Add v0.2.0 features: vector search + tool permissions

- Local vector search: Ollama embeddings + semantic search
  - get-embedding with caching
  - cosine-similarity computation
  - semantic-search cognitive tool
  - :semantic-search tool for LLM queries

- Tool permission tiers: security gating for cognitive tools
  - Three tiers: :allow, :deny, :ask
  - Gate in execute-tool-action before tool runs
  - Defaults: :deny for shell/delete-file, :ask for eval/write-file
  - :tool-permissions cognitive tool for management

- Embedding provider support: Ollama AND llama.cpp
  - EMBEDDING_PROVIDER env var
  - EMBEDDING_MODEL env var
  - LLAMA_HOST for llama.cpp server

- .env.example: Add embedding config variables
- Fix parse-message in communication.lisp

- Update ASDF: add test files, tool-permissions skill

All 60 tests pass (6 suites x 100%)

library/gen/org-skill-llm-gateway.lisp

@@ -91,6 +91,30 @@
   (opencortex:register-probabilistic-backend p (lambda (prompt system-prompt &key model)
                                         (execute-llm-request prompt system-prompt :provider p :model model))))
 
+(def-cognitive-tool :get-ollama-embedding
+   "Generates vector embeddings via Ollama API."
+   ((text :type :string :description "Text to embed."))
+   :body (lambda (args)
+           (let* ((text (getf args :text))
+                  (host (or (uiop:getenv "OLLAMA_HOST") "localhost:11434"))
+                  (url (format nil "http://~a/api/embeddings" host))
+                  (model (or (uiop:getenv "OLLAMA_EMBEDDING_MODEL") "nomic-embed-text"))
+                  (body (cl-json:encode-json-to-string `((model . ,model) (prompt . ,text)))))
+             (handler-case
+                 (let* ((response (dex:post url :headers '(("Content-Type" . "application/json")) :content body :connect-timeout 5 :read-timeout 30))
+                        (json (cl-json:decode-json-from-string response)))
+                   (let ((embedding (cdr (assoc :embedding json))))
+                     (if embedding
+                         (list :status :success :vector embedding)
+                         (list :status :error :message "No embedding in response"))))
+               (error (c) (list :status :error :message (format nil "Ollama Embedding Failure: ~a" c)))))))
+
+(defun get-embedding (text)
+  "Generates a vector embedding for the given text via Ollama. Returns nil on failure."
+  (let ((result (funcall (get-cognitive-tool-body :get-ollama-embedding) (list :text text))))
+    (when (eq (getf result :status) :success)
+      (getf result :vector))))
+
 (def-cognitive-tool :ask-llm 
   "Queries an LLM provider via the unified gateway."
   ((:prompt :type :string :description "The user prompt.")