@oomkapwn/enquire-mcp 3.6.0 → 3.6.2

package/dist/fts5.js

@@ -51,6 +51,26 @@ async function loadBetterSqlite() {
         throw new Error(`Persistent index requires the optional 'better-sqlite3' dependency; install failed or the binding could not be loaded. ${err instanceof Error ? err.message : String(err)}`);
     }
 }
+/**
+ * SQLite FTS5 inverted index over chunked note content. Opt-in via
+ * `--persistent-index`. Provides sub-100ms BM25-ranked search on
+ * multi-thousand-note vaults; falls back transparently to the in-memory
+ * parallel-scan path when `better-sqlite3` isn't installed.
+ *
+ * Construct, then call `open()`, then drive incremental sync via
+ * {@link diff} + {@link reindexFile} / {@link reindexPdfFile} / {@link dropFile}.
+ * Query with {@link search}; deep-link to individual chunks with
+ * {@link getChunk}.
+ *
+ * @example
+ * ```ts
+ * const idx = new FtsIndex({ file, vaultRoot, tokenize: "unicode61" });
+ * await idx.open();
+ * idx.reindexFile(relPath, mtimeMs, content, wikilinkTargets, tags);
+ * const hits = idx.search("vector retrieval", { limit: 25 });
+ * idx.close();
+ * ```
+ */
 export class FtsIndex {
     db = null;
     file;
@@ -61,6 +81,14 @@ export class FtsIndex {
         this.vaultRoot = opts.vaultRoot;
         this.tokenize = opts.tokenize ?? "unicode61";
     }
+    /**
+     * Open the SQLite database, bootstrap the FTS5 virtual table + helpers,
+     * and tighten file perms to 0o600 on the db + WAL/SHM sidecars. Idempotent —
+     * a second `open()` call is a no-op.
+     *
+     * @throws {Error} If `better-sqlite3` (optional dep) fails to load or
+     *   the native binding can't be loaded.
+     */
     async open() {
         if (this.db)
             return;
@@ -91,6 +119,8 @@ export class FtsIndex {
         }
         return removed;
     }
+    /** Close the underlying SQLite handle. Idempotent. Call before process
+     *  exit to flush WAL. */
     close() {
         if (this.db) {
             this.db.close();
@@ -271,6 +301,22 @@ export class FtsIndex {
         db.prepare("INSERT OR REPLACE INTO source_state (rel_path, mtime_ms, n_chunks, kind, indexed_at) VALUES (?, ?, ?, 'pdf', ?)").run(relPath, mtimeMs, chunks.length, new Date().toISOString());
         return chunks.length;
     }
+    /**
+     * BM25-ranked search over chunk content. Folder + tag + recency filters
+     * are pushed down to the SQL layer. Hyphenated identifiers (e.g.
+     * `"claude-telegram"`) are quote-escaped via {@link safeFts5Query} so
+     * FTS5 doesn't interpret `-` as the `NOT` operator.
+     *
+     * @param rawQuery - User query string. Whitespace-only returns `[]`.
+     * @param opts.limit - Max results. Default 25.
+     * @param opts.folder - Vault-relative prefix filter.
+     * @param opts.tag - Exact-tag membership filter (only matches the full
+     *   tag, not `core-team` for `core`).
+     * @param opts.sinceMtimeMs - Recency filter — only return chunks from
+     *   files modified at or after this mtime.
+     * @returns Sorted hits (score desc). Empty array if no usable query
+     *   tokens or no matches.
+     */
     search(rawQuery, opts = {}) {
         const db = this.requireDb();
         const limit = opts.limit ?? 25;
@@ -344,21 +390,31 @@ export class FtsIndex {
         const row = db.prepare(sql).get(relPath, chunkIndex);
         return row ?? null;
     }
+    /** Total chunks across the index. Used by stats / banner / UI. */
     totalChunks() {
         const db = this.requireDb();
         const row = db.prepare("SELECT COUNT(*) AS c FROM chunks").get();
         return row?.c ?? 0;
     }
+    /** Total source files (notes + PDFs) tracked in `source_state`. Used by
+     *  the ready banner so users can verify the index actually built. */
     totalFiles() {
         const db = this.requireDb();
         const row = db.prepare("SELECT COUNT(*) AS c FROM source_state").get();
         return row?.c ?? 0;
     }
 }
-// Quote-wrap any token containing non-alphanumerics so FTS5 doesn't interpret
-// hyphens / colons / dots as operators (`claude-telegram` would otherwise
-// parse as `claude NOT telegram`). Strip reserved keywords. Returns "" if the
-// query has no usable tokens.
+/**
+ * Sanitize a user query for FTS5. Quote-wraps any token containing
+ * non-alphanumerics so hyphens / colons / dots are treated literally
+ * (without this, `"claude-telegram"` would parse as `claude NOT telegram`).
+ * Strips reserved keywords (`AND`, `OR`, `NOT`, `NEAR`) so they can't
+ * inject unexpected boolean logic.
+ *
+ * @param q - User query string.
+ * @returns Sanitized query ready to pass to FTS5's `MATCH` operator.
+ *   Empty string when no usable tokens remain.
+ */
 export function safeFts5Query(q) {
     const RESERVED = new Set(["AND", "OR", "NOT", "NEAR"]);
     const parts = q.trim().split(/\s+/);
@@ -519,10 +575,80 @@ function splitWithLines(text, separator, baseLine = 1) {
     }
     return out;
 }
+/**
+ * Default location for the FTS5 index file — `~/.cache/enquire/<hash>.fts5.db`
+ * (or `$XDG_CACHE_HOME` on Linux). The hash is the first 12 chars of
+ * sha1(vaultRoot) so each vault gets its own database.
+ *
+ * @param vaultRoot - Absolute path to the vault root.
+ * @returns Absolute path to the index file.
+ */
 export function defaultIndexFile(vaultRoot) {
     const base = process.env.XDG_CACHE_HOME ??
         (process.platform === "darwin" ? path.join(os.homedir(), "Library", "Caches") : path.join(os.homedir(), ".cache"));
     const hash = createHash("sha1").update(vaultRoot).digest("hex").slice(0, 12);
     return path.join(base, "enquire", `${hash}.fts5.db`);
 }
+/**
+ * v3.6.2 K-1b — non-destructive peek at an existing fts5 index's meta row.
+ *
+ * Mirror of `peekEmbedDbMeta()` in `src/embed-db.ts`. Reads `tokenize_mode`,
+ * `vault_root`, `schema_version` from a SQLite file WITHOUT opening it via
+ * `FtsIndex` (which would trigger `bootstrapSchema()` and DROP TABLE on any
+ * tokenize-mode mismatch with the caller's declared mode).
+ *
+ * **Why this exists (audit class K-1b):** the original v3.6.1 CRIT-1 fix
+ * (peek-before-open) was applied ONLY to the `serve --use-hnsw` embed-db
+ * path. The SAME bootstrap-schema-DROP class affects FtsIndex on
+ * `tokenize_mode` mismatch — and at 5 callsites (server.ts, multiple
+ * cli.ts subcommands, and `src/doctor.ts:328`, where a diagnostic
+ * subcommand could silently DROP user data). v3.6.2 closes the full
+ * class by adding peek+honor at all 10 EmbedDb + FtsIndex callsites.
+ *
+ * Returns null if the file doesn't exist OR doesn't have a `meta` table
+ * yet. Throws only on actual SQLite open/read errors.
+ *
+ * @param file - Absolute path to a `.fts5.db` file.
+ * @returns Meta dict if the file is a populated fts5 index, null otherwise.
+ * @example
+ * ```ts
+ * const meta = await peekFtsMetaSafe(indexFile);
+ * if (meta?.tokenize_mode) {
+ *   const idx = new FtsIndex({ file: indexFile, vaultRoot, tokenize: meta.tokenize_mode });
+ * }
+ * ```
+ */
+export async function peekFtsMetaSafe(file) {
+    const fsMod = await import("node:fs");
+    if (!fsMod.existsSync(file))
+        return null;
+    let Database;
+    try {
+        Database = (await import("better-sqlite3")).default;
+    }
+    catch {
+        return null;
+    }
+    const db = new Database(file, { readonly: true, fileMustExist: true });
+    try {
+        const tableCheck = db.prepare("SELECT name FROM sqlite_master WHERE type='table' AND name='meta'").get();
+        if (!tableCheck)
+            return null;
+        const rows = db.prepare("SELECT key, value FROM meta").all();
+        const meta = {};
+        for (const row of rows) {
+            if (row.key === "schema_version")
+                meta.schema_version = row.value;
+            else if (row.key === "vault_root")
+                meta.vault_root = row.value;
+            else if (row.key === "tokenize_mode") {
+                meta.tokenize_mode = row.value === "trigram" ? "trigram" : "unicode61";
+            }
+        }
+        return meta;
+    }
+    finally {
+        db.close();
+    }
+}
 //# sourceMappingURL=fts5.js.map

package/dist/fts5.js.map

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package/dist/hnsw.d.ts.map

@@ -1 +1 @@
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+{"version":3,"file":"hnsw.d.ts","sourceRoot":"","sources":["../src/hnsw.ts"],"names":[],"mappings":"AA8CA,OAAO,KAAK,EAAE,cAAc,EAAE,MAAM,eAAe,CAAC;AAEpD,4DAA4D;AAC5D,MAAM,WAAW,aAAa;IAC5B,wFAAwF;IACxF,KAAK,EAAE,MAAM,CAAC;IACd,yEAAyE;IACzE,MAAM,EAAE,YAAY,CAAC;CACtB;AAED;;;;;;;;;;GAUG;AACH,MAAM,WAAW,iBAAiB;IAChC,aAAa,EAAE,CAAC,CAAC;IACjB,2EAA2E;IAC3E,GAAG,EAAE,MAAM,CAAC;IACZ,kCAAkC;IAClC,IAAI,EAAE,MAAM,CAAC;IACb;;;;;OAKG;IACH,SAAS,EAAE,MAAM,CAAC;IAClB,4EAA4E;IAC5E,WAAW,EAAE,MAAM,CACjB,MAAM,EACN;QACE,QAAQ,EAAE,MAAM,CAAC;QACjB,WAAW,EAAE,MAAM,CAAC;QACpB,UAAU,EAAE,MAAM,CAAC;QACnB,QAAQ,EAAE,MAAM,CAAC;QACjB,YAAY,EAAE,MAAM,CAAC;QACrB,IAAI,EAAE,IAAI,GAAG,KAAK,CAAC;KACpB,CACF,CAAC;IACF,kDAAkD;IAClD,SAAS,EAAE,MAAM,CAAC;CACnB;AAED,iFAAiF;AACjF,MAAM,WAAW,gBAAgB;IAC/B,wDAAwD;IACxD,GAAG,EAAE,MAAM,CAAC;IACZ,8EAA8E;IAC9E,WAAW,EAAE,MAAM,CAAC;IACpB;;;OAGG;IACH,CAAC,CAAC,EAAE,MAAM,CAAC;IACX;;;OAGG;IACH,cAAc,CAAC,EAAE,MAAM,CAAC;IACxB,oEAAoE;IACpE,IAAI,CAAC,EAAE,MAAM,CAAC;CACf;AAED,4BAA4B;AAC5B,MAAM,WAAW,gBAAgB;IAC/B;;;OAGG;IACH,EAAE,CAAC,EAAE,MAAM,CAAC;CACb;AAED;;;;GAIG;AACH,MAAM,WAAW,SAAS;IACxB,6BAA6B;IAC7B,QAAQ,CAAC,GAAG,EAAE,MAAM,CAAC;IACrB,+CAA+C;IAC/C,QAAQ,CAAC,IAAI,EAAE,MAAM,CAAC;IACtB;;;;OAIG;IACH,SAAS,CAAC,QAAQ,EAAE,YAAY,EAAE,CAAC,EAAE,MAAM,EAAE,IAAI,CAAC,EAAE,gBAAgB,GAAG;QAAE,MAAM,EAAE,MAAM,EAAE,CAAC;QAAC,SAAS,EAAE,MAAM,EAAE,CAAA;KAAE,CAAC;IACjH;;;;;;;;;;OAUG;IACH,MAAM,CACJ,IAAI,EAAE,MAAM,EACZ,WAAW,EAAE,WAAW,CACtB,MAAM,EACN;QACE,QAAQ,EAAE,MAAM,CAAC;QACjB,WAAW,EAAE,MAAM,CAAC;QACpB,UAAU,EAAE,MAAM,CAAC;QACnB,QAAQ,EAAE,MAAM,CAAC;QACjB,YAAY,EAAE,MAAM,CAAC;QACrB,IAAI,EAAE,IAAI,GAAG,KAAK,CAAC;KACpB,CACF,EACD,SAAS,EAAE,MAAM,GAChB,OAAO,CAAC,OAAO,CAAC,CAAC;CACrB;AAmDD;;;;;;;;;;GAUG;AACH,wBAAsB,SAAS,CAAC,OAAO,EAAE,aAAa,CAAC,aAAa,CAAC,EAAE,IAAI,EAAE,gBAAgB,GAAG,OAAO,CAAC,SAAS,CAAC,CAqCjH;AA2DD;;;;;;;;;;;;GAYG;AACH,wBAAsB,gBAAgB,CACpC,IAAI,EAAE,MAAM,EACZ,iBAAiB,EAAE,MAAM,GACxB,OAAO,CAAC;IAAE,KAAK,EAAE,SAAS,CAAC;IAAC,WAAW,EAAE,GAAG,CAAC,MAAM,EAAE,iBAAiB,CAAC,aAAa,CAAC,CAAC,MAAM,CAAC,CAAC,CAAA;CAAE,GAAG,IAAI,CAAC,CAwD1G;AAED;;;;;;;GAOG;AACH,wBAAgB,iBAAiB,CAC/B,MAAM,EAAE;IAAE,MAAM,EAAE,MAAM,EAAE,CAAC;IAAC,SAAS,EAAE,MAAM,EAAE,CAAA;CAAE,EACjD,UAAU,EAAE,WAAW,CACrB,MAAM,EACN;IACE,QAAQ,EAAE,MAAM,CAAC;IACjB,WAAW,EAAE,MAAM,CAAC;IACpB,UAAU,EAAE,MAAM,CAAC;IACnB,QAAQ,EAAE,MAAM,CAAC;IACjB,YAAY,EAAE,MAAM,CAAC;IACrB,IAAI,EAAE,IAAI,GAAG,KAAK,CAAC;CACpB,CACF,GACA,cAAc,EAAE,CAsBlB"}

package/dist/hnsw.js

@@ -151,6 +151,17 @@ function wrapNativeIndex(ctor, dim, size) {
                 writtenAt: new Date().toISOString()
             };
             await fs.writeFile(metaFile, JSON.stringify(meta, null, 2), "utf8");
+            // v3.6.2 (audit M-7) — defense-in-depth: persist the user-only
+            // 0600 mode on both sidecars, matching the canonical pattern in
+            // src/embed-db.ts and src/fts5.ts. The parent dir is already
+            // 0700 (created by EmbedDb.open before HNSW persistence runs),
+            // but per-file invariants are what the SECURITY.md privacy
+            // guarantees require — the .meta.json carries text_preview
+            // snippets which are sensitive note content. Best-effort: on
+            // platforms without POSIX mode bits (Windows / some FAT mounts)
+            // chmod is a no-op or throws; we swallow either way because the
+            // parent-dir guard is the real protection.
+            await Promise.all([fs.chmod(binFile, 0o600).catch(() => { }), fs.chmod(metaFile, 0o600).catch(() => { })]);
             return true;
         }
     };

package/dist/hnsw.js.map

@@ -1 +1 @@
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package/dist/index.d.ts

@@ -7,7 +7,7 @@
  * + `McpServer({version})`) and `src/tool-registry.ts` (used in the
  * `vault-info` resource payload).
  */
-export declare const VERSION = "3.6.0";
+export declare const VERSION = "3.6.2";
 export { main } from "./cli.js";
 export { buildEmbedText, buildMcpServer, formatReadyBanner, prepareServerDeps, type ServeOptions, type ServerDeps, startServer } from "./server.js";
 export { parsePositiveInt, parseQuantizationMode } from "./tool-registry.js";

package/dist/index.js

@@ -32,7 +32,7 @@ import { main } from "./cli.js";
  * + `McpServer({version})`) and `src/tool-registry.ts` (used in the
  * `vault-info` resource payload).
  */
-export const VERSION = "3.6.0";
+export const VERSION = "3.6.2";
 // Re-exports — preserve the v3.5.x public surface so http-transport.ts and
 // tests don't need to know about the new module layout. The set below
 // exactly matches the v3.5.x `export` declarations: `main`,

package/dist/parser.d.ts

@@ -1,21 +1,101 @@
+/**
+ * A parsed Obsidian wikilink (`[[Target]]`, `[[Target#section]]`,
+ * `[[Target^block]]`, `[[Target|alias]]`, or any combination).
+ *
+ * Fields are populated when the corresponding fragment is present in the
+ * source; otherwise omitted (not `undefined`-valued — the property is
+ * absent so callers can use `"section" in link` without ambiguity).
+ */
 export interface Wikilink {
+    /** Original payload between the `[[` `]]` delimiters (everything before
+     *  any alias `|`). Useful for round-tripping the link unchanged. */
     raw: string;
+    /** Note target (basename or relative path, no `.md` suffix). For
+     *  `[[Auth/oauth#setup|OAuth]]` this is `"Auth/oauth"`. */
     target: string;
+    /** Heading anchor, if any (the text after `#`). */
     section?: string;
+    /** Block reference, if any (the text after `^`). */
     block?: string;
+    /** Display alias, if any (the text after `|`). */
     alias?: string;
 }
+/** A parsed Obsidian embed (`![[Target]]`). Same shape as {@link Wikilink};
+ *  the `!` prefix is the only syntactic distinction. */
 export type Embed = Wikilink;
+/**
+ * A parsed Obsidian note: frontmatter + body + the structural extracts
+ * we feed retrieval over (wikilinks, embeds, tags).
+ *
+ * Code fences and inline code are stripped before link / tag extraction
+ * so example markdown inside ``` blocks doesn't pollute the structural
+ * index. The `body` field keeps the original (post-frontmatter) content
+ * so callers can render verbatim.
+ */
 export interface ParsedNote {
+    /** Frontmatter object (empty when no YAML block, or when YAML is malformed). */
     frontmatter: Record<string, unknown>;
+    /** Post-frontmatter body — verbatim, including code fences. */
     body: string;
+    /** All `[[wikilinks]]` found in the body (after stripping code spans). */
     wikilinks: Wikilink[];
+    /** All `![[embeds]]` found in the body (after stripping code spans). */
     embeds: Embed[];
+    /** Union of frontmatter tags + inline `#tags` (deduped, normalized to
+     *  drop leading `#`). Order is insertion order from frontmatter first. */
     tags: string[];
 }
+/**
+ * Parse an Obsidian markdown source string. Splits frontmatter (via
+ * `gray-matter`) from body, then extracts wikilinks, embeds, and tags
+ * from a code-stripped view of the body. Malformed YAML falls back to
+ * treating the whole input as body (no throw).
+ *
+ * @param source - Raw note text (UTF-8).
+ * @returns Parsed structure ready for indexing or rendering.
+ * @example
+ * ```ts
+ * const parsed = parseNote("---\ntags: [idea]\n---\nSee [[Other]].");
+ * parsed.frontmatter; // { tags: ["idea"] }
+ * parsed.wikilinks;   // [{ raw: "Other", target: "Other" }]
+ * parsed.tags;        // ["idea"]
+ * ```
+ */
 export declare function parseNote(source: string): ParsedNote;
+/**
+ * Extract all `[[wikilinks]]` from a markdown string. Excludes `![[embeds]]`
+ * via a negative lookbehind on `!`. Caller is responsible for stripping
+ * code fences / inline code first if recall over example markdown matters
+ * (use the same pipeline as {@link parseNote}).
+ *
+ * @param text - Markdown source (already stripped of code spans, ideally).
+ * @returns Wikilinks in source order. Empty array if none found.
+ */
 export declare function extractWikilinks(text: string): Wikilink[];
+/**
+ * Extract all `![[embeds]]` from a markdown string. Same payload syntax as
+ * wikilinks; the `!` prefix is what distinguishes embed from link.
+ *
+ * @param text - Markdown source.
+ * @returns Embeds in source order. Empty array if none found.
+ */
 export declare function extractEmbeds(text: string): Embed[];
+/**
+ * Extract `#hashtag` style inline tags from markdown body text. Tags must
+ * be preceded by whitespace, bracket, or BOL — `#1` inside a markdown
+ * heading is NOT a tag. Tag chars: Unicode letters/digits, `_`, `/`, `-`.
+ *
+ * @param text - Markdown body (caller should have stripped code spans).
+ * @returns Unique tag names (without the leading `#`), in first-occurrence order.
+ */
 export declare function extractInlineTags(text: string): string[];
+/**
+ * Normalize tags from a frontmatter object. Accepts both the
+ * `tags: [a, b]` array form and the `tag: "a, b c"` string form
+ * (comma-or-whitespace separated). Leading `#` characters are stripped.
+ *
+ * @param fm - Frontmatter object as returned by {@link parseNote}.
+ * @returns Normalized tag list. Empty array when no `tags` / `tag` key.
+ */
 export declare function extractFrontmatterTags(fm: Record<string, unknown>): string[];
 //# sourceMappingURL=parser.d.ts.map

package/dist/parser.d.ts.map

@@ -1 +1 @@
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package/dist/parser.js

@@ -1,4 +1,20 @@
 import matter from "gray-matter";
+/**
+ * Parse an Obsidian markdown source string. Splits frontmatter (via
+ * `gray-matter`) from body, then extracts wikilinks, embeds, and tags
+ * from a code-stripped view of the body. Malformed YAML falls back to
+ * treating the whole input as body (no throw).
+ *
+ * @param source - Raw note text (UTF-8).
+ * @returns Parsed structure ready for indexing or rendering.
+ * @example
+ * ```ts
+ * const parsed = parseNote("---\ntags: [idea]\n---\nSee [[Other]].");
+ * parsed.frontmatter; // { tags: ["idea"] }
+ * parsed.wikilinks;   // [{ raw: "Other", target: "Other" }]
+ * parsed.tags;        // ["idea"]
+ * ```
+ */
 export function parseNote(source) {
     let frontmatter = {};
     let body = source;
@@ -22,9 +38,25 @@ export function parseNote(source) {
 }
 const WIKILINK_RE = /(?<!!)\[\[([^\]\n]+?)\]\]/g;
 const EMBED_RE = /!\[\[([^\]\n]+?)\]\]/g;
+/**
+ * Extract all `[[wikilinks]]` from a markdown string. Excludes `![[embeds]]`
+ * via a negative lookbehind on `!`. Caller is responsible for stripping
+ * code fences / inline code first if recall over example markdown matters
+ * (use the same pipeline as {@link parseNote}).
+ *
+ * @param text - Markdown source (already stripped of code spans, ideally).
+ * @returns Wikilinks in source order. Empty array if none found.
+ */
 export function extractWikilinks(text) {
     return matchLinks(text, WIKILINK_RE);
 }
+/**
+ * Extract all `![[embeds]]` from a markdown string. Same payload syntax as
+ * wikilinks; the `!` prefix is what distinguishes embed from link.
+ *
+ * @param text - Markdown source.
+ * @returns Embeds in source order. Empty array if none found.
+ */
 export function extractEmbeds(text) {
     return matchLinks(text, EMBED_RE);
 }
@@ -64,6 +96,14 @@ function matchLinks(text, re) {
     return out;
 }
 const TAG_RE = /(?:^|[\s([{>])#([\p{L}][\p{L}\p{N}_/-]*)/gu;
+/**
+ * Extract `#hashtag` style inline tags from markdown body text. Tags must
+ * be preceded by whitespace, bracket, or BOL — `#1` inside a markdown
+ * heading is NOT a tag. Tag chars: Unicode letters/digits, `_`, `/`, `-`.
+ *
+ * @param text - Markdown body (caller should have stripped code spans).
+ * @returns Unique tag names (without the leading `#`), in first-occurrence order.
+ */
 export function extractInlineTags(text) {
     const found = new Set();
     for (const m of text.matchAll(TAG_RE)) {
@@ -72,6 +112,14 @@ export function extractInlineTags(text) {
     }
     return [...found];
 }
+/**
+ * Normalize tags from a frontmatter object. Accepts both the
+ * `tags: [a, b]` array form and the `tag: "a, b c"` string form
+ * (comma-or-whitespace separated). Leading `#` characters are stripped.
+ *
+ * @param fm - Frontmatter object as returned by {@link parseNote}.
+ * @returns Normalized tag list. Empty array when no `tags` / `tag` key.
+ */
 export function extractFrontmatterTags(fm) {
     const raw = fm.tags ?? fm.tag;
     if (!raw)

package/dist/parser.js.map

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package/dist/server.d.ts

@@ -4,21 +4,47 @@ import { type loadEmbedder } from "./embeddings.js";
 import { FtsIndex } from "./fts5.js";
 import { Vault } from "./vault.js";
 import { VaultWatcher } from "./watcher.js";
+/**
+ * Configuration for {@link startServer} / {@link prepareServerDeps}.
+ * Mirrors the CLI flag surface (`enquire-mcp serve --vault X --enable-write`)
+ * but typed as a plain options object so HTTP transport / tests can call
+ * the same entry points programmatically.
+ *
+ * Strings on numeric fields (e.g. `maxFileBytes`, `cacheSize`) reflect the
+ * fact that callers usually pass CLI args verbatim — parsing happens
+ * inside `prepareServerDeps` via {@link parsePositiveInt}.
+ */
 export interface ServeOptions {
+    /** Absolute path to the vault root directory. Required. */
     vault: string;
+    /** Allow write tools (`obsidian_create_note`, `obsidian_append_note`,
+     *  `obsidian_rename_file`). Default false (read-only). */
     enableWrite?: boolean;
+    /** Per-file size cap (parsed via {@link parsePositiveInt}). */
     maxFileBytes?: string;
+    /** In-memory parsed-note cache capacity. */
     cacheSize?: string;
+    /** Persist the parse cache across server restarts. */
     persistentCache?: boolean;
+    /** Override the persistent cache file location. */
     cacheFile?: string;
+    /** Enable the persistent FTS5 index (requires `better-sqlite3`). */
     persistentIndex?: boolean;
+    /** Override the FTS5 index file location. */
     indexFile?: string;
+    /** FTS5 tokenizer mode. */
     tokenize?: "unicode61" | "trigram";
+    /** Privacy: glob patterns to exclude from the vault. */
     excludeGlob?: string[];
+    /** Privacy: glob patterns that form a strict allowlist. */
     readPaths?: string[];
+    /** Enable the filesystem watcher (auto-reindex on change). */
     watch?: boolean;
+    /** Per-tool gating: deny list. Tools named here won't register. */
     disabledTools?: string[];
+    /** Per-tool gating: allow list. Only listed tools register (deny still applies). */
     enabledTools?: string[];
+    /** Expose diagnostic / debug tools (`obsidian_full_text_search` etc.). */
     diagnosticSearchTools?: boolean;
     /** v2.8.0 — also index PDFs into FTS5 (and embeddings, if a build-embeddings
      *  with --include-pdfs ran). Off by default; opt-in because PDF extraction
@@ -93,6 +119,14 @@ export interface ServerDeps {
         }>;
         /** Search-time beam width override; falls back to module default if undefined. */
         ef?: number;
+        /**
+         * v3.6.2 HN-4 — model alias the HNSW index was built with (from
+         * the embed-db's persisted meta, or the resolved default for fresh
+         * dbs). Propagated to `HnswSearchContext` at search time so the
+         * query embedder model can be verified against the index. CRIT-1
+         * fixed the build-side destruction; this seals the search side.
+         */
+        modelAlias: string;
     } | null;
 }
 /**