Subgraph provenance (#694)

Replace per-triple provenance reification with subgraph model

Extraction provenance previously created a full reification (statement
URI, activity, agent) for every single extracted triple, producing ~13
provenance triples per knowledge triple.  Since each chunk is processed
by a single LLM call, this was both redundant and semantically
inaccurate.

Now one subgraph object is created per chunk extraction, with
tg:contains linking to each extracted triple.  For 20 extractions from
a chunk this reduces provenance from ~260 triples to ~33.

- Rename tg:reifies -> tg:contains, stmt_uri -> subgraph_uri
- Replace triple_provenance_triples() with subgraph_provenance_triples()
- Refactor kg-extract-definitions and kg-extract-relationships to
  generate provenance once per chunk instead of per triple
- Add subgraph provenance to kg-extract-ontology and kg-extract-agent
  (previously had none)
- Update CLI tools and tech specs to match

Also rename tg-show-document-hierarchy to tg-show-extraction-provenance.

Added extra typing for extraction provenance, fixed extraction prov CLI

trustgraph-cli/pyproject.toml

@@ -96,7 +96,7 @@ tg-delete-config-item = "trustgraph.cli.delete_config_item:main"
 tg-list-collections = "trustgraph.cli.list_collections:main"
 tg-set-collection = "trustgraph.cli.set_collection:main"
 tg-delete-collection = "trustgraph.cli.delete_collection:main"
-tg-show-document-hierarchy = "trustgraph.cli.show_document_hierarchy:main"
+tg-show-extraction-provenance = "trustgraph.cli.show_extraction_provenance:main"
 tg-list-explain-traces = "trustgraph.cli.list_explain_traces:main"
 tg-show-explain-trace = "trustgraph.cli.show_explain_trace:main"