- Introduced `is_or_was_created_through` slot to indicate content creation methods, replacing previous boolean flags.
- Added `is_or_was_required` slot for generic temporal boolean requirements, aligning with Schema.org.
- Created `AutoGeneration` class to represent automatic content generation, capturing methods and provenance.
- Established `AvailabilityStatus` class to model resource availability with temporal validity.
- Developed `Documentation` class for structured documentation resources, replacing domain-specific slots.
- Implemented `Taxon` class for biological classification in natural history collections.
- Archived previous slots related to API availability and documentation, ensuring a clean schema.
- Enhanced existing slots with detailed descriptions and examples for clarity and usability.
- Removed deprecated slots: appraisal_notes, branch_id, is_or_was_real.
- Introduced new slots: has_or_had_notes, has_or_had_provenance.
- Created Notes class to encapsulate note-related metadata.
- Archived removed slots and classes in accordance with the new archive folder convention.
- Updated slot_fixes.yaml to reflect migration status and details.
- Enhanced documentation for new slots and classes, ensuring compliance with ontology alignment.
- Added new slots for note content, date, and type to support the Notes class.
- Added Overview class to represent structured collections of web links, including detailed descriptions, examples, and ontology alignments.
- Introduced RealnessStatus class to classify data as real or synthetic, with rich provenance and temporal semantics.
- Created WebLink class for representing hyperlinks with associated metadata, enhancing structured link representation.
- Established new slots: has_or_had_comprehensive_overview, is_or_was_real, and includes_or_included to support the new classes and improve data modeling.
- Migrated existing slots to new structures, ensuring compliance with RiC-O naming conventions and enhancing specificity.
- Updated annotations and examples across all new classes and slots for clarity and usability.
- Deleted the program_expense slot from the schema.
- Updated slot_fixes.yaml to reflect the migration of administrative_expenses, marking it as fully migrated and archiving related bespoke slots.
- Created archived YAML files for administrative_expenses, fundraising_expense, has_or_had_administrative_expense, innovation_expense, and program_expense, documenting their structure and descriptions.
- All expense types now utilize the Expenses class with ExpenseTypeEnum classification for better organization and clarity.
- accepts_or_accepted_external_work: Remove verbose examples list
- accepts_or_accepted_payment_method: Condense to single sentence
- accepts_or_accepted_visiting_scholar: Minor rewording for consistency
- Create .opencode/rules/no-duplicate-ontology-mappings.md with detection script
- Add Rule 52 to AGENTS.md (after Rule 51)
- Fix 29 duplicate mappings: same URI in multiple mapping categories
- 26 slot files: remove duplicates keeping most precise mapping
- 3 class files: ExhibitionSpace, Custodian, DigitalPlatform
- Mapping precedence: exact > close > narrow/broad > related
Each ontology URI must appear in only ONE mapping category per schema
element, following SKOS semantics where mapping properties are mutually
exclusive.
- Introduced SoundArchiveRecordSetType, SpecialCollectionRecordSetType, SpecializedArchiveRecordSetType, SpecializedArchivesCzechiaRecordSetType, StateArchivesRecordSetType, StateArchivesSectionRecordSetType, StateDistrictArchiveRecordSetType, StateRegionalArchiveCzechiaRecordSetType, TelevisionArchiveRecordSetType, TradeUnionArchiveRecordSetType, UniversityArchiveRecordSetType, VereinsarchivRecordSetType, VerlagsarchivRecordSetType, VerwaltungsarchivRecordSetType, WebArchiveRecordSetType, and WomensArchivesRecordSetType.
- Each new type includes appropriate metadata, slots, and relationships to existing classes.
- Implemented a script to detect and fix Type class violations in LinkML files.
- Remove inline slot definitions from 144 class files
- Create 7 new centralized slot files in modules/slots/:
- custodian_type_broader.yaml
- custodian_type_narrower.yaml
- custodian_type_related.yaml
- definition.yaml
- finding_aid_access_restriction.yaml
- finding_aid_description.yaml
- finding_aid_temporal_coverage.yaml
- Add centralize_inline_slots.py automation script
- Update manifest with new timestamp
Rule 48: Class files must NOT define inline slots - all slots
must be imported from modules/slots/ directory.
Note: Pre-existing IdentifierFormat duplicate class definition
(in Standard.yaml and IdentifierFormat.yaml) not addressed in
this commit - requires separate schema refactor.
- Introduced EnvironmentalZoneTypeEnum.yaml to classify climate-controlled storage zones with detailed descriptions and recommended conditions for various materials.
- Created slots for environmental zone type code, description, ID, label, and HC preset URI to facilitate structured data representation.
- Implemented boolean slots for specific environmental requirements including dark storage, dust-free environment, ESD protection, and UV filtering, referencing relevant ISO standards.
- Enhanced documentation for each slot to clarify usage and preservation context.
The old enum was properly archived to modules/enums/archive/ with .deprecated
suffix per Rule 9, but the manifest wasn't regenerated. Now correctly shows
only AnnotationMotivationType.yaml and AnnotationMotivationTypes.yaml.
Track full lineage of RAG responses: WHERE data comes from, WHEN it was
retrieved, HOW it was processed (SPARQL/vector/LLM).
Backend changes:
- Add provenance.py with EpistemicProvenance, DataTier, SourceAttribution
- Integrate provenance into MultiSourceRetriever.merge_results()
- Return epistemic_provenance in DSPyQueryResponse
Frontend changes:
- Pass EpistemicProvenance through useMultiDatabaseRAG hook
- Display provenance in ConversationPage (for cache transparency)
Schema fixes:
- Fix truncated example in has_observation.yaml slot definition
References:
- Pavlyshyn's Context Graphs and Data Traces paper
- LinkML ProvenanceBlock schema pattern
Apply same RiC-O-style slot naming refactor to /schemas/20251121/linkml/
that was previously applied to frontend/public/schemas/:
- Add 'has_' prefix for possession predicates
- Add 'is_or_was_' prefix for temporal inverse relationships
- Add 'has_or_had_' for bidirectional temporal relations
- Add new slots: is_or_was_aggregated_by, is_or_was_allocated_by, etc.
- Update count slots with proper descriptions
This ensures consistency between the source schema directory and the
frontend-served schemas.
514 files changed, +6,325 insertions, -4,255 deletions
- Migrate 236+ class files from custodian_types to has_or_had_custodian_type
- Archive deprecated slots: custodian_type, custodian_types, custodian_type_broader/narrower/related
- Update main schema and manifest imports
- Fix Custodian.yaml class to use new slot
- Fix annotation format (list→scalar) in has_or_had_custodian_type.yaml
Rules applied:
- Rule 39: RiC-O naming convention (hasOrHad pattern)
- Rule 43: Slot nouns must be singular (multivalued:true for cardinality)
- Rule 38: Slot centralization with semantic URI
Clean up old generated RDF/OWL files that have been superseded by
the clean schema deployed to Oxigraph (commit f8421a2903).
Only the current deployed schema should be regenerated as needed.
- Remove deprecated CustodianTypeCodeEnum from class_metadata_slots.yaml
- Update custodian_types slot to use uriorcurie range (references CustodianType subclasses)
- Update custodian_types_primary slot similarly
- Add migration note for legacy string format ['A'] vs new URI format
Per Rule 9: Enum-to-Class Promotion - Single Source of Truth
