- Added `id`, `name`, `title`, and `description` fields to multiple LinkML class YAML files.
- Standardized prefixes across all class definitions.
- Introduced a new script `fix_linkml_metadata.py` to automate the addition of metadata to class files.
- Updated existing class files to ensure compliance with the new metadata structure.
- Added `fix_dual_class_link.py` to remove dual class link references from specified YAML files.
- Created `fix_specific_ghosts.py` to apply specific replacements in YAML files based on defined mappings.
- Introduced `migrate_staff_count.py` to migrate staff count references to a new structure in specified YAML files.
- Developed `migrate_type_slots.py` to replace type-related slots with new identifiers across YAML files.
- Implemented `scan_ghost_references.py` to identify and report ghost references to archived slots and classes in YAML files.
- Added `verify_ontology_terms.py` to verify the presence of ontology terms in specified ontology files against schema definitions.
