@zosmaai/pi-llm-wiki 0.5.0 → 0.6.1

package/CHANGELOG.md

@@ -2,6 +2,46 @@
 
 ## [Unreleased]
 
+## [0.7.0] - 2026-05-13
+
+### Added
+- **Wiki vault restructured under `.llm-wiki/`** (Issue #22, PR #23 by @arjun-zosma): All wiki content now lives in a single `.llm-wiki/` subdirectory — cleaner repo isolation, easier gitignore, zero directory name collisions.
+- **Backward compatibility**: Old vaults (`.wiki/config.json` sentinel) are auto-detected and continue to work. New vaults use `.llm-wiki/config.json`.
+- **`detectVaultFormat()`** utility: Returns `"new"`, `"legacy"`, or `"none"` for any directory.
+- **`resolveVaultPaths()`** utility: Auto-detects vault format and returns correct paths.
+- **`getLegacyVaultPaths()`** utility: Returns old-style paths for migration support.
+- **Migration script** (`scripts/migrate-llm-wiki.js`): One-time tool to move old vaults to new layout. Supports `--dry-run` and `--force` flags.
+- **5 new backward-compatibility tests**: Verify new format detection, legacy format detection, auto-resolution, and no-vault handling.
+
+### Changed
+- `resolveVaultRoot()` now checks for `.llm-wiki/config.json` first, then falls back to `.wiki/config.json`.
+- `getVaultPaths()` returns paths under `.llm-wiki/`:
+  - `raw/` → `.llm-wiki/raw/`, `wiki/` → `.llm-wiki/wiki/`, `meta/` → `.llm-wiki/meta/`
+  - `.wiki/` → `.llm-wiki/` (config directly in the dot-dir)
+  - `outputs/` → `.llm-wiki/outputs/`, `.discoveries/` → `.llm-wiki/.discoveries/`
+- `isProtectedPath()` now takes `VaultPaths` instead of `root` string.
+- `wiki_bootstrap` creates new `.llm-wiki/` layout by default.
+- MCP server updated with own copy of path detection logic.
+- All templates, prompts, documentation, and tests updated to reflect new layout.
+
+### Migration
+- Run `node scripts/migrate-llm-wiki.js` in your wiki root to migrate from the old layout.
+- Old `.wiki/` directory is preserved as a forwarding marker (`.wiki/MIGRATED_TO_LLM_WIKI.md`).
+- No data loss — all content is moved, nothing deleted.
+
+## [0.6.0] - 2026-05-11
+
+### Added
+- **Phase 1 — Auto-recall** (PR #19 by @arjun-zosma): New `wiki_recall` tool for explicit searches. Extension now auto-searches wiki before every user turn via `before_agent_start` hook. Matching pages injected as "Relevant Wiki Knowledge" into system prompt. 8 new tests.
+- **Phase 2 — Auto-capture** (PR #20 by @arjun-zosma): New `wiki_retro` tool for saving atomic insights from completed tasks. Creates source packets with manifest, extracted text, and source page. 4 new tests.
+- **Phase 3 — MCP Server** (PR #21 by @arjun-zosma): Standalone MCP server using `@modelcontextprotocol/server` (v2 SDK) with stdio transport. Exposes 5 tools: wiki_recall, wiki_search, wiki_status, wiki_retro, wiki_capture_source. Cross-platform reach to Claude Code, Cursor, Windsurf.
+- **12 extension tools** (up from 10): wiki_recall (auto at turn start) and wiki_retro (manual at task end)
+- **SKILL.md**: Auto-Recall section, wiki_recall + wiki_retro tool docs, "Task → Capture → Retro" workflow
+
+### Changed
+- Extension registers 12 tools instead of 10
+- Status bar now shows "12 tools, auto-recall active"
+
 ## [0.5.0] - 2026-05-11
 
 ### Added

package/README.md

@@ -53,6 +53,9 @@ The result is a wiki that **compounds** as you capture sources, ask questions, a
 | 🩺 **Mechanical linting** | Orphans, broken links, duplicate aliases, coverage gaps, stale captures |
 | 📊 **Dashboard** | `wiki_status` — counts, source states, recent activity |
 | 🤖 **Auto-update watch** | `wiki_watch` — schedule periodic discovery + ingest |
+| 🧠 **Auto-recall** | Wiki searched automatically before every turn — relevant pages injected into context |
+| 💾 **Auto-capture** | `wiki_retro` — save atomic insights from completed tasks with one call |
+| 🌐 **MCP Server** | Use with Claude Code, Cursor, Windsurf via stdio MCP transport |
 | 📝 **Obsidian-friendly** | Folder-qualified wikilinks, stable source-ID citations, compatible vault |
 | 🛡️ **Guardrails** | Blocks direct edits to raw sources and generated metadata |
 | 🔧 **Configurable PDF extraction** | MarkItDown timeout via `WIKI_MARKITDOWN_TIMEOUT_MS` env var |
@@ -66,6 +69,8 @@ The result is a wiki that **compounds** as you capture sources, ask questions, a
 |------|-------------|
 | `wiki_bootstrap` | Initialize a new wiki vault with config, templates, schema, and metadata |
 | `wiki_capture_source` | Capture a URL, local file, or pasted text into an immutable source packet |
+| `wiki_recall` | 🔄 **Auto-called at turn start** — search wiki for task-relevant pages |
+| `wiki_retro` | Save atomic insights from completed tasks into the wiki |
 | `wiki_ingest` | Process uningested source packets into wiki pages (batch) |
 | `wiki_ensure_page` | Resolve or safely create entity / concept / synthesis / analysis pages |
 | `wiki_search` | Search the generated wiki registry |
@@ -104,11 +109,13 @@ Initialize an llm wiki here for AI research.
 This calls `wiki_bootstrap` and creates:
 
 ```
-raw/
-wiki/
-meta/
-.wiki/
-WIKI_SCHEMA.md
+.llm-wiki/
+├── config.json
+├── templates/
+├── raw/
+├── wiki/
+├── meta/
+└── WIKI_SCHEMA.md
 ```
 
 ### 2) Capture a source
@@ -128,7 +135,7 @@ Capture these notes into the wiki: ...pasted text...
 ### 3) Integrate the source
 
 1. Capture the source
-2. Read `wiki/sources/SRC-*.md`
+2. Read `.llm-wiki/wiki/sources/SRC-*.md`
 3. Update that source page
 4. Search for impacted canonical pages with `wiki_search`
 5. Create missing pages with `wiki_ensure_page`
@@ -153,45 +160,47 @@ Answer the question and file the result as an analysis page.
 
 ```
 my-wiki/
-├─ raw/
-│  └─ sources/
-│     └─ SRC-2026-05-11-001/
-│        ├─ manifest.json
-│        ├─ original/           # Original artifact
-│        ├─ extracted.md        # Normalized text
-│        └─ attachments/
-├─ wiki/
-│  ├─ sources/                  # Source pages (what each source says)
-│  ├─ concepts/                 # Concepts and recurring ideas
-│  ├─ entities/                 # People, orgs, products, papers, systems
-│  ├─ syntheses/                # Cross-source theses and tensions
-│  └─ analyses/                 # Durable filed answers from queries
-├─ meta/
-│  ├─ registry.json             # Auto-generated search index
-│  ├─ backlinks.json
-│  ├─ index.md
-│  ├─ events.jsonl              # Append-only event log
-│  ├─ log.md
-│  └─ lint-report.md
-├─ .wiki/
-│  ├─ config.json
-│  └─ templates/
-└─ WIKI_SCHEMA.md
+└─ .llm-wiki/
+   ├─ config.json               # Vault config
+   ├─ templates/                 # Page templates
+   ├─ raw/
+   │  └─ sources/
+   │     └─ SRC-2026-05-11-001/
+   │        ├─ manifest.json
+   │        ├─ original/           # Original artifact
+   │        ├─ extracted.md        # Normalized text
+   │        └─ attachments/
+   ├─ wiki/
+   │  ├─ sources/                  # Source pages (what each source says)
+   │  ├─ concepts/                 # Concepts and recurring ideas
+   │  ├─ entities/                 # People, orgs, products, papers, systems
+   │  ├─ syntheses/                # Cross-source theses and tensions
+   │  └─ analyses/                 # Durable filed answers from queries
+   ├─ meta/
+   │  ├─ registry.json             # Auto-generated search index
+   │  ├─ backlinks.json
+   │  ├─ index.md
+   │  ├─ events.jsonl              # Append-only event log
+   │  ├─ log.md
+   │  └─ lint-report.md
+   └─ WIKI_SCHEMA.md               # Operating manual
 ```
 
 ### Ownership Model
 
 | Path | Owner | Rule |
 |------|-------|------|
-| `raw/**` | Extension tools | Immutable after capture |
-| `wiki/**` | Model + user | Editable knowledge pages |
-| `meta/registry.json` | Extension | Generated |
-| `meta/backlinks.json` | Extension | Generated |
-| `meta/index.md` | Extension | Generated |
-| `meta/events.jsonl` | Extension / tool | Append-only |
-| `meta/log.md` | Extension | Generated from events |
-| `meta/lint-report.md` | Extension | Generated |
-| `WIKI_SCHEMA.md` | Human + explicit request | Operating manual |
+| Path | Owner | Rule |
+|------|-------|------|
+| `.llm-wiki/raw/**` | Extension tools | Immutable after capture |
+| `.llm-wiki/wiki/**` | Model + user | Editable knowledge pages |
+| `.llm-wiki/meta/registry.json` | Extension | Generated |
+| `.llm-wiki/meta/backlinks.json` | Extension | Generated |
+| `.llm-wiki/meta/index.md` | Extension | Generated |
+| `.llm-wiki/meta/events.jsonl` | Extension / tool | Append-only |
+| `.llm-wiki/meta/log.md` | Extension | Generated from events |
+| `.llm-wiki/meta/lint-report.md` | Extension | Generated |
+| `.llm-wiki/WIKI_SCHEMA.md` | Human + explicit request | Operating manual |
 
 ---
 
@@ -219,15 +228,15 @@ Stable source-page IDs keep provenance stable even if titles change.
 
 The extension **blocks** direct tool-call edits to:
 
-- `raw/**` — immutable source artifacts
-- `meta/registry.json`
-- `meta/backlinks.json`
-- `meta/events.jsonl`
-- `meta/index.md`
-- `meta/log.md`
-- `meta/lint-report.md`
+- `.llm-wiki/raw/**` — immutable source artifacts
+- `.llm-wiki/meta/registry.json`
+- `.llm-wiki/meta/backlinks.json`
+- `.llm-wiki/meta/events.jsonl`
+- `.llm-wiki/meta/index.md`
+- `.llm-wiki/meta/log.md`
+- `.llm-wiki/meta/lint-report.md`
 
-If the model directly edits `wiki/**` using Pi's built-in `write` or `edit` tools, the extension **automatically rebuilds** generated metadata at the end of the agent turn.
+If the model directly edits `.llm-wiki/wiki/**` using Pi's built-in `write` or `edit` tools, the extension **automatically rebuilds** generated metadata at the end of the agent turn.
 
 ---
 
@@ -236,7 +245,7 @@ If the model directly edits `wiki/**` using Pi's built-in `write` or `edit` tool
 Each captured source is stored as a structured packet:
 
 ```
-raw/sources/SRC-YYYY-MM-DD-NNN/
+.llm-wiki/raw/sources/SRC-YYYY-MM-DD-NNN/
 ├─ manifest.json     # Capture metadata (title, URL, format, timestamp)
 ├─ original/         # Original artifact (preserved as-is)
 ├─ extracted.md      # Normalized text (PDF→md, XML→md, JSON→md, etc.)
@@ -247,6 +256,34 @@ This preserves both the **original artifact** and a **normalized extracted view*
 
 ---
 
+## MCP Server
+
+Use the wiki from **any MCP-compatible tool** — Claude Code, Cursor, Windsurf, and others.
+
+The package ships a standalone MCP server exposing 5 wiki tools over stdio:
+
+| Tool | Description |
+|------|-------------|
+| `wiki_recall` | Search wiki for task-relevant pages |
+| `wiki_search` | Full registry search |
+| `wiki_status` | Wiki stats (page counts, type breakdown) |
+| `wiki_retro` | Save atomic insights |
+| `wiki_capture_source` | Capture text as a source packet |
+
+### Usage
+
+```bash
+# Auto-discovered by pi:
+pi install npm:@zosmaai/pi-llm-wiki
+
+# Standalone with any MCP client:
+WIKI_ROOT=~/my-wiki node node_modules/@zosmaai/pi-llm-wiki/mcp/index.js
+```
+
+Set `WIKI_ROOT` to your wiki vault directory. If unset, the server auto-detects from the current working directory.
+
+---
+
 ## Skill Behavior
 
 The bundled `llm-wiki` skill teaches the model to:
@@ -266,10 +303,10 @@ The bundled `llm-wiki` skill teaches the model to:
 Four layers with clear ownership:
 
 ```
-raw/sources/SRC-*/     # Immutable source packets (extension-owned)
-wiki/                   # Editable knowledge pages (you + LLM)
-meta/                   # Auto-generated registry, backlinks, index, log
-.wiki/                  # Config and templates
+.llm-wiki/raw/sources/SRC-*/     # Immutable source packets (extension-owned)
+.llm-wiki/wiki/                   # Editable knowledge pages (you + LLM)
+.llm-wiki/meta/                   # Auto-generated registry, backlinks, index, log
+.llm-wiki/                        # Config and templates
 ```
 
 Read [docs/architecture.md](docs/architecture.md) for the full design document.

package/docs/architecture.md

@@ -4,43 +4,47 @@
 
 ```
 WIKI_ROOT/
-├── raw/sources/SRC-*/       # Immutable source packets (extension-owned)
-│   ├── manifest.json         # Capture metadata
-│   ├── original/             # Original artifact
-│   ├── extracted.md          # Normalized markdown
-│   └── attachments/          # Downloaded images, PDFs
-├── wiki/                     # Editable knowledge pages (you + LLM)
-│   ├── sources/              # One summary per source
-│   ├── entities/             # People, orgs, tools, products
-│   ├── concepts/             # Ideas, patterns, frameworks
-│   ├── syntheses/            # Cross-cutting analyses
-│   └── analyses/             # Durable query answers
-├── meta/                     # Auto-generated (extension-owned)
-│   ├── registry.json         # Master page catalog
-│   ├── backlinks.json        # Inbound link map
-│   ├── index.md              # Human-readable catalog
-│   ├── log.md                # Activity log
-│   └── events.jsonl          # Structured event stream
-└── .wiki/                    # Config and templates
-    ├── config.json
-    └── templates/
+└── .llm-wiki/                 # All wiki content under one dot-dir
+    ├── config.json            # Vault config
+    ├── templates/             # Page templates
+    ├── raw/sources/SRC-*/     # Immutable source packets (extension-owned)
+    │   ├── manifest.json      # Capture metadata
+    │   ├── original/          # Original artifact
+    │   ├── extracted.md       # Normalized markdown
+    │   └── attachments/       # Downloaded images, PDFs
+    ├── wiki/                  # Editable knowledge pages (you + LLM)
+    │   ├── sources/           # One summary per source
+    │   ├── entities/          # People, orgs, tools, products
+    │   ├── concepts/          # Ideas, patterns, frameworks
+    │   ├── syntheses/         # Cross-cutting analyses
+    │   └── analyses/          # Durable query answers
+    ├── meta/                  # Auto-generated (extension-owned)
+    │   ├── registry.json      # Master page catalog
+    │   ├── backlinks.json     # Inbound link map
+    │   ├── index.md           # Human-readable catalog
+    │   ├── log.md             # Activity log
+    │   └── events.jsonl       # Structured event stream
+    ├── outputs/               # Generated artifacts
+    └── .discoveries/          # Discovery tracking
 ```
 
 ## Ownership Rules
 
 | Path      | Owner                    | Rule                     |
 | --------- | ------------------------ | ------------------------ |
-| `raw/**`  | Extension                | Immutable after capture  |
-| `wiki/**` | Model + user             | Editable knowledge pages |
-| `meta/*`  | Extension                | Auto-generated           |
-| `.wiki/*` | Human + explicit request | Operating rules          |
+| Path                  | Owner                    | Rule                     |
+| --------------------- | ------------------------ | ------------------------ |
+| `.llm-wiki/raw/**`    | Extension                | Immutable after capture  |
+| `.llm-wiki/wiki/**`   | Model + user             | Editable knowledge pages |
+| `.llm-wiki/meta/**`   | Extension                | Auto-generated           |
+| `.llm-wiki/` | Human + explicit request | Operating rules          |
 
 ## Source Packet Format
 
 Each captured source becomes a packet:
 
 ```
-raw/sources/SRC-YYYY-MM-DD-NNN/
+.llm-wiki/raw/sources/SRC-YYYY-MM-DD-NNN/
   manifest.json
   original/
   extracted.md
@@ -62,4 +66,4 @@ raw/sources/SRC-YYYY-MM-DD-NNN/
 
 ## Guardrails
 
-The extension blocks direct edits to `raw/**` and `meta/**`. Metadata rebuilds automatically after `wiki/**` edits.
+The extension blocks direct edits to `.llm-wiki/raw/**` and `.llm-wiki/meta/**`. Metadata rebuilds automatically after `.llm-wiki/wiki/**` edits.

package/docs/commands.md

@@ -36,7 +36,7 @@ The extension registers 10 tools the LLM can call directly:
 
 1. `wiki_capture_source(url="...")` — creates packet + skeleton
 2. `wiki_ingest()` — get batch of sources needing synthesis
-3. Read `raw/sources/SRC-*/extracted.md`
+3. Read `.llm-wiki/raw/sources/SRC-*/extracted.md`
 4. Update skeleton source page with summary, entities, concepts
 5. `wiki_ensure_page(type="entity", title="...")` for each entity
 6. Add `[[wikilinks]]` between related pages

package/docs/configuration.md

@@ -1,6 +1,6 @@
 # Configuration
 
-Wiki configuration lives in `.wiki/config.json`.
+Wiki configuration lives in `.llm-wiki/config.json`.
 
 ## Modes
 

package/docs/obsidian.md

@@ -2,9 +2,9 @@
 
 ## Setup
 
-1. Open `wiki/` as an Obsidian vault
-2. The extension generates `meta/index.md` as a browsable catalog
-3. `meta/backlinks.json` is available for graph plugins
+1. Open `.llm-wiki/wiki/` as an Obsidian vault
+2. The extension generates `.llm-wiki/meta/index.md` as a browsable catalog
+3. `.llm-wiki/meta/backlinks.json` is available for graph plugins
 
 ## Recommended Plugins
 
@@ -14,8 +14,8 @@
 
 ## Web Clipper
 
-Use [Obsidian Web Clipper](https://obsidian.md/clipper) to save articles directly into `raw/articles/`.
+Use [Obsidian Web Clipper](https://obsidian.md/clipper) to save articles directly into `.llm-wiki/raw/articles/`.
 
 ## Dataview Dashboard
 
-The extension creates `meta/index.md` with page listings. For custom dashboards, use Dataview queries against frontmatter fields like `type`, `domain`, `category`, `sources`.
+The extension creates `.llm-wiki/meta/index.md` with page listings. For custom dashboards, use Dataview queries against frontmatter fields like `type`, `domain`, `category`, `sources`.

package/extensions/llm-wiki/index.ts

@@ -1,5 +1,9 @@
+import { existsSync } from "node:fs";
+import { join } from "node:path";
 import type { ExtensionAPI } from "@mariozechner/pi-coding-agent";
 import { installGuardrails } from "./lib/guardrails.js";
+import { formatRecallContext, registerWikiRecall, searchWiki } from "./lib/recall.js";
+import { registerWikiRetro } from "./lib/retro.js";
 import {
   registerWikiBootstrap,
   registerWikiCaptureSource,
@@ -12,25 +16,22 @@ import {
   registerWikiStatus,
   registerWikiWatch,
 } from "./lib/tools.js";
+import { resolveVaultPaths } from "./lib/utils.js";
 
 /**
  * @zosmaai/pi-llm-wiki — LLM Wiki extension for Pi
  *
- * Registers 10 custom tools and installs guardrails:
- * - wiki_bootstrap      Initialize a new vault
- * - wiki_capture_source Capture URL/file/text into source packet
- * - wiki_ingest         Get batch of sources needing synthesis
- * - wiki_ensure_page    Create canonical page from template
- * - wiki_search         Search generated registry
- * - wiki_lint           Health check with auto-fix
- * - wiki_status         Instant stats from registry
- * - wiki_rebuild_meta   Force metadata rebuild
- * - wiki_log_event      Append event and regenerate log
- * - wiki_watch          Schedule auto-updates
+ * Registers 11 custom tools and installs guardrails:
+ * All 10 original tools + wiki_recall (auto-recall at session start)
  *
  * Guardrails:
  * - Blocks direct edits to raw/** and meta/**
  * - Auto-rebuilds metadata after wiki/** edits
+ *
+ * Auto-recall:
+ * - before_agent_start hook searches wiki for pages relevant to user prompt
+ * - Injects matching knowledge as system context
+ * - wiki_recall tool available for explicit deep searches
  */
 
 export default function (pi: ExtensionAPI) {
@@ -44,10 +45,35 @@ export default function (pi: ExtensionAPI) {
   registerWikiRebuildMeta(pi);
   registerWikiLogEvent(pi);
   registerWikiWatch(pi);
+  registerWikiRecall(pi);
+  registerWikiRetro(pi);
 
   installGuardrails(pi);
 
   pi.on("session_start", async (_event, ctx) => {
-    ctx.ui.setStatus("llm-wiki", "🧠 LLM Wiki (10 tools, guardrails active)");
+    ctx.ui.setStatus("llm-wiki", "🧠 LLM Wiki (11 tools, auto-recall active)");
+  });
+
+  // ─── Auto-recall hook ──────────────────────────────
+  // Before each agent turn, search the wiki for pages relevant
+  // to the user's prompt and inject them as system context.
+  pi.on("before_agent_start", async (event, _ctx) => {
+    const paths = resolveVaultPaths(process.cwd());
+    if (!existsSync(join(paths.dotWiki, "config.json"))) {
+      return; // No wiki vault — nothing to recall
+    }
+
+    const prompt = event.prompt || "";
+    if (!prompt.trim()) return;
+
+    const results = searchWiki(paths, prompt);
+    if (results.length === 0) return;
+
+    const context = formatRecallContext(results);
+    if (!context) return;
+
+    return {
+      systemPrompt: `${event.systemPrompt}\n\n${context}`,
+    };
   });
 }

package/extensions/llm-wiki/lib/guardrails.ts

@@ -1,7 +1,7 @@
 import { isToolCallEventType } from "@mariozechner/pi-coding-agent";
 import type { ExtensionAPI } from "@mariozechner/pi-coding-agent";
 import { rebuildMetadataLight } from "./metadata.js";
-import { isProtectedPath, resolveVaultRoot } from "./utils.js";
+import { isProtectedPath, resolveVaultPaths } from "./utils.js";
 
 /**
  * Guardrails and auto-rebuild hooks for the LLM Wiki extension.
@@ -15,8 +15,8 @@ export function installGuardrails(pi: ExtensionAPI): void {
   pi.on("tool_call", async (event) => {
     if (isToolCallEventType("write", event)) {
       const path = event.input.path as string;
-      const root = resolveVaultRoot(process.cwd());
-      const check = isProtectedPath(path, root);
+      const paths = resolveVaultPaths(process.cwd());
+      const check = isProtectedPath(path, paths);
       if (check.protected) {
         return { block: true, reason: check.reason };
       }
@@ -24,8 +24,8 @@ export function installGuardrails(pi: ExtensionAPI): void {
 
     if (isToolCallEventType("edit", event)) {
       const path = event.input.path as string;
-      const root = resolveVaultRoot(process.cwd());
-      const check = isProtectedPath(path, root);
+      const paths = resolveVaultPaths(process.cwd());
+      const check = isProtectedPath(path, paths);
       if (check.protected) {
         return { block: true, reason: check.reason };
       }
@@ -36,8 +36,8 @@ export function installGuardrails(pi: ExtensionAPI): void {
   pi.on("tool_result", async (event) => {
     if (event.toolName === "write" || event.toolName === "edit") {
       const path = event.input.path as string;
-      const root = resolveVaultRoot(process.cwd());
-      const wikiPath = `${root}/wiki/`;
+      const paths = resolveVaultPaths(process.cwd());
+      const wikiPath = `${paths.wiki}/`;
       if (path?.startsWith(wikiPath)) {
         pendingRebuild = true;
       }
@@ -49,17 +49,7 @@ export function installGuardrails(pi: ExtensionAPI): void {
     if (pendingRebuild) {
       pendingRebuild = false;
       try {
-        const root = resolveVaultRoot(process.cwd());
-        const paths = {
-          root,
-          raw: `${root}/raw`,
-          rawSources: `${root}/raw/sources`,
-          wiki: `${root}/wiki`,
-          meta: `${root}/meta`,
-          dotWiki: `${root}/.wiki`,
-          outputs: `${root}/outputs`,
-          discoveries: `${root}/.discoveries`,
-        };
+        const paths = resolveVaultPaths(process.cwd());
         rebuildMetadataLight(paths);
       } catch {
         // Silently fail — metadata rebuild is best-effort