://schema.org/
+  schema: http://schema.org/
-  wd: http://www.wikidata.org/entity/
+  hc: https://nde.nl/ontology/hc/
 
 imports:
   - linkml:types
@@ -128,9 +128,9 @@ slots:
     required: false
     exact_mappings:
       - pico:hasReligion
-      - wikidata:P140
     comments:
       - "Record religion as mentioned in source"
       - "Prefer Wikidata links for standardization"
       - "Sensitive data - follow privacy regulations"
       - "Use separate observations for temporal changes"
+      - "Wikidata property P140 is semantically equivalent but is an identifier, not an RDF predicate"

schemas/20251121/linkml/modules/slots/status.yaml

@@ -3,18 +3,18 @@ name: status_slot
 prefixes:
   linkml: https://w3id.org/linkml/
   hc: https://nde.nl/ontology/hc/
-  schema: http://schema.org/
+  adms: http://www.w3.org/ns/adms#
 imports:
 - linkml:types
 default_range: string
 slots:
   status:
-    description: 'Current status of an entity, activity, or process.
+    description: >-
-
+      Current status of an entity, activity, or process.
-      '
+    slot_uri: hc:status
-    slot_uri: schema:status
     range: string
     exact_mappings:
-    - schema:status
-    close_mappings:
     - adms:status
+    comments:
+    - schema:status does not exist as a Schema.org property
+    - Use ADMS status vocabulary for interoperability with EU data standards