code-auditor-mcp 2.0.2 → 2.2.0

package/README.md

@@ -57,6 +57,9 @@ You: "Set SOLID analyzer to allow 3 responsibilities for components"
 Claude: Configuration saved! All future audits will use this setting.
 ```
 
+### 📋 Project task queue (MCP)
+Use the **`project_tasks`** tool to keep a per-project task list in the local database (titles, status, priorities, due dates, blockers, related files/symbols, and more). **Tasks survive `sync_index` reset**: clearing the analysis index removes indexed functions, cached audits, code maps, and schema overlays so you do not keep “ghost” references to deleted code—it does **not** delete your task list or analyzer configs.
+
 ## Real Examples
 
 ### Example 1: Finding Authentication Patterns
@@ -89,18 +92,30 @@ Claude: Found 4 similar components:
 
 ## Installation Options
 
-### Global Install
+### Published package (npm / pnpm / yarn)
 ```bash
 npm install -g code-auditor-mcp
+# or: pnpm add -g code-auditor-mcp
 code-audit  # Run analysis
 ```
 
-### Project Install
+### Project install
 ```bash
-npm install --save-dev code-auditor
+npm install --save-dev code-auditor-mcp
 npx code-audit
 ```
 
+### Developing from this repository
+Requires **Node.js 18+**. From the `app/` directory:
+
+```bash
+pnpm install
+pnpm run build
+pnpm test
+```
+
+The package manager in use is **pnpm** (see `packageManager` in `package.json`). Use `pnpm run test:parity` only if you need the legacy vs universal analyzer parity suite.
+
 ### CI/CD Integration
 ```yaml
 # GitHub Actions
@@ -108,6 +123,29 @@ npx code-audit
   run: npx code-audit --fail-on-critical
 ```
 
+### MCP server: where the index is stored
+
+The Loki index file defaults to **`<current working directory>/.code-index/index.db`**. If your MCP host runs with an unexpected or shared `cwd`, point at a dedicated folder:
+
+- **Environment variable** `CODE_AUDITOR_DATA_DIR` — directory to use as the storage root (absolute or relative to the process cwd when the server starts). The database file is **`<resolved>/index.db`** (no extra `.code-index` segment).
+- **CLI** — `node dist/mcp-index.js --data-dir /path/to/data` (equivalent to setting the env var). The published binary `code-auditor-mcp` also accepts `--data-dir` because it loads the same bootstrap.
+
+Example **Cursor** `.cursor/mcp.json` fragment:
+
+```json
+{
+  "mcpServers": {
+    "code-auditor": {
+      "command": "node",
+      "args": ["/absolute/path/to/code-auditor/app/dist/mcp-index.js", "--stdio"],
+      "env": {
+        "CODE_AUDITOR_DATA_DIR": "/Users/you/Library/Application Support/code-auditor"
+      }
+    }
+  }
+}
+```
+
 ## Key Commands
 
 ```bash

package/dist/analyzers/universal/UniversalDataAccessAnalyzer.d.ts.map

@@ -1 +1 @@
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package/dist/analyzers/universal/UniversalDataAccessAnalyzer.js

@@ -4,6 +4,7 @@
  * Analyzes database access patterns and data layer interactions
  */
 import { UniversalAnalyzer } from '../../languages/UniversalAnalyzer.js';
+import { IS_DEV_MODE } from '../../constants.js';
 export const DEFAULT_DATA_ACCESS_CONFIG = {
     checkOrgFilters: true,
     checkSQLInjection: true,
@@ -27,16 +28,16 @@ export const DEFAULT_DATA_ACCESS_CONFIG = {
     ],
     tablePatterns: {
         orm: [
-            /from\s*\(\s*["'`]?(\w+)["'`]?\s*\)/i,
-            /table\s*[:=]\s*["'`]?(\w+)["'`]?/i,
-            /\.from\s*\(\s*(\w+)\s*\)/i, // Handle .from(users) where users is a variable
-            /join\s*\(\s*(\w+)\s*,/i, // Handle joins
-            /leftJoin\s*\(\s*(\w+)\s*,/i,
-            /rightJoin\s*\(\s*(\w+)\s*,/i,
-            /innerJoin\s*\(\s*(\w+)\s*,/i
+            /from\s*\(\s*["'`]?(\w+)["'`]?\s*\)/gi,
+            /table\s*[:=]\s*["'`]?(\w+)["'`]?/gi,
+            /\.from\s*\(\s*(\w+)\s*\)/gi, // Handle .from(users) where users is a variable
+            /join\s*\(\s*(\w+)\s*,/gi, // Handle joins
+            /leftJoin\s*\(\s*(\w+)\s*,/gi,
+            /rightJoin\s*\(\s*(\w+)\s*,/gi,
+            /innerJoin\s*\(\s*(\w+)\s*,/gi
         ],
-        sql: [/FROM\s+["'`]?(\w+)["'`]?/i, /JOIN\s+["'`]?(\w+)["'`]?/i, /UPDATE\s+["'`]?(\w+)["'`]?/i],
-        queryBuilder: [/\.from\s*\(\s*["'`]?(\w+)["'`]?\s*\)/i]
+        sql: [/FROM\s+["'`]?(\w+)["'`]?/gi, /JOIN\s+["'`]?(\w+)["'`]?/gi, /UPDATE\s+["'`]?(\w+)["'`]?/gi],
+        queryBuilder: [/\.from\s*\(\s*["'`]?(\w+)["'`]?\s*\)/gi]
     },
     performanceThresholds: {
         complexQueryCount: 3,
@@ -55,11 +56,13 @@ export class UniversalDataAccessAnalyzer extends UniversalAnalyzer {
     async analyzeAST(ast, adapter, config, sourceCode) {
         const violations = [];
         const finalConfig = { ...DEFAULT_DATA_ACCESS_CONFIG, ...config };
-        console.log('[DEBUG] Data access config merge:', {
-            defaultPatterns: DEFAULT_DATA_ACCESS_CONFIG.organizationPatterns,
-            inputConfig: config,
-            finalPatterns: finalConfig.organizationPatterns
-        });
+        if (IS_DEV_MODE) {
+            console.log('[DEBUG] Data access config merge:', {
+                defaultPatterns: DEFAULT_DATA_ACCESS_CONFIG.organizationPatterns,
+                inputConfig: config,
+                finalPatterns: finalConfig.organizationPatterns
+            });
+        }
         // Check imports for database libraries
         const imports = adapter.extractImports(ast);
         const dbImports = this.mapDatabaseImports(imports, finalConfig);
@@ -165,13 +168,15 @@ export class UniversalDataAccessAnalyzer extends UniversalAnalyzer {
                 const tables = this.extractTables(nodeText, config);
                 const hasOrgFilter = this.hasOrganizationFilter(nodeText, config);
                 // Debug: Log the analysis
-                console.log('[DEBUG] Database call analysis:', {
-                    line: node.location.start.line,
-                    nodeText: nodeText.substring(0, 100),
-                    tables,
-                    hasOrgFilter,
-                    patterns: config.organizationPatterns || []
-                });
+                if (IS_DEV_MODE) {
+                    console.log('[DEBUG] Database call analysis:', {
+                        line: node.location.start.line,
+                        nodeText: nodeText.substring(0, 100),
+                        tables,
+                        hasOrgFilter,
+                        patterns: config.organizationPatterns || []
+                    });
+                }
                 const security = this.checkQuerySecurity(nodeText, config);
                 // Debug: Log extracted tables
                 if (tables.length === 0 && isOrmCall) {
@@ -382,25 +387,33 @@ export class UniversalDataAccessAnalyzer extends UniversalAnalyzer {
     hasOrganizationFilter(text, config) {
         const patterns = config.organizationPatterns || [];
         const lowerText = text.toLowerCase();
-        console.log('[DEBUG] hasOrganizationFilter called with:', {
-            text: text.substring(0, 100),
-            patternsFromConfig: patterns,
-            patternsLength: patterns.length
-        });
+        if (IS_DEV_MODE) {
+            console.log('[DEBUG] hasOrganizationFilter called with:', {
+                text: text.substring(0, 100),
+                patternsFromConfig: patterns,
+                patternsLength: patterns.length
+            });
+        }
         // If no patterns provided, check for hardcoded common patterns as fallback
         const fallbackPatterns = patterns.length === 0 ? [
             'organizationid', 'organization_id', 'orgid', 'org_id',
             'tenantid', 'tenant_id', 'companyid', 'company_id'
         ] : patterns;
-        console.log('[DEBUG] Using fallback patterns:', fallbackPatterns);
+        if (IS_DEV_MODE) {
+            console.log('[DEBUG] Using fallback patterns:', fallbackPatterns);
+        }
         // Check for simple pattern matches first
         const hasSimpleMatch = fallbackPatterns.some(pattern => {
             const match = lowerText.includes(pattern.toLowerCase());
-            console.log(`[DEBUG] Pattern "${pattern}" -> "${pattern.toLowerCase()}" in "${lowerText}": ${match}`);
+            if (IS_DEV_MODE) {
+                console.log(`[DEBUG] Pattern "${pattern}" -> "${pattern.toLowerCase()}" in "${lowerText}": ${match}`);
+            }
             return match;
         });
         if (hasSimpleMatch) {
-            console.log('[DEBUG] Found simple match, returning true');
+            if (IS_DEV_MODE) {
+                console.log('[DEBUG] Found simple match, returning true');
+            }
             return true;
         }
         // Enhanced pattern matching for object properties and SQL WHERE clauses
@@ -430,12 +443,14 @@ export class UniversalDataAccessAnalyzer extends UniversalAnalyzer {
             }
         }
         // Debug logging
-        console.log('[DEBUG] hasOrganizationFilter check:', {
-            text: text.substring(0, 150),
-            patterns,
-            fallbackPatterns,
-            hasFilter: false
-        });
+        if (IS_DEV_MODE) {
+            console.log('[DEBUG] hasOrganizationFilter check:', {
+                text: text.substring(0, 150),
+                patterns,
+                fallbackPatterns,
+                hasFilter: false
+            });
+        }
         return false;
     }
     checkQuerySecurity(text, config) {

package/dist/analyzers/universal/UniversalDataAccessAnalyzer.js.map

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

@@ -0,0 +1,2 @@
+export {};
+//# sourceMappingURL=applyDataDirEnv.d.ts.map

package/dist/applyDataDirEnv.d.ts.map

@@ -0,0 +1 @@
+{"version":3,"file":"applyDataDirEnv.d.ts","sourceRoot":"","sources":["../src/applyDataDirEnv.ts"],"names":[],"mappings":""}

package/dist/applyDataDirEnv.js

@@ -0,0 +1,21 @@
+/**
+ * Parse --data-dir before any module loads CodeIndexDB.getInstance().
+ * Sets CODE_AUDITOR_DATA_DIR to an absolute path (resolved from cwd if relative).
+ */
+import path from 'node:path';
+const argv = process.argv.slice(2);
+for (let i = 0; i < argv.length; i++) {
+    const a = argv[i];
+    if (a === '--data-dir' || a === '--dataDir') {
+        const val = argv[i + 1];
+        if (val && !val.startsWith('-')) {
+            process.env.CODE_AUDITOR_DATA_DIR = path.resolve(val);
+        }
+        else {
+            // stderr only; avoids silent failure when e.g. `--data-dir --ui` skips the path
+            console.error('[code-auditor] --data-dir requires a directory path (next argv). Using CODE_AUDITOR_DATA_DIR env or default .code-index/.');
+        }
+        break;
+    }
+}
+//# sourceMappingURL=applyDataDirEnv.js.map

package/dist/applyDataDirEnv.js.map

@@ -0,0 +1 @@
+{"version":3,"file":"applyDataDirEnv.js","sourceRoot":"","sources":["../src/applyDataDirEnv.ts"],"names":[],"mappings":"AAAA;;;GAGG;AACH,OAAO,IAAI,MAAM,WAAW,CAAC;AAE7B,MAAM,IAAI,GAAG,OAAO,CAAC,IAAI,CAAC,KAAK,CAAC,CAAC,CAAC,CAAC;AACnC,KAAK,IAAI,CAAC,GAAG,CAAC,EAAE,CAAC,GAAG,IAAI,CAAC,MAAM,EAAE,CAAC,EAAE,EAAE,CAAC;IACrC,MAAM,CAAC,GAAG,IAAI,CAAC,CAAC,CAAC,CAAC;IAClB,IAAI,CAAC,KAAK,YAAY,IAAI,CAAC,KAAK,WAAW,EAAE,CAAC;QAC5C,MAAM,GAAG,GAAG,IAAI,CAAC,CAAC,GAAG,CAAC,CAAC,CAAC;QACxB,IAAI,GAAG,IAAI,CAAC,GAAG,CAAC,UAAU,CAAC,GAAG,CAAC,EAAE,CAAC;YAChC,OAAO,CAAC,GAAG,CAAC,qBAAqB,GAAG,IAAI,CAAC,OAAO,CAAC,GAAG,CAAC,CAAC;QACxD,CAAC;aAAM,CAAC;YACN,gFAAgF;YAChF,OAAO,CAAC,KAAK,CACX,2HAA2H,CAC5H,CAAC;QACJ,CAAC;QACD,MAAM;IACR,CAAC;AACH,CAAC"}

package/dist/auditRunner.d.ts.map

@@ -1 +1 @@
-{"version":3,"file":"auditRunner.d.ts","sourceRoot":"","sources":["../src/auditRunner.ts"],"names":[],"mappings":"AAAA;;;GAGG;AAIH,OAAO,EACL,WAAW,EACX,kBAAkB,EAClB,kBAAkB,EAKnB,MAAM,YAAY,CAAC;AA+BpB;;GAEG;AACH,wBAAgB,iBAAiB,CAAC,OAAO,GAAE,kBAAuB;iCAM5B,kBAAkB,KAAG,IAAI;oCAOhB,MAAM,KAAG,OAAO,CAAC,kBAAkB,CAAC;uBAQjD,kBAAkB,KAAG,OAAO,CAAC,WAAW,CAAC;6BAyI1B,WAAW,UAAU,MAAM,KAAG,OAAO,CAAC,MAAM,CAAC;EAU7F;AA+FD;;GAEG;AACH,wBAAsB,QAAQ,CAAC,OAAO,CAAC,EAAE,kBAAkB,GAAG,OAAO,CAAC,WAAW,CAAC,CAGjF;AAED,OAAO,EAAE,aAAa,EAAE,kBAAkB,EAAE,MAAM,YAAY,CAAC"}
+{"version":3,"file":"auditRunner.d.ts","sourceRoot":"","sources":["../src/auditRunner.ts"],"names":[],"mappings":"AAAA;;;GAGG;AAIH,OAAO,EACL,WAAW,EACX,kBAAkB,EAClB,kBAAkB,EAKnB,MAAM,YAAY,CAAC;AAgCpB;;GAEG;AACH,wBAAgB,iBAAiB,CAAC,OAAO,GAAE,kBAAuB;iCAM5B,kBAAkB,KAAG,IAAI;oCAOhB,MAAM,KAAG,OAAO,CAAC,kBAAkB,CAAC;uBAQjD,kBAAkB,KAAG,OAAO,CAAC,WAAW,CAAC;6BA0K1B,WAAW,UAAU,MAAM,KAAG,OAAO,CAAC,MAAM,CAAC;EAU7F;AAgGD;;GAEG;AACH,wBAAsB,QAAQ,CAAC,OAAO,CAAC,EAAE,kBAAkB,GAAG,OAAO,CAAC,WAAW,CAAC,CAGjF;AAED,OAAO,EAAE,aAAa,EAAE,kBAAkB,EAAE,MAAM,YAAY,CAAC"}

package/dist/auditRunner.js

@@ -2,10 +2,12 @@
  * Audit Runner (Functional)
  * Main orchestrator for running code audits
  */
+import path from 'path';
 import { discoverFiles } from './utils/fileDiscovery.js';
 import { loadConfig } from './config/configLoader.js';
 import { generateReport } from './reporting/reportGenerator.js';
 import { extractFunctionsFromFile } from './functionScanner.js';
+import { isMcpDebugEnabled, logMcpDebug, logMcpInfo } from './mcpDiagnostics.js';
 // Import analyzer definitions
 // Use compatibility layers for refactored analyzers
 import { createSOLIDAnalyzer } from './adapters/solidAnalyzerCompat.js';
@@ -60,6 +62,12 @@ export function createAuditRunner(options = {}) {
         });
         // Discover files
         const files = await discoverProjectFiles(mergedOptions);
+        const root = mergedOptions.projectRoot || process.cwd();
+        logMcpInfo('discovery', 'file discovery finished', {
+            projectRoot: path.resolve(root),
+            totalFiles: files.length,
+            indexFunctions: !!mergedOptions.indexFunctions
+        });
         // Collect functions if enabled
         let collectedFunctions = [];
         const fileToFunctionsMap = new Map(); // Track functions per file for sync
@@ -72,8 +80,17 @@ export function createAuditRunner(options = {}) {
             // Note: Go files will be indexed by the Universal SOLID analyzer directly
             const scriptFiles = files.filter(f => f.endsWith('.ts') || f.endsWith('.tsx') ||
                 f.endsWith('.js') || f.endsWith('.jsx'));
+            logMcpInfo('function-indexing', 'extracting functions from script files', {
+                scriptFileCount: scriptFiles.length
+            });
             for (let i = 0; i < scriptFiles.length; i++) {
                 try {
+                    if (i > 0 && i % 50 === 0) {
+                        logMcpInfo('function-indexing', 'progress', {
+                            current: i,
+                            total: scriptFiles.length
+                        });
+                    }
                     const fileFunctions = await extractFunctionsFromFile(scriptFiles[i], {
                         unusedImportsConfig: mergedOptions.unusedImportsConfig
                     });
@@ -85,23 +102,33 @@ export function createAuditRunner(options = {}) {
                         total: scriptFiles.length,
                         message: `Collected ${fileFunctions.length} items from ${scriptFiles[i]}`
                     });
+                    if (isMcpDebugEnabled()) {
+                        logMcpDebug('function-indexing', scriptFiles[i], {
+                            symbols: fileFunctions.length
+                        });
+                    }
                 }
                 catch (error) {
-                    // Log error but continue with other files
-                    console.warn(`Failed to extract functions from ${scriptFiles[i]}:`, error);
+                    logMcpInfo('function-indexing', 'extract failed (continuing)', {
+                        file: scriptFiles[i],
+                        error: error instanceof Error ? error.message : String(error)
+                    });
                 }
             }
         }
         // Run analyzers
         const analyzerResults = {};
         const enabledAnalyzers = getEnabledAnalyzers(mergedOptions, analyzerRegistry);
-        console.log('[DEBUG] Enabled analyzers:', enabledAnalyzers);
-        console.log('[DEBUG] Available analyzers in registry:', Object.keys(analyzerRegistry));
+        logMcpInfo('analysis', 'enabled analyzers', {
+            names: enabledAnalyzers,
+            fileCount: files.length
+        });
+        logMcpDebug('analysis', 'registry keys', { keys: Object.keys(analyzerRegistry) });
         for (const analyzerName of enabledAnalyzers) {
             const analyzer = analyzerRegistry[analyzerName];
-            console.log(`[DEBUG] Processing analyzer: ${analyzerName}, found: ${!!analyzer}`);
+            logMcpDebug('analysis', `starting analyzer ${analyzerName}`, { found: !!analyzer });
             if (!analyzer) {
-                console.warn(`Unknown analyzer: ${analyzerName}`);
+                logMcpInfo('analysis', `unknown analyzer skipped: ${analyzerName}`, {});
                 continue;
             }
             reportProgress(mergedOptions, {
@@ -109,11 +136,7 @@ export function createAuditRunner(options = {}) {
                 analyzer: analyzerName,
                 message: `Running ${analyzerName} analyzer...`
             });
-            console.log(`[DEBUG] About to call ${analyzerName}.analyze()`);
-            console.log(`[DEBUG] Analyzer object:`, analyzer);
-            console.log(`[DEBUG] Analyzer.analyze type:`, typeof analyzer.analyze);
-            console.log(`[DEBUG] Files to analyze:`, files);
-            console.log(`[DEBUG] Config for analyzer:`, mergedOptions.analyzerConfigs?.[analyzerName] || {});
+            logMcpInfo('analysis', `running ${analyzerName}`, { fileCount: files.length });
             try {
                 const result = await analyzer.analyze(files, mergedOptions.analyzerConfigs?.[analyzerName] || {}, mergedOptions, (progress) => {
                     reportProgress(mergedOptions, {
@@ -123,8 +146,19 @@ export function createAuditRunner(options = {}) {
                         total: progress.total,
                         message: `Analyzing ${progress.file}...`
                     });
+                    if (isMcpDebugEnabled() && progress.current && progress.total) {
+                        if (progress.current % 20 === 0 || progress.current === progress.total) {
+                            logMcpDebug('analysis', `${analyzerName} file progress`, {
+                                current: progress.current,
+                                total: progress.total,
+                                file: progress.file
+                            });
+                        }
+                    }
+                });
+                logMcpDebug('analysis', `${analyzerName} completed`, {
+                    violations: result.violations?.length ?? 0
                 });
-                console.log(`[DEBUG] ${analyzerName}.analyze() returned:`, result);
                 analyzerResults[analyzerName] = result;
             }
             catch (error) {
@@ -192,7 +226,8 @@ async function discoverProjectFiles(options) {
  * Get list of enabled analyzers
  */
 function getEnabledAnalyzers(options, registry) {
-    if (options.enabledAnalyzers && options.enabledAnalyzers.length > 0) {
+    // Explicit array (including empty = run no analyzers, e.g. index-only harness)
+    if (options.enabledAnalyzers !== undefined) {
         return options.enabledAnalyzers;
     }
     return Object.keys(registry);

package/dist/auditRunner.js.map

@@ -1 +1 @@
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package/dist/codeIndexDB-enhanced.d.ts

@@ -2,7 +2,6 @@
  * Enhanced Code Index Database for Cross-Language Support
  * Extends the existing CodeIndexDB with multi-language capabilities
  */
-import Loki from 'lokijs';
 import { CodeIndexDB } from './codeIndexDB.js';
 import { CrossLanguageEntity, CrossReference, APIContract, CrossLanguageSearchOptions, CrossLanguageSearchResult, CrossLanguageAnalysisResult, DependencyGraph, MigrationOptions } from './types/crossLanguage.js';
 /**
@@ -73,8 +72,8 @@ export declare class EnhancedCodeIndexDB extends CodeIndexDB {
      */
     private generateSearchTokens;
     /**
-     * Get access to the underlying database for advanced operations
+     * Also clears cross-language derived collections and their FlexSearch mirror when present.
      */
-    getDatabase(): Loki;
+    clearIndex(): Promise<void>;
 }
 //# sourceMappingURL=codeIndexDB-enhanced.d.ts.map

package/dist/codeIndexDB-enhanced.d.ts.map

@@ -1 +1 @@
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package/dist/codeIndexDB-enhanced.js

@@ -90,17 +90,28 @@ export class EnhancedCodeIndexDB extends CodeIndexDB {
      */
     async initializeEnhanced() {
         await this.initialize(); // Initialize base collections first
-        // Initialize cross-language collections
-        this.crossLanguageEntitiesCollection = this.getDatabase().addCollection('crossLanguageEntities', {
-            indices: ['id', 'name', 'language', 'type', 'file'],
-            unique: ['id']
-        });
-        this.crossReferencesCollection = this.getDatabase().addCollection('crossReferences', {
-            indices: ['sourceId', 'targetId', 'sourceLanguage', 'targetLanguage', 'type']
-        });
-        this.apiContractsCollection = this.getDatabase().addCollection('apiContracts', {
-            indices: ['entityId', 'version']
-        });
+        this.crossLanguageEntitiesCollection =
+            this.db.getCollection('crossLanguageEntities') ||
+                this.db.addCollection('crossLanguageEntities', {
+                    indices: ['id', 'name', 'language', 'type', 'file'],
+                    unique: ['id']
+                });
+        this.crossReferencesCollection =
+            this.db.getCollection('crossReferences') ||
+                this.db.addCollection('crossReferences', {
+                    indices: [
+                        'sourceId',
+                        'targetId',
+                        'sourceLanguage',
+                        'targetLanguage',
+                        'type'
+                    ]
+                });
+        this.apiContractsCollection =
+            this.db.getCollection('apiContracts') ||
+                this.db.addCollection('apiContracts', {
+                    indices: ['entityId', 'version']
+                });
         console.log('[EnhancedCodeIndexDB] Cross-language collections initialized');
     }
     /**
@@ -402,11 +413,26 @@ export class EnhancedCodeIndexDB extends CodeIndexDB {
         return Array.from(tokens);
     }
     /**
-     * Get access to the underlying database for advanced operations
+     * Also clears cross-language derived collections and their FlexSearch mirror when present.
      */
-    getDatabase() {
-        // Protected method to access the underlying database
-        return this.db;
+    async clearIndex() {
+        await super.clearIndex();
+        const ldb = this.db;
+        const names = [
+            'crossLanguageEntities',
+            'crossReferences',
+            'apiContracts'
+        ];
+        for (const n of names) {
+            const c = ldb.getCollection(n);
+            if (c) {
+                c.clear();
+            }
+        }
+        if (this.crossLanguageSearchIndex) {
+            this.crossLanguageSearchIndex.clear();
+        }
+        ldb.saveDatabase();
     }
 }
 /**