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#+TITLE: SKILL: Atomic Notes Retrieval (Universal Literate Note)
#+ID: skill-atomic-notes
#+STARTUP: content
#+FILETAGS: :knowledge:retrieval:zettelkasten:psf:
* Overview
This skill provides the *Deep Memory* for the agent. it enables *Sparse Tree Perception* over the Zettelkasten, using semantic search and recursive interlinking to maintain high-signal context without token bloat.
* Phase A: Demand (PRD)
:PROPERTIES:
:STATUS: FROZEN
:END:
** 1. Purpose
Define the interfaces for knowledge retrieval from the atomic note DAG.
** 2. User Needs
- *Atomicity:* Each note represents exactly one concept.
- *Sparse Tree Perception:* Extract headlines and IDs before deep reading.
- *Recursive Deep-Dive:* Follow internal links to pull related context.
- *Search Efficiency:* Optimized searching via `ripgrep`.
** 3. Success Criteria
*** TODO Concept Discovery
*** TODO Link Resolution
*** TODO Sparse Tree Extraction Verification
* Phase B: Blueprint (PROTOCOL)
:PROPERTIES:
:STATUS: SIGNED
:END:
** 1. Architectural Intent
Interfaces for scanning and resolving nodes in the Zettelkasten. It implements a two-stage retrieval process: Sparse Perception (Headlines/IDs) followed by Targeted Deep-Reading.
** 2. Semantic Interfaces
#+begin_src lisp
(defun atomic-notes-scan (query)
"Stage 1: Returns a sparse list of matching headlines and their unique IDs.")
(defun atomic-notes-deep-read (ids)
"Stage 2: Retrieves the full content for a specific list of node IDs.")
#+end_src
* Phase D: Build (Implementation)
** Stage 1: Sparse Scan
#+begin_src lisp :tangle projects/org-skill-atomic-notes/src/retrieval-logic.lisp
(defun atomic-notes-scan (query)
"Uses ripgrep to find matching headlines and extracts their IDs."
(let ((notes-dir (or (uiop:getenv "MEMEX_NOTES") "notes/")))
(kernel-log "MEMORY - Sparse Scan for: ~a" query)
;; We grep for headlines and include the following line which usually has the ID property
(uiop:run-program (list "rg" "-i" "-A" "1" (format nil "^\\*+.*~a" query) notes-dir)
:output :string)))
#+end_src
** Stage 2: Deep Read
#+begin_src lisp :tangle projects/org-skill-atomic-notes/src/retrieval-logic.lisp
(defun atomic-notes-deep-read (ids)
"Retrieves the full content subtree for given IDs from the Object Store."
(let ((results '()))
(dolist (id ids)
(let ((obj (org-agent:lookup-object id)))
(when obj
(push (list :id id :content (org-agent:org-object-content obj)) results))))
results))
#+end_src
** Stage 3: Semantic Search (SOTA)
#+begin_src lisp :tangle projects/org-skill-atomic-notes/src/retrieval-logic.lisp
(defun atomic-notes-semantic-search (query &optional (top-k 5))
"Uses dense vector embeddings to find semantically related notes."
(let* ((query-vec (org-agent:get-embedding query))
(matches (when query-vec (org-agent:find-most-similar query-vec top-k))))
(mapcar (lambda (match)
(let* ((score (car match))
(obj (cdr match))
(attrs (org-agent:org-object-attributes obj)))
(list :score score
:id (org-agent:org-object-id obj)
:title (getf attrs :TITLE))))
matches)))
#+end_src
** Neuro-Cognitive Intelligence
#+begin_src lisp :tangle projects/org-skill-atomic-notes/src/retrieval-logic.lisp
(defun neuro-skill-atomic-notes (context)
"Neural stage of Sparse and Semantic Perception.
It combines ripgrep hits and semantic matches to provide high-fidelity context."
(let* ((query (getf (getf context :payload) :query))
(sparse-results (atomic-notes-scan query))
(semantic-results (atomic-notes-semantic-search query)))
(format nil "
I have searched your Zettelkasten for '~a'.
KEYWORD MATCHES (Sparse):
---
~a
---
SEMANTIC MATCHES (Dense):
---
~{~a (Score: ~f) [ID: ~a]~%~}
---
TASK:
Identify the IDs of the most relevant notes to answer the user's implicit or explicit question.
Return a Lisp plist: (:target :atomic-notes :action :deep-read :ids (\"id1\" \"id2\"))
" query sparse-results
(loop for m in semantic-results
collect (getf m :title)
collect (getf m :score)
collect (getf m :id)))))
#+end_src
* Registration
#+begin_src lisp
(defskill :skill-atomic-notes
:priority 90
:trigger (lambda (context) nil)
:neuro #'neuro-skill-atomic-notes
:symbolic #'atomic-notes-scan)
#+end_src