ctxo-mcp 0.4.0 → 0.5.0

package/README.md

@@ -4,6 +4,8 @@
 [![CI](https://github.com/alperhankendi/Ctxo/actions/workflows/ci.yml/badge.svg)](https://github.com/alperhankendi/Ctxo/actions/workflows/ci.yml)
 [![Release](https://github.com/alperhankendi/Ctxo/actions/workflows/release.yml/badge.svg)](https://github.com/alperhankendi/Ctxo/actions/workflows/release.yml)
 
+**Code intelligence for AI agents one call instead of hundreds.**
+
 <picture>
   <source media="(prefers-color-scheme: dark)" srcset="docs/img/hero-svg.svg">
   <source media="(prefers-color-scheme: light)" srcset="docs/img/hero-svg.svg">
@@ -16,40 +18,36 @@
 
 ### The Problem
 
-AI coding assistants like Copilot, Claude Code, and Cursor rely on generic tools — `grep`, `find`, file reads — to understand your codebase. On brownfield projects with thousands of files, this brute-force exploration creates a chain of problems:
+AI coding assistants like Copilot, Claude Code, and Cursor rely on generic tools  `grep`, `find`, file reads to understand your codebase. On brownfield projects with thousands of files, this brute-force exploration creates a chain of problems:
 
-* **Context window saturation** — The agent fills its window reading files one by one, leaving little room for actual reasoning
-* **Partial context hallucination** — It sees a function but misses its dependencies, leading to wrong assumptions and broken suggestions
-* **Lost-in-the-middle** — Critical information buried deep in a long context gets ignored by the model
-* **Context poisoning** — Irrelevant code pulled in during exploration biases the model's output
-* **Iteration overhead** — Understanding one symbol takes 10-20 tool calls, each adding more noise to the context
-* **Stale reasoning** — After too many iterations, the agent contradicts its own earlier assumptions
+* **Context window saturation** The agent fills its window reading files one by one, leaving little room for actual reasoning
+* **Partial context hallucination** It sees a function but misses its dependencies, leading to wrong assumptions and broken suggestions
+* **Lost-in-the-middle** Critical information buried deep in a long context gets ignored by the model
+* **Context poisoning** Irrelevant code pulled in during exploration biases the model's output
+* **Iteration overhead** Understanding one symbol takes 10-20 tool calls, each adding more noise to the context
+* **Stale reasoning** After too many iterations, the agent contradicts its own earlier assumptions
 
 The result: more tokens burned, slower responses, higher cost, and lower quality output.
 
 ### The Solution
 
-Ctxo is an **MCP server** that **enhances** your existing AI tools with dependency-aware, history-enriched code intelligence. Instead of hundreds of `grep` and `read_file` calls, your agent gets the full picture — symbol graphs, blast radius, git intent, and risk scores — in a **single MCP call**.
+Ctxo is an **MCP server** that **enhances** your existing AI tools with dependency-aware, history-enriched code intelligence. Instead of hundreds of `grep` and `read_file` calls, your agent gets the full picture symbol graphs, blast radius, git intent, and risk scores in a **single MCP call**.
 
-* **Clean context** — Only relevant symbols and their transitive dependencies, nothing more
-* **Fewer iterations** — One call replaces an entire exploration cycle
-* **Higher quality** — The agent reasons over structured, complete context instead of fragmented file reads
+* **Clean context** Only relevant symbols and their transitive dependencies, nothing more
+* **Fewer iterations** One call replaces an entire exploration cycle
+* **Higher quality** The agent reasons over structured, complete context instead of fragmented file reads
 
 > A senior developer takes \~10 minutes to gather context across files. Ctxo delivers that same context in **under 500ms**.
 
 ## Quick Start
 
-```Shell
-# 1. Index your codebase
-npx ctxo-mcp index
-
-# 2. Add to your IDE's MCP config
-# (see IDE Setup below)
+One command sets up everything — index directory, AI tool rules, and git hooks:
 
-# 3. Start using — your AI assistant now has 14 code intelligence tools
+```Shell
+npx ctxo-mcp init
 ```
 
-## IDE Setup
+Then add ctxo to your IDE's MCP config:
 
 **Claude Code / Cursor / Windsurf / Cline** — `.mcp.json`:
 
@@ -105,26 +103,68 @@ Onboarding?               → get_architectural_overlay → get_symbol_importanc
 ## CLI Commands
 
 ```Shell
-npx ctxo-mcp index                # Build full codebase index
-npx ctxo-mcp index --check        # CI gate: fail if index stale
-npx ctxo-mcp index --skip-history # Fast re-index without git history
-npx ctxo-mcp watch                # File watcher for incremental re-index
-npx ctxo-mcp init                 # Install git hooks (post-commit, post-merge)
-npx ctxo-mcp status               # Show index manifest
-npx ctxo-mcp sync                 # Rebuild SQLite cache from committed JSON
+# Setup
+npx ctxo-mcp init                          # Interactive setup (index, AI tool rules, git hooks)
+npx ctxo-mcp init --tools claude-code,cursor -y  # Non-interactive setup
+npx ctxo-mcp init --rules                  # Regenerate AI tool rules only
+npx ctxo-mcp init --dry-run                # Preview what would be created
+
+# Indexing
+npx ctxo-mcp index                         # Build full codebase index
+npx ctxo-mcp index --check                 # CI gate: fail if index stale
+npx ctxo-mcp index --skip-history          # Fast re-index without git history
+npx ctxo-mcp watch                         # File watcher for incremental re-index
+npx ctxo-mcp sync                          # Rebuild SQLite cache from committed JSON
+
+# Diagnostics
+npx ctxo-mcp status                        # Show index manifest
+npx ctxo-mcp doctor                        # Health check all subsystems (--json, --quiet)
+npx ctxo-mcp stats                         # Show usage statistics (--json, --days N, --clear)
+```
+
+**Example output:**
+
+```
+npx ctxo-mcp stats
+
+  Usage Summary (all time)
+  ────────────────────────────────────────
+  Total tool calls:      30
+  Total tokens served:   26.0K
+
+  Top Tools
+  ────────────────────────────────────────
+  get_logic_slice         14 calls      avg 352 tokens
+  get_blast_radius        3 calls       avg 1,279 tokens
+  get_ranked_context      3 calls       avg 898 tokens
+  find_importers          2 calls       avg 1,342 tokens
+  get_context_for_task    2 calls       avg 740 tokens
+
+  Top Queried Symbols
+  ────────────────────────────────────────
+  SymbolNode                      15 queries
+  LogicSliceQuery                 4 queries
+  SqliteStorageAdapter            2 queries
+
+  Detail Level Distribution
+  ────────────────────────────────────────
+  L1: ███░░░░░░░   25%
+  L2: ███░░░░░░░   25%
+  L3: ███░░░░░░░   25%
+  L4: ███░░░░░░░   25%
 ```
 
 ## Features
 
-**Response Envelope** — All responses include `_meta` with item counts, truncation info, and drill-in hints. Large results auto-truncated at 8KB (configurable via `CTXO_RESPONSE_LIMIT`).
+**Response Envelope** All responses include `_meta` with item counts, truncation info, and drill-in hints. Large results auto-truncated at 8KB (configurable via `CTXO_RESPONSE_LIMIT`).
 
-**Intent Filtering** — 4 tools accept `intent` parameter for keyword-based result filtering. `get_blast_radius(symbolId, intent: "test")` returns only test-related impacts.
+**Intent Filtering** 4 tools accept `intent` parameter for keyword-based result filtering. `get_blast_radius(symbolId, intent: "test")` returns only test-related impacts.
 
-**Tool Annotations** — All tools declare `readOnlyHint: true`, `idempotentHint: true`, `openWorldHint: false` for safe auto-approval in agent frameworks.
+**Tool Annotations** All tools declare `readOnlyHint: true`, `idempotentHint: true`, `openWorldHint: false` for safe auto-approval in agent frameworks.
 
-**Privacy Masking** — AWS keys, GCP service accounts, Azure connection strings, JWTs, private IPs, env secrets automatically redacted. Extensible via `.ctxo/masking.json`.
+**Privacy Masking** AWS keys, GCP service accounts, Azure connection strings, JWTs, private IPs, env secrets automatically redacted. Extensible via `.ctxo/masking.json`.
 
-**Debug Mode** — `DEBUG=ctxo:*` for all debug output, or `DEBUG=ctxo:git,ctxo:storage` for specific namespaces.
+**Debug Mode** `DEBUG=ctxo:*` for all debug output, or `DEBUG=ctxo:git,ctxo:storage` for specific namespaces.
 
 **Per-tool savings vs manual approach:**
 
@@ -180,7 +220,7 @@ See [Agentic AI Integration Guide](docs/agentic-ai-integration.md) for LangChain
 
 ## Index Visualizer
 
-Ctxo ships with an interactive visualizer that renders your codebase index as a dependency graph. Explore symbols, edges, layers, and PageRank scores visually — deployed automatically to GitHub Pages on every push.
+Ctxo ships with an interactive visualizer that renders your codebase index as a dependency graph. Explore symbols, edges, layers, and PageRank scores visually deployed automatically to GitHub Pages on every push.
 
 ![1.00](docs/img/ui.png)
 
@@ -190,7 +230,7 @@ Ctxo ships with an interactive visualizer that renders your codebase index as a
 
 <img src="docs/img/mcp-server.png" alt="Ctxo MCP Server Architecture" width="400">
 
-Ctxo builds a **committed JSON index** (`.ctxo/index/`) that captures symbols, dependency edges, git history, and co-change data. The MCP server reads this index to answer queries — no runtime parsing, no external services.
+Ctxo builds a **committed JSON index** (`.ctxo/index/`) that captures symbols, dependency edges, git history, and co-change data. The MCP server reads this index to answer queries no runtime parsing, no external services.
 
 ```
 .ctxo/
@@ -205,7 +245,8 @@ Ctxo builds a **committed JSON index** (`.ctxo/index/`) that captures symbols, d
 * [npm](https://www.npmjs.com/package/ctxo-mcp)
 * [Changelog](CHANGELOG.md)
 * [LLM Reference](llms-full.txt)
-* [Validation Runbook](docs/runbook/mcp-validation/mcp-validation.md)
+* [MCP Validation Runbook](docs/runbook/mcp-validation/mcp-validation.md)
+* [CLI Validation Runbook](docs/runbook/cli-validation/cli-validation.md)
 * [Architecture](docs/artifacts/architecture.md)
 * [PRD](docs/artifacts/prd.md)
 

package/dist/{staleness-detector-VSDPTPX7.js → chunk-PSKDDLSF.js}

@@ -1,5 +1,4 @@
 #!/usr/bin/env node
-import "./chunk-JIDIH7DS.js";
 
 // src/core/staleness/staleness-detector.ts
 import { statSync, existsSync } from "fs";
@@ -34,7 +33,8 @@ var StalenessDetector = class {
     };
   }
 };
+
 export {
   StalenessDetector
 };
-//# sourceMappingURL=staleness-detector-VSDPTPX7.js.map
+//# sourceMappingURL=chunk-PSKDDLSF.js.map

package/dist/{staleness-detector-VSDPTPX7.js.map → chunk-PSKDDLSF.js.map}

@@ -1 +1 @@
-{"version":3,"sources":["../src/core/staleness/staleness-detector.ts"],"sourcesContent":["import { statSync, existsSync } from 'node:fs';\nimport { join } from 'node:path';\n\nexport interface StalenessWarning {\n  readonly staleFiles: string[];\n  readonly message: string;\n}\n\nexport class StalenessDetector {\n  private readonly projectRoot: string;\n  private readonly indexDir: string;\n\n  constructor(projectRoot: string, ctxoRoot: string) {\n    this.projectRoot = projectRoot;\n    this.indexDir = join(ctxoRoot, 'index');\n  }\n\n  check(indexedFiles: readonly string[]): StalenessWarning | undefined {\n    if (!existsSync(this.indexDir)) return undefined;\n\n    const staleFiles: string[] = [];\n\n    for (const relativePath of indexedFiles) {\n      const sourcePath = join(this.projectRoot, relativePath);\n      const indexPath = join(this.indexDir, `${relativePath}.json`);\n\n      if (!existsSync(sourcePath) || !existsSync(indexPath)) continue;\n\n      try {\n        const sourceMtime = Math.floor(statSync(sourcePath).mtimeMs / 1000);\n        const indexMtime = Math.floor(statSync(indexPath).mtimeMs / 1000);\n\n        if (sourceMtime > indexMtime) {\n          staleFiles.push(relativePath);\n        }\n      } catch {\n        // Skip files we can't stat\n      }\n    }\n\n    if (staleFiles.length === 0) return undefined;\n\n    return {\n      staleFiles,\n      message: `Index may be stale for ${staleFiles.length} file(s). Run \"ctxo index\" to refresh.`,\n    };\n  }\n}\n"],"mappings":";;;;AAAA,SAAS,UAAU,kBAAkB;AACrC,SAAS,YAAY;AAOd,IAAM,oBAAN,MAAwB;AAAA,EACZ;AAAA,EACA;AAAA,EAEjB,YAAY,aAAqB,UAAkB;AACjD,SAAK,cAAc;AACnB,SAAK,WAAW,KAAK,UAAU,OAAO;AAAA,EACxC;AAAA,EAEA,MAAM,cAA+D;AACnE,QAAI,CAAC,WAAW,KAAK,QAAQ,EAAG,QAAO;AAEvC,UAAM,aAAuB,CAAC;AAE9B,eAAW,gBAAgB,cAAc;AACvC,YAAM,aAAa,KAAK,KAAK,aAAa,YAAY;AACtD,YAAM,YAAY,KAAK,KAAK,UAAU,GAAG,YAAY,OAAO;AAE5D,UAAI,CAAC,WAAW,UAAU,KAAK,CAAC,WAAW,SAAS,EAAG;AAEvD,UAAI;AACF,cAAM,cAAc,KAAK,MAAM,SAAS,UAAU,EAAE,UAAU,GAAI;AAClE,cAAM,aAAa,KAAK,MAAM,SAAS,SAAS,EAAE,UAAU,GAAI;AAEhE,YAAI,cAAc,YAAY;AAC5B,qBAAW,KAAK,YAAY;AAAA,QAC9B;AAAA,MACF,QAAQ;AAAA,MAER;AAAA,IACF;AAEA,QAAI,WAAW,WAAW,EAAG,QAAO;AAEpC,WAAO;AAAA,MACL;AAAA,MACA,SAAS,0BAA0B,WAAW,MAAM;AAAA,IACtD;AAAA,EACF;AACF;","names":[]}
+{"version":3,"sources":["../src/core/staleness/staleness-detector.ts"],"sourcesContent":["import { statSync, existsSync } from 'node:fs';\nimport { join } from 'node:path';\n\nexport interface StalenessWarning {\n  readonly staleFiles: string[];\n  readonly message: string;\n}\n\nexport class StalenessDetector {\n  private readonly projectRoot: string;\n  private readonly indexDir: string;\n\n  constructor(projectRoot: string, ctxoRoot: string) {\n    this.projectRoot = projectRoot;\n    this.indexDir = join(ctxoRoot, 'index');\n  }\n\n  check(indexedFiles: readonly string[]): StalenessWarning | undefined {\n    if (!existsSync(this.indexDir)) return undefined;\n\n    const staleFiles: string[] = [];\n\n    for (const relativePath of indexedFiles) {\n      const sourcePath = join(this.projectRoot, relativePath);\n      const indexPath = join(this.indexDir, `${relativePath}.json`);\n\n      if (!existsSync(sourcePath) || !existsSync(indexPath)) continue;\n\n      try {\n        const sourceMtime = Math.floor(statSync(sourcePath).mtimeMs / 1000);\n        const indexMtime = Math.floor(statSync(indexPath).mtimeMs / 1000);\n\n        if (sourceMtime > indexMtime) {\n          staleFiles.push(relativePath);\n        }\n      } catch {\n        // Skip files we can't stat\n      }\n    }\n\n    if (staleFiles.length === 0) return undefined;\n\n    return {\n      staleFiles,\n      message: `Index may be stale for ${staleFiles.length} file(s). Run \"ctxo index\" to refresh.`,\n    };\n  }\n}\n"],"mappings":";;;AAAA,SAAS,UAAU,kBAAkB;AACrC,SAAS,YAAY;AAOd,IAAM,oBAAN,MAAwB;AAAA,EACZ;AAAA,EACA;AAAA,EAEjB,YAAY,aAAqB,UAAkB;AACjD,SAAK,cAAc;AACnB,SAAK,WAAW,KAAK,UAAU,OAAO;AAAA,EACxC;AAAA,EAEA,MAAM,cAA+D;AACnE,QAAI,CAAC,WAAW,KAAK,QAAQ,EAAG,QAAO;AAEvC,UAAM,aAAuB,CAAC;AAE9B,eAAW,gBAAgB,cAAc;AACvC,YAAM,aAAa,KAAK,KAAK,aAAa,YAAY;AACtD,YAAM,YAAY,KAAK,KAAK,UAAU,GAAG,YAAY,OAAO;AAE5D,UAAI,CAAC,WAAW,UAAU,KAAK,CAAC,WAAW,SAAS,EAAG;AAEvD,UAAI;AACF,cAAM,cAAc,KAAK,MAAM,SAAS,UAAU,EAAE,UAAU,GAAI;AAClE,cAAM,aAAa,KAAK,MAAM,SAAS,SAAS,EAAE,UAAU,GAAI;AAEhE,YAAI,cAAc,YAAY;AAC5B,qBAAW,KAAK,YAAY;AAAA,QAC9B;AAAA,MACF,QAAQ;AAAA,MAER;AAAA,IACF;AAEA,QAAI,WAAW,WAAW,EAAG,QAAO;AAEpC,WAAO;AAAA,MACL;AAAA,MACA,SAAS,0BAA0B,WAAW,MAAM;AAAA,IACtD;AAAA,EACF;AACF;","names":[]}

package/dist/{chunk-JIDIH7DS.js → chunk-WNEGGJMV.js}

@@ -6,6 +6,9 @@ var __hasOwnProp = Object.prototype.hasOwnProperty;
 var __esm = (fn, res) => function __init() {
   return fn && (res = (0, fn[__getOwnPropNames(fn)[0]])(fn = 0)), res;
 };
+var __commonJS = (cb, mod) => function __require() {
+  return mod || (0, cb[__getOwnPropNames(cb)[0]])((mod = { exports: {} }).exports, mod), mod.exports;
+};
 var __export = (target, all) => {
   for (var name in all)
     __defProp(target, name, { get: all[name], enumerable: true });
@@ -22,7 +25,8 @@ var __toCommonJS = (mod) => __copyProps(__defProp({}, "__esModule", { value: tru
 
 export {
   __esm,
+  __commonJS,
   __export,
   __toCommonJS
 };
-//# sourceMappingURL=chunk-JIDIH7DS.js.map
+//# sourceMappingURL=chunk-WNEGGJMV.js.map

package/dist/{chunk-BMB6SQIR.js → chunk-WZKXGKKI.js}

@@ -68,15 +68,29 @@ var SqliteStorageAdapter = class {
   }
   async initEmpty() {
     const SQL = await initSqlJs();
-    this.db = new SQL.Database();
+    if (existsSync(this.dbPath)) {
+      try {
+        const buffer = readFileSync(this.dbPath);
+        this.db = new SQL.Database(buffer);
+      } catch {
+        this.db = new SQL.Database();
+      }
+    } else {
+      this.db = new SQL.Database();
+    }
     this.createTables();
+    this.clearIndexTables();
   }
-  database() {
+  /** Returns the underlying sql.js Database instance. Throws if not initialized. */
+  getDb() {
     if (!this.db) {
       throw new Error("SqliteStorageAdapter not initialized. Call init() first.");
     }
     return this.db;
   }
+  database() {
+    return this.getDb();
+  }
   verifyIntegrity() {
     const db = this.database();
     const result = db.exec("PRAGMA integrity_check");
@@ -121,6 +135,12 @@ var SqliteStorageAdapter = class {
     db.run("CREATE INDEX IF NOT EXISTS idx_edges_from ON edges(from_symbol)");
     db.run("CREATE INDEX IF NOT EXISTS idx_edges_to ON edges(to_symbol)");
   }
+  clearIndexTables() {
+    const db = this.database();
+    db.run("DELETE FROM edges");
+    db.run("DELETE FROM symbols");
+    db.run("DELETE FROM files");
+  }
   rebuildFromJson() {
     const reader = new JsonIndexReader(this.ctxoRoot);
     const indices = reader.readAll();
@@ -371,12 +391,12 @@ var SimpleGitAdapter = class {
   }
   async getCommitHistory(filePath, maxCount) {
     try {
-      const log3 = await this.git.log({
+      const log4 = await this.git.log({
         file: filePath,
         "--follow": null,
         ...maxCount ? { maxCount } : {}
       });
-      return log3.all.map((entry) => ({
+      return log4.all.map((entry) => ({
         hash: entry.hash,
         message: entry.message,
         date: entry.date,
@@ -389,9 +409,9 @@ var SimpleGitAdapter = class {
   }
   async getBatchHistory(maxCount = 20) {
     try {
-      const log3 = await this.git.log({ maxCount: maxCount * 50, "--name-only": null });
+      const log4 = await this.git.log({ maxCount: maxCount * 50, "--name-only": null });
       const result = /* @__PURE__ */ new Map();
-      for (const entry of log3.all) {
+      for (const entry of log4.all) {
         const record = {
           hash: entry.hash,
           message: entry.message,
@@ -428,10 +448,10 @@ var SimpleGitAdapter = class {
   }
   async getFileChurn(filePath) {
     try {
-      const log3 = await this.git.log({ file: filePath, "--follow": null });
+      const log4 = await this.git.log({ file: filePath, "--follow": null });
       return {
         filePath,
-        commitCount: log3.total
+        commitCount: log4.total
       };
     } catch (err) {
       log2.error(` Failed to get churn for ${filePath}: ${err.message}`);
@@ -440,6 +460,126 @@ var SimpleGitAdapter = class {
   }
 };
 
+// src/adapters/stats/session-recorder-adapter.ts
+var log3 = createLogger("ctxo:stats");
+var SessionRecorderAdapter = class {
+  db;
+  onWrite;
+  tableCreated = false;
+  constructor(db, onWrite) {
+    this.db = db;
+    this.onWrite = onWrite ?? null;
+  }
+  ensureTable() {
+    if (this.tableCreated) return;
+    this.db.run(`
+      CREATE TABLE IF NOT EXISTS session_events (
+        id INTEGER PRIMARY KEY AUTOINCREMENT,
+        timestamp TEXT DEFAULT (datetime('now')),
+        tool TEXT NOT NULL,
+        symbol_id TEXT,
+        detail_level TEXT,
+        response_tokens INTEGER,
+        response_bytes INTEGER,
+        latency_ms REAL,
+        truncated BOOLEAN DEFAULT 0
+      )
+    `);
+    this.db.run("CREATE INDEX IF NOT EXISTS idx_session_timestamp ON session_events(timestamp)");
+    this.db.run("CREATE INDEX IF NOT EXISTS idx_session_tool ON session_events(tool)");
+    this.tableCreated = true;
+  }
+  record(event) {
+    try {
+      this.ensureTable();
+      this.db.run(
+        `INSERT INTO session_events (tool, symbol_id, detail_level, response_tokens, response_bytes, latency_ms, truncated)
+         VALUES (?, ?, ?, ?, ?, ?, ?)`,
+        [
+          event.tool,
+          event.symbolId,
+          event.detailLevel,
+          event.responseTokens,
+          event.responseBytes,
+          event.latencyMs,
+          event.truncated ? 1 : 0
+        ]
+      );
+      this.flushToDisk();
+    } catch (err) {
+      log3.error(`Failed to record session event: ${err.message}`);
+    }
+  }
+  queryStats(days) {
+    this.ensureTable();
+    const whereClause = days != null && days > 0 ? `WHERE timestamp >= datetime('now', '-${Math.floor(days)} days')` : "";
+    const summaryResult = this.db.exec(
+      `SELECT COUNT(*) as total_calls, COALESCE(SUM(response_tokens), 0) as total_tokens
+       FROM session_events ${whereClause}`
+    );
+    const summaryRow = summaryResult[0]?.values[0];
+    const totalCalls = Number(summaryRow?.[0] ?? 0);
+    const totalTokensServed = Number(summaryRow?.[1] ?? 0);
+    const toolsResult = this.db.exec(
+      `SELECT tool, COUNT(*) as calls, CAST(AVG(response_tokens) AS INTEGER) as avg_tokens
+       FROM session_events ${whereClause}
+       GROUP BY tool ORDER BY calls DESC LIMIT 5`
+    );
+    const topTools = (toolsResult[0]?.values ?? []).map((row) => ({
+      tool: String(row[0]),
+      calls: Number(row[1]),
+      avgTokens: Number(row[2])
+    }));
+    const symbolWherePrefix = whereClause ? whereClause + " AND" : "WHERE";
+    const symbolsResult = this.db.exec(
+      `SELECT symbol_id, COUNT(*) as queries
+       FROM session_events ${symbolWherePrefix} symbol_id IS NOT NULL
+       GROUP BY symbol_id ORDER BY queries DESC LIMIT 5`
+    );
+    const topSymbols = (symbolsResult[0]?.values ?? []).map((row) => {
+      const symbolId = String(row[0]);
+      const parts = symbolId.split("::");
+      const name = parts.length >= 2 ? parts[1] : symbolId;
+      return {
+        symbolId,
+        name,
+        queries: Number(row[1])
+      };
+    });
+    const levelResult = this.db.exec(
+      `SELECT detail_level, COUNT(*) as count
+       FROM session_events ${symbolWherePrefix} detail_level IS NOT NULL
+       GROUP BY detail_level ORDER BY detail_level`
+    );
+    const levelRows = levelResult[0]?.values ?? [];
+    const levelTotal = levelRows.reduce((sum, row) => sum + Number(row[1]), 0);
+    const detailLevelDistribution = levelRows.map((row) => ({
+      level: String(row[0]),
+      count: Number(row[1]),
+      percentage: levelTotal > 0 ? Math.round(Number(row[1]) / levelTotal * 100) : 0
+    }));
+    return {
+      totalCalls,
+      totalTokensServed,
+      topTools,
+      topSymbols,
+      detailLevelDistribution
+    };
+  }
+  clear() {
+    this.ensureTable();
+    this.db.run("DELETE FROM session_events");
+    this.flushToDisk();
+  }
+  flushToDisk() {
+    try {
+      this.onWrite?.();
+    } catch (err) {
+      log3.error(`Failed to flush stats to disk: ${err.message}`);
+    }
+  }
+};
+
 // src/core/why-context/revert-detector.ts
 var REVERT_QUOTED_PATTERN = /^Revert "(.+)"$/;
 var REVERT_PREFIX_PATTERN = /^revert:\s*(.+)$/i;
@@ -556,6 +696,7 @@ export {
   RevertDetector,
   SimpleGitAdapter,
   aggregateCoChanges,
-  loadCoChangeMap
+  loadCoChangeMap,
+  SessionRecorderAdapter
 };
-//# sourceMappingURL=chunk-BMB6SQIR.js.map
+//# sourceMappingURL=chunk-WZKXGKKI.js.map

package/dist/chunk-WZKXGKKI.js.map

@@ -0,0 +1 @@
+{"version":3,"sources":["../src/core/logger.ts","../src/adapters/storage/sqlite-storage-adapter.ts","../src/adapters/git/simple-git-adapter.ts","../src/adapters/stats/session-recorder-adapter.ts","../src/core/why-context/revert-detector.ts","../src/core/co-change/co-change-analyzer.ts"],"sourcesContent":["/**\n * Structured logger for Ctxo — all output goes to stderr (stdout reserved for MCP JSON-RPC).\n *\n * Supports debug mode via DEBUG environment variable:\n *   DEBUG=ctxo:*          — all debug output\n *   DEBUG=ctxo:git        — only git adapter debug\n *   DEBUG=ctxo:index      — only indexing debug\n *   DEBUG=ctxo:mcp        — only MCP handler debug\n *   DEBUG=ctxo:storage    — only storage adapter debug\n *   DEBUG=ctxo:masking    — only masking pipeline debug\n *\n * Always outputs: info, warn, error (regardless of DEBUG).\n * Only outputs debug when matching namespace is enabled.\n */\n\nfunction isDebugEnabled(namespace: string): boolean {\n  const debugEnv = process.env['DEBUG'] ?? '';\n  if (!debugEnv) return false;\n  const patterns = debugEnv.split(',').map(p => p.trim());\n  return patterns.some(p => {\n    if (p === '*' || p === 'ctxo:*') return true;\n    if (p === namespace) return true;\n    if (p.endsWith(':*') && namespace.startsWith(p.slice(0, -1))) return true;\n    return false;\n  });\n}\n\nexport interface Logger {\n  debug(message: string, ...args: unknown[]): void;\n  info(message: string, ...args: unknown[]): void;\n  warn(message: string, ...args: unknown[]): void;\n  error(message: string, ...args: unknown[]): void;\n}\n\nexport function createLogger(namespace: string): Logger {\n  const prefix = `[${namespace}]`;\n\n  return {\n    debug(message: string, ...args: unknown[]) {\n      if (isDebugEnabled(namespace)) {\n        console.error(`${prefix} DEBUG ${message}`, ...args);\n      }\n    },\n    info(message: string, ...args: unknown[]) {\n      console.error(`${prefix} ${message}`, ...args);\n    },\n    warn(message: string, ...args: unknown[]) {\n      console.error(`${prefix} WARN ${message}`, ...args);\n    },\n    error(message: string, ...args: unknown[]) {\n      console.error(`${prefix} ERROR ${message}`, ...args);\n    },\n  };\n}\n","import initSqlJs, { type Database } from 'sql.js';\nimport { readFileSync, writeFileSync, existsSync, mkdirSync } from 'node:fs';\nimport { join, dirname } from 'node:path';\nimport type { FileIndex, GraphEdge, SymbolNode } from '../../core/types.js';\nimport type { IStoragePort } from '../../ports/i-storage-port.js';\nimport { JsonIndexReader } from './json-index-reader.js';\nimport { createLogger } from '../../core/logger.js';\n\nconst log = createLogger('ctxo:storage');\n\nexport class SqliteStorageAdapter implements IStoragePort {\n  private db: Database | undefined;\n  private readonly dbPath: string;\n  private readonly ctxoRoot: string;\n\n  constructor(ctxoRoot: string) {\n    this.ctxoRoot = ctxoRoot;\n    this.dbPath = join(ctxoRoot, '.cache', 'symbols.db');\n  }\n\n  async init(): Promise<void> {\n    const SQL = await initSqlJs();\n\n    if (existsSync(this.dbPath)) {\n      try {\n        const buffer = readFileSync(this.dbPath);\n        this.db = new SQL.Database(buffer);\n        this.verifyIntegrity();\n      } catch {\n        log.warn('Corrupt DB detected, rebuilding from JSON index');\n        this.db = new SQL.Database();\n        this.createTables();\n      }\n    } else {\n      this.db = new SQL.Database();\n      this.createTables();\n    }\n\n    // Always rebuild from JSON — it is the source of truth\n    this.rebuildFromJson();\n  }\n\n  async initEmpty(): Promise<void> {\n    const SQL = await initSqlJs();\n    if (existsSync(this.dbPath)) {\n      try {\n        const buffer = readFileSync(this.dbPath);\n        this.db = new SQL.Database(buffer);\n      } catch {\n        this.db = new SQL.Database();\n      }\n    } else {\n      this.db = new SQL.Database();\n    }\n    this.createTables();\n    this.clearIndexTables();\n  }\n\n  /** Returns the underlying sql.js Database instance. Throws if not initialized. */\n  getDb(): Database {\n    if (!this.db) {\n      throw new Error('SqliteStorageAdapter not initialized. Call init() first.');\n    }\n    return this.db;\n  }\n\n  private database(): Database {\n    return this.getDb();\n  }\n\n  private verifyIntegrity(): void {\n    const db = this.database();\n    const result = db.exec('PRAGMA integrity_check');\n    const firstRow = result[0]?.values[0];\n    if (!firstRow || firstRow[0] !== 'ok') {\n      throw new Error('SQLite integrity check failed');\n    }\n\n    const tables = db.exec(\n      \"SELECT name FROM sqlite_master WHERE type='table' AND name IN ('symbols', 'edges', 'files')\",\n    );\n    if (!tables[0] || tables[0].values.length < 3) {\n      throw new Error('Missing required tables');\n    }\n  }\n\n  private createTables(): void {\n    const db = this.database();\n    db.run(`\n      CREATE TABLE IF NOT EXISTS files (\n        file_path TEXT PRIMARY KEY,\n        last_modified INTEGER NOT NULL\n      )\n    `);\n    db.run(`\n      CREATE TABLE IF NOT EXISTS symbols (\n        symbol_id TEXT PRIMARY KEY,\n        name TEXT NOT NULL,\n        kind TEXT NOT NULL,\n        file_path TEXT NOT NULL,\n        start_line INTEGER NOT NULL,\n        end_line INTEGER NOT NULL\n      )\n    `);\n    db.run(`\n      CREATE TABLE IF NOT EXISTS edges (\n        id INTEGER PRIMARY KEY AUTOINCREMENT,\n        from_symbol TEXT NOT NULL,\n        to_symbol TEXT NOT NULL,\n        kind TEXT NOT NULL\n      )\n    `);\n    db.run('CREATE INDEX IF NOT EXISTS idx_symbols_file ON symbols(file_path)');\n    db.run('CREATE INDEX IF NOT EXISTS idx_edges_from ON edges(from_symbol)');\n    db.run('CREATE INDEX IF NOT EXISTS idx_edges_to ON edges(to_symbol)');\n  }\n\n  private clearIndexTables(): void {\n    const db = this.database();\n    db.run('DELETE FROM edges');\n    db.run('DELETE FROM symbols');\n    db.run('DELETE FROM files');\n  }\n\n  private rebuildFromJson(): void {\n    const reader = new JsonIndexReader(this.ctxoRoot);\n    const indices = reader.readAll();\n\n    if (indices.length > 0) {\n      this.bulkWrite(indices);\n    }\n  }\n\n  writeSymbolFile(fileIndex: FileIndex): void {\n    const db = this.database();\n\n    db.run('BEGIN TRANSACTION');\n    try {\n      this.deleteFileData(db, fileIndex.file);\n\n      db.run(\n        'INSERT INTO files (file_path, last_modified) VALUES (?, ?)',\n        [fileIndex.file, fileIndex.lastModified],\n      );\n\n      for (const sym of fileIndex.symbols) {\n        db.run(\n          'INSERT OR REPLACE INTO symbols (symbol_id, name, kind, file_path, start_line, end_line) VALUES (?, ?, ?, ?, ?, ?)',\n          [sym.symbolId, sym.name, sym.kind, fileIndex.file, sym.startLine, sym.endLine],\n        );\n      }\n\n      for (const edge of fileIndex.edges) {\n        db.run(\n          'INSERT INTO edges (from_symbol, to_symbol, kind) VALUES (?, ?, ?)',\n          [edge.from, edge.to, edge.kind],\n        );\n      }\n\n      db.run('COMMIT');\n      this.persistIfNeeded();\n    } catch (err) {\n      db.run('ROLLBACK');\n      throw err;\n    }\n  }\n\n  /**\n   * Read symbol file from SQLite cache.\n   * NOTE: SQLite only caches symbols + edges (graph topology).\n   * intent, antiPatterns, and complexity live in committed JSON index only.\n   * Use JsonIndexReader for full FileIndex data.\n   */\n  readSymbolFile(relativePath: string): FileIndex | undefined {\n    const db = this.database();\n\n    const fileResult = db.exec(\n      'SELECT file_path, last_modified FROM files WHERE file_path = ?',\n      [relativePath],\n    );\n    if (!fileResult[0] || fileResult[0].values.length === 0) {\n      return undefined;\n    }\n\n    const [filePath, lastModified] = fileResult[0].values[0] as [string, number];\n\n    const symbols = this.getSymbolsForFile(db, filePath);\n    const edges = this.getEdgesForFile(db, filePath);\n\n    return {\n      file: filePath,\n      lastModified,\n      symbols,\n      edges,\n      // Not stored in SQLite — use JsonIndexReader for these fields\n      intent: [],\n      antiPatterns: [],\n    };\n  }\n\n  listIndexedFiles(): string[] {\n    const db = this.database();\n    const result = db.exec('SELECT file_path FROM files ORDER BY file_path');\n    if (!result[0]) return [];\n    return result[0].values.map((row) => row[0] as string);\n  }\n\n  deleteSymbolFile(relativePath: string): void {\n    const db = this.database();\n    this.deleteFileData(db, relativePath);\n  }\n\n  getSymbolById(symbolId: string): SymbolNode | undefined {\n    const db = this.database();\n    const result = db.exec(\n      'SELECT symbol_id, name, kind, start_line, end_line FROM symbols WHERE symbol_id = ?',\n      [symbolId],\n    );\n    if (!result[0] || result[0].values.length === 0) {\n      return undefined;\n    }\n\n    const [sid, name, kind, startLine, endLine] = result[0].values[0] as [string, string, string, number, number];\n    return { symbolId: sid, name, kind: kind as SymbolNode['kind'], startLine, endLine };\n  }\n\n  getEdgesFrom(symbolId: string): GraphEdge[] {\n    const db = this.database();\n    const result = db.exec(\n      'SELECT from_symbol, to_symbol, kind FROM edges WHERE from_symbol = ?',\n      [symbolId],\n    );\n    if (!result[0]) return [];\n    return result[0].values.map((row) => ({\n      from: row[0] as string,\n      to: row[1] as string,\n      kind: row[2] as GraphEdge['kind'],\n    }));\n  }\n\n  getEdgesTo(symbolId: string): GraphEdge[] {\n    const db = this.database();\n    const result = db.exec(\n      'SELECT from_symbol, to_symbol, kind FROM edges WHERE to_symbol = ?',\n      [symbolId],\n    );\n    if (!result[0]) return [];\n    return result[0].values.map((row) => ({\n      from: row[0] as string,\n      to: row[1] as string,\n      kind: row[2] as GraphEdge['kind'],\n    }));\n  }\n\n  getAllSymbols(): SymbolNode[] {\n    const db = this.database();\n    const result = db.exec(\n      'SELECT symbol_id, name, kind, start_line, end_line FROM symbols',\n    );\n    if (!result[0]) return [];\n    return result[0].values.map((row) => ({\n      symbolId: row[0] as string,\n      name: row[1] as string,\n      kind: row[2] as SymbolNode['kind'],\n      startLine: row[3] as number,\n      endLine: row[4] as number,\n    }));\n  }\n\n  getAllEdges(): GraphEdge[] {\n    const db = this.database();\n    const result = db.exec(\n      'SELECT from_symbol, to_symbol, kind FROM edges',\n    );\n    if (!result[0]) return [];\n    return result[0].values.map((row) => ({\n      from: row[0] as string,\n      to: row[1] as string,\n      kind: row[2] as GraphEdge['kind'],\n    }));\n  }\n\n  bulkWrite(indices: FileIndex[]): void {\n    const db = this.database();\n\n    db.run('BEGIN TRANSACTION');\n    try {\n      for (const fileIndex of indices) {\n        this.deleteFileData(db, fileIndex.file);\n\n        db.run(\n          'INSERT INTO files (file_path, last_modified) VALUES (?, ?)',\n          [fileIndex.file, fileIndex.lastModified],\n        );\n\n        for (const sym of fileIndex.symbols) {\n          db.run(\n            'INSERT OR REPLACE INTO symbols (symbol_id, name, kind, file_path, start_line, end_line) VALUES (?, ?, ?, ?, ?, ?)',\n            [sym.symbolId, sym.name, sym.kind, fileIndex.file, sym.startLine, sym.endLine],\n          );\n        }\n\n        for (const edge of fileIndex.edges) {\n          db.run(\n            'INSERT INTO edges (from_symbol, to_symbol, kind) VALUES (?, ?, ?)',\n            [edge.from, edge.to, edge.kind],\n          );\n        }\n      }\n\n      db.run('COMMIT');\n      this.persistIfNeeded();\n    } catch (err) {\n      db.run('ROLLBACK');\n      throw err;\n    }\n  }\n\n  persist(): void {\n    const db = this.database();\n    const data = db.export();\n    const buffer = Buffer.from(data);\n    mkdirSync(dirname(this.dbPath), { recursive: true });\n    writeFileSync(this.dbPath, buffer);\n  }\n\n  close(): void {\n    if (this.db) {\n      this.persist();\n      this.db.close();\n      this.db = undefined;\n    }\n  }\n\n  private persistIfNeeded(): void {\n    try {\n      this.persist();\n    } catch (err) {\n      log.error(`Failed to persist DB: ${(err as Error).message}`);\n    }\n  }\n\n  private deleteFileData(db: Database, filePath: string): void {\n    // Delete edges originating from this file's symbols\n    const symResult = db.exec(\n      'SELECT symbol_id FROM symbols WHERE file_path = ?',\n      [filePath],\n    );\n    if (symResult[0]) {\n      for (const row of symResult[0].values) {\n        db.run('DELETE FROM edges WHERE from_symbol = ?', [row[0]]);\n      }\n    }\n    db.run('DELETE FROM symbols WHERE file_path = ?', [filePath]);\n    db.run('DELETE FROM files WHERE file_path = ?', [filePath]);\n  }\n\n  private getSymbolsForFile(db: Database, filePath: string): SymbolNode[] {\n    const result = db.exec(\n      'SELECT symbol_id, name, kind, start_line, end_line FROM symbols WHERE file_path = ? ORDER BY start_line',\n      [filePath],\n    );\n    if (!result[0]) return [];\n    return result[0].values.map((row) => ({\n      symbolId: row[0] as string,\n      name: row[1] as string,\n      kind: row[2] as SymbolNode['kind'],\n      startLine: row[3] as number,\n      endLine: row[4] as number,\n    }));\n  }\n\n  private getEdgesForFile(db: Database, filePath: string): GraphEdge[] {\n    const result = db.exec(\n      `SELECT e.from_symbol, e.to_symbol, e.kind FROM edges e\n       INNER JOIN symbols s ON e.from_symbol = s.symbol_id\n       WHERE s.file_path = ?`,\n      [filePath],\n    );\n    if (!result[0]) return [];\n    return result[0].values.map((row) => ({\n      from: row[0] as string,\n      to: row[1] as string,\n      kind: row[2] as GraphEdge['kind'],\n    }));\n  }\n}\n","import { simpleGit, type SimpleGit } from 'simple-git';\nimport type { IGitPort } from '../../ports/i-git-port.js';\nimport type { CommitRecord, ChurnData } from '../../core/types.js';\nimport { createLogger } from '../../core/logger.js';\n\nconst log = createLogger('ctxo:git');\n\nexport class SimpleGitAdapter implements IGitPort {\n  private readonly git: SimpleGit;\n\n  constructor(projectRoot: string) {\n    this.git = simpleGit(projectRoot);\n    log.debug('Initialized with root: %s', projectRoot);\n  }\n\n  async isAvailable(): Promise<boolean> {\n    try {\n      await this.git.version();\n      return true;\n    } catch {\n      return false;\n    }\n  }\n\n  async getCommitHistory(filePath: string, maxCount?: number): Promise<CommitRecord[]> {\n    try {\n      const log = await this.git.log({\n        file: filePath,\n        '--follow': null,\n        ...(maxCount ? { maxCount } : {}),\n      });\n\n      return log.all.map((entry) => ({\n        hash: entry.hash,\n        message: entry.message,\n        date: entry.date,\n        author: entry.author_name,\n      }));\n    } catch (err) {\n      log.error(` Failed to get history for ${filePath}: ${(err as Error).message}`);\n      return [];\n    }\n  }\n\n  async getBatchHistory(maxCount = 20): Promise<Map<string, CommitRecord[]>> {\n    try {\n      const log = await this.git.log({ maxCount: maxCount * 50, '--name-only': null });\n      const result = new Map<string, CommitRecord[]>();\n\n      for (const entry of log.all) {\n        const record: CommitRecord = {\n          hash: entry.hash,\n          message: entry.message,\n          date: entry.date,\n          author: entry.author_name,\n        };\n\n        const diff = entry.diff;\n        const files: string[] = diff?.files?.map((f: { file: string }) => f.file.replace(/\\\\/g, '/')) ?? [];\n\n        for (const file of files) {\n          let list = result.get(file);\n          if (!list) { list = []; result.set(file, list); }\n          if (list.length < maxCount) {\n            list.push(record);\n          }\n        }\n      }\n\n      return result;\n    } catch (err) {\n      log.error(` Batch history failed: ${(err as Error).message}`);\n      return new Map();\n    }\n  }\n\n  async getChangedFiles(since: string): Promise<string[]> {\n    try {\n      const diff = await this.git.diffSummary([since]);\n      return diff.files.map((f) => f.file.replace(/\\\\/g, '/'));\n    } catch (err) {\n      log.error(` Failed to get changed files since ${since}: ${(err as Error).message}`);\n      return [];\n    }\n  }\n\n  async getFileChurn(filePath: string): Promise<ChurnData> {\n    try {\n      const log = await this.git.log({ file: filePath, '--follow': null });\n\n      return {\n        filePath,\n        commitCount: log.total,\n      };\n    } catch (err) {\n      log.error(` Failed to get churn for ${filePath}: ${(err as Error).message}`);\n      return { filePath, commitCount: 0 };\n    }\n  }\n}\n","import type { Database } from 'sql.js';\nimport type {\n  ISessionRecorderPort,\n  SessionEvent,\n  AggregatedStats,\n  ToolStats,\n  SymbolStats,\n  DetailLevelStats,\n} from '../../ports/i-session-recorder-port.js';\nimport { createLogger } from '../../core/logger.js';\n\nconst log = createLogger('ctxo:stats');\n\nexport class SessionRecorderAdapter implements ISessionRecorderPort {\n  private readonly db: Database;\n  private readonly onWrite: (() => void) | null;\n  private tableCreated = false;\n\n  constructor(db: Database, onWrite?: () => void) {\n    this.db = db;\n    this.onWrite = onWrite ?? null;\n  }\n\n  private ensureTable(): void {\n    if (this.tableCreated) return;\n    this.db.run(`\n      CREATE TABLE IF NOT EXISTS session_events (\n        id INTEGER PRIMARY KEY AUTOINCREMENT,\n        timestamp TEXT DEFAULT (datetime('now')),\n        tool TEXT NOT NULL,\n        symbol_id TEXT,\n        detail_level TEXT,\n        response_tokens INTEGER,\n        response_bytes INTEGER,\n        latency_ms REAL,\n        truncated BOOLEAN DEFAULT 0\n      )\n    `);\n    this.db.run('CREATE INDEX IF NOT EXISTS idx_session_timestamp ON session_events(timestamp)');\n    this.db.run('CREATE INDEX IF NOT EXISTS idx_session_tool ON session_events(tool)');\n    this.tableCreated = true;\n  }\n\n  record(event: SessionEvent): void {\n    try {\n      this.ensureTable();\n      this.db.run(\n        `INSERT INTO session_events (tool, symbol_id, detail_level, response_tokens, response_bytes, latency_ms, truncated)\n         VALUES (?, ?, ?, ?, ?, ?, ?)`,\n        [\n          event.tool,\n          event.symbolId,\n          event.detailLevel,\n          event.responseTokens,\n          event.responseBytes,\n          event.latencyMs,\n          event.truncated ? 1 : 0,\n        ],\n      );\n      this.flushToDisk();\n    } catch (err) {\n      log.error(`Failed to record session event: ${(err as Error).message}`);\n    }\n  }\n\n  queryStats(days?: number): AggregatedStats {\n    this.ensureTable();\n\n    const whereClause = days != null && days > 0\n      ? `WHERE timestamp >= datetime('now', '-${Math.floor(days)} days')`\n      : '';\n\n    // Total calls and tokens\n    const summaryResult = this.db.exec(\n      `SELECT COUNT(*) as total_calls, COALESCE(SUM(response_tokens), 0) as total_tokens\n       FROM session_events ${whereClause}`,\n    );\n    const summaryRow = summaryResult[0]?.values[0];\n    const totalCalls = Number(summaryRow?.[0] ?? 0);\n    const totalTokensServed = Number(summaryRow?.[1] ?? 0);\n\n    // Top tools\n    const toolsResult = this.db.exec(\n      `SELECT tool, COUNT(*) as calls, CAST(AVG(response_tokens) AS INTEGER) as avg_tokens\n       FROM session_events ${whereClause}\n       GROUP BY tool ORDER BY calls DESC LIMIT 5`,\n    );\n    const topTools: ToolStats[] = (toolsResult[0]?.values ?? []).map((row) => ({\n      tool: String(row[0]),\n      calls: Number(row[1]),\n      avgTokens: Number(row[2]),\n    }));\n\n    // Top symbols (exclude nulls)\n    const symbolWherePrefix = whereClause ? whereClause + ' AND' : 'WHERE';\n    const symbolsResult = this.db.exec(\n      `SELECT symbol_id, COUNT(*) as queries\n       FROM session_events ${symbolWherePrefix} symbol_id IS NOT NULL\n       GROUP BY symbol_id ORDER BY queries DESC LIMIT 5`,\n    );\n    const topSymbols: SymbolStats[] = (symbolsResult[0]?.values ?? []).map((row) => {\n      const symbolId = String(row[0]);\n      const parts = symbolId.split('::');\n      const name = parts.length >= 2 ? parts[1]! : symbolId;\n      return {\n        symbolId,\n        name,\n        queries: Number(row[1]),\n      };\n    });\n\n    // Detail level distribution\n    const levelResult = this.db.exec(\n      `SELECT detail_level, COUNT(*) as count\n       FROM session_events ${symbolWherePrefix} detail_level IS NOT NULL\n       GROUP BY detail_level ORDER BY detail_level`,\n    );\n    const levelRows = levelResult[0]?.values ?? [];\n    const levelTotal = levelRows.reduce((sum, row) => sum + Number(row[1]), 0);\n    const detailLevelDistribution: DetailLevelStats[] = levelRows.map((row) => ({\n      level: String(row[0]),\n      count: Number(row[1]),\n      percentage: levelTotal > 0 ? Math.round((Number(row[1]) / levelTotal) * 100) : 0,\n    }));\n\n    return {\n      totalCalls,\n      totalTokensServed,\n      topTools,\n      topSymbols,\n      detailLevelDistribution,\n    };\n  }\n\n  clear(): void {\n    this.ensureTable();\n    this.db.run('DELETE FROM session_events');\n    this.flushToDisk();\n  }\n\n  private flushToDisk(): void {\n    try {\n      this.onWrite?.();\n    } catch (err) {\n      log.error(`Failed to flush stats to disk: ${(err as Error).message}`);\n    }\n  }\n}\n","import type { CommitRecord, AntiPattern } from '../types.js';\n\n// Explicit revert patterns\nconst REVERT_QUOTED_PATTERN = /^Revert \"(.+)\"$/;\nconst REVERT_PREFIX_PATTERN = /^revert:\\s*(.+)$/i;\n\n// Undo/rollback patterns\nconst UNDO_PATTERN = /^undo[:\\s]/i;\nconst ROLLBACK_PATTERN = /^rollback[:\\s]/i;\n\n// Indirect revert indicators (keywords in commit message body)\nconst INDIRECT_KEYWORDS = [\n  /\\brevert(?:s|ed|ing)?\\b/i,\n  /\\broll(?:s|ed|ing)?\\s*back\\b/i,\n  /\\bundo(?:es|ne|ing)?\\b/i,\n  /\\bbacked?\\s*out\\b/i,\n  /\\bremov(?:e|es|ed|ing)\\s+(?:broken|buggy|faulty)\\b/i,\n];\n\nexport class RevertDetector {\n  detect(commits: readonly CommitRecord[]): AntiPattern[] {\n    const antiPatterns: AntiPattern[] = [];\n\n    for (const commit of commits) {\n      if (!commit.message) continue;\n\n      if (this.isRevert(commit.message)) {\n        antiPatterns.push({\n          hash: commit.hash,\n          message: commit.message,\n          date: commit.date,\n        });\n      }\n    }\n\n    return antiPatterns;\n  }\n\n  private isRevert(message: string): boolean {\n    // Explicit patterns (high confidence)\n    if (REVERT_QUOTED_PATTERN.test(message)) return true;\n    if (REVERT_PREFIX_PATTERN.test(message)) return true;\n    if (UNDO_PATTERN.test(message)) return true;\n    if (ROLLBACK_PATTERN.test(message)) return true;\n\n    // Indirect indicators (keyword search in full message)\n    for (const pattern of INDIRECT_KEYWORDS) {\n      if (pattern.test(message)) return true;\n    }\n\n    return false;\n  }\n}\n","import type { CoChangeEntry, CoChangeMatrix, FileIndex } from '../types.js';\n\nconst MIN_SHARED_COMMITS = 2;\nconst MIN_FREQUENCY = 0.1;\n\nexport function aggregateCoChanges(indices: readonly FileIndex[]): CoChangeMatrix {\n  // Step 1: Build commit → files map\n  const commitToFiles = new Map<string, Set<string>>();\n  const fileCommitCounts = new Map<string, number>();\n\n  for (const idx of indices) {\n    const file = idx.file;\n    let count = 0;\n    for (const intent of idx.intent) {\n      count++;\n      let files = commitToFiles.get(intent.hash);\n      if (!files) {\n        files = new Set();\n        commitToFiles.set(intent.hash, files);\n      }\n      files.add(file);\n    }\n    if (count > 0) {\n      fileCommitCounts.set(file, count);\n    }\n  }\n\n  // Step 2: Count shared commits per file pair\n  const pairCounts = new Map<string, number>();\n  for (const files of commitToFiles.values()) {\n    if (files.size < 2) continue;\n    const sorted = [...files].sort();\n    for (let i = 0; i < sorted.length; i++) {\n      for (let j = i + 1; j < sorted.length; j++) {\n        const key = `${sorted[i]}|${sorted[j]}`;\n        pairCounts.set(key, (pairCounts.get(key) ?? 0) + 1);\n      }\n    }\n  }\n\n  // Step 3: Calculate frequency and filter\n  const entries: CoChangeEntry[] = [];\n  for (const [key, sharedCommits] of pairCounts) {\n    if (sharedCommits < MIN_SHARED_COMMITS) continue;\n\n    const [file1, file2] = key.split('|') as [string, string];\n    const count1 = fileCommitCounts.get(file1) ?? 0;\n    const count2 = fileCommitCounts.get(file2) ?? 0;\n    const minCount = Math.min(count1, count2);\n    if (minCount === 0) continue;\n\n    const frequency = Math.round((sharedCommits / minCount) * 1000) / 1000;\n    if (frequency < MIN_FREQUENCY) continue;\n\n    entries.push({ file1, file2, sharedCommits, frequency });\n  }\n\n  entries.sort((a, 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