code-auditor-mcp 2.0.3 → 2.2.1

package/dist/codeIndexService.js

@@ -28,24 +28,20 @@ export class SearchError extends CodeIndexError {
         super(message, 'SEARCH_ERROR');
     }
 }
-// Database instance storage
-let dbInstance = null;
 /**
- * Initialize database with schema
+ * Initialize database with schema.
+ * Default (no path): same on-disk singleton as CodeIndexDB.getInstance() / MCP.
+ * Explicit file path: separate DB instance (tests or advanced use).
  */
 export async function initializeCodeIndex(dbPath) {
     try {
-        // Use in-memory database by default
-        if (!dbPath) {
-            dbPath = ':memory:';
+        if (dbPath && dbPath !== ':memory:') {
+            const db = new CodeIndexDB(path.resolve(dbPath));
+            await db.initialize();
+            return db;
         }
-        // Use path as-is for in-memory, resolve for file paths
-        const finalPath = dbPath === ':memory:' ? dbPath : path.resolve(dbPath);
-        // Create and initialize database
-        const db = new CodeIndexDB(finalPath);
+        const db = CodeIndexDB.getInstance();
         await db.initialize();
-        // Store instance for reuse
-        dbInstance = db;
         return db;
     }
     catch (error) {
@@ -53,13 +49,11 @@ export async function initializeCodeIndex(dbPath) {
     }
 }
 /**
- * Get or create database instance
+ * Primary entry: persisted singleton (or explicit path via initializeCodeIndex elsewhere).
+ * Aligns search/sync/register with MCP's CodeIndexDB.getInstance() — previously defaulted to :memory:.
  */
 export async function getDatabase() {
-    if (!dbInstance) {
-        dbInstance = await initializeCodeIndex();
-    }
-    return dbInstance;
+    return initializeCodeIndex();
 }
 /**
  * Validate function metadata
@@ -176,7 +170,8 @@ export async function getIndexStats() {
     }
 }
 /**
- * Clear the entire index
+ * Clear analysis-derived index data (functions, search, audits, code maps, schemas).
+ * Does not remove project tasks, analyzer configs, or whitelist entries.
  */
 export async function clearIndex() {
     const db = await getDatabase();
@@ -191,10 +186,7 @@ export async function clearIndex() {
  * Close the database connection
  */
 export async function closeDatabase() {
-    if (dbInstance) {
-        await dbInstance.close();
-        dbInstance = null;
-    }
+    await CodeIndexDB.getInstance().close();
 }
 /**
  * Update dependency graph for all functions or specific file

package/dist/codeIndexService.js.map

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

@@ -1,6 +1,8 @@
 /**
  * Global constants for the code-auditor MCP server
  */
+/** Package version from package.json (works from src via tsx and from dist). */
+export declare const PACKAGE_VERSION: string;
 export declare const DEFAULT_PORT = 11437;
 export declare const DEFAULT_SERVER_URL = "http://localhost:11437";
 export declare const MCP_SERVER_NAME = "code-index";

package/dist/constants.d.ts.map

@@ -1 +1 @@
-{"version":3,"file":"constants.d.ts","sourceRoot":"","sources":["../src/constants.ts"],"names":[],"mappings":"AAAA;;GAEG;AAKH,eAAO,MAAM,YAAY,QAAQ,CAAC;AAGlC,eAAO,MAAM,kBAAkB,2BAAqC,CAAC;AAGrE,eAAO,MAAM,eAAe,eAAe,CAAC;AAG5C,eAAO,MAAM,eAAe,mBAAmB,CAAC;AAGhD,eAAO,MAAM,WAAW,SAG6B,CAAC"}
+{"version":3,"file":"constants.d.ts","sourceRoot":"","sources":["../src/constants.ts"],"names":[],"mappings":"AAAA;;GAEG;AAQH,gFAAgF;AAChF,eAAO,MAAM,eAAe,EAEf,MAAM,CAAC;AAKpB,eAAO,MAAM,YAAY,QAAQ,CAAC;AAGlC,eAAO,MAAM,kBAAkB,2BAAqC,CAAC;AAGrE,eAAO,MAAM,eAAe,eAAe,CAAC;AAG5C,eAAO,MAAM,eAAe,mBAAmB,CAAC;AAGhD,eAAO,MAAM,WAAW,SAG6B,CAAC"}

package/dist/constants.js

@@ -1,6 +1,12 @@
 /**
  * Global constants for the code-auditor MCP server
  */
+import { readFileSync } from 'node:fs';
+import { dirname, join } from 'node:path';
+import { fileURLToPath } from 'node:url';
+const __dirname = dirname(fileURLToPath(import.meta.url));
+/** Package version from package.json (works from src via tsx and from dist). */
+export const PACKAGE_VERSION = JSON.parse(readFileSync(join(__dirname, '..', 'package.json'), 'utf-8')).version;
 // Default port for the REST API server
 // Using 11437 to avoid conflicts with common development servers
 // Common ports to avoid: 3000 (React/Next.js), 8080 (Java), 5000 (Flask), 4200 (Angular), 8000 (Django)

package/dist/constants.js.map

@@ -1 +1 @@
-{"version":3,"file":"constants.js","sourceRoot":"","sources":["../src/constants.ts"],"names":[],"mappings":"AAAA;;GAEG;AAEH,uCAAuC;AACvC,iEAAiE;AACjE,wGAAwG;AACxG,MAAM,CAAC,MAAM,YAAY,GAAG,KAAK,CAAC;AAElC,qBAAqB;AACrB,MAAM,CAAC,MAAM,kBAAkB,GAAG,oBAAoB,YAAY,EAAE,CAAC;AAErE,kBAAkB;AAClB,MAAM,CAAC,MAAM,eAAe,GAAG,YAAY,CAAC;AAE5C,qCAAqC;AACrC,MAAM,CAAC,MAAM,eAAe,GAAG,gBAAgB,CAAC;AAEhD,6BAA6B;AAC7B,MAAM,CAAC,MAAM,WAAW,GAAG,OAAO,CAAC,GAAG,CAAC,QAAQ,KAAK,aAAa;IACxC,OAAO,CAAC,GAAG,CAAC,KAAK,KAAK,GAAG;IACzB,OAAO,CAAC,IAAI,CAAC,QAAQ,CAAC,OAAO,CAAC;IAC9B,OAAO,CAAC,IAAI,CAAC,QAAQ,CAAC,KAAK,CAAC,CAAC"}
+{"version":3,"file":"constants.js","sourceRoot":"","sources":["../src/constants.ts"],"names":[],"mappings":"AAAA;;GAEG;AAEH,OAAO,EAAE,YAAY,EAAE,MAAM,SAAS,CAAC;AACvC,OAAO,EAAE,OAAO,EAAE,IAAI,EAAE,MAAM,WAAW,CAAC;AAC1C,OAAO,EAAE,aAAa,EAAE,MAAM,UAAU,CAAC;AAEzC,MAAM,SAAS,GAAG,OAAO,CAAC,aAAa,CAAC,MAAM,CAAC,IAAI,CAAC,GAAG,CAAC,CAAC,CAAC;AAE1D,gFAAgF;AAChF,MAAM,CAAC,MAAM,eAAe,GAAG,IAAI,CAAC,KAAK,CACvC,YAAY,CAAC,IAAI,CAAC,SAAS,EAAE,IAAI,EAAE,cAAc,CAAC,EAAE,OAAO,CAAC,CAC7D,CAAC,OAAiB,CAAC;AAEpB,uCAAuC;AACvC,iEAAiE;AACjE,wGAAwG;AACxG,MAAM,CAAC,MAAM,YAAY,GAAG,KAAK,CAAC;AAElC,qBAAqB;AACrB,MAAM,CAAC,MAAM,kBAAkB,GAAG,oBAAoB,YAAY,EAAE,CAAC;AAErE,kBAAkB;AAClB,MAAM,CAAC,MAAM,eAAe,GAAG,YAAY,CAAC;AAE5C,qCAAqC;AACrC,MAAM,CAAC,MAAM,eAAe,GAAG,gBAAgB,CAAC;AAEhD,6BAA6B;AAC7B,MAAM,CAAC,MAAM,WAAW,GAAG,OAAO,CAAC,GAAG,CAAC,QAAQ,KAAK,aAAa;IACxC,OAAO,CAAC,GAAG,CAAC,KAAK,KAAK,GAAG;IACzB,OAAO,CAAC,IAAI,CAAC,QAAQ,CAAC,OAAO,CAAC;IAC9B,OAAO,CAAC,IAAI,CAAC,QAAQ,CAAC,KAAK,CAAC,CAAC"}

package/dist/dataPaths.d.ts

@@ -0,0 +1,10 @@
+/**
+ * Default on-disk Loki path for the code index.
+ * When CODE_AUDITOR_DATA_DIR is set, that directory is the storage root:
+ *   <resolved_dir>/index.db
+ * Otherwise (default, project-local): <cwd>/.code-index/index.db
+ */
+export declare function resolvePersistedIndexPath(): string;
+/** Directory that contains `index.db` (same logic as resolvePersistedIndexPath). */
+export declare function getPersistedStorageRoot(): string;
+//# sourceMappingURL=dataPaths.d.ts.map

package/dist/dataPaths.d.ts.map

@@ -0,0 +1 @@
+{"version":3,"file":"dataPaths.d.ts","sourceRoot":"","sources":["../src/dataPaths.ts"],"names":[],"mappings":"AAEA;;;;;GAKG;AACH,wBAAgB,yBAAyB,IAAI,MAAM,CAMlD;AAED,oFAAoF;AACpF,wBAAgB,uBAAuB,IAAI,MAAM,CAEhD"}

package/dist/dataPaths.js

@@ -0,0 +1,19 @@
+import path from 'node:path';
+/**
+ * Default on-disk Loki path for the code index.
+ * When CODE_AUDITOR_DATA_DIR is set, that directory is the storage root:
+ *   <resolved_dir>/index.db
+ * Otherwise (default, project-local): <cwd>/.code-index/index.db
+ */
+export function resolvePersistedIndexPath() {
+    const raw = process.env.CODE_AUDITOR_DATA_DIR?.trim();
+    if (raw) {
+        return path.join(path.resolve(raw), 'index.db');
+    }
+    return path.join(process.cwd(), '.code-index', 'index.db');
+}
+/** Directory that contains `index.db` (same logic as resolvePersistedIndexPath). */
+export function getPersistedStorageRoot() {
+    return path.dirname(resolvePersistedIndexPath());
+}
+//# sourceMappingURL=dataPaths.js.map

package/dist/dataPaths.js.map

@@ -0,0 +1 @@
+{"version":3,"file":"dataPaths.js","sourceRoot":"","sources":["../src/dataPaths.ts"],"names":[],"mappings":"AAAA,OAAO,IAAI,MAAM,WAAW,CAAC;AAE7B;;;;;GAKG;AACH,MAAM,UAAU,yBAAyB;IACvC,MAAM,GAAG,GAAG,OAAO,CAAC,GAAG,CAAC,qBAAqB,EAAE,IAAI,EAAE,CAAC;IACtD,IAAI,GAAG,EAAE,CAAC;QACR,OAAO,IAAI,CAAC,IAAI,CAAC,IAAI,CAAC,OAAO,CAAC,GAAG,CAAC,EAAE,UAAU,CAAC,CAAC;IAClD,CAAC;IACD,OAAO,IAAI,CAAC,IAAI,CAAC,OAAO,CAAC,GAAG,EAAE,EAAE,aAAa,EAAE,UAAU,CAAC,CAAC;AAC7D,CAAC;AAED,oFAAoF;AACpF,MAAM,UAAU,uBAAuB;IACrC,OAAO,IAAI,CAAC,OAAO,CAAC,yBAAyB,EAAE,CAAC,CAAC;AACnD,CAAC"}

package/dist/mcp-index.d.ts

@@ -6,6 +6,8 @@
  *   node mcp-index.js              # stdio mode (default)
  *   node mcp-index.js --ui         # HTTP/UI mode
  *   node mcp-index.js --stdio      # explicit stdio mode
+ *   node mcp-index.js --data-dir /abs/path   # persist index under that directory
+ *   node mcp-index.js --auto-index /project  # index-only harness (no MCP stdio); logs to stderr
  */
-export {};
+import './applyDataDirEnv.js';
 //# sourceMappingURL=mcp-index.d.ts.map

package/dist/mcp-index.d.ts.map

@@ -1 +1 @@
-{"version":3,"file":"mcp-index.d.ts","sourceRoot":"","sources":["../src/mcp-index.ts"],"names":[],"mappings":";AAEA;;;;;;;GAOG"}
+{"version":3,"file":"mcp-index.d.ts","sourceRoot":"","sources":["../src/mcp-index.ts"],"names":[],"mappings":";AAEA;;;;;;;;;GASG;AAEH,OAAO,sBAAsB,CAAC"}

package/dist/mcp-index.js

@@ -6,14 +6,12 @@
  *   node mcp-index.js              # stdio mode (default)
  *   node mcp-index.js --ui         # HTTP/UI mode
  *   node mcp-index.js --stdio      # explicit stdio mode
+ *   node mcp-index.js --data-dir /abs/path   # persist index under that directory
+ *   node mcp-index.js --auto-index /project  # index-only harness (no MCP stdio); logs to stderr
  */
+import './applyDataDirEnv.js';
 import chalk from 'chalk';
-// Parse command line arguments
-const args = process.argv.slice(2);
-const uiMode = args.includes('--ui');
-const stdioMode = args.includes('--stdio');
-const helpMode = args.includes('--help') || args.includes('-h');
-if (helpMode) {
+function printHelp() {
     console.log(`
 ${chalk.blue('MCP Code Auditor Server')}
 
@@ -21,6 +19,8 @@ Usage:
   ${chalk.cyan('node mcp-index.js')}              # stdio mode (default)
   ${chalk.cyan('node mcp-index.js --ui')}         # HTTP/UI mode
   ${chalk.cyan('node mcp-index.js --stdio')}      # explicit stdio mode
+  ${chalk.cyan('node mcp-index.js --data-dir /path')}  # index DB at /path/index.db
+  ${chalk.cyan('node mcp-index.js --auto-index /project')}  # discover + index only (testing)
 
 Modes:
   ${chalk.yellow('stdio')}   - Standard MCP protocol over stdin/stdout (for Claude Desktop, VS Code)
@@ -30,15 +30,37 @@ Examples:
   ${chalk.gray('# For Claude Desktop')}
   node mcp-index.js
 
-  ${chalk.gray('# For interactive web dashboards')}
-  node mcp-index.js --ui
+  ${chalk.gray('# Index a repo without MCP (stderr logs; use CODE_AUDITOR_DEBUG=1 for verbose)')}
+  CODE_AUDITOR_DEBUG=1 node mcp-index.js --auto-index /path/to/repo
 
 Environment Variables:
   ${chalk.cyan('MCP_UI_PORT')}=3001              # Port for UI mode (default: 3001)
   ${chalk.cyan('MCP_MODE')}=stdio|ui             # Override mode detection
+  ${chalk.cyan('CODE_AUDITOR_DATA_DIR')}=/path   # Storage directory; index file is /path/index.db
+  ${chalk.cyan('CODE_AUDITOR_DEBUG')}=1          # Verbose mcpDiagnostics traces
+  ${chalk.cyan('CODE_AUDITOR_LOG_FILE')}=/path   # Append diagnostics lines to this file
 `);
+}
+// Parse command line arguments
+const args = process.argv.slice(2);
+const helpMode = args.includes('--help') || args.includes('-h');
+if (helpMode) {
+    printHelp();
+    process.exit(0);
+}
+const autoIndexPos = args.findIndex((a) => a === '--auto-index');
+if (autoIndexPos >= 0) {
+    const projectPath = args[autoIndexPos + 1];
+    if (!projectPath || projectPath.startsWith('-')) {
+        console.error('Usage: node mcp-index.js --auto-index <project-root>');
+        process.exit(1);
+    }
+    const { runAutoIndex } = await import('./mcpAutoIndex.js');
+    await runAutoIndex(projectPath);
     process.exit(0);
 }
+const uiMode = args.includes('--ui');
+const stdioMode = args.includes('--stdio');
 // Determine mode
 let mode;
 if (process.env.MCP_MODE) {

package/dist/mcp-index.js.map

@@ -1 +1 @@
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package/dist/mcp-standalone.d.ts

@@ -1,3 +1,3 @@
 #!/usr/bin/env node
-export {};
+import './applyDataDirEnv.js';
 //# sourceMappingURL=mcp-standalone.d.ts.map

package/dist/mcp-standalone.d.ts.map

@@ -1 +1 @@
-{"version":3,"file":"mcp-standalone.d.ts","sourceRoot":"","sources":["../src/mcp-standalone.ts"],"names":[],"mappings":""}
+{"version":3,"file":"mcp-standalone.d.ts","sourceRoot":"","sources":["../src/mcp-standalone.ts"],"names":[],"mappings":";AAEA,OAAO,sBAAsB,CAAC"}