Gaps: full lifecycle management (get/update/delete), pure PostgreSQL (no web search)

ARCHITECTURE.md

@@ -1,7 +1,7 @@
 # Pegas Memory — Architecture
 
 Pegas Memory is the long-term memory and knowledge base for the **Pegas** research agent.
-It is a Python service exposed to the agent as an **MCP server** (13 tools).
+It is a Python service exposed to the agent as an **MCP server** (16 tools).
 
 ---
 
@@ -14,7 +14,7 @@ It is a Python service exposed to the agent as an **MCP server** (13 tools).
                  └───────────────────┬──────────────────────┘
                                      │  JSON-RPC 2.0 / stdio
                  ┌───────────────────▼──────────────────────┐
-                 │  mcp_server.py  (tool layer, 13 tools)   │
+                 │  mcp_server.py  (tool layer, 16 tools)   │
                  └───────────────────┬──────────────────────┘
                                      │  Python API
         ┌────────────────────────────┼────────────────────────────┐
@@ -96,7 +96,7 @@ agent's experience, atoms are curated facts.
 | `outbox_sync.py` | CDC: PostgreSQL outbox → Qdrant and Memgraph |
 | `dedup.py` | semantic deduplication by embedding cosine (threshold 0.90) |
 | `verify.py` | self-critique (LLM verdict) + cross-confirmation (multiple sources) |
-| `research.py` | gap-filling loop: web search → ingest → commit |
+| `research.py` | research-gap management (PostgreSQL only): add / list / get / update / delete |
 | `code_symbols.py` | tree-sitter symbol extraction |
 | `code_graph.py` | tree-sitter dependency extraction (calls/imports/inherits) |
 | `inference.py` | forward-chaining logical rules over the graph until fixpoint |
@@ -153,7 +153,7 @@ Only single-token kinds (no spaces) are accepted — human-readable rules from d
 
 ---
 
-## 6. MCP tools (13)
+## 6. MCP tools (16)
 
 | Tool | Purpose |
 |---|---|
@@ -164,7 +164,10 @@ Only single-token kinds (no spaces) are accepted — human-readable rules from d
 | `memory_ingest` | ingest text/URL/file → atoms |
 | `memory_verify` | self-critique + cross-confirmation |
 | `memory_add_gap` | register a research gap |
-| `memory_list_gaps` | list open gaps |
+| `memory_list_gaps` | list gaps (optional status filter) |
+| `memory_get_gap` | read one gap by id |
+| `memory_update_gap` | edit question / reason / priority / status |
+| `memory_delete_gap` | delete a gap |
 | `memory_store_code` | extract + store code symbols |
 | `memory_search_code` | lexical search over code symbols |
 | `memory_code_graph` | build symbol + dependency graph |