refactor: extract kb_framework package, build graph in memory

Scripts become thin CLIs over kb_framework (graph, query, query_tools,
vault, instructions) so the hosted read-only connector shares one
implementation with the stdio server. The MCP server builds the graph
from Markdown on demand and invalidates it on writes; refresh_graph
rebuilds in memory and reports validation problems. Pre-commit hook
validates only; index/graph.json is no longer read, written or staged
(generate-graph.py --write remains for operators). Golden fixtures pin
graph and tool payloads to the previous output. Agent and skill docs
updated to match.

Co-Authored-By: Claude Fable 5.1 <noreply@anthropic.com>

kb_framework/__init__.py

@@ -0,0 +1,10 @@
+"""kb_framework: the importable core of the knowledge-base framework.
+
+Exists so the stdio MCP server (`scripts/mcp-server.py`) and the hosted
+read-only connector share one implementation of graph building, graph
+queries, note access policy and framework instructions. The graph is built
+in memory from the vault's Markdown; nothing here writes to disk.
+"""
+
+__all__ = ["graph", "query", "query_tools", "vault", "instructions"]
+__version__ = "0.2.0"