obsidian-mcp-pro 2.0.0 → 3.0.0

package/build/lib/embedding-store.js

@@ -2,6 +2,9 @@ import fs from "fs/promises";
 import path from "path";
 import { createHash, randomBytes } from "crypto";
 import { log } from "./logger.js";
+import { isPersistenceEnabled } from "./index-cache.js";
+import { resolveVaultInternalPathSafe } from "./vault.js";
+import { renameWithRetry } from "./fs-ops.js";
 /**
  * Persistent embedding store.
  *
@@ -23,6 +26,11 @@ import { log } from "./logger.js";
  */
 const STORE_REL_PATH = ".obsidian/cache/mcp-pro-embeddings.json";
 const STORE_VERSION = 1;
+const NOTE_BEST_CHUNK_WEIGHT = 0.8;
+const NOTE_FOCUS_WEIGHT = 0.2;
+const NOTE_FOCUS_CHUNKS = 3;
+const SIMILAR_SOURCE_MIN_CHUNK_WEIGHT = 0.05;
+const SIMILAR_SOURCE_ANCHOR_POWER = 2;
 // Hard cap on the on-disk snapshot size. A 50k-note vault with 768-dim
 // vectors can produce a multi-GB JSON blob, at which point persisting it
 // each pass costs more than the cold-start re-embed it saves. When the
@@ -64,11 +72,24 @@ function stateFor(vaultPath) {
     return s;
 }
 function storePath(vaultPath) {
-    return path.join(path.resolve(vaultPath), STORE_REL_PATH);
+    return resolveVaultInternalPathSafe(vaultPath, STORE_REL_PATH);
 }
 function key(notePath, chunkIndex) {
     return `${notePath}::${chunkIndex}`;
 }
+function validateVector(vector, expectedDimension) {
+    if (!Array.isArray(vector) || vector.length === 0)
+        return "vector must be a non-empty number array";
+    for (const value of vector) {
+        if (typeof value !== "number" || !Number.isFinite(value)) {
+            return "vector contains a non-finite value";
+        }
+    }
+    if (expectedDimension !== null && vector.length !== expectedDimension) {
+        return `vector dimension mismatch (expected ${expectedDimension}, got ${vector.length})`;
+    }
+    return null;
+}
 export function hashText(text) {
     return createHash("sha256").update(text, "utf-8").digest("hex");
 }
@@ -81,9 +102,14 @@ export async function loadStore(vaultPath) {
     if (state.loadingPromise)
         return state.loadingPromise;
     const doLoad = async () => {
+        if (!isPersistenceEnabled()) {
+            state.loaded = true;
+            state.loadingPromise = null;
+            return state;
+        }
         let raw;
         try {
-            raw = await fs.readFile(storePath(vaultPath), "utf-8");
+            raw = await fs.readFile(await storePath(vaultPath), "utf-8");
         }
         catch (err) {
             if (err.code !== "ENOENT") {
@@ -107,7 +133,8 @@ export async function loadStore(vaultPath) {
             snapshot.version !== STORE_VERSION ||
             !Array.isArray(snapshot.embeddings) ||
             typeof snapshot.providerId !== "string" ||
-            typeof snapshot.model !== "string") {
+            typeof snapshot.model !== "string" ||
+            typeof snapshot.dimension !== "number") {
             log.warn("embedding-store: snapshot has unexpected shape; ignoring");
             state.loaded = true;
             state.loadingPromise = null;
@@ -132,7 +159,7 @@ export async function loadStore(vaultPath) {
             // Silently drop entries whose vector length doesn't match the snapshot's
             // declared dimension. Guards against hand-edited or partially-corrupted
             // snapshots where one row's length drifted from the rest.
-            if (entry.vector.length !== snapshot.dimension)
+            if (validateVector(entry.vector, snapshot.dimension) !== null)
                 continue;
             state.byKey.set(key(entry.notePath, entry.chunkIndex), entry);
             let owned = state.byNote.get(entry.notePath);
@@ -143,7 +170,7 @@ export async function loadStore(vaultPath) {
             owned.add(key(entry.notePath, entry.chunkIndex));
         }
         for (const [note, hash] of Object.entries(snapshot.noteHashes ?? {})) {
-            if (typeof hash === "string")
+            if (typeof hash === "string" && state.byNote.has(note))
                 state.noteHashes.set(note, hash);
         }
         // Mark loaded only AFTER all async I/O and parsing is complete.
@@ -160,6 +187,10 @@ export async function saveStore(vaultPath) {
         return;
     if (state.providerId === null || state.model === null)
         return; // nothing valid to write
+    if (!isPersistenceEnabled()) {
+        state.dirty = false;
+        return;
+    }
     // If a save is already in flight, mark that another pass is needed and
     // return. The in-flight save will re-check the flag when it finishes.
     if (state.saving) {
@@ -207,7 +238,14 @@ async function doSave(vaultPath, state) {
         });
         return;
     }
-    const file = storePath(vaultPath);
+    let file;
+    try {
+        file = await storePath(vaultPath);
+    }
+    catch (err) {
+        log.warn("embedding-store: snapshot path failed vault-boundary check", { err: err });
+        return;
+    }
     // Include a random suffix so two concurrent saves in the same process
     // (same PID) don't fight over the same tmp file and clobber each other.
     const tmp = `${file}.${process.pid}.${randomBytes(8).toString("hex")}.tmp`;
@@ -215,7 +253,7 @@ async function doSave(vaultPath, state) {
         await fs.mkdir(path.dirname(file), { recursive: true });
         try {
             await fs.writeFile(tmp, serialized, { encoding: "utf-8", mode: 0o600 });
-            await fs.rename(tmp, file);
+            await renameWithRetry(tmp, file);
         }
         catch (innerErr) {
             // Best-effort cleanup: if writeFile succeeded but rename failed, the
@@ -240,7 +278,7 @@ export async function clearStore(vaultPath, options) {
     stores.delete(path.resolve(vaultPath));
     if (options?.removeSnapshot) {
         try {
-            await fs.unlink(storePath(vaultPath));
+            await fs.unlink(await storePath(vaultPath));
         }
         catch { /* ignore */ }
     }
@@ -269,6 +307,15 @@ export function noteIsCurrent(vaultPath, notePath, contentHash) {
 /** Replace all chunks for `notePath`. Pass empty `chunks` to drop a note. */
 export function setNoteChunks(vaultPath, notePath, contentHash, chunks, providerId, model) {
     const state = stateFor(vaultPath);
+    let nextDimension = state.dimension;
+    for (const ch of chunks) {
+        const error = validateVector(ch.vector, nextDimension);
+        if (error !== null) {
+            throw new Error(`Invalid embedding for ${ch.notePath}#${ch.chunkIndex}: ${error}`);
+        }
+        if (nextDimension === null)
+            nextDimension = ch.vector.length;
+    }
     // Drop any prior chunks owned by this note.
     const prior = state.byNote.get(notePath);
     if (prior) {
@@ -285,9 +332,8 @@ export function setNoteChunks(vaultPath, notePath, contentHash, chunks, provider
             const k = key(ch.notePath, ch.chunkIndex);
             state.byKey.set(k, ch);
             owned.add(k);
-            if (state.dimension === null)
-                state.dimension = ch.vector.length;
         }
+        state.dimension = nextDimension;
         state.byNote.set(notePath, owned);
         state.noteHashes.set(notePath, contentHash);
     }
@@ -372,19 +418,65 @@ export function searchEmbeddings(vaultPath, queryVector, options = {}) {
             score,
         });
     }
-    // Per-note dedup: keep the highest-scoring chunk per note. The semantic
-    // search tool surfaces note-level results; chunk-level granularity is
-    // available through the score breakdown but rarely useful for ranking.
-    const bestPerNote = new Map();
+    // Per-note ranking: keep the highest-scoring chunk for the snippet, but
+    // sort notes with a small focus signal from their top chunks. This avoids
+    // one incidental perfect chunk outranking notes that are consistently about
+    // the query.
+    const byNote = new Map();
     for (const h of hits) {
-        const existing = bestPerNote.get(h.notePath);
-        if (!existing || h.score > existing.score) {
-            bestPerNote.set(h.notePath, h);
+        const existing = byNote.get(h.notePath);
+        if (!existing) {
+            byNote.set(h.notePath, { best: h, scores: [h.score] });
+        }
+        else {
+            existing.scores.push(h.score);
+            if (h.score > existing.best.score)
+                existing.best = h;
         }
     }
-    const out = Array.from(bestPerNote.values()).sort((a, b) => b.score - a.score);
+    const out = Array.from(byNote.values()).map(({ best, scores }) => {
+        const score = noteFocusScore(scores);
+        return { ...best, score };
+    }).sort((a, b) => {
+        const scoreDelta = b.score - a.score;
+        if (scoreDelta !== 0)
+            return scoreDelta;
+        return a.notePath.localeCompare(b.notePath);
+    });
     return out.slice(0, limit);
 }
+function noteFocusScore(scores) {
+    const sorted = scores.toSorted((a, b) => b - a);
+    const top = sorted.slice(0, NOTE_FOCUS_CHUNKS);
+    const best = top[0] ?? 0;
+    const focus = top.reduce((sum, score) => sum + score, 0) / top.length;
+    return NOTE_BEST_CHUNK_WEIGHT * best + NOTE_FOCUS_WEIGHT * focus;
+}
+export function buildSimilarNotesQueryVector(chunks) {
+    const firstChunk = chunks[0];
+    if (!firstChunk)
+        return [];
+    const dim = firstChunk.vector.length;
+    const anchor = firstChunk.vector;
+    const out = new Array(dim).fill(0);
+    let totalWeight = 0;
+    for (const chunk of chunks) {
+        const anchorSimilarity = Math.max(0, cosineSimilarity(anchor, chunk.vector));
+        const weight = chunk === firstChunk
+            ? 1
+            : Math.max(SIMILAR_SOURCE_MIN_CHUNK_WEIGHT, anchorSimilarity ** SIMILAR_SOURCE_ANCHOR_POWER);
+        for (let d = 0; d < dim; d++) {
+            out[d] = out[d] + chunk.vector[d] * weight;
+        }
+        totalWeight += weight;
+    }
+    if (totalWeight === 0)
+        return out;
+    for (let d = 0; d < dim; d++) {
+        out[d] = out[d] / totalWeight;
+    }
+    return out;
+}
 /** Get the embeddings owned by a specific note (used by find_similar). */
 export function getNoteEmbeddings(vaultPath, notePath) {
     const state = stateFor(vaultPath);

package/build/lib/embedding-store.js.map

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package/build/lib/errors.d.ts.map

@@ -1 +1 @@
-{"version":3,"file":"errors.d.ts","sourceRoot":"","sources":["../../src/lib/errors.ts"],"names":[],"mappings":"AA0BA;;;;;;;GAOG;AACH,wBAAgB,aAAa,CAAC,GAAG,EAAE,OAAO,GAAG,MAAM,CAUlD;AAED;;;;;;;;;;;;;;;GAeG;AACH,wBAAgB,kBAAkB,CAAC,CAAC,EAAE,MAAM,GAAG,MAAM,CAYpD;AAUD,wBAAgB,UAAU,CAAC,CAAC,EAAE,MAAM,GAAG,MAAM,CAK5C"}
+{"version":3,"file":"errors.d.ts","sourceRoot":"","sources":["../../src/lib/errors.ts"],"names":[],"mappings":"AA0BA;;;;;;;GAOG;AACH,wBAAgB,aAAa,CAAC,GAAG,EAAE,OAAO,GAAG,MAAM,CAUlD;AAYD;;;;;;;;;;;;;;;GAeG;AACH,wBAAgB,kBAAkB,CAAC,CAAC,EAAE,MAAM,GAAG,MAAM,CAYpD;AAUD,wBAAgB,UAAU,CAAC,CAAC,EAAE,MAAM,GAAG,MAAM,CAK5C"}

package/build/lib/errors.js

@@ -34,9 +34,21 @@ export function sanitizeError(err) {
     const code = typeof e.code === "string" ? e.code : undefined;
     if (code && FS_ERROR_MESSAGES[code])
         return FS_ERROR_MESSAGES[code];
-    const msg = typeof e.message === "string" ? e.message : String(err);
+    const msg = typeof e.message === "string" ? e.message : fallbackErrorMessage(err);
     return escapeControlChars(stripPaths(msg));
 }
+function fallbackErrorMessage(err) {
+    if (typeof err === "string")
+        return err;
+    if (err === null || err === undefined)
+        return "Unknown error";
+    try {
+        return JSON.stringify(err) ?? "Unknown error";
+    }
+    catch {
+        return "Unknown error";
+    }
+}
 /**
  * Escape ASCII control characters (newlines, carriage returns, tabs, NULs,
  * etc.) so an attacker-controlled string interpolated into a multi-line tool

package/build/lib/errors.js.map

@@ -1 +1 @@
-{"version":3,"file":"errors.js","sourceRoot":"","sources":["../../src/lib/errors.ts"],"names":[],"mappings":"AAAA,sCAAsC;AACtC,EAAE;AACF,8EAA8E;AAC9E,+EAA+E;AAC/E,8EAA8E;AAC9E,yEAAyE;AACzE,uEAAuE;AAEvE,MAAM,iBAAiB,GAA2B;IAChD,MAAM,EAAE,6BAA6B;IACrC,MAAM,EAAE,mBAAmB;IAC3B,KAAK,EAAE,yBAAyB;IAChC,MAAM,EAAE,qBAAqB;IAC7B,MAAM,EAAE,qBAAqB;IAC7B,OAAO,EAAE,yBAAyB;IAClC,SAAS,EAAE,wBAAwB;IACnC,KAAK,EAAE,eAAe;IACtB,MAAM,EAAE,qBAAqB;IAC7B,YAAY,EAAE,kBAAkB;CACjC,CAAC;AAOF;;;;;;;GAOG;AACH,MAAM,UAAU,aAAa,CAAC,GAAY;IACxC,IAAI,OAAO,GAAG,KAAK,QAAQ;QAAE,OAAO,kBAAkB,CAAC,UAAU,CAAC,GAAG,CAAC,CAAC,CAAC;IACxE,IAAI,CAAC,GAAG,IAAI,OAAO,GAAG,KAAK,QAAQ;QAAE,OAAO,eAAe,CAAC;IAE5D,MAAM,CAAC,GAAG,GAAgB,CAAC;IAC3B,MAAM,IAAI,GAAG,OAAO,CAAC,CAAC,IAAI,KAAK,QAAQ,CAAC,CAAC,CAAC,CAAC,CAAC,IAAI,CAAC,CAAC,CAAC,SAAS,CAAC;IAC7D,IAAI,IAAI,IAAI,iBAAiB,CAAC,IAAI,CAAC;QAAE,OAAO,iBAAiB,CAAC,IAAI,CAAC,CAAC;IAEpE,MAAM,GAAG,GAAG,OAAO,CAAC,CAAC,OAAO,KAAK,QAAQ,CAAC,CAAC,CAAC,CAAC,CAAC,OAAO,CAAC,CAAC,CAAC,MAAM,CAAC,GAAG,CAAC,CAAC;IACpE,OAAO,kBAAkB,CAAC,UAAU,CAAC,GAAG,CAAC,CAAC,CAAC;AAC7C,CAAC;AAED;;;;;;;;;;;;;;;GAeG;AACH,MAAM,UAAU,kBAAkB,CAAC,CAAS;IAC1C,sEAAsE;IACtE,qEAAqE;IACrE,sEAAsE;IACtE,uDAAuD;IACvD,4CAA4C;IAC5C,OAAO,CAAC,CAAC,OAAO,CAAC,kBAAkB,EAAE,CAAC,CAAC,EAAE,EAAE;QACzC,IAAI,CAAC,KAAK,IAAI;YAAE,OAAO,KAAK,CAAC;QAC7B,IAAI,CAAC,KAAK,IAAI;YAAE,OAAO,KAAK,CAAC;QAC7B,IAAI,CAAC,KAAK,IAAI;YAAE,OAAO,KAAK,CAAC;QAC7B,OAAO,MAAM,CAAC,CAAC,UAAU,CAAC,CAAC,CAAC,CAAC,QAAQ,CAAC,EAAE,CAAC,CAAC,QAAQ,CAAC,CAAC,EAAE,GAAG,CAAC,EAAE,CAAC;IAC/D,CAAC,CAAC,CAAC;AACL,CAAC;AAED,2EAA2E;AAC3E,0DAA0D;AAC1D,gCAAgC;AAChC,+CAA+C;AAC/C,EAAE;AACF,wEAAwE;AACxE,qEAAqE;AACrE,uCAAuC;AACvC,MAAM,UAAU,UAAU,CAAC,CAAS;IAClC,OAAO,CAAC;SACL,OAAO,CAAC,oBAAoB,EAAE,QAAQ,CAAC;SACvC,OAAO,CAAC,2BAA2B,EAAE,QAAQ,CAAC;SAC9C,OAAO,CAAC,mBAAmB,EAAE,UAAU,CAAC,CAAC;AAC9C,CAAC"}
+{"version":3,"file":"errors.js","sourceRoot":"","sources":["../../src/lib/errors.ts"],"names":[],"mappings":"AAAA,sCAAsC;AACtC,EAAE;AACF,8EAA8E;AAC9E,+EAA+E;AAC/E,8EAA8E;AAC9E,yEAAyE;AACzE,uEAAuE;AAEvE,MAAM,iBAAiB,GAA2B;IAChD,MAAM,EAAE,6BAA6B;IACrC,MAAM,EAAE,mBAAmB;IAC3B,KAAK,EAAE,yBAAyB;IAChC,MAAM,EAAE,qBAAqB;IAC7B,MAAM,EAAE,qBAAqB;IAC7B,OAAO,EAAE,yBAAyB;IAClC,SAAS,EAAE,wBAAwB;IACnC,KAAK,EAAE,eAAe;IACtB,MAAM,EAAE,qBAAqB;IAC7B,YAAY,EAAE,kBAAkB;CACjC,CAAC;AAOF;;;;;;;GAOG;AACH,MAAM,UAAU,aAAa,CAAC,GAAY;IACxC,IAAI,OAAO,GAAG,KAAK,QAAQ;QAAE,OAAO,kBAAkB,CAAC,UAAU,CAAC,GAAG,CAAC,CAAC,CAAC;IACxE,IAAI,CAAC,GAAG,IAAI,OAAO,GAAG,KAAK,QAAQ;QAAE,OAAO,eAAe,CAAC;IAE5D,MAAM,CAAC,GAAG,GAAgB,CAAC;IAC3B,MAAM,IAAI,GAAG,OAAO,CAAC,CAAC,IAAI,KAAK,QAAQ,CAAC,CAAC,CAAC,CAAC,CAAC,IAAI,CAAC,CAAC,CAAC,SAAS,CAAC;IAC7D,IAAI,IAAI,IAAI,iBAAiB,CAAC,IAAI,CAAC;QAAE,OAAO,iBAAiB,CAAC,IAAI,CAAC,CAAC;IAEpE,MAAM,GAAG,GAAG,OAAO,CAAC,CAAC,OAAO,KAAK,QAAQ,CAAC,CAAC,CAAC,CAAC,CAAC,OAAO,CAAC,CAAC,CAAC,oBAAoB,CAAC,GAAG,CAAC,CAAC;IAClF,OAAO,kBAAkB,CAAC,UAAU,CAAC,GAAG,CAAC,CAAC,CAAC;AAC7C,CAAC;AAED,SAAS,oBAAoB,CAAC,GAAY;IACxC,IAAI,OAAO,GAAG,KAAK,QAAQ;QAAE,OAAO,GAAG,CAAC;IACxC,IAAI,GAAG,KAAK,IAAI,IAAI,GAAG,KAAK,SAAS;QAAE,OAAO,eAAe,CAAC;IAC9D,IAAI,CAAC;QACH,OAAO,IAAI,CAAC,SAAS,CAAC,GAAG,CAAC,IAAI,eAAe,CAAC;IAChD,CAAC;IAAC,MAAM,CAAC;QACP,OAAO,eAAe,CAAC;IACzB,CAAC;AACH,CAAC;AAED;;;;;;;;;;;;;;;GAeG;AACH,MAAM,UAAU,kBAAkB,CAAC,CAAS;IAC1C,sEAAsE;IACtE,qEAAqE;IACrE,sEAAsE;IACtE,uDAAuD;IACvD,4CAA4C;IAC5C,OAAO,CAAC,CAAC,OAAO,CAAC,kBAAkB,EAAE,CAAC,CAAC,EAAE,EAAE;QACzC,IAAI,CAAC,KAAK,IAAI;YAAE,OAAO,KAAK,CAAC;QAC7B,IAAI,CAAC,KAAK,IAAI;YAAE,OAAO,KAAK,CAAC;QAC7B,IAAI,CAAC,KAAK,IAAI;YAAE,OAAO,KAAK,CAAC;QAC7B,OAAO,MAAM,CAAC,CAAC,UAAU,CAAC,CAAC,CAAC,CAAC,QAAQ,CAAC,EAAE,CAAC,CAAC,QAAQ,CAAC,CAAC,EAAE,GAAG,CAAC,EAAE,CAAC;IAC/D,CAAC,CAAC,CAAC;AACL,CAAC;AAED,2EAA2E;AAC3E,0DAA0D;AAC1D,gCAAgC;AAChC,+CAA+C;AAC/C,EAAE;AACF,wEAAwE;AACxE,qEAAqE;AACrE,uCAAuC;AACvC,MAAM,UAAU,UAAU,CAAC,CAAS;IAClC,OAAO,CAAC;SACL,OAAO,CAAC,oBAAoB,EAAE,QAAQ,CAAC;SACvC,OAAO,CAAC,2BAA2B,EAAE,QAAQ,CAAC;SAC9C,OAAO,CAAC,mBAAmB,EAAE,UAAU,CAAC,CAAC;AAC9C,CAAC"}

package/build/lib/fs-ops.d.ts

@@ -0,0 +1,2 @@
+export declare function renameWithRetry(from: string, to: string): Promise<void>;
+//# sourceMappingURL=fs-ops.d.ts.map

package/build/lib/fs-ops.d.ts.map

@@ -0,0 +1 @@
+{"version":3,"file":"fs-ops.d.ts","sourceRoot":"","sources":["../../src/lib/fs-ops.ts"],"names":[],"mappings":"AAaA,wBAAsB,eAAe,CAAC,IAAI,EAAE,MAAM,EAAE,EAAE,EAAE,MAAM,GAAG,OAAO,CAAC,IAAI,CAAC,CAa7E"}

package/build/lib/fs-ops.js

@@ -0,0 +1,26 @@
+import fs from "fs/promises";
+// Windows raises EPERM/EBUSY/EACCES from fs.rename when another process has
+// either endpoint open. Obsidian, sync clients, and antivirus scanners usually
+// release those handles within a few milliseconds, so retry the transient
+// class before surfacing a failure. POSIX EACCES is normally structural, not a
+// timing issue, so non-Windows platforms stay fail-fast.
+const RENAME_RETRY_CODES = process.platform === "win32"
+    ? new Set(["EPERM", "EBUSY", "EACCES"])
+    : new Set();
+const RENAME_RETRY_DELAYS_MS = [5, 10, 20, 40, 80, 160];
+export async function renameWithRetry(from, to) {
+    for (let attempt = 0;; attempt++) {
+        try {
+            await fs.rename(from, to);
+            return;
+        }
+        catch (err) {
+            const code = err.code ?? "";
+            if (!RENAME_RETRY_CODES.has(code) || attempt >= RENAME_RETRY_DELAYS_MS.length) {
+                throw err;
+            }
+            await new Promise((r) => setTimeout(r, RENAME_RETRY_DELAYS_MS[attempt]));
+        }
+    }
+}
+//# sourceMappingURL=fs-ops.js.map

package/build/lib/fs-ops.js.map

@@ -0,0 +1 @@
+{"version":3,"file":"fs-ops.js","sourceRoot":"","sources":["../../src/lib/fs-ops.ts"],"names":[],"mappings":"AAAA,OAAO,EAAE,MAAM,aAAa,CAAC;AAE7B,4EAA4E;AAC5E,+EAA+E;AAC/E,0EAA0E;AAC1E,+EAA+E;AAC/E,yDAAyD;AACzD,MAAM,kBAAkB,GAAwB,OAAO,CAAC,QAAQ,KAAK,OAAO;IAC1E,CAAC,CAAC,IAAI,GAAG,CAAC,CAAC,OAAO,EAAE,OAAO,EAAE,QAAQ,CAAC,CAAC;IACvC,CAAC,CAAC,IAAI,GAAG,EAAE,CAAC;AAEd,MAAM,sBAAsB,GAAG,CAAC,CAAC,EAAE,EAAE,EAAE,EAAE,EAAE,EAAE,EAAE,EAAE,EAAE,GAAG,CAAC,CAAC;AAExD,MAAM,CAAC,KAAK,UAAU,eAAe,CAAC,IAAY,EAAE,EAAU;IAC5D,KAAK,IAAI,OAAO,GAAG,CAAC,GAAI,OAAO,EAAE,EAAE,CAAC;QAClC,IAAI,CAAC;YACH,MAAM,EAAE,CAAC,MAAM,CAAC,IAAI,EAAE,EAAE,CAAC,CAAC;YAC1B,OAAO;QACT,CAAC;QAAC,OAAO,GAAG,EAAE,CAAC;YACb,MAAM,IAAI,GAAI,GAA6B,CAAC,IAAI,IAAI,EAAE,CAAC;YACvD,IAAI,CAAC,kBAAkB,CAAC,GAAG,CAAC,IAAI,CAAC,IAAI,OAAO,IAAI,sBAAsB,CAAC,MAAM,EAAE,CAAC;gBAC9E,MAAM,GAAG,CAAC;YACZ,CAAC;YACD,MAAM,IAAI,OAAO,CAAC,CAAC,CAAC,EAAE,EAAE,CAAC,UAAU,CAAC,CAAC,EAAE,sBAAsB,CAAC,OAAO,CAAC,CAAC,CAAC,CAAC;QAC3E,CAAC;IACH,CAAC;AACH,CAAC"}

package/build/lib/index-cache.d.ts

@@ -1,8 +1,18 @@
+export interface CachedFileStats {
+    size: number;
+    ctime: number;
+    mtime: number;
+}
+export declare function isPersistenceEnabled(): boolean;
 export interface ReadAllResult {
     /** vault-relative path → latest content. Files that failed to read are
      *  omitted; callers that need to know about failures should pass an
      *  `onError` callback. */
     contents: Map<string, string>;
+    /** vault-relative path -> stat mtime in whole milliseconds. */
+    mtimes: Map<string, number>;
+    /** vault-relative path -> stat fields collected before each read/cache hit. */
+    stats: Map<string, CachedFileStats>;
     /** Number of files whose content was reused from cache. */
     cacheHits: number;
     /** Number of files newly read (or re-read after mtime change). */

package/build/lib/index-cache.d.ts.map

@@ -1 +1 @@
-{"version":3,"file":"index-cache.d.ts","sourceRoot":"","sources":["../../src/lib/index-cache.ts"],"names":[],"mappings":"AAqQA,MAAM,WAAW,aAAa;IAC5B;;8BAE0B;IAC1B,QAAQ,EAAE,GAAG,CAAC,MAAM,EAAE,MAAM,CAAC,CAAC;IAC9B,2DAA2D;IAC3D,SAAS,EAAE,MAAM,CAAC;IAClB,kEAAkE;IAClE,WAAW,EAAE,MAAM,CAAC;CACrB;AAED;;;;GAIG;AACH,wBAAsB,aAAa,CACjC,SAAS,EAAE,MAAM,EACjB,QAAQ,EAAE,SAAS,MAAM,EAAE,EAC3B,OAAO,CAAC,EAAE,CAAC,OAAO,EAAE,MAAM,EAAE,GAAG,EAAE,KAAK,KAAK,IAAI,GAC9C,OAAO,CAAC,aAAa,CAAC,CAuExB;AAED;;0EAE0E;AAC1E,wBAAsB,mBAAmB,IAAI,OAAO,CAAC,IAAI,CAAC,CAezD;AAED;0EAC0E;AAC1E,wBAAsB,QAAQ,CAAC,SAAS,EAAE,MAAM,GAAG,OAAO,CAAC,IAAI,CAAC,CAQ/D;AAED;;YAEY;AACZ,wBAAsB,UAAU,CAC9B,SAAS,EAAE,MAAM,EACjB,OAAO,CAAC,EAAE;IAAE,cAAc,CAAC,EAAE,OAAO,CAAA;CAAE,GACrC,OAAO,CAAC,IAAI,CAAC,CAWf;AAED,qEAAqE;AACrE,wBAAgB,SAAS,IAAI,MAAM,CAIlC"}
+{"version":3,"file":"index-cache.d.ts","sourceRoot":"","sources":["../../src/lib/index-cache.ts"],"names":[],"mappings":"AAoDA,MAAM,WAAW,eAAe;IAC9B,IAAI,EAAE,MAAM,CAAC;IACb,KAAK,EAAE,MAAM,CAAC;IACd,KAAK,EAAE,MAAM,CAAC;CACf;AAiBD,wBAAgB,oBAAoB,IAAI,OAAO,CAG9C;AA8MD,MAAM,WAAW,aAAa;IAC5B;;8BAE0B;IAC1B,QAAQ,EAAE,GAAG,CAAC,MAAM,EAAE,MAAM,CAAC,CAAC;IAC9B,+DAA+D;IAC/D,MAAM,EAAE,GAAG,CAAC,MAAM,EAAE,MAAM,CAAC,CAAC;IAC5B,+EAA+E;IAC/E,KAAK,EAAE,GAAG,CAAC,MAAM,EAAE,eAAe,CAAC,CAAC;IACpC,2DAA2D;IAC3D,SAAS,EAAE,MAAM,CAAC;IAClB,kEAAkE;IAClE,WAAW,EAAE,MAAM,CAAC;CACrB;AAED;;;;GAIG;AACH,wBAAsB,aAAa,CACjC,SAAS,EAAE,MAAM,EACjB,QAAQ,EAAE,SAAS,MAAM,EAAE,EAC3B,OAAO,CAAC,EAAE,CAAC,OAAO,EAAE,MAAM,EAAE,GAAG,EAAE,KAAK,KAAK,IAAI,GAC9C,OAAO,CAAC,aAAa,CAAC,CAgFxB;AAED;;0EAE0E;AAC1E,wBAAsB,mBAAmB,IAAI,OAAO,CAAC,IAAI,CAAC,CAezD;AAED;0EAC0E;AAC1E,wBAAsB,QAAQ,CAAC,SAAS,EAAE,MAAM,GAAG,OAAO,CAAC,IAAI,CAAC,CAQ/D;AAED;;YAEY;AACZ,wBAAsB,UAAU,CAC9B,SAAS,EAAE,MAAM,EACjB,OAAO,CAAC,EAAE;IAAE,cAAc,CAAC,EAAE,OAAO,CAAA;CAAE,GACrC,OAAO,CAAC,IAAI,CAAC,CAWf;AAED,qEAAqE;AACrE,wBAAgB,SAAS,IAAI,MAAM,CAIlC"}

package/build/lib/index-cache.js

@@ -1,9 +1,10 @@
 import crypto from "crypto";
 import fs from "fs/promises";
 import path from "path";
-import { resolveVaultPathSafe } from "./vault.js";
+import { getVaultRootRealPath, resolveVaultInternalPathSafe, resolveVaultPathSafe } from "./vault.js";
 import { mapConcurrent } from "./concurrency.js";
 import { log } from "./logger.js";
+import { renameWithRetry } from "./fs-ops.js";
 /**
  * mtime-keyed content cache (in-memory + persistent).
  *
@@ -36,7 +37,7 @@ const CACHE_REL_PATH = ".obsidian/cache/mcp-pro-index-cache.json";
 const FLUSH_DEBOUNCE_MS = 5_000;
 const MAX_PERSISTED_BYTES = 64 * 1024 * 1024; // 64 MB safety cap
 const caches = new Map(); // vaultRoot -> state
-function isPersistenceEnabled() {
+export function isPersistenceEnabled() {
     const v = process.env.OBSIDIAN_CACHE_DISABLED;
     return !(v === "1" || v === "true" || v === "yes");
 }
@@ -49,8 +50,8 @@ function stateFor(vaultPath) {
     }
     return s;
 }
-function cacheFilePath(vaultPath) {
-    return path.join(path.resolve(vaultPath), CACHE_REL_PATH);
+async function cacheFilePath(vaultPath) {
+    return resolveVaultInternalPathSafe(vaultPath, CACHE_REL_PATH);
 }
 async function loadFromDisk(vaultPath, state) {
     if (state.loaded)
@@ -59,7 +60,15 @@ async function loadFromDisk(vaultPath, state) {
         state.loaded = true;
         return;
     }
-    const file = cacheFilePath(vaultPath);
+    let file;
+    try {
+        file = await cacheFilePath(vaultPath);
+    }
+    catch (err) {
+        log.warn("index-cache: snapshot path failed vault-boundary check", { err: err });
+        state.loaded = true;
+        return;
+    }
     let raw;
     try {
         raw = await fs.readFile(file, "utf-8");
@@ -204,16 +213,24 @@ async function doFlush(vaultPath, state) {
             mtimeMs: entry.mtimeMs,
         };
     }
+    let file;
+    try {
+        file = await cacheFilePath(vaultPath);
+    }
+    catch (err) {
+        state.dirty = true;
+        log.warn("index-cache: snapshot path failed vault-boundary check", { err: err });
+        return;
+    }
     // Snapshot is captured. From this point any setEntry will flip dirty back
     // to true and the next flushVaultCache call will see it.
     state.dirty = false;
-    const file = cacheFilePath(vaultPath);
     const dir = path.dirname(file);
     try {
         await fs.mkdir(dir, { recursive: true });
         const tmp = `${file}.${process.pid}-${Date.now()}-${crypto.randomUUID().slice(0, 8)}.tmp`;
         await fs.writeFile(tmp, JSON.stringify(snapshot), "utf-8");
-        await fs.rename(tmp, file);
+        await renameWithRetry(tmp, file);
     }
     catch (err) {
         // Write failed - re-mark dirty so the next flush retries this data.
@@ -232,13 +249,16 @@ export async function readAllCached(vaultPath, relPaths, onError) {
     const cache = state.entries;
     const seen = new Set();
     const contents = new Map();
+    const mtimes = new Map();
+    const statsByPath = new Map();
     let cacheHits = 0;
     let cacheMisses = 0;
+    const realVaultRoot = await getVaultRootRealPath(vaultPath);
     await mapConcurrent(relPaths, READ_CONCURRENCY, async (relPath) => {
         seen.add(relPath);
         let fullPath;
         try {
-            fullPath = await resolveVaultPathSafe(vaultPath, relPath);
+            fullPath = await resolveVaultPathSafe(vaultPath, relPath, "read", { realVaultRoot });
         }
         catch (err) {
             onError?.(relPath, err);
@@ -248,6 +268,12 @@ export async function readAllCached(vaultPath, relPaths, onError) {
         try {
             const stat = await fs.stat(fullPath);
             mtimeMs = stat.mtimeMs;
+            mtimes.set(relPath, stat.mtime.getTime());
+            statsByPath.set(relPath, {
+                size: stat.size,
+                ctime: stat.ctimeMs,
+                mtime: stat.mtimeMs,
+            });
         }
         catch (err) {
             // ENOENT during stat means the file disappeared between listing and
@@ -300,7 +326,7 @@ export async function readAllCached(vaultPath, relPaths, onError) {
     });
     if (state.dirty)
         scheduleFlush(vaultPath, state);
-    return { contents, cacheHits, cacheMisses };
+    return { contents, mtimes, stats: statsByPath, cacheHits, cacheMisses };
 }
 /** Synchronously flush all known caches to disk. Wired into the process
  *  shutdown hook so unsaved entries persist across normal exits. Best-effort:
@@ -346,7 +372,7 @@ export async function clearCache(vaultPath, options) {
     caches.delete(root);
     if (options?.removeSnapshot) {
         try {
-            await fs.unlink(cacheFilePath(vaultPath));
+            await fs.unlink(await cacheFilePath(vaultPath));
         }
         catch { /* ignore */ }
     }

package/build/lib/index-cache.js.map

@@ -1 +1 @@
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package/build/lib/link-rewriter.d.ts.map

@@ -1 +1 @@
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