@stupidloud/codegraph 0.7.20 → 0.9.5

package/dist/graph/traversal.js

@@ -68,24 +68,22 @@ class GraphTraverser {
                 const priority = (e) => e.kind === 'contains' ? 0 : e.kind === 'calls' ? 1 : 2;
                 return priority(a) - priority(b);
             });
+            // Batch-fetch the unvisited neighbors in one query (was N+1 per BFS step).
+            const wantIds = adjacentEdges
+                .map((e) => (e.source === node.id ? e.target : e.source))
+                .filter((id) => !visited.has(id));
+            const neighborNodes = wantIds.length > 0 ? this.queries.getNodesByIds(wantIds) : new Map();
             for (const adjEdge of adjacentEdges) {
-                // Determine next node: for 'both' direction, edges can be either
-                // incoming or outgoing, so pick whichever end is not the current node
                 const nextNodeId = adjEdge.source === node.id ? adjEdge.target : adjEdge.source;
-                if (visited.has(nextNodeId)) {
+                if (visited.has(nextNodeId))
                     continue;
-                }
-                const nextNode = this.queries.getNodeById(nextNodeId);
-                if (!nextNode) {
+                const nextNode = neighborNodes.get(nextNodeId);
+                if (!nextNode)
                     continue;
-                }
-                // Apply node kind filter
                 if (opts.nodeKinds && opts.nodeKinds.length > 0 && !opts.nodeKinds.includes(nextNode.kind)) {
                     continue;
                 }
-                // Add node to result
                 nodes.set(nextNode.id, nextNode);
-                // Queue for further traversal
                 queue.push({ node: nextNode, edge: adjEdge, depth: depth + 1 });
             }
         }
@@ -131,17 +129,18 @@ class GraphTraverser {
         visited.add(node.id);
         // Get adjacent edges
         const adjacentEdges = this.getAdjacentEdges(node.id, opts.direction, opts.edgeKinds);
+        // Batch-fetch unvisited neighbors (was N+1 per DFS step).
+        const wantIds = adjacentEdges
+            .map((e) => (e.source === node.id ? e.target : e.source))
+            .filter((id) => !visited.has(id));
+        const neighborNodes = wantIds.length > 0 ? this.queries.getNodesByIds(wantIds) : new Map();
         for (const edge of adjacentEdges) {
-            // Determine next node: for 'both' direction, edges can be either
-            // incoming or outgoing, so pick whichever end is not the current node
             const nextNodeId = edge.source === node.id ? edge.target : edge.source;
-            if (visited.has(nextNodeId)) {
+            if (visited.has(nextNodeId))
                 continue;
-            }
-            const nextNode = this.queries.getNodeById(nextNodeId);
-            if (!nextNode) {
+            const nextNode = neighborNodes.get(nextNodeId);
+            if (!nextNode)
                 continue;
-            }
             // Apply node kind filter
             if (opts.nodeKinds && opts.nodeKinds.length > 0 && !opts.nodeKinds.includes(nextNode.kind)) {
                 continue;
@@ -190,8 +189,14 @@ class GraphTraverser {
         }
         visited.add(nodeId);
         const incomingEdges = this.queries.getIncomingEdges(nodeId, ['calls', 'references', 'imports']);
+        if (incomingEdges.length === 0)
+            return;
+        // Batch-fetch all caller nodes in one round-trip instead of one
+        // getNodeById per edge (was N+1 — meaningful on functions with many callers).
+        const sourceIds = incomingEdges.map((e) => e.source);
+        const callerNodes = this.queries.getNodesByIds(sourceIds);
         for (const edge of incomingEdges) {
-            const callerNode = this.queries.getNodeById(edge.source);
+            const callerNode = callerNodes.get(edge.source);
             if (callerNode && !visited.has(callerNode.id)) {
                 result.push({ node: callerNode, edge });
                 this.getCallersRecursive(callerNode.id, maxDepth, currentDepth + 1, result, visited);
@@ -217,8 +222,13 @@ class GraphTraverser {
         }
         visited.add(nodeId);
         const outgoingEdges = this.queries.getOutgoingEdges(nodeId, ['calls', 'references', 'imports']);
+        if (outgoingEdges.length === 0)
+            return;
+        // Batch-fetch callee nodes (was N+1 — see getCallersRecursive note).
+        const targetIds = outgoingEdges.map((e) => e.target);
+        const calleeNodes = this.queries.getNodesByIds(targetIds);
         for (const edge of outgoingEdges) {
-            const calleeNode = this.queries.getNodeById(edge.target);
+            const calleeNode = calleeNodes.get(edge.target);
             if (calleeNode && !visited.has(calleeNode.id)) {
                 result.push({ node: calleeNode, edge });
                 this.getCalleesRecursive(calleeNode.id, maxDepth, currentDepth + 1, result, visited);
@@ -291,8 +301,11 @@ class GraphTraverser {
         }
         visited.add(nodeId);
         const outgoingEdges = this.queries.getOutgoingEdges(nodeId, ['extends', 'implements']);
+        if (outgoingEdges.length === 0)
+            return;
+        const parents = this.queries.getNodesByIds(outgoingEdges.map((e) => e.target));
         for (const edge of outgoingEdges) {
-            const parentNode = this.queries.getNodeById(edge.target);
+            const parentNode = parents.get(edge.target);
             if (parentNode && !nodes.has(parentNode.id)) {
                 nodes.set(parentNode.id, parentNode);
                 edges.push(edge);
@@ -306,8 +319,11 @@ class GraphTraverser {
         }
         visited.add(nodeId);
         const incomingEdges = this.queries.getIncomingEdges(nodeId, ['extends', 'implements']);
+        if (incomingEdges.length === 0)
+            return;
+        const children = this.queries.getNodesByIds(incomingEdges.map((e) => e.source));
         for (const edge of incomingEdges) {
-            const childNode = this.queries.getNodeById(edge.source);
+            const childNode = children.get(edge.source);
             if (childNode && !nodes.has(childNode.id)) {
                 nodes.set(childNode.id, childNode);
                 edges.push(edge);
@@ -325,11 +341,14 @@ class GraphTraverser {
         const result = [];
         // Get all incoming edges (references, calls, type_of, etc.)
         const incomingEdges = this.queries.getIncomingEdges(nodeId);
+        if (incomingEdges.length === 0)
+            return result;
+        // Batch-fetch source nodes (was N+1).
+        const sources = this.queries.getNodesByIds(incomingEdges.map((e) => e.source));
         for (const edge of incomingEdges) {
-            const sourceNode = this.queries.getNodeById(edge.source);
-            if (sourceNode) {
+            const sourceNode = sources.get(edge.source);
+            if (sourceNode)
                 result.push({ node: sourceNode, edge });
-            }
         }
         return result;
     }
@@ -372,21 +391,27 @@ class GraphTraverser {
             const containerKinds = new Set(['class', 'interface', 'struct', 'trait', 'protocol', 'module', 'enum']);
             if (containerKinds.has(focalNode.kind)) {
                 const containsEdges = this.queries.getOutgoingEdges(nodeId, ['contains']);
-                for (const edge of containsEdges) {
-                    const childNode = this.queries.getNodeById(edge.target);
-                    if (childNode && !visited.has(childNode.id)) {
-                        nodes.set(childNode.id, childNode);
-                        edges.push(edge);
-                        // Recurse into children at the same depth (they're part of the same symbol)
-                        this.getImpactRecursive(childNode.id, maxDepth, currentDepth, nodes, edges, visited);
+                if (containsEdges.length > 0) {
+                    const children = this.queries.getNodesByIds(containsEdges.map((e) => e.target));
+                    for (const edge of containsEdges) {
+                        const childNode = children.get(edge.target);
+                        if (childNode && !visited.has(childNode.id)) {
+                            nodes.set(childNode.id, childNode);
+                            edges.push(edge);
+                            // Recurse into children at the same depth (they're part of the same symbol)
+                            this.getImpactRecursive(childNode.id, maxDepth, currentDepth, nodes, edges, visited);
+                        }
                     }
                 }
             }
         }
         // Get all incoming edges (things that depend on this node)
         const incomingEdges = this.queries.getIncomingEdges(nodeId);
+        if (incomingEdges.length === 0)
+            return;
+        const sources = this.queries.getNodesByIds(incomingEdges.map((e) => e.source));
         for (const edge of incomingEdges) {
-            const sourceNode = this.queries.getNodeById(edge.source);
+            const sourceNode = sources.get(edge.source);
             if (sourceNode && !nodes.has(sourceNode.id)) {
                 nodes.set(sourceNode.id, sourceNode);
                 edges.push(edge);
@@ -424,9 +449,16 @@ class GraphTraverser {
             visited.add(nodeId);
             // Get outgoing edges
             const outgoingEdges = this.queries.getOutgoingEdges(nodeId, edgeKinds.length > 0 ? edgeKinds : undefined);
+            if (outgoingEdges.length === 0)
+                continue;
+            // Batch-fetch only the unvisited targets (was N+1 per BFS frontier).
+            const wantIds = outgoingEdges
+                .map((e) => e.target)
+                .filter((id) => !visited.has(id));
+            const nextNodes = wantIds.length > 0 ? this.queries.getNodesByIds(wantIds) : new Map();
             for (const edge of outgoingEdges) {
                 if (!visited.has(edge.target)) {
-                    const nextNode = this.queries.getNodeById(edge.target);
+                    const nextNode = nextNodes.get(edge.target);
                     if (nextNode) {
                         queue.push({
                             nodeId: edge.target,
@@ -479,12 +511,15 @@ class GraphTraverser {
      */
     getChildren(nodeId) {
         const containsEdges = this.queries.getOutgoingEdges(nodeId, ['contains']);
+        if (containsEdges.length === 0)
+            return [];
+        // Batch-fetch (was N+1).
+        const childNodes = this.queries.getNodesByIds(containsEdges.map((e) => e.target));
         const children = [];
         for (const edge of containsEdges) {
-            const childNode = this.queries.getNodeById(edge.target);
-            if (childNode) {
+            const childNode = childNodes.get(edge.target);
+            if (childNode)
                 children.push(childNode);
-            }
         }
         return children;
     }

package/dist/graph/traversal.js.map

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package/dist/index.d.ts

@@ -87,7 +87,7 @@ export declare class CodeGraph {
     /**
      * Initialize synchronously (without indexing)
      */
-    static initSync(projectRoot: string, options?: Omit<InitOptions, 'index' | 'onProgress'>): CodeGraph;
+    static initSync(projectRoot: string, options?: Pick<InitOptions, 'config'>): CodeGraph;
     private static probeSqliteVssForConfig;
     /**
      * Open an existing CodeGraph project
@@ -204,12 +204,18 @@ export declare class CodeGraph {
      */
     getStats(): GraphStats;
     /**
-     * Active SQLite backend for this project's connection. `wasm` means
-     * the native better-sqlite3 install failed and the WASM fallback is
-     * serving requests at 5-10x the latency. Surfaced via `codegraph
-     * status` and the `codegraph_status` MCP tool.
+     * Active SQLite backend for this project's connection (`node-sqlite` — Node's
+     * built-in real-SQLite module). Surfaced via `codegraph status` and the
+     * `codegraph_status` MCP tool alongside the effective journal mode.
      */
     getBackend(): import('./db').SqliteBackend;
+    /**
+     * The journal mode actually in effect ('wal', 'delete', …). 'wal' means
+     * readers never block on a concurrent writer; anything else means they can,
+     * which is the precondition for the "database is locked" failures in issue
+     * #238. Surfaced via `codegraph status` and the `codegraph_status` MCP tool.
+     */
+    getJournalMode(): string;
     /**
      * Get a node by ID
      */

package/dist/index.d.ts.map

@@ -1 +1 @@
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+{"version":3,"file":"index.d.ts","sourceRoot":"","sources":["../src/index.ts"],"names":[],"mappings":"AAAA;;;;;GAKG;AAGH,OAAO,EACL,eAAe,EACf,IAAI,EACJ,IAAI,EACJ,UAAU,EACV,gBAAgB,EAChB,QAAQ,EACR,gBAAgB,EAChB,aAAa,EACb,YAAY,EACZ,OAAO,EACP,UAAU,EACV,SAAS,EACT,WAAW,EACX,mBAAmB,EACnB,0BAA0B,EAC3B,MAAM,SAAS,CAAC;AAUjB,OAAO,EAEL,aAAa,EACb,WAAW,EACX,UAAU,EAGX,MAAM,cAAc,CAAC;AACtB,OAAO,EAGL,gBAAgB,EACjB,MAAM,cAAc,CAAC;AAEtB,OAAO,EAAsC,iBAAiB,EAAE,MAAM,WAAW,CAAC;AAIlF,OAAO,EAAe,YAAY,EAAE,MAAM,QAAQ,CAAC;AAGnD,cAAc,SAAS,CAAC;AACxB,OAAO,EAAE,eAAe,EAAE,MAAM,MAAM,CAAC;AACvC,OAAO,EAAE,aAAa,EAAE,MAAM,UAAU,CAAC;AACzC,OAAO,EACL,eAAe,EACf,aAAa,EACb,wBAAwB,EACxB,aAAa,GACd,MAAM,aAAa,CAAC;AACrB,OAAO,EAAE,aAAa,EAAE,WAAW,EAAE,UAAU,EAAE,MAAM,cAAc,CAAC;AACtE,OAAO,EAAE,cAAc,EAAE,mBAAmB,EAAE,eAAe,EAAE,qBAAqB,EAAE,YAAY,EAAE,wBAAwB,EAAE,eAAe,EAAE,MAAM,cAAc,CAAC;AACpK,OAAO,EAAE,gBAAgB,EAAE,MAAM,cAAc,CAAC;AAChD,OAAO,EAAE,iBAAiB,EAAE,MAAM,WAAW,CAAC;AAC9C,OAAO,EACL,cAAc,EACd,SAAS,EACT,UAAU,EACV,aAAa,EACb,WAAW,EACX,WAAW,EACX,WAAW,EACX,MAAM,EACN,SAAS,EACT,SAAS,EACT,YAAY,EACZ,aAAa,GACd,MAAM,UAAU,CAAC;AAClB,OAAO,EAAE,KAAK,EAAE,QAAQ,EAAE,gBAAgB,EAAE,QAAQ,EAAE,QAAQ,EAAE,aAAa,EAAE,MAAM,SAAS,CAAC;AAC/F,OAAO,EAAE,WAAW,EAAE,YAAY,EAAE,MAAM,QAAQ,CAAC;AACnD,OAAO,EAAE,SAAS,EAAE,MAAM,OAAO,CAAC;AAElC;;GAEG;AACH,MAAM,WAAW,WAAW;IAC1B,qCAAqC;IACrC,MAAM,CAAC,EAAE,OAAO,CAAC,eAAe,CAAC,CAAC;IAElC,iDAAiD;IACjD,KAAK,CAAC,EAAE,OAAO,CAAC;IAEhB,qCAAqC;IACrC,UAAU,CAAC,EAAE,CAAC,QAAQ,EAAE,aAAa,KAAK,IAAI,CAAC;CAChD;AAED;;GAEG;AACH,MAAM,WAAW,WAAW;IAC1B,gDAAgD;IAChD,IAAI,CAAC,EAAE,OAAO,CAAC;IAEf,uCAAuC;IACvC,QAAQ,CAAC,EAAE,OAAO,CAAC;CACpB;AAED;;GAEG;AACH,MAAM,WAAW,YAAY;IAC3B,wBAAwB;IACxB,UAAU,CAAC,EAAE,CAAC,QAAQ,EAAE,aAAa,KAAK,IAAI,CAAC;IAE/C,oCAAoC;IACpC,MAAM,CAAC,EAAE,WAAW,CAAC;IAErB,kEAAkE;IAClE,OAAO,CAAC,EAAE,OAAO,CAAC;CACnB;AAED;;;;GAIG;AACH,qBAAa,SAAS;IACpB,OAAO,CAAC,EAAE,CAAqB;IAC/B,OAAO,CAAC,OAAO,CAAe;IAC9B,OAAO,CAAC,MAAM,CAAkB;IAChC,OAAO,CAAC,WAAW,CAAS;IAC5B,OAAO,CAAC,YAAY,CAAyB;IAC7C,OAAO,CAAC,QAAQ,CAAoB;IACpC,OAAO,CAAC,YAAY,CAAoB;IACxC,OAAO,CAAC,SAAS,CAAiB;IAClC,OAAO,CAAC,aAAa,CAA8B;IACnD,OAAO,CAAC,cAAc,CAAiB;IAGvC,OAAO,CAAC,UAAU,CAAe;IAGjC,OAAO,CAAC,QAAQ,CAAW;IAG3B,OAAO,CAAC,OAAO,CAA4B;IAE3C,OAAO;IA0BP,OAAO,CAAC,uBAAuB;IAI/B,OAAO,CAAC,6BAA6B;IAuBrC;;;;;;;;OAQG;WACU,IAAI,CAAC,WAAW,EAAE,MAAM,EAAE,OAAO,GAAE,WAAgB,GAAG,OAAO,CAAC,SAAS,CAAC;IAmCrF;;OAEG;IACH,MAAM,CAAC,QAAQ,CAAC,WAAW,EAAE,MAAM,EAAE,OAAO,GAAE,IAAI,CAAC,WAAW,EAAE,QAAQ,CAAM,GAAG,SAAS;IA2B1F,OAAO,CAAC,MAAM,CAAC,uBAAuB;IActC;;;;;;OAMG;WACU,IAAI,CAAC,WAAW,EAAE,MAAM,EAAE,OAAO,GAAE,WAAgB,GAAG,OAAO,CAAC,SAAS,CAAC;IA8BrF;;OAEG;IACH,MAAM,CAAC,QAAQ,CAAC,WAAW,EAAE,MAAM,GAAG,SAAS;IAsB/C;;OAEG;IACH,MAAM,CAAC,aAAa,CAAC,WAAW,EAAE,MAAM,GAAG,OAAO;IAIlD;;OAEG;IACH,KAAK,IAAI,IAAI;IAgBb;;OAEG;IACH,SAAS,IAAI,eAAe;IAI5B;;OAEG;IACH,YAAY,CAAC,OAAO,EAAE,OAAO,CAAC,eAAe,CAAC,GAAG,IAAI;IAYrD;;OAEG;IACH,cAAc,IAAI,MAAM;IAQxB;;;;OAIG;IACG,QAAQ,CAAC,OAAO,GAAE,YAAiB,GAAG,OAAO,CAAC,WAAW,CAAC;IA+ChE;;;;OAIG;IACG,UAAU,CAAC,SAAS,EAAE,MAAM,EAAE,GAAG,OAAO,CAAC,WAAW,CAAC;IAe3D;;;;OAIG;IACG,IAAI,CAAC,OAAO,GAAE,YAAiB,GAAG,OAAO,CAAC,UAAU,CAAC;YAiE7C,mBAAmB;IAoBjC,OAAO,CAAC,4BAA4B;YActB,gCAAgC;IAa9C;;OAEG;IACH,UAAU,IAAI,OAAO;IAQrB;;;;;;;;OAQG;IACH,KAAK,CAAC,OAAO,GAAE,YAAiB,GAAG,OAAO;IAgB1C;;OAEG;IACH,OAAO,IAAI,IAAI;IAOf;;OAEG;IACH,UAAU,IAAI,OAAO;IAIrB;;OAEG;IACH,eAAe,IAAI;QAAE,KAAK,EAAE,MAAM,EAAE,CAAC;QAAC,QAAQ,EAAE,MAAM,EAAE,CAAC;QAAC,OAAO,EAAE,MAAM,EAAE,CAAA;KAAE;IAI7E;;OAEG;IACH,iBAAiB,CAAC,QAAQ,EAAE,MAAM,EAAE,MAAM,EAAE,MAAM,GAAG,gBAAgB;IAQrE;;;;;;;;OAQG;IACH,iBAAiB,CAAC,UAAU,CAAC,EAAE,CAAC,OAAO,EAAE,MAAM,EAAE,KAAK,EAAE,MAAM,KAAK,IAAI,GAAG,gBAAgB;IAM1F;;;OAGG;IACG,wBAAwB,CAAC,UAAU,CAAC,EAAE,CAAC,OAAO,EAAE,MAAM,EAAE,KAAK,EAAE,MAAM,KAAK,IAAI,GAAG,OAAO,CAAC,gBAAgB,CAAC;IAIhH;;OAEG;IACH,qBAAqB,IAAI,MAAM,EAAE;IAIjC;;OAEG;IACH,oBAAoB,IAAI,IAAI;IAQ5B;;OAEG;IACH,QAAQ,IAAI,UAAU;IAMtB;;;;OAIG;IACH,UAAU,IAAI,OAAO,MAAM,EAAE,aAAa;IAI1C;;;;;OAKG;IACH,cAAc,IAAI,MAAM;IAQxB;;OAEG;IACH,OAAO,CAAC,EAAE,EAAE,MAAM,GAAG,IAAI,GAAG,IAAI;IAIhC;;OAEG;IACH,cAAc,CAAC,QAAQ,EAAE,MAAM,GAAG,IAAI,EAAE;IAIxC;;OAEG;IACH,cAAc,CAAC,IAAI,EAAE,IAAI,CAAC,MAAM,CAAC,GAAG,IAAI,EAAE;IAI1C;;OAEG;IACH,WAAW,CAAC,KAAK,EAAE,MAAM,EAAE,OAAO,CAAC,EAAE,aAAa,GAAG,YAAY,EAAE;IAQnE;;OAEG;IACH,gBAAgB,CAAC,MAAM,EAAE,MAAM,GAAG,IAAI,EAAE;IAIxC;;OAEG;IACH,gBAAgB,CAAC,MAAM,EAAE,MAAM,GAAG,IAAI,EAAE;IAQxC;;OAEG;IACH,OAAO,CAAC,QAAQ,EAAE,MAAM,GAAG,UAAU,GAAG,IAAI;IAI5C;;OAEG;IACH,QAAQ,IAAI,UAAU,EAAE;IAQxB;;;;;;;;;OASG;IACH,UAAU,CAAC,MAAM,EAAE,MAAM,GAAG,OAAO;IAInC;;;;;;;;;OASG;IACH,QAAQ,CAAC,OAAO,EAAE,MAAM,EAAE,OAAO,CAAC,EAAE,gBAAgB,GAAG,QAAQ;IAI/D;;;;;;;;;OASG;IACH,YAAY,CAAC,MAAM,EAAE,MAAM,EAAE,KAAK,GAAE,MAAU,GAAG,QAAQ;IAIzD;;;;;;;;OAQG;IACH,gBAAgB,CAAC,MAAM,EAAE,MAAM,GAAG,QAAQ;IAI1C;;;;;;;;OAQG;IACH,UAAU,CAAC,MAAM,EAAE,MAAM,GAAG,KAAK,CAAC;QAAE,IAAI,EAAE,IAAI,CAAC;QAAC,IAAI,EAAE,IAAI,CAAA;KAAE,CAAC;IAI7D;;;;;;OAMG;IACH,UAAU,CAAC,MAAM,EAAE,MAAM,EAAE,QAAQ,GAAE,MAAU,GAAG,KAAK,CAAC;QAAE,IAAI,EAAE,IAAI,CAAC;QAAC,IAAI,EAAE,IAAI,CAAA;KAAE,CAAC;IAInF;;;;;;OAMG;IACH,UAAU,CAAC,MAAM,EAAE,MAAM,EAAE,QAAQ,GAAE,MAAU,GAAG,KAAK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package/dist/index.js

@@ -120,13 +120,13 @@ class CodeGraph {
     fileLock;
     // File watcher for auto-sync on file changes
     watcher = null;
-    constructor(db, queries, config, projectRoot) {
+    constructor(db, queries, projectRoot, config = (0, config_1.loadConfig)(projectRoot)) {
         this.db = db;
         this.queries = queries;
         this.config = config;
         this.projectRoot = projectRoot;
         this.fileLock = new utils_1.FileLock(path.join(projectRoot, '.codegraph', 'codegraph.lock'));
-        this.orchestrator = new extraction_1.ExtractionOrchestrator(projectRoot, config, queries);
+        this.orchestrator = new extraction_1.ExtractionOrchestrator(projectRoot, queries);
         this.resolver = (0, resolution_1.createResolver)(projectRoot, queries);
         this.graphManager = new graph_1.GraphQueryManager(queries);
         this.traverser = new graph_1.GraphTraverser(queries);
@@ -185,7 +185,7 @@ class CodeGraph {
         const dbPath = (0, db_1.getDatabasePath)(resolvedRoot);
         const db = db_1.DatabaseConnection.initialize(dbPath);
         const queries = new queries_1.QueryBuilder(db.getDb());
-        const instance = new CodeGraph(db, queries, config, resolvedRoot);
+        const instance = new CodeGraph(db, queries, resolvedRoot, config);
         // Run initial indexing if requested
         if (options.index) {
             await instance.indexAll({ onProgress: options.onProgress });
@@ -214,7 +214,7 @@ class CodeGraph {
         const dbPath = (0, db_1.getDatabasePath)(resolvedRoot);
         const db = db_1.DatabaseConnection.initialize(dbPath);
         const queries = new queries_1.QueryBuilder(db.getDb());
-        return new CodeGraph(db, queries, config, resolvedRoot);
+        return new CodeGraph(db, queries, resolvedRoot, config);
     }
     static probeSqliteVssForConfig(config) {
         if (config.semanticSearch?.enabled !== true) {
@@ -246,13 +246,11 @@ class CodeGraph {
         if (!validation.valid) {
             throw new Error(`Invalid CodeGraph directory: ${validation.errors.join(', ')}`);
         }
-        // Load configuration
-        const config = (0, config_1.loadConfig)(resolvedRoot);
         // Open database
         const dbPath = (0, db_1.getDatabasePath)(resolvedRoot);
         const db = db_1.DatabaseConnection.open(dbPath);
         const queries = new queries_1.QueryBuilder(db.getDb());
-        const instance = new CodeGraph(db, queries, config, resolvedRoot);
+        const instance = new CodeGraph(db, queries, resolvedRoot);
         // Sync if requested
         if (options.sync) {
             await instance.sync();
@@ -273,13 +271,11 @@ class CodeGraph {
         if (!validation.valid) {
             throw new Error(`Invalid CodeGraph directory: ${validation.errors.join(', ')}`);
         }
-        // Load configuration
-        const config = (0, config_1.loadConfig)(resolvedRoot);
         // Open database
         const dbPath = (0, db_1.getDatabasePath)(resolvedRoot);
         const db = db_1.DatabaseConnection.open(dbPath);
         const queries = new queries_1.QueryBuilder(db.getDb());
-        return new CodeGraph(db, queries, config, resolvedRoot);
+        return new CodeGraph(db, queries, resolvedRoot);
     }
     /**
      * Check if a directory has been initialized as a CodeGraph project
@@ -316,9 +312,6 @@ class CodeGraph {
     updateConfig(updates) {
         Object.assign(this.config, updates);
         (0, config_1.saveConfig)(this.projectRoot, this.config);
-        // Recreate orchestrator and resolver with new config
-        this.orchestrator = new extraction_1.ExtractionOrchestrator(this.projectRoot, this.config, this.queries);
-        this.resolver = (0, resolution_1.createResolver)(this.projectRoot, this.queries);
         this.vectorManager = this.createConfiguredVectorManager();
         this.contextBuilder = (0, context_1.createContextBuilder)(this.projectRoot, this.queries, this.traverser, this.vectorManager);
     }
@@ -366,6 +359,11 @@ class CodeGraph {
                 if (result.success && this.isSemanticSearchEnabled()) {
                     await this.updateSemanticIndex(options.onProgress);
                 }
+                // Refresh planner stats + checkpoint the WAL after bulk writes.
+                // Cheap and non-blocking; never load-bearing for correctness.
+                if (result.success && result.filesIndexed > 0) {
+                    this.db.runMaintenance();
+                }
                 return result;
             }
             finally {
@@ -447,6 +445,10 @@ class CodeGraph {
                 if (this.isSemanticSearchEnabled()) {
                     await this.updateSemanticIndex(options.onProgress);
                 }
+                // Refresh planner stats + checkpoint the WAL after bulk writes.
+                if (result.filesAdded > 0 || result.filesModified > 0 || result.filesRemoved > 0) {
+                    this.db.runMaintenance();
+                }
                 return result;
             }
             finally {
@@ -517,7 +519,7 @@ class CodeGraph {
     watch(options = {}) {
         if (this.watcher?.isActive())
             return true;
-        this.watcher = new sync_1.FileWatcher(this.projectRoot, this.config, async () => {
+        this.watcher = new sync_1.FileWatcher(this.projectRoot, async () => {
             const result = await this.sync();
             const filesChanged = result.filesAdded + result.filesModified + result.filesRemoved;
             return { filesChanged, durationMs: result.durationMs };
@@ -599,14 +601,22 @@ class CodeGraph {
         return stats;
     }
     /**
-     * Active SQLite backend for this project's connection. `wasm` means
-     * the native better-sqlite3 install failed and the WASM fallback is
-     * serving requests at 5-10x the latency. Surfaced via `codegraph
-     * status` and the `codegraph_status` MCP tool.
+     * Active SQLite backend for this project's connection (`node-sqlite` — Node's
+     * built-in real-SQLite module). Surfaced via `codegraph status` and the
+     * `codegraph_status` MCP tool alongside the effective journal mode.
      */
     getBackend() {
         return this.db.getBackend();
     }
+    /**
+     * The journal mode actually in effect ('wal', 'delete', …). 'wal' means
+     * readers never block on a concurrent writer; anything else means they can,
+     * which is the precondition for the "database is locked" failures in issue
+     * #238. Surfaced via `codegraph status` and the `codegraph_status` MCP tool.
+     */
+    getJournalMode() {
+        return this.db.getJournalMode();
+    }
     // ===========================================================================
     // Node Operations
     // ===========================================================================

package/dist/index.js.map

@@ -1 +1 @@
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package/dist/installer/config-writer.d.ts.map

@@ -1 +1 @@
-{"version":3,"file":"config-writer.d.ts","sourceRoot":"","sources":["../../src/installer/config-writer.ts"],"names":[],"mappings":"AAAA;;;;;;;;;;;GAWG;AAYH,MAAM,MAAM,eAAe,GAAG,QAAQ,GAAG,OAAO,CAAC;AAEjD;;;;;GAKG;AACH,wBAAgB,cAAc,CAAC,QAAQ,EAAE,eAAe,GAAG,IAAI,CAE9D;AAED,wBAAgB,gBAAgB,CAAC,QAAQ,EAAE,eAAe,GAAG,IAAI,CAEhE;AAED,wBAAgB,aAAa,CAAC,QAAQ,EAAE,eAAe,GAAG;IAAE,OAAO,EAAE,OAAO,CAAC;IAAC,OAAO,EAAE,OAAO,CAAA;CAAE,CAM/F;AAED,wBAAgB,YAAY,CAAC,QAAQ,EAAE,eAAe,GAAG,OAAO,CAM/D;AAED,wBAAgB,cAAc,CAAC,QAAQ,EAAE,eAAe,GAAG,OAAO,CAQjE;AAED,wBAAgB,kBAAkB,CAAC,QAAQ,EAAE,eAAe,GAAG,OAAO,CAWrE"}
+{"version":3,"file":"config-writer.d.ts","sourceRoot":"","sources":["../../src/installer/config-writer.ts"],"names":[],"mappings":"AAAA;;;;;;;;;;;GAWG;AAYH,MAAM,MAAM,eAAe,GAAG,QAAQ,GAAG,OAAO,CAAC;AAEjD;;;;;GAKG;AACH,wBAAgB,cAAc,CAAC,QAAQ,EAAE,eAAe,GAAG,IAAI,CAE9D;AAED,wBAAgB,gBAAgB,CAAC,QAAQ,EAAE,eAAe,GAAG,IAAI,CAEhE;AAED,wBAAgB,aAAa,CAAC,QAAQ,EAAE,eAAe,GAAG;IAAE,OAAO,EAAE,OAAO,CAAC;IAAC,OAAO,EAAE,OAAO,CAAA;CAAE,CAM/F;AAED,wBAAgB,YAAY,CAAC,QAAQ,EAAE,eAAe,GAAG,OAAO,CAQ/D;AAED,wBAAgB,cAAc,CAAC,QAAQ,EAAE,eAAe,GAAG,OAAO,CAQjE;AAED,wBAAgB,kBAAkB,CAAC,QAAQ,EAAE,eAAe,GAAG,OAAO,CAWrE"}

package/dist/installer/config-writer.js

@@ -76,9 +76,11 @@ function writeClaudeMd(location) {
     };
 }
 function hasMcpConfig(location) {
+    // local scope lives in ./.mcp.json (project scope); global is the
+    // user-scope ~/.claude.json. Mirrors the Claude target's paths.
     const file = location === 'global'
         ? path.join(os.homedir(), '.claude.json')
-        : path.join(process.cwd(), '.claude.json');
+        : path.join(process.cwd(), '.mcp.json');
     const config = (0, shared_1.readJsonFile)(file);
     return !!config.mcpServers?.codegraph;
 }

package/dist/installer/config-writer.js.map

@@ -1 +1 @@
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