@monoes/monomindcli 2.10.9 → 2.10.13

package/dist/src/mcp-tools/monograph/shared.js

@@ -58,85 +58,101 @@ export function getDbPath(repoPathOverride) {
 export function text(t) {
     return { content: [{ type: 'text', text: t }] };
 }
-export function applyPprRerank(db, seedNodes, damping, maxResults) {
-    const propagated = new Map();
-    for (const r of seedNodes) {
-        propagated.set(r.id, r.score);
-    }
+/** Hard caps so expansion stays bounded regardless of graph shape. */
+export const MAX_EXPANSION_EDGES = 5_000;
+export const MAX_SUPPORTING_NODES = 200;
+export const DEFAULT_EXPANSION_DAMPING = 0.5;
+/**
+ * Coerce a caller-supplied damping factor into [0, 1].
+ * Non-finite input (NaN, Infinity, a non-number from an MCP client) falls back
+ * to the default rather than silently poisoning every propagated score.
+ */
+export function normalizeExpansionDamping(damping) {
+    if (typeof damping !== 'number' || !Number.isFinite(damping))
+        return DEFAULT_EXPANSION_DAMPING;
+    return Math.min(1, Math.max(0, damping));
+}
+/**
+ * Expand one outgoing hop from `seedNodes` and merge the neighbors in as
+ * supporting context.
+ *
+ * `options.label`, when set, is reapplied AFTER expansion: a filtered query
+ * must not return an off-label node just because an on-label hit points at it.
+ */
+export function expandWithNeighbors(db, seedNodes, damping, maxResults, options = {}) {
+    const factor = normalizeExpansionDamping(damping);
+    const { label } = options;
     // P3: batched edge lookup — was one SELECT per seed node (N+1 over the
     // default limit*2=40 seeds). Now a single WHERE source_id IN (?, ?, …)
     // pulls every neighbor in one round-trip. SQLite parameter limit is 999,
-    // well above the 40-seed default; fall back to chunking if a caller ever
-    // exceeds it.
+    // well above the 40-seed default; chunked for callers that exceed it.
     const seedIds = seedNodes.map((r) => r.id);
     const SEED_CHUNK = 500;
     const sourceToTargets = new Map();
-    for (let i = 0; i < seedIds.length; i += SEED_CHUNK) {
+    let edgeCount = 0;
+    for (let i = 0; i < seedIds.length && edgeCount < MAX_EXPANSION_EDGES; i += SEED_CHUNK) {
         const chunk = seedIds.slice(i, i + SEED_CHUNK);
         const placeholders = chunk.map(() => '?').join(',');
         const rows = db
-            .prepare(`SELECT source_id, target_id FROM edges WHERE source_id IN (${placeholders})`)
-            .all(...chunk);
+            .prepare(`SELECT source_id, target_id FROM edges WHERE source_id IN (${placeholders}) LIMIT ?`)
+            .all(...chunk, MAX_EXPANSION_EDGES - edgeCount);
+        edgeCount += rows.length;
         for (const row of rows) {
             const arr = sourceToTargets.get(row.source_id) ?? [];
             arr.push(row.target_id);
             sourceToTargets.set(row.source_id, arr);
         }
     }
+    const seedIdSet = new Set(seedIds);
+    // Boost contributed by neighbors, keyed by node id. Kept separate from each
+    // seed's own score so we can tell "raised by a neighbor" from "ranked on its
+    // own merits" when reporting.
+    const neighborBoost = new Map();
     for (const r of seedNodes) {
-        const neighbors = sourceToTargets.get(r.id) ?? [];
-        for (const n of neighbors) {
-            const boost = r.score * damping;
-            const current = propagated.get(n) ?? 0;
-            propagated.set(n, Math.max(current, boost));
+        const boost = r.score * factor;
+        for (const n of sourceToTargets.get(r.id) ?? []) {
+            neighborBoost.set(n, Math.max(neighborBoost.get(n) ?? 0, boost));
         }
     }
-    const seedIdSet = new Set(seedNodes.map((r) => r.id));
-    const ranked = seedNodes.map((r) => ({
-        ...r,
-        combinedScore: Math.max(r.score, propagated.get(r.id) ?? 0),
-        boostedByNeighbors: false,
-    }));
-    // P3: batched node lookup for non-seed propagated nodes — was one SELECT
-    // per propagated id (~10 per call). Single WHERE id IN (?, ?, …) instead.
-    const nonSeedIds = [...propagated.keys()].filter((id) => !seedIdSet.has(id));
-    const nodeById = new Map();
-    for (let i = 0; i < nonSeedIds.length; i += SEED_CHUNK) {
-        const chunk = nonSeedIds.slice(i, i + SEED_CHUNK);
+    const ranked = seedNodes.map((r) => {
+        const boost = neighborBoost.get(r.id) ?? 0;
+        return {
+            ...r,
+            score: Math.max(r.score, boost),
+            isSupportingContext: false,
+            scoreRaisedByNeighbors: boost > r.score,
+        };
+    });
+    // Bound the expansion: keep only the highest-boosted non-seed nodes.
+    const supportingIds = [...neighborBoost.keys()]
+        .filter((id) => !seedIdSet.has(id))
+        .sort((a, b) => (neighborBoost.get(b) ?? 0) - (neighborBoost.get(a) ?? 0))
+        .slice(0, MAX_SUPPORTING_NODES);
+    // P3: batched node lookup for supporting nodes — was one SELECT per id.
+    for (let i = 0; i < supportingIds.length; i += SEED_CHUNK) {
+        const chunk = supportingIds.slice(i, i + SEED_CHUNK);
         const placeholders = chunk.map(() => '?').join(',');
         const rows = db
             .prepare(`SELECT id, name, label, file_path, start_line FROM nodes WHERE id IN (${placeholders})`)
             .all(...chunk);
-        for (const row of rows)
-            nodeById.set(row.id, row);
-    }
-    for (const [id, score] of propagated) {
-        if (!seedIdSet.has(id)) {
-            const node = nodeById.get(id);
-            if (node) {
-                ranked.push({
-                    id: node.id,
-                    name: node.name,
-                    label: node.label,
-                    filePath: node.file_path,
-                    startLine: node.start_line,
-                    score: 0,
-                    combinedScore: score,
-                    boostedByNeighbors: true,
-                });
-            }
+        for (const row of rows) {
+            ranked.push({
+                id: row.id,
+                name: row.name,
+                label: row.label,
+                filePath: row.file_path,
+                startLine: row.start_line,
+                score: neighborBoost.get(row.id) ?? 0,
+                isSupportingContext: true,
+                scoreRaisedByNeighbors: true,
+            });
         }
     }
-    ranked.sort((a, b) => b.combinedScore - a.combinedScore);
-    return ranked.slice(0, maxResults).map((r) => ({
-        id: r.id,
-        name: r.name,
-        label: r.label,
-        filePath: r.filePath,
-        startLine: r.startLine,
-        score: r.combinedScore,
-        boostedByNeighbors: r.boostedByNeighbors,
-    }));
+    // Reapply the caller's label filter AFTER expansion — a `label: Function`
+    // query previously leaked a Document in via a neighbor edge.
+    const filtered = label ? ranked.filter((r) => r.label === label) : ranked;
+    filtered.sort((a, b) => b.score - a.score);
+    return filtered.slice(0, maxResults);
 }
 /** Guard against concurrent background buildAsync calls on the same DB. */
 let _buildInProgress = false;
@@ -209,7 +225,10 @@ export function triggerBackgroundBuildIfNeeded(repoPath, commitsBehind, threshol
         return false;
     _buildInProgress = true;
     void import('@monoes/monograph')
-        .then(({ buildAsync }) => buildAsync(repoPath, { codeOnly: true }))
+        // No `codeOnly` here on purpose: the build reuses the scope the index was
+        // last built with. Forcing `codeOnly: true` made this refresh delete every
+        // previously-indexed Document node, silently narrowing the graph.
+        .then(({ buildAsync }) => buildAsync(repoPath))
         .catch((e) => {
         if (process.env.DEBUG || process.env.MONOMIND_DEBUG)
             console.error('[triggerBackgroundBuildIfNeeded] staleness-triggered rebuild failed:', e);

package/dist/src/mcp-tools/monograph/shared.js.map

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+{"version":3,"file":"embedding-operations.d.ts","sourceRoot":"","sources":["../../../src/memory/embedding-operations.ts"],"names":[],"mappings":"AAAA;;;;;;GAMG;AAsDH,6FAA6F;AAC7F,wBAAgB,mBAAmB,CAAC,IAAI,EAAE,MAAM,GAAG,IAAI,GAAG,IAAI,CAS7D;AAED,oFAAoF;AACpF,wBAAgB,mBAAmB,IAAI,MAAM,GAAG,IAAI,CAEnD;AAED;;;GAGG;AACH,wBAAsB,kBAAkB,CAAC,OAAO,CAAC,EAAE;IACjD,SAAS,CAAC,EAAE,MAAM,CAAC;IACnB,OAAO,CAAC,EAAE,OAAO,CAAC;CACnB,GAAG,OAAO,CAAC;IACV,OAAO,EAAE,OAAO,CAAC;IACjB,UAAU,EAAE,MAAM,CAAC;IACnB,SAAS,EAAE,MAAM,CAAC;IAClB,QAAQ,CAAC,EAAE,MAAM,CAAC;IAClB,KAAK,CAAC,EAAE,MAAM,CAAC;CAChB,CAAC,CAuJD;AAED;;;GAGG;AACH,wBAAsB,iBAAiB,CAAC,IAAI,EAAE,MAAM,GAAG,OAAO,CAAC;IAC7D,SAAS,EAAE,MAAM,EAAE,CAAC;IACpB,UAAU,EAAE,MAAM,CAAC;IACnB,KAAK,EAAE,MAAM,CAAC;CACf,CAAC,CAuDD;AAED;;;;;;;;GAQG;AACH,wBAAsB,uBAAuB,CAC3C,KAAK,EAAE,MAAM,EAAE,EACf,OAAO,CAAC,EAAE;IACR,WAAW,CAAC,EAAE,MAAM,CAAC;IACrB,UAAU,CAAC,EAAE,CAAC,SAAS,EAAE,MAAM,EAAE,KAAK,EAAE,MAAM,KAAK,IAAI,CAAC;CACzD,GACA,OAAO,CAAC;IACT,OAAO,EAAE,KAAK,CAAC;QAAE,IAAI,EAAE,MAAM,CAAC;QAAC,SAAS,EAAE,MAAM,EAAE,CAAC;QAAC,UAAU,EAAE,MAAM,CAAC;QAAC,KAAK,EAAE,MAAM,CAAA;KAAE,CAAC,CAAC;IACzF,SAAS,EAAE,MAAM,CAAC;IAClB,OAAO,EAAE,MAAM,CAAC;CACjB,CAAC,CAoDD;AAED;;;GAGG;AACH,wBAAgB,qBAAqB,CAAC,IAAI,EAAE,MAAM,EAAE,UAAU,EAAE,MAAM,GAAG,MAAM,EAAE,CAkBhF"}

package/dist/src/memory/embedding-operations.js

@@ -128,10 +128,15 @@ export async function loadEmbeddingModel(options) {
         }
     }
     try {
-        // Try to import @huggingface/transformers for ONNX embeddings
-        // (@huggingface/transformers is the maintained successor to @xenova/transformers,
-        // same maintainers/API — this is the package actually declared as a dependency)
-        const transformers = await import('@huggingface/transformers').catch(() => null);
+        // MONOMIND_NO_LOCAL_EMBEDDINGS: see the matching guard in
+        // memory-bridge.ts's loadEmbedder() — same native-crash rationale,
+        // same env var, set automatically for org runs.
+        const transformers = process.env.MONOMIND_NO_LOCAL_EMBEDDINGS === '1'
+            ? null
+            : // Try to import @huggingface/transformers for ONNX embeddings
+                // (@huggingface/transformers is the maintained successor to @xenova/transformers,
+                // same maintainers/API — this is the package actually declared as a dependency)
+                await import('@huggingface/transformers').catch(() => null);
         if (transformers) {
             if (verbose) {
                 console.log('Loading ONNX embedding model (gte-modernbert-base)...');

package/dist/src/memory/embedding-operations.js.map

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package/dist/src/memory/memory-bridge.d.ts

@@ -62,6 +62,16 @@ export declare function bridgeStoreEntry(options: {
     upsert?: boolean;
     /** Structured metadata persisted on the entry (KG nodes/edges, weights, provenance). */
     metadata?: Record<string, unknown>;
+    /** Compare-and-swap guard for a read-merge-write caller (memory-kg.ts's
+     *  claim-ledger merge, K5). `'absent'` requires no row to exist yet at this
+     *  key; a number requires the row's CURRENT stored version to still equal
+     *  it. Either way, the check and the write are one atomic SQL statement
+     *  (see SqlBackend.storeIfVersion/storeIfAbsent) — a caller that read this
+     *  row (or found it absent) moments ago finds out here, via `conflict`,
+     *  whether a concurrent writer beat it, instead of silently overwriting (or
+     *  being overwritten by) that writer's update. Omit for the plain
+     *  last-write-wins upsert every other caller already relies on. */
+    ifVersion?: number | 'absent';
 }): Promise<{
     success: boolean;
     id: string;
@@ -73,6 +83,11 @@ export declare function bridgeStoreEntry(options: {
     cached?: boolean;
     attested?: boolean;
     duplicate?: boolean;
+    /** True when `ifVersion` did not match the row's current state — the row
+     *  changed (or was created) concurrently. `success` is false alongside this;
+     *  nothing was written. The caller must re-read and retry, not treat this
+     *  as a transient error. */
+    conflict?: boolean;
     error?: string;
 } | null>;
 export declare function bridgeSearchEntries(options: {
@@ -138,6 +153,19 @@ export declare function bridgeListEntries(options: {
     total: number;
     error?: string;
 } | null>;
+/** A real database count for one namespace — `SELECT COUNT(*) WHERE
+ *  namespace = ?` against the existing `idx_namespace` index — as opposed to
+ *  `bridgeListEntries.total`, which is only the returned page's length (K7:
+ *  "bridgeListEntries.total is the returned page length, not a database
+ *  count"). Every row in a KG namespace (`kg:nodes`, `kg:edges`, `rules`) is
+ *  exactly one node/edge/rule — the name/adjacency index namespaces are
+ *  separate — so this count needs no per-row filtering to be exact, and costs
+ *  one indexed query instead of paging the whole namespace.
+ *
+ *  @returns null when the backend is unavailable, or when the loaded backend
+ *  predates `count()` — callers fall back to the paginated scan they already
+ *  had rather than fail. */
+export declare function bridgeCountEntries(namespace: string, dbPath?: string): Promise<number | null>;
 export declare function bridgeGetEntry(options: {
     key: string;
     namespace?: string;
@@ -157,6 +185,13 @@ export declare function bridgeGetEntry(options: {
         hasEmbedding: boolean;
         tags: string[];
         metadata: Record<string, unknown>;
+        /** The row's own revision counter (bumped on every store()/upsert),
+         *  distinct from any KG-level metadata.version. A caller doing a
+         *  read-merge-write passes this straight back as `bridgeStoreEntry`'s
+         *  `ifVersion` to detect a concurrent writer instead of silently
+         *  overwriting it (K5). Absent only when the underlying entry predates
+         *  version tracking. */
+        version?: number;
     };
     cacheHit?: boolean;
     error?: string;
@@ -250,14 +285,29 @@ export declare function bridgeSearchPatterns(options: {
     }[];
     error?: string;
 } | null>;
+/** Ids a usage/feedback pass could not train, with why — so `updated: 0` and
+ *  `applied: 0` are never a silent success. `not_found` means the id resolved
+ *  to no entry (deleted, or orphaned by an older re-ingest); `error` means the
+ *  entry existed but could not be updated. */
+type SkippedEntry = {
+    id: string;
+    reason: 'not_found' | 'error';
+};
 /** Record that these entries were actually USED (returned to and consumed by a
- *  caller) — increments frequency_weight, which feeds the ranking blend. */
+ *  caller) — increments frequency_weight, which feeds the ranking blend.
+ *
+ *  Unresolvable ids are REPORTED, not dropped: this used to `continue` past
+ *  every id it could not read, so a caller handing it a page of stale ids got
+ *  `{success: true, updated: 0}` with nothing to say whether those entries had
+ *  been deleted or the writes had failed. Same contract as
+ *  `bridgeApplyFeedback`. */
 export declare function bridgeRecordUsage(options: {
     entryIds: string[];
     dbPath?: string;
 }): Promise<{
     success: boolean;
     updated: number;
+    skipped?: SkippedEntry[];
 } | null>;
 /** Apply a usefulness rating to the entries that produced an answer:
  *  EWMA feedback_weight' = w + alpha*(score - w), clipped [0,1] (cognee's
@@ -272,6 +322,14 @@ export declare function bridgeApplyFeedback(options: {
 }): Promise<{
     success: boolean;
     applied: number;
+    /** Ids that trained nothing, with why — so `applied: 0` is never a silent
+     *  success. `not_found` means the id resolved to no entry (it was deleted, or
+     *  it predates the in-place upsert fix and was orphaned by a re-ingest);
+     *  `error` means the entry existed but could not be updated. */
+    skipped?: {
+        id: string;
+        reason: 'not_found' | 'error';
+    }[];
     alreadyApplied?: boolean;
     error?: string;
 } | null>;
@@ -369,4 +427,5 @@ export declare function bridgeContextSynthesize(params: {
 export declare function bridgeSemanticRoute(params: {
     input: string;
 }): Promise<any>;
+export {};
 //# sourceMappingURL=memory-bridge.d.ts.map

package/dist/src/memory/memory-bridge.d.ts.map

@@ -1 +1 @@
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