All internal entity lookups now use bigserial primary keys (int64) while
GUIDs are retained for external/public identification. Updated store
functions (TouchProject, UpdateThoughtMetadata, AddThoughtAttachment) to
query by id instead of guid, added GetThoughtByID, changed semanticSearch
and all tool helpers to use *int64 project IDs, and updated retry/backfill
workers to use int64 thought IDs throughout.
* Update project creation and retrieval to use generated models
* Modify skill addition and listing to utilize generated models
* Refactor thought handling to incorporate generated models
* Adjust tool annotations to align with new model structure
* Update API calls in the UI to use new ResolveSpec-based endpoints
* Enhance stats retrieval logic to aggregate thought metadata
