@mduenas/codegraph 0.5.7 → 0.6.0

package/dist/resolution/index.d.ts

@@ -19,11 +19,24 @@ export declare class ReferenceResolver {
     private frameworks;
     private nodeCache;
     private fileCache;
+    private nameCache;
+    private qualifiedNameCache;
+    private nodeByIdCache;
+    private kindCache;
+    private lowerNameCache;
+    private importMappingCache;
+    private knownFiles;
+    private cachesWarmed;
     constructor(projectRoot: string, queries: QueryBuilder);
     /**
      * Initialize the resolver (detect frameworks, etc.)
      */
     initialize(): void;
+    /**
+     * Pre-load all nodes into memory maps for fast lookup during resolution.
+     * This eliminates repeated SQLite queries and provides the core speedup.
+     */
+    warmCaches(): void;
     /**
      * Clear internal caches
      */
@@ -56,6 +69,14 @@ export declare class ReferenceResolver {
      * Check if reference is to a built-in or external symbol
      */
     private isBuiltInOrExternal;
+    /**
+     * Get file path from node ID
+     */
+    private getFilePathFromNodeId;
+    /**
+     * Get language from node ID
+     */
+    private getLanguageFromNodeId;
 }
 /**
  * Create a reference resolver instance

package/dist/resolution/index.d.ts.map

@@ -1 +1 @@
-{"version":3,"file":"index.d.ts","sourceRoot":"","sources":["../../src/resolution/index.ts"],"names":[],"mappings":"AAAA;;;;GAIG;AAIH,OAAO,EAAQ,mBAAmB,EAAE,IAAI,EAAE,MAAM,UAAU,CAAC;AAC3D,OAAO,EAAE,YAAY,EAAE,MAAM,eAAe,CAAC;AAC7C,OAAO,EACL,aAAa,EACb,WAAW,EACX,gBAAgB,EAGjB,MAAM,SAAS,CAAC;AAOjB,cAAc,SAAS,CAAC;AAExB;;;;GAIG;AACH,qBAAa,iBAAiB;IAC5B,OAAO,CAAC,WAAW,CAAS;IAC5B,OAAO,CAAC,OAAO,CAAe;IAC9B,OAAO,CAAC,OAAO,CAAoB;IACnC,OAAO,CAAC,UAAU,CAA2B;IAC7C,OAAO,CAAC,SAAS,CAAkC;IACnD,OAAO,CAAC,SAAS,CAAyC;gBAE9C,WAAW,EAAE,MAAM,EAAE,OAAO,EAAE,YAAY;IAMtD;;OAEG;IACH,UAAU,IAAI,IAAI;IAKlB;;OAEG;IACH,WAAW,IAAI,IAAI;IAKnB;;OAEG;IACH,OAAO,CAAC,aAAa;IA4DrB;;OAEG;IACH,UAAU,CACR,cAAc,EAAE,mBAAmB,EAAE,EACrC,UAAU,CAAC,EAAE,CAAC,OAAO,EAAE,MAAM,EAAE,KAAK,EAAE,MAAM,KAAK,IAAI,GACpD,gBAAgB;IA8DnB;;OAEG;IACH,UAAU,CAAC,GAAG,EAAE,aAAa,GAAG,WAAW,GAAG,IAAI;IA6BlD;;OAEG;IACH,WAAW,CAAC,QAAQ,EAAE,WAAW,EAAE,GAAG,IAAI,EAAE;IAc5C;;OAEG;IACH,iBAAiB,CACf,cAAc,EAAE,mBAAmB,EAAE,EACrC,UAAU,CAAC,EAAE,CAAC,OAAO,EAAE,MAAM,EAAE,KAAK,EAAE,MAAM,KAAK,IAAI,GACpD,gBAAgB;IAcnB;;OAEG;IACH,qBAAqB,IAAI,MAAM,EAAE;IAIjC;;OAEG;IACH,OAAO,CAAC,mBAAmB;CAwC5B;AAED;;GAEG;AACH,wBAAgB,cAAc,CAAC,WAAW,EAAE,MAAM,EAAE,OAAO,EAAE,YAAY,GAAG,iBAAiB,CAI5F"}
+{"version":3,"file":"index.d.ts","sourceRoot":"","sources":["../../src/resolution/index.ts"],"names":[],"mappings":"AAAA;;;;GAIG;AAIH,OAAO,EAAQ,mBAAmB,EAAE,IAAI,EAAE,MAAM,UAAU,CAAC;AAC3D,OAAO,EAAE,YAAY,EAAE,MAAM,eAAe,CAAC;AAC7C,OAAO,EACL,aAAa,EACb,WAAW,EACX,gBAAgB,EAIjB,MAAM,SAAS,CAAC;AAOjB,cAAc,SAAS,CAAC;AAExB;;;;GAIG;AACH,qBAAa,iBAAiB;IAC5B,OAAO,CAAC,WAAW,CAAS;IAC5B,OAAO,CAAC,OAAO,CAAe;IAC9B,OAAO,CAAC,OAAO,CAAoB;IACnC,OAAO,CAAC,UAAU,CAA2B;IAC7C,OAAO,CAAC,SAAS,CAAkC;IACnD,OAAO,CAAC,SAAS,CAAyC;IAC1D,OAAO,CAAC,SAAS,CAAkC;IACnD,OAAO,CAAC,kBAAkB,CAAkC;IAC5D,OAAO,CAAC,aAAa,CAAgC;IACrD,OAAO,CAAC,SAAS,CAAkC;IACnD,OAAO,CAAC,cAAc,CAAkC;IACxD,OAAO,CAAC,kBAAkB,CAA2C;IACrE,OAAO,CAAC,UAAU,CAA4B;IAC9C,OAAO,CAAC,YAAY,CAAS;gBAEjB,WAAW,EAAE,MAAM,EAAE,OAAO,EAAE,YAAY;IAMtD;;OAEG;IACH,UAAU,IAAI,IAAI;IAKlB;;;OAGG;IACH,UAAU,IAAI,IAAI;IAgDlB;;OAEG;IACH,WAAW,IAAI,IAAI;IAanB;;OAEG;IACH,OAAO,CAAC,aAAa;IAwGrB;;OAEG;IACH,UAAU,CACR,cAAc,EAAE,mBAAmB,EAAE,EACrC,UAAU,CAAC,EAAE,CAAC,OAAO,EAAE,MAAM,EAAE,KAAK,EAAE,MAAM,KAAK,IAAI,GACpD,gBAAgB;IAkDnB;;OAEG;IACH,UAAU,CAAC,GAAG,EAAE,aAAa,GAAG,WAAW,GAAG,IAAI;IA6BlD;;OAEG;IACH,WAAW,CAAC,QAAQ,EAAE,WAAW,EAAE,GAAG,IAAI,EAAE;IAc5C;;OAEG;IACH,iBAAiB,CACf,cAAc,EAAE,mBAAmB,EAAE,EACrC,UAAU,CAAC,EAAE,CAAC,OAAO,EAAE,MAAM,EAAE,KAAK,EAAE,MAAM,KAAK,IAAI,GACpD,gBAAgB;IAcnB;;OAEG;IACH,qBAAqB,IAAI,MAAM,EAAE;IAIjC;;OAEG;IACH,OAAO,CAAC,mBAAmB;IAyC3B;;OAEG;IACH,OAAO,CAAC,qBAAqB;IAQ7B;;OAEG;IACH,OAAO,CAAC,qBAAqB;CAO9B;AAED;;GAEG;AACH,wBAAgB,cAAc,CAAC,WAAW,EAAE,MAAM,EAAE,OAAO,EAAE,YAAY,GAAG,iBAAiB,CAI5F"}

package/dist/resolution/index.js

@@ -63,6 +63,14 @@ class ReferenceResolver {
     frameworks = [];
     nodeCache = new Map();
     fileCache = new Map();
+    nameCache = new Map();
+    qualifiedNameCache = new Map();
+    nodeByIdCache = new Map();
+    kindCache = new Map();
+    lowerNameCache = new Map();
+    importMappingCache = new Map();
+    knownFiles = null;
+    cachesWarmed = false;
     constructor(projectRoot, queries) {
         this.projectRoot = projectRoot;
         this.queries = queries;
@@ -75,12 +83,69 @@ class ReferenceResolver {
         this.frameworks = (0, frameworks_1.detectFrameworks)(this.context);
         this.clearCaches();
     }
+    /**
+     * Pre-load all nodes into memory maps for fast lookup during resolution.
+     * This eliminates repeated SQLite queries and provides the core speedup.
+     */
+    warmCaches() {
+        if (this.cachesWarmed)
+            return;
+        const allNodes = this.queries.getAllNodes();
+        for (const node of allNodes) {
+            // Index by name
+            const byName = this.nameCache.get(node.name);
+            if (byName) {
+                byName.push(node);
+            }
+            else {
+                this.nameCache.set(node.name, [node]);
+            }
+            // Index by qualified name
+            const byQName = this.qualifiedNameCache.get(node.qualifiedName);
+            if (byQName) {
+                byQName.push(node);
+            }
+            else {
+                this.qualifiedNameCache.set(node.qualifiedName, [node]);
+            }
+            // Index by ID
+            this.nodeByIdCache.set(node.id, node);
+            // Index by kind
+            const byKind = this.kindCache.get(node.kind);
+            if (byKind) {
+                byKind.push(node);
+            }
+            else {
+                this.kindCache.set(node.kind, [node]);
+            }
+            // Index by lowercase name (for fuzzy matching)
+            const lowerName = node.name.toLowerCase();
+            const byLower = this.lowerNameCache.get(lowerName);
+            if (byLower) {
+                byLower.push(node);
+            }
+            else {
+                this.lowerNameCache.set(lowerName, [node]);
+            }
+        }
+        // Pre-build known files set from index
+        this.knownFiles = new Set(this.queries.getAllFiles().map((f) => f.path));
+        this.cachesWarmed = true;
+    }
     /**
      * Clear internal caches
      */
     clearCaches() {
         this.nodeCache.clear();
         this.fileCache.clear();
+        this.nameCache.clear();
+        this.qualifiedNameCache.clear();
+        this.nodeByIdCache.clear();
+        this.kindCache.clear();
+        this.lowerNameCache.clear();
+        this.importMappingCache.clear();
+        this.knownFiles = null;
+        this.cachesWarmed = false;
     }
     /**
      * Create the resolution context
@@ -94,19 +159,37 @@ class ReferenceResolver {
                 return this.nodeCache.get(filePath);
             },
             getNodesByName: (name) => {
+                // Use warm cache if available, otherwise fall back to search
+                if (this.cachesWarmed) {
+                    return this.nameCache.get(name) ?? [];
+                }
                 return this.queries.searchNodes(name, { limit: 100 }).map((r) => r.node);
             },
             getNodesByQualifiedName: (qualifiedName) => {
-                // Search for exact qualified name match
+                // Use warm cache if available, otherwise fall back to search + filter
+                if (this.cachesWarmed) {
+                    return this.qualifiedNameCache.get(qualifiedName) ?? [];
+                }
                 return this.queries
                     .searchNodes(qualifiedName, { limit: 50 })
                     .filter((r) => r.node.qualifiedName === qualifiedName)
                     .map((r) => r.node);
             },
             getNodesByKind: (kind) => {
+                if (this.cachesWarmed) {
+                    return this.kindCache.get(kind) ?? [];
+                }
                 return this.queries.getNodesByKind(kind);
             },
             fileExists: (filePath) => {
+                // Check pre-built known files set first (O(1))
+                if (this.knownFiles) {
+                    const normalized = filePath.replace(/\\/g, '/');
+                    if (this.knownFiles.has(filePath) || this.knownFiles.has(normalized)) {
+                        return true;
+                    }
+                }
+                // Fall back to filesystem for files not yet indexed
                 const fullPath = path.join(this.projectRoot, filePath);
                 try {
                     return fs.existsSync(fullPath);
@@ -136,38 +219,48 @@ class ReferenceResolver {
             getAllFiles: () => {
                 return this.queries.getAllFiles().map((f) => f.path);
             },
+            getNodesByLowerName: (lowerName) => {
+                if (this.cachesWarmed) {
+                    return this.lowerNameCache.get(lowerName) ?? [];
+                }
+                // Fallback: scan all nodes (expensive, but only used if cache not warm)
+                return this.queries.getAllNodes().filter((n) => n.name.toLowerCase() === lowerName);
+            },
+            getImportMappings: (filePath, language) => {
+                const cacheKey = filePath;
+                const cached = this.importMappingCache.get(cacheKey);
+                if (cached)
+                    return cached;
+                const content = this.context.readFile(filePath);
+                if (!content) {
+                    this.importMappingCache.set(cacheKey, []);
+                    return [];
+                }
+                const mappings = (0, import_resolver_1.extractImportMappings)(filePath, content, language);
+                this.importMappingCache.set(cacheKey, mappings);
+                return mappings;
+            },
         };
     }
     /**
      * Resolve all unresolved references
      */
     resolveAll(unresolvedRefs, onProgress) {
+        // Pre-load all nodes into memory for fast lookups
+        this.warmCaches();
         const resolved = [];
         const unresolved = [];
         const byMethod = {};
-        // Batch fetch node info for all references upfront
-        const nodeIds = [...new Set(unresolvedRefs.map((ref) => ref.fromNodeId))];
-        const nodeInfoMap = new Map();
-        // Batch query - get all nodes at once
-        for (const nodeId of nodeIds) {
-            const node = this.queries.getNodeById(nodeId);
-            if (node) {
-                nodeInfoMap.set(nodeId, { filePath: node.filePath, language: node.language });
-            }
-        }
-        // Convert to our internal format using cached info
-        const refs = unresolvedRefs.map((ref) => {
-            const info = nodeInfoMap.get(ref.fromNodeId);
-            return {
-                fromNodeId: ref.fromNodeId,
-                referenceName: ref.referenceName,
-                referenceKind: ref.referenceKind,
-                line: ref.line,
-                column: ref.column,
-                filePath: info?.filePath || '',
-                language: info?.language || 'unknown',
-            };
-        });
+        // Convert to our internal format, using denormalized fields when available
+        const refs = unresolvedRefs.map((ref) => ({
+            fromNodeId: ref.fromNodeId,
+            referenceName: ref.referenceName,
+            referenceKind: ref.referenceKind,
+            line: ref.line,
+            column: ref.column,
+            filePath: ref.filePath || this.getFilePathFromNodeId(ref.fromNodeId),
+            language: ref.language || this.getLanguageFromNodeId(ref.fromNodeId),
+        }));
         const total = refs.length;
         for (let i = 0; i < refs.length; i++) {
             const ref = refs[i];
@@ -293,6 +386,28 @@ class ReferenceResolver {
         }
         return false;
     }
+    /**
+     * Get file path from node ID
+     */
+    getFilePathFromNodeId(nodeId) {
+        // Check warm cache first
+        const cached = this.nodeByIdCache.get(nodeId);
+        if (cached)
+            return cached.filePath;
+        const node = this.queries.getNodeById(nodeId);
+        return node?.filePath || '';
+    }
+    /**
+     * Get language from node ID
+     */
+    getLanguageFromNodeId(nodeId) {
+        // Check warm cache first
+        const cached = this.nodeByIdCache.get(nodeId);
+        if (cached)
+            return cached.language;
+        const node = this.queries.getNodeById(nodeId);
+        return node?.language || 'unknown';
+    }
 }
 exports.ReferenceResolver = ReferenceResolver;
 /**

package/dist/resolution/index.js.map

@@ -1 +1 @@
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package/dist/resolution/name-matcher.d.ts.map

@@ -1 +1 @@
-{"version":3,"file":"name-matcher.d.ts","sourceRoot":"","sources":["../../src/resolution/name-matcher.ts"],"names":[],"mappings":"AAAA;;;;GAIG;AAGH,OAAO,EAAE,aAAa,EAAE,WAAW,EAAE,iBAAiB,EAAE,MAAM,SAAS,CAAC;AAExE;;GAEG;AACH,wBAAgB,gBAAgB,CAC9B,GAAG,EAAE,aAAa,EAClB,OAAO,EAAE,iBAAiB,GACzB,WAAW,GAAG,IAAI,CA6BpB;AAED;;GAEG;AACH,wBAAgB,oBAAoB,CAClC,GAAG,EAAE,aAAa,EAClB,OAAO,EAAE,iBAAiB,GACzB,WAAW,GAAG,IAAI,CAmCpB;AAED;;GAEG;AACH,wBAAgB,eAAe,CAC7B,GAAG,EAAE,aAAa,EAClB,OAAO,EAAE,iBAAiB,GACzB,WAAW,GAAG,IAAI,CAsCpB;AA2DD;;GAEG;AACH,wBAAgB,UAAU,CACxB,GAAG,EAAE,aAAa,EAClB,OAAO,EAAE,iBAAiB,GACzB,WAAW,GAAG,IAAI,CAuCpB;AAED;;GAEG;AACH,wBAAgB,cAAc,CAC5B,GAAG,EAAE,aAAa,EAClB,OAAO,EAAE,iBAAiB,GACzB,WAAW,GAAG,IAAI,CAqBpB"}
+{"version":3,"file":"name-matcher.d.ts","sourceRoot":"","sources":["../../src/resolution/name-matcher.ts"],"names":[],"mappings":"AAAA;;;;GAIG;AAGH,OAAO,EAAE,aAAa,EAAE,WAAW,EAAE,iBAAiB,EAAE,MAAM,SAAS,CAAC;AAExE;;GAEG;AACH,wBAAgB,gBAAgB,CAC9B,GAAG,EAAE,aAAa,EAClB,OAAO,EAAE,iBAAiB,GACzB,WAAW,GAAG,IAAI,CA6BpB;AAED;;GAEG;AACH,wBAAgB,oBAAoB,CAClC,GAAG,EAAE,aAAa,EAClB,OAAO,EAAE,iBAAiB,GACzB,WAAW,GAAG,IAAI,CAmCpB;AAED;;GAEG;AACH,wBAAgB,eAAe,CAC7B,GAAG,EAAE,aAAa,EAClB,OAAO,EAAE,iBAAiB,GACzB,WAAW,GAAG,IAAI,CAsCpB;AA2DD;;GAEG;AACH,wBAAgB,UAAU,CACxB,GAAG,EAAE,aAAa,EAClB,OAAO,EAAE,iBAAiB,GACzB,WAAW,GAAG,IAAI,CAoBpB;AAED;;GAEG;AACH,wBAAgB,cAAc,CAC5B,GAAG,EAAE,aAAa,EAClB,OAAO,EAAE,iBAAiB,GACzB,WAAW,GAAG,IAAI,CAqBpB"}

package/dist/resolution/name-matcher.js

@@ -154,33 +154,20 @@ function findBestMatch(ref, candidates, _context) {
  * Fuzzy match - last resort with lower confidence
  */
 function matchFuzzy(ref, context) {
-    // Try case-insensitive match
-    const allNodes = [
-        ...context.getNodesByKind('function'),
-        ...context.getNodesByKind('method'),
-        ...context.getNodesByKind('class'),
-    ];
     const lowerName = ref.referenceName.toLowerCase();
-    // Exact case-insensitive match
-    const caseInsensitive = allNodes.filter((n) => n.name.toLowerCase() === lowerName);
-    if (caseInsensitive.length === 1) {
+    // Use pre-built lowercase index for O(1) lookup instead of scanning all nodes
+    const candidates = context.getNodesByLowerName(lowerName);
+    // Filter to callable kinds only (function, method, class)
+    const callableKinds = new Set(['function', 'method', 'class']);
+    const callableCandidates = candidates.filter((n) => callableKinds.has(n.kind));
+    if (callableCandidates.length === 1) {
         return {
             original: ref,
-            targetNodeId: caseInsensitive[0].id,
+            targetNodeId: callableCandidates[0].id,
             confidence: 0.5,
             resolvedBy: 'fuzzy',
         };
     }
-    // Try prefix match (e.g., "get" matches "getUser")
-    const prefixMatches = allNodes.filter((n) => n.name.toLowerCase().startsWith(lowerName));
-    if (prefixMatches.length === 1) {
-        return {
-            original: ref,
-            targetNodeId: prefixMatches[0].id,
-            confidence: 0.3,
-            resolvedBy: 'fuzzy',
-        };
-    }
     return null;
 }
 /**

package/dist/resolution/name-matcher.js.map

@@ -1 +1 @@
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package/dist/resolution/types.d.ts

@@ -74,6 +74,10 @@ export interface ResolutionContext {
     getProjectRoot(): string;
     /** Get all files */
     getAllFiles(): string[];
+    /** Get nodes by lowercase name (O(1) lookup for fuzzy matching) */
+    getNodesByLowerName(lowerName: string): Node[];
+    /** Get cached import mappings for a file */
+    getImportMappings(filePath: string, language: Language): ImportMapping[];
 }
 /**
  * Framework-specific resolver

package/dist/resolution/types.d.ts.map

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

@@ -141,6 +141,10 @@ export interface UnresolvedReference {
     /** Location of the reference */
     line: number;
     column: number;
+    /** File path where reference occurs (denormalized for performance) */
+    filePath?: string;
+    /** Language of the source file (denormalized for performance) */
+    language?: Language;
     /** Possible qualified names it might resolve to */
     candidates?: string[];
 }

package/dist/types.d.ts.map

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

@@ -91,6 +91,8 @@ exports.DEFAULT_CONFIG = {
         '**/__pycache__/**',
         '**/.venv/**',
         '**/venv/**',
+        '**/site-packages/**',
+        '**/dist-packages/**',
         '**/.pytest_cache/**',
         '**/.mypy_cache/**',
         '**/.ruff_cache/**',

package/dist/types.js.map

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

@@ -27,6 +27,48 @@
  * monitor.start();
  * ```
  */
+/**
+ * Validate that a resolved file path stays within the project root.
+ * Prevents path traversal attacks (e.g. node.filePath = "../../etc/passwd").
+ *
+ * @param projectRoot - The project root directory
+ * @param filePath - The relative file path to validate
+ * @returns The resolved absolute path, or null if it escapes the root
+ */
+export declare function validatePathWithinRoot(projectRoot: string, filePath: string): string | null;
+/**
+ * Safely parse JSON with a fallback value.
+ * Prevents crashes from corrupted database metadata.
+ */
+export declare function safeJsonParse<T>(value: string, fallback: T): T;
+/**
+ * Clamp a numeric value to a range.
+ * Used to enforce sane limits on MCP tool inputs.
+ */
+export declare function clamp(value: number, min: number, max: number): number;
+/**
+ * Normalize a file path to use forward slashes.
+ * Fixes Windows backslash paths so glob matching works consistently.
+ */
+export declare function normalizePath(filePath: string): string;
+/**
+ * Cross-process file lock using lock files.
+ * Prevents concurrent database writes from CLI, MCP server, and git hooks.
+ */
+export declare class FileLock {
+    private lockPath;
+    private acquired;
+    constructor(resourcePath: string);
+    /**
+     * Acquire the file lock. Waits up to timeoutMs for the lock.
+     * Cleans up stale locks older than staleLockMs.
+     */
+    acquire(timeoutMs?: number, staleLockMs?: number): Promise<boolean>;
+    /**
+     * Release the file lock
+     */
+    release(): void;
+}
 /**
  * Process items in batches to manage memory
  *

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