@stackmemoryai/stackmemory 0.5.39 → 0.5.40

package/dist/cli/commands/setup.js

@@ -0,0 +1,327 @@
+import { fileURLToPath as __fileURLToPath } from 'url';
+import { dirname as __pathDirname } from 'path';
+const __filename = __fileURLToPath(import.meta.url);
+const __dirname = __pathDirname(__filename);
+import { Command } from "commander";
+import chalk from "chalk";
+import { existsSync, readFileSync, writeFileSync, mkdirSync } from "fs";
+import { join } from "path";
+import { homedir } from "os";
+import { execSync } from "child_process";
+const CLAUDE_DIR = join(homedir(), ".claude");
+const CLAUDE_CONFIG_FILE = join(CLAUDE_DIR, "config.json");
+const MCP_CONFIG_FILE = join(CLAUDE_DIR, "stackmemory-mcp.json");
+const HOOKS_JSON = join(CLAUDE_DIR, "hooks.json");
+function createSetupMCPCommand() {
+  return new Command("setup-mcp").description("Auto-configure Claude Code MCP integration").option("--dry-run", "Show what would be configured without making changes").option("--reset", "Reset MCP configuration to defaults").action(async (options) => {
+    console.log(chalk.cyan("\nStackMemory MCP Setup\n"));
+    if (options.dryRun) {
+      console.log(chalk.yellow("[DRY RUN] No changes will be made.\n"));
+    }
+    if (!existsSync(CLAUDE_DIR)) {
+      if (options.dryRun) {
+        console.log(chalk.gray(`Would create: ${CLAUDE_DIR}`));
+      } else {
+        mkdirSync(CLAUDE_DIR, { recursive: true });
+        console.log(chalk.green("[OK]") + " Created ~/.claude directory");
+      }
+    }
+    const mcpConfig = {
+      mcpServers: {
+        stackmemory: {
+          command: "stackmemory",
+          args: ["mcp-server"],
+          env: {
+            NODE_ENV: "production"
+          }
+        }
+      }
+    };
+    if (options.dryRun) {
+      console.log(
+        chalk.gray(`Would write MCP config to: ${MCP_CONFIG_FILE}`)
+      );
+      console.log(chalk.gray(JSON.stringify(mcpConfig, null, 2)));
+    } else {
+      writeFileSync(MCP_CONFIG_FILE, JSON.stringify(mcpConfig, null, 2));
+      console.log(chalk.green("[OK]") + " Created MCP server configuration");
+    }
+    let claudeConfig = {};
+    if (existsSync(CLAUDE_CONFIG_FILE)) {
+      try {
+        claudeConfig = JSON.parse(readFileSync(CLAUDE_CONFIG_FILE, "utf8"));
+      } catch {
+        console.log(
+          chalk.yellow("[WARN]") + " Could not parse existing config.json, creating new"
+        );
+      }
+    }
+    if (!claudeConfig.mcp) {
+      claudeConfig.mcp = {};
+    }
+    const mcp = claudeConfig.mcp;
+    if (!mcp.configFiles) {
+      mcp.configFiles = [];
+    }
+    const configFiles = mcp.configFiles;
+    if (!configFiles.includes(MCP_CONFIG_FILE)) {
+      configFiles.push(MCP_CONFIG_FILE);
+    }
+    if (options.dryRun) {
+      console.log(chalk.gray(`Would update: ${CLAUDE_CONFIG_FILE}`));
+    } else {
+      writeFileSync(
+        CLAUDE_CONFIG_FILE,
+        JSON.stringify(claudeConfig, null, 2)
+      );
+      console.log(chalk.green("[OK]") + " Updated Claude config.json");
+    }
+    console.log(chalk.cyan("\nValidating configuration..."));
+    try {
+      execSync("stackmemory --version", { stdio: "pipe" });
+      console.log(chalk.green("[OK]") + " stackmemory CLI is installed");
+    } catch {
+      console.log(chalk.yellow("[WARN]") + " stackmemory CLI not in PATH");
+      console.log(chalk.gray("  You may need to restart your terminal"));
+    }
+    try {
+      execSync("claude --version", { stdio: "pipe" });
+      console.log(chalk.green("[OK]") + " Claude Code is installed");
+    } catch {
+      console.log(chalk.yellow("[WARN]") + " Claude Code not found");
+      console.log(chalk.gray("  Install from: https://claude.ai/code"));
+    }
+    if (!options.dryRun) {
+      console.log(chalk.green("\nMCP setup complete!"));
+      console.log(chalk.cyan("\nNext steps:"));
+      console.log(chalk.white("  1. Restart Claude Code"));
+      console.log(
+        chalk.white(
+          "  2. The StackMemory MCP tools will be available automatically"
+        )
+      );
+      console.log(
+        chalk.gray(
+          '\nTo verify: Run "stackmemory doctor" to check all integrations'
+        )
+      );
+    }
+  });
+}
+function createDoctorCommand() {
+  return new Command("doctor").description("Diagnose StackMemory configuration and common issues").option("--fix", "Attempt to automatically fix issues").action(async (options) => {
+    console.log(chalk.cyan("\nStackMemory Doctor\n"));
+    console.log(chalk.gray("Checking configuration and dependencies...\n"));
+    const results = [];
+    const projectDir = join(process.cwd(), ".stackmemory");
+    const dbPath = join(projectDir, "context.db");
+    if (existsSync(dbPath)) {
+      results.push({
+        name: "Project Initialization",
+        status: "ok",
+        message: "StackMemory is initialized in this project"
+      });
+    } else if (existsSync(projectDir)) {
+      results.push({
+        name: "Project Initialization",
+        status: "warn",
+        message: ".stackmemory directory exists but database not found",
+        fix: "Run: stackmemory init"
+      });
+    } else {
+      results.push({
+        name: "Project Initialization",
+        status: "error",
+        message: "StackMemory not initialized in this project",
+        fix: "Run: stackmemory init"
+      });
+    }
+    if (existsSync(dbPath)) {
+      try {
+        const Database = (await import("better-sqlite3")).default;
+        const db = new Database(dbPath, { readonly: true });
+        const tables = db.prepare("SELECT name FROM sqlite_master WHERE type='table'").all();
+        db.close();
+        const hasFrames = tables.some((t) => t.name === "frames");
+        if (hasFrames) {
+          results.push({
+            name: "Database Integrity",
+            status: "ok",
+            message: `Database has ${tables.length} tables`
+          });
+        } else {
+          results.push({
+            name: "Database Integrity",
+            status: "warn",
+            message: "Database exists but missing expected tables",
+            fix: "Run: stackmemory init --interactive"
+          });
+        }
+      } catch (error) {
+        results.push({
+          name: "Database Integrity",
+          status: "error",
+          message: `Database error: ${error.message}`,
+          fix: "Remove .stackmemory/context.db and run: stackmemory init"
+        });
+      }
+    }
+    if (existsSync(MCP_CONFIG_FILE)) {
+      try {
+        const config = JSON.parse(readFileSync(MCP_CONFIG_FILE, "utf8"));
+        if (config.mcpServers?.stackmemory) {
+          results.push({
+            name: "MCP Configuration",
+            status: "ok",
+            message: "MCP server configured"
+          });
+        } else {
+          results.push({
+            name: "MCP Configuration",
+            status: "warn",
+            message: "MCP config file exists but stackmemory server not configured",
+            fix: "Run: stackmemory setup-mcp"
+          });
+        }
+      } catch {
+        results.push({
+          name: "MCP Configuration",
+          status: "error",
+          message: "Invalid MCP configuration file",
+          fix: "Run: stackmemory setup-mcp --reset"
+        });
+      }
+    } else {
+      results.push({
+        name: "MCP Configuration",
+        status: "warn",
+        message: "MCP not configured for Claude Code",
+        fix: "Run: stackmemory setup-mcp"
+      });
+    }
+    if (existsSync(HOOKS_JSON)) {
+      try {
+        const hooks = JSON.parse(readFileSync(HOOKS_JSON, "utf8"));
+        const hasTraceHook = !!hooks["tool-use-approval"];
+        if (hasTraceHook) {
+          results.push({
+            name: "Claude Hooks",
+            status: "ok",
+            message: "Tool tracing hook installed"
+          });
+        } else {
+          results.push({
+            name: "Claude Hooks",
+            status: "warn",
+            message: "Hooks file exists but tracing not configured",
+            fix: "Run: stackmemory hooks install"
+          });
+        }
+      } catch {
+        results.push({
+          name: "Claude Hooks",
+          status: "warn",
+          message: "Could not read hooks.json"
+        });
+      }
+    } else {
+      results.push({
+        name: "Claude Hooks",
+        status: "warn",
+        message: "Claude hooks not installed (optional)",
+        fix: "Run: stackmemory hooks install"
+      });
+    }
+    const envChecks = [
+      { key: "LINEAR_API_KEY", name: "Linear API Key", optional: true },
+      { key: "TWILIO_ACCOUNT_SID", name: "Twilio Account", optional: true }
+    ];
+    for (const check of envChecks) {
+      const value = process.env[check.key];
+      if (value) {
+        results.push({
+          name: check.name,
+          status: "ok",
+          message: "Environment variable set"
+        });
+      } else if (!check.optional) {
+        results.push({
+          name: check.name,
+          status: "error",
+          message: "Required environment variable not set",
+          fix: `Set ${check.key} in your .env file`
+        });
+      }
+    }
+    const homeStackmemory = join(homedir(), ".stackmemory");
+    if (existsSync(homeStackmemory)) {
+      try {
+        const testFile = join(homeStackmemory, ".write-test");
+        writeFileSync(testFile, "test");
+        const { unlinkSync } = await import("fs");
+        unlinkSync(testFile);
+        results.push({
+          name: "File Permissions",
+          status: "ok",
+          message: "~/.stackmemory is writable"
+        });
+      } catch {
+        results.push({
+          name: "File Permissions",
+          status: "error",
+          message: "~/.stackmemory is not writable",
+          fix: "Run: chmod 700 ~/.stackmemory"
+        });
+      }
+    }
+    let hasErrors = false;
+    let hasWarnings = false;
+    for (const result of results) {
+      const icon = result.status === "ok" ? chalk.green("[OK]") : result.status === "warn" ? chalk.yellow("[WARN]") : chalk.red("[ERROR]");
+      console.log(`${icon} ${result.name}`);
+      console.log(chalk.gray(`    ${result.message}`));
+      if (result.fix) {
+        console.log(chalk.cyan(`    Fix: ${result.fix}`));
+        if (options.fix && result.status !== "ok") {
+          if (result.fix.includes("stackmemory setup-mcp")) {
+            console.log(chalk.gray("    Attempting auto-fix..."));
+            try {
+              execSync("stackmemory setup-mcp", { stdio: "inherit" });
+            } catch {
+              console.log(chalk.red("    Auto-fix failed"));
+            }
+          }
+        }
+      }
+      if (result.status === "error") hasErrors = true;
+      if (result.status === "warn") hasWarnings = true;
+    }
+    console.log("");
+    if (hasErrors) {
+      console.log(
+        chalk.red("Some issues need attention. Run suggested fixes above.")
+      );
+      process.exit(1);
+    } else if (hasWarnings) {
+      console.log(
+        chalk.yellow(
+          "StackMemory is working but some optional features are not configured."
+        )
+      );
+    } else {
+      console.log(
+        chalk.green("All checks passed! StackMemory is properly configured.")
+      );
+    }
+  });
+}
+function registerSetupCommands(program) {
+  program.addCommand(createSetupMCPCommand());
+  program.addCommand(createDoctorCommand());
+}
+export {
+  createDoctorCommand,
+  createSetupMCPCommand,
+  registerSetupCommands
+};
+//# sourceMappingURL=setup.js.map

package/dist/cli/commands/setup.js.map

@@ -0,0 +1,7 @@
+{
+  "version": 3,
+  "sources": ["../../../src/cli/commands/setup.ts"],
+  "sourcesContent": ["/**\n * Setup commands for StackMemory onboarding\n * - setup-mcp: Auto-configure Claude Code MCP integration\n * - doctor: Diagnose common issues\n */\n\nimport { Command } from 'commander';\nimport chalk from 'chalk';\nimport { existsSync, readFileSync, writeFileSync, mkdirSync } from 'fs';\nimport { join } from 'path';\nimport { homedir } from 'os';\nimport { execSync } from 'child_process';\n\n// Claude config paths\nconst CLAUDE_DIR = join(homedir(), '.claude');\nconst CLAUDE_CONFIG_FILE = join(CLAUDE_DIR, 'config.json');\nconst MCP_CONFIG_FILE = join(CLAUDE_DIR, 'stackmemory-mcp.json');\nconst HOOKS_JSON = join(CLAUDE_DIR, 'hooks.json');\n\ninterface DiagnosticResult {\n  name: string;\n  status: 'ok' | 'warn' | 'error';\n  message: string;\n  fix?: string;\n}\n\n/**\n * Create setup-mcp command\n */\nexport function createSetupMCPCommand(): Command {\n  return new Command('setup-mcp')\n    .description('Auto-configure Claude Code MCP integration')\n    .option('--dry-run', 'Show what would be configured without making changes')\n    .option('--reset', 'Reset MCP configuration to defaults')\n    .action(async (options) => {\n      console.log(chalk.cyan('\\nStackMemory MCP Setup\\n'));\n\n      if (options.dryRun) {\n        console.log(chalk.yellow('[DRY RUN] No changes will be made.\\n'));\n      }\n\n      // Step 1: Ensure Claude directory exists\n      if (!existsSync(CLAUDE_DIR)) {\n        if (options.dryRun) {\n          console.log(chalk.gray(`Would create: ${CLAUDE_DIR}`));\n        } else {\n          mkdirSync(CLAUDE_DIR, { recursive: true });\n          console.log(chalk.green('[OK]') + ' Created ~/.claude directory');\n        }\n      }\n\n      // Step 2: Create MCP server configuration\n      const mcpConfig = {\n        mcpServers: {\n          stackmemory: {\n            command: 'stackmemory',\n            args: ['mcp-server'],\n            env: {\n              NODE_ENV: 'production',\n            },\n          },\n        },\n      };\n\n      if (options.dryRun) {\n        console.log(\n          chalk.gray(`Would write MCP config to: ${MCP_CONFIG_FILE}`)\n        );\n        console.log(chalk.gray(JSON.stringify(mcpConfig, null, 2)));\n      } else {\n        writeFileSync(MCP_CONFIG_FILE, JSON.stringify(mcpConfig, null, 2));\n        console.log(chalk.green('[OK]') + ' Created MCP server configuration');\n      }\n\n      // Step 3: Update Claude config.json to reference MCP config\n      let claudeConfig: Record<string, unknown> = {};\n      if (existsSync(CLAUDE_CONFIG_FILE)) {\n        try {\n          claudeConfig = JSON.parse(readFileSync(CLAUDE_CONFIG_FILE, 'utf8'));\n        } catch {\n          console.log(\n            chalk.yellow('[WARN]') +\n              ' Could not parse existing config.json, creating new'\n          );\n        }\n      }\n\n      // Ensure mcp.configFiles array includes our config\n      if (!claudeConfig.mcp) {\n        claudeConfig.mcp = {};\n      }\n      const mcp = claudeConfig.mcp as Record<string, unknown>;\n      if (!mcp.configFiles) {\n        mcp.configFiles = [];\n      }\n      const configFiles = mcp.configFiles as string[];\n      if (!configFiles.includes(MCP_CONFIG_FILE)) {\n        configFiles.push(MCP_CONFIG_FILE);\n      }\n\n      if (options.dryRun) {\n        console.log(chalk.gray(`Would update: ${CLAUDE_CONFIG_FILE}`));\n      } else {\n        writeFileSync(\n          CLAUDE_CONFIG_FILE,\n          JSON.stringify(claudeConfig, null, 2)\n        );\n        console.log(chalk.green('[OK]') + ' Updated Claude config.json');\n      }\n\n      // Step 4: Validate configuration\n      console.log(chalk.cyan('\\nValidating configuration...'));\n\n      // Check stackmemory command is available\n      try {\n        execSync('stackmemory --version', { stdio: 'pipe' });\n        console.log(chalk.green('[OK]') + ' stackmemory CLI is installed');\n      } catch {\n        console.log(chalk.yellow('[WARN]') + ' stackmemory CLI not in PATH');\n        console.log(chalk.gray('  You may need to restart your terminal'));\n      }\n\n      // Check Claude Code is available\n      try {\n        execSync('claude --version', { stdio: 'pipe' });\n        console.log(chalk.green('[OK]') + ' Claude Code is installed');\n      } catch {\n        console.log(chalk.yellow('[WARN]') + ' Claude Code not found');\n        console.log(chalk.gray('  Install from: https://claude.ai/code'));\n      }\n\n      // Final instructions\n      if (!options.dryRun) {\n        console.log(chalk.green('\\nMCP setup complete!'));\n        console.log(chalk.cyan('\\nNext steps:'));\n        console.log(chalk.white('  1. Restart Claude Code'));\n        console.log(\n          chalk.white(\n            '  2. The StackMemory MCP tools will be available automatically'\n          )\n        );\n        console.log(\n          chalk.gray(\n            '\\nTo verify: Run \"stackmemory doctor\" to check all integrations'\n          )\n        );\n      }\n    });\n}\n\n/**\n * Create doctor command for diagnostics\n */\nexport function createDoctorCommand(): Command {\n  return new Command('doctor')\n    .description('Diagnose StackMemory configuration and common issues')\n    .option('--fix', 'Attempt to automatically fix issues')\n    .action(async (options) => {\n      console.log(chalk.cyan('\\nStackMemory Doctor\\n'));\n      console.log(chalk.gray('Checking configuration and dependencies...\\n'));\n\n      const results: DiagnosticResult[] = [];\n\n      // 1. Check project initialization\n      const projectDir = join(process.cwd(), '.stackmemory');\n      const dbPath = join(projectDir, 'context.db');\n      if (existsSync(dbPath)) {\n        results.push({\n          name: 'Project Initialization',\n          status: 'ok',\n          message: 'StackMemory is initialized in this project',\n        });\n      } else if (existsSync(projectDir)) {\n        results.push({\n          name: 'Project Initialization',\n          status: 'warn',\n          message: '.stackmemory directory exists but database not found',\n          fix: 'Run: stackmemory init',\n        });\n      } else {\n        results.push({\n          name: 'Project Initialization',\n          status: 'error',\n          message: 'StackMemory not initialized in this project',\n          fix: 'Run: stackmemory init',\n        });\n      }\n\n      // 2. Check database integrity\n      if (existsSync(dbPath)) {\n        try {\n          const Database = (await import('better-sqlite3')).default;\n          const db = new Database(dbPath, { readonly: true });\n          const tables = db\n            .prepare(\"SELECT name FROM sqlite_master WHERE type='table'\")\n            .all() as { name: string }[];\n          db.close();\n\n          const hasFrames = tables.some((t) => t.name === 'frames');\n          if (hasFrames) {\n            results.push({\n              name: 'Database Integrity',\n              status: 'ok',\n              message: `Database has ${tables.length} tables`,\n            });\n          } else {\n            results.push({\n              name: 'Database Integrity',\n              status: 'warn',\n              message: 'Database exists but missing expected tables',\n              fix: 'Run: stackmemory init --interactive',\n            });\n          }\n        } catch (error) {\n          results.push({\n            name: 'Database Integrity',\n            status: 'error',\n            message: `Database error: ${(error as Error).message}`,\n            fix: 'Remove .stackmemory/context.db and run: stackmemory init',\n          });\n        }\n      }\n\n      // 3. Check MCP configuration\n      if (existsSync(MCP_CONFIG_FILE)) {\n        try {\n          const config = JSON.parse(readFileSync(MCP_CONFIG_FILE, 'utf8'));\n          if (config.mcpServers?.stackmemory) {\n            results.push({\n              name: 'MCP Configuration',\n              status: 'ok',\n              message: 'MCP server configured',\n            });\n          } else {\n            results.push({\n              name: 'MCP Configuration',\n              status: 'warn',\n              message:\n                'MCP config file exists but stackmemory server not configured',\n              fix: 'Run: stackmemory setup-mcp',\n            });\n          }\n        } catch {\n          results.push({\n            name: 'MCP Configuration',\n            status: 'error',\n            message: 'Invalid MCP configuration file',\n            fix: 'Run: stackmemory setup-mcp --reset',\n          });\n        }\n      } else {\n        results.push({\n          name: 'MCP Configuration',\n          status: 'warn',\n          message: 'MCP not configured for Claude Code',\n          fix: 'Run: stackmemory setup-mcp',\n        });\n      }\n\n      // 4. Check Claude hooks\n      if (existsSync(HOOKS_JSON)) {\n        try {\n          const hooks = JSON.parse(readFileSync(HOOKS_JSON, 'utf8'));\n          const hasTraceHook = !!hooks['tool-use-approval'];\n          if (hasTraceHook) {\n            results.push({\n              name: 'Claude Hooks',\n              status: 'ok',\n              message: 'Tool tracing hook installed',\n            });\n          } else {\n            results.push({\n              name: 'Claude Hooks',\n              status: 'warn',\n              message: 'Hooks file exists but tracing not configured',\n              fix: 'Run: stackmemory hooks install',\n            });\n          }\n        } catch {\n          results.push({\n            name: 'Claude Hooks',\n            status: 'warn',\n            message: 'Could not read hooks.json',\n          });\n        }\n      } else {\n        results.push({\n          name: 'Claude Hooks',\n          status: 'warn',\n          message: 'Claude hooks not installed (optional)',\n          fix: 'Run: stackmemory hooks install',\n        });\n      }\n\n      // 5. Check environment variables\n      const envChecks = [\n        { key: 'LINEAR_API_KEY', name: 'Linear API Key', optional: true },\n        { key: 'TWILIO_ACCOUNT_SID', name: 'Twilio Account', optional: true },\n      ];\n\n      for (const check of envChecks) {\n        const value = process.env[check.key];\n        if (value) {\n          results.push({\n            name: check.name,\n            status: 'ok',\n            message: 'Environment variable set',\n          });\n        } else if (!check.optional) {\n          results.push({\n            name: check.name,\n            status: 'error',\n            message: 'Required environment variable not set',\n            fix: `Set ${check.key} in your .env file`,\n          });\n        }\n        // Skip optional env vars that aren't set\n      }\n\n      // 6. Check file permissions\n      const homeStackmemory = join(homedir(), '.stackmemory');\n      if (existsSync(homeStackmemory)) {\n        try {\n          const testFile = join(homeStackmemory, '.write-test');\n          writeFileSync(testFile, 'test');\n          const { unlinkSync } = await import('fs');\n          unlinkSync(testFile);\n          results.push({\n            name: 'File Permissions',\n            status: 'ok',\n            message: '~/.stackmemory is writable',\n          });\n        } catch {\n          results.push({\n            name: 'File Permissions',\n            status: 'error',\n            message: '~/.stackmemory is not writable',\n            fix: 'Run: chmod 700 ~/.stackmemory',\n          });\n        }\n      }\n\n      // Display results\n      let hasErrors = false;\n      let hasWarnings = false;\n\n      for (const result of results) {\n        const icon =\n          result.status === 'ok'\n            ? chalk.green('[OK]')\n            : result.status === 'warn'\n              ? chalk.yellow('[WARN]')\n              : chalk.red('[ERROR]');\n\n        console.log(`${icon} ${result.name}`);\n        console.log(chalk.gray(`    ${result.message}`));\n\n        if (result.fix) {\n          console.log(chalk.cyan(`    Fix: ${result.fix}`));\n\n          if (options.fix && result.status !== 'ok') {\n            // Auto-fix logic for specific issues\n            if (result.fix.includes('stackmemory setup-mcp')) {\n              console.log(chalk.gray('    Attempting auto-fix...'));\n              try {\n                execSync('stackmemory setup-mcp', { stdio: 'inherit' });\n              } catch {\n                console.log(chalk.red('    Auto-fix failed'));\n              }\n            }\n          }\n        }\n\n        if (result.status === 'error') hasErrors = true;\n        if (result.status === 'warn') hasWarnings = true;\n      }\n\n      // Summary\n      console.log('');\n      if (hasErrors) {\n        console.log(\n          chalk.red('Some issues need attention. Run suggested fixes above.')\n        );\n        process.exit(1);\n      } else if (hasWarnings) {\n        console.log(\n          chalk.yellow(\n            'StackMemory is working but some optional features are not configured.'\n          )\n        );\n      } else {\n        console.log(\n          chalk.green('All checks passed! StackMemory is properly configured.')\n        );\n      }\n    });\n}\n\n/**\n * Register setup commands\n */\nexport function registerSetupCommands(program: Command): void {\n  program.addCommand(createSetupMCPCommand());\n  program.addCommand(createDoctorCommand());\n}\n"],
+  "mappings": 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+  "names": []
+}

package/dist/cli/index.js

@@ -50,17 +50,14 @@ import { createSettingsCommand } from "./commands/settings.js";
 import { createRetrievalCommands } from "./commands/retrieval.js";
 import { createDiscoveryCommands } from "./commands/discovery.js";
 import { createModelCommand } from "./commands/model.js";
+import { registerSetupCommands } from "./commands/setup.js";
 import { ProjectManager } from "../core/projects/project-manager.js";
 import Database from "better-sqlite3";
 import { join } from "path";
 import { existsSync, mkdirSync } from "fs";
 import inquirer from "inquirer";
 import chalk from "chalk";
-import {
-  loadStorageConfig,
-  enableChromaDB,
-  getStorageModeDescription
-} from "../core/config/storage-config.js";
+import { enableChromaDB } from "../core/config/storage-config.js";
 import { spawn } from "child_process";
 import { homedir } from "os";
 import { createRequire } from "module";
@@ -131,69 +128,77 @@ program.name("stackmemory").description(
   "Lossless memory runtime for AI coding tools - organizes context as a call stack instead of linear chat logs, with team collaboration and infinite retention"
 ).version(VERSION);
 program.command("init").description(
-  `Initialize StackMemory in current project
+  `Initialize StackMemory in current project (zero-config by default)
 
-Storage Modes:
-  SQLite (default): Local only, fast, no setup required
-  ChromaDB (hybrid): Adds semantic search and cloud backup, requires API key`
-).option("--sqlite", "Use SQLite-only storage (default, skip prompts)").option(
+Options:
+  --interactive    Ask configuration questions
+  --chromadb       Enable ChromaDB semantic search (prompts for API key)`
+).option("-i, --interactive", "Interactive mode with configuration prompts").option(
   "--chromadb",
   "Enable ChromaDB for semantic search (prompts for API key)"
-).option("--skip-storage-prompt", "Skip storage configuration prompt").action(async (options) => {
+).action(async (options) => {
   try {
     const projectRoot = process.cwd();
     const dbDir = join(projectRoot, ".stackmemory");
+    const alreadyInit = existsSync(join(dbDir, "context.db"));
+    if (alreadyInit && !options.interactive) {
+      console.log(chalk.yellow("StackMemory already initialized."));
+      console.log(chalk.gray("Run with --interactive to reconfigure."));
+      return;
+    }
     if (!existsSync(dbDir)) {
       mkdirSync(dbDir, { recursive: true });
     }
-    let storageConfig = loadStorageConfig();
-    const isFirstTimeSetup = !storageConfig.chromadb.enabled && storageConfig.mode === "sqlite";
-    if (options.sqlite || options.skipStoragePrompt) {
-      console.log(chalk.gray("Using SQLite-only storage mode."));
-    } else if (options.chromadb) {
+    if (options.chromadb) {
       await promptAndEnableChromaDB();
-    } else if (isFirstTimeSetup && process.stdin.isTTY) {
+    } else if (options.interactive && process.stdin.isTTY) {
       console.log(chalk.cyan("\nStorage Configuration"));
-      console.log(chalk.gray("StackMemory supports two storage modes:\n"));
-      console.log(chalk.white("  SQLite (default):"));
-      console.log(chalk.gray("    - Local storage only"));
-      console.log(chalk.gray("    - Fast and simple"));
-      console.log(chalk.gray("    - No external dependencies\n"));
-      console.log(chalk.white("  ChromaDB (hybrid):"));
-      console.log(chalk.gray("    - Semantic search across your context"));
-      console.log(chalk.gray("    - Cloud backup capability"));
-      console.log(chalk.gray("    - Requires ChromaDB API key\n"));
+      console.log(
+        chalk.gray("SQLite (default) is fast and requires no setup.")
+      );
+      console.log(
+        chalk.gray("ChromaDB adds semantic search but requires an API key.\n")
+      );
       const { enableChroma } = await inquirer.prompt([
         {
           type: "confirm",
           name: "enableChroma",
-          message: "Enable ChromaDB for semantic search? (requires API key)",
+          message: "Enable ChromaDB for semantic search?",
           default: false
         }
       ]);
       if (enableChroma) {
         await promptAndEnableChromaDB();
-      } else {
-        console.log(chalk.gray("Using SQLite-only storage mode."));
       }
     }
     const dbPath = join(dbDir, "context.db");
     const db = new Database(dbPath);
     new FrameManager(db, "cli-project");
     logger.info("StackMemory initialized successfully", { projectRoot });
+    console.log(chalk.green("\n[OK] StackMemory initialized"));
+    console.log(chalk.gray(`    Project: ${projectRoot}`));
+    console.log(chalk.gray(`    Storage: SQLite (local)`));
+    console.log(chalk.cyan("\nNext steps:"));
+    console.log(
+      chalk.white("  1. stackmemory setup-mcp") + chalk.gray("  # Configure Claude Code integration")
+    );
+    console.log(
+      chalk.white("  2. stackmemory status") + chalk.gray("     # Check status")
+    );
     console.log(
-      chalk.green("\n[OK] StackMemory initialized in"),
-      projectRoot
+      chalk.white("  3. stackmemory doctor") + chalk.gray("     # Diagnose issues")
     );
-    storageConfig = loadStorageConfig();
-    console.log(chalk.gray(`Storage mode: ${getStorageModeDescription()}`));
     db.close();
   } catch (error) {
     logger.error("Failed to initialize StackMemory", error);
+    console.error(chalk.red("\n[ERROR] Initialization failed"));
+    console.error(chalk.gray(`  Reason: ${error.message}`));
     console.error(
-      chalk.red("[ERROR] Initialization failed:"),
-      error.message
+      chalk.gray(
+        "  Fix: Ensure you have write permissions to the current directory"
+      )
     );
+    console.error(chalk.gray("  Run: stackmemory doctor"));
     process.exit(1);
   }
 });
@@ -517,6 +522,7 @@ if (isFeatureEnabled("whatsapp")) {
 program.addCommand(createRetrievalCommands());
 program.addCommand(createDiscoveryCommands());
 program.addCommand(createModelCommand());
+registerSetupCommands(program);
 program.command("dashboard").description("Display monitoring dashboard in terminal").option("-w, --watch", "Auto-refresh dashboard").option("-i, --interval <seconds>", "Refresh interval in seconds", "5").action(async (options) => {
   const { dashboardCommand } = await import("./commands/dashboard.js");
   await dashboardCommand.handler(options);

package/dist/cli/index.js.map

@@ -1,7 +1,7 @@
 {
   "version": 3,
   "sources": ["../../src/cli/index.ts"],
-  "sourcesContent": ["#!/usr/bin/env node\n/**\n * StackMemory CLI\n * Command-line interface for StackMemory operations\n */\n\n// Set environment flag for CLI usage to skip async context bridge\nprocess.env['STACKMEMORY_CLI'] = 'true';\n\n// Load environment variables\nimport 'dotenv/config';\n\n// Initialize tracing system early\nimport { initializeTracing, trace } from '../core/trace/index.js';\ninitializeTracing();\n\nimport { program } from 'commander';\nimport { logger } from '../core/monitoring/logger.js';\nimport { FrameManager } from '../core/context/index.js';\nimport { sessionManager, FrameQueryMode } from '../core/session/index.js';\nimport { sharedContextLayer } from '../core/context/shared-context-layer.js';\nimport { UpdateChecker } from '../core/utils/update-checker.js';\nimport { ProgressTracker } from '../core/monitoring/progress-tracker.js';\nimport { registerProjectCommands } from './commands/projects.js';\nimport { createSessionCommands } from './commands/session.js';\nimport { isFeatureEnabled, isLocalOnly } from '../core/config/feature-flags.js';\nimport { registerWorktreeCommands } from './commands/worktree.js';\nimport { registerOnboardingCommand } from './commands/onboard.js';\nimport { createTaskCommands } from './commands/tasks.js';\nimport { createSearchCommand } from './commands/search.js';\nimport { createLogCommand } from './commands/log.js';\nimport { createContextCommands } from './commands/context.js';\nimport { createConfigCommand } from './commands/config.js';\nimport { createHandoffCommand } from './commands/handoff.js';\nimport {\n  createDecisionCommand,\n  createMemoryCommand,\n} from './commands/decision.js';\nimport { createSkillsCommand } from './commands/skills.js';\nimport { createTestCommand } from './commands/test.js';\nimport clearCommand from './commands/clear.js';\nimport createWorkflowCommand from './commands/workflow.js';\nimport monitorCommand from './commands/monitor.js';\nimport qualityCommand from './commands/quality.js';\nimport createRalphCommand from './commands/ralph.js';\nimport serviceCommand from './commands/service.js';\nimport { registerLoginCommand } from './commands/login.js';\nimport { registerSignupCommand } from './commands/signup.js';\nimport { registerLogoutCommand, registerDbCommands } from './commands/db.js';\nimport { createSweepCommand } from './commands/sweep.js';\nimport { createHooksCommand } from './commands/hooks.js';\nimport { createShellCommand } from './commands/shell.js';\nimport { createAPICommand } from './commands/api.js';\nimport { createCleanupProcessesCommand } from './commands/cleanup-processes.js';\nimport { createAutoBackgroundCommand } from './commands/auto-background.js';\nimport { createSettingsCommand } from './commands/settings.js';\nimport { createRetrievalCommands } from './commands/retrieval.js';\nimport { createDiscoveryCommands } from './commands/discovery.js';\nimport { createModelCommand } from './commands/model.js';\nimport { ProjectManager } from '../core/projects/project-manager.js';\nimport Database from 'better-sqlite3';\nimport { join } from 'path';\nimport { existsSync, mkdirSync } from 'fs';\nimport inquirer from 'inquirer';\nimport chalk from 'chalk';\nimport {\n  loadStorageConfig,\n  enableChromaDB,\n  getStorageModeDescription,\n} from '../core/config/storage-config.js';\nimport { spawn } from 'child_process';\nimport { homedir } from 'os';\n\n// Read version from package.json\nimport { createRequire } from 'module';\nconst require = createRequire(import.meta.url);\nconst pkg = require('../../package.json');\nconst VERSION = pkg.version;\n\n// Check for updates on CLI startup\nUpdateChecker.checkForUpdates(VERSION, true).catch(() => {\n  // Silently ignore errors\n});\n\n// Auto-start webhook and ngrok if notifications are enabled\nasync function startNotificationServices(): Promise<void> {\n  // Skip in local-only mode\n  if (isLocalOnly() || !isFeatureEnabled('whatsapp')) return;\n\n  try {\n    const { loadSMSConfig } = await import('../hooks/sms-notify.js');\n    const config = loadSMSConfig();\n    if (!config.enabled) return;\n\n    const WEBHOOK_PORT = 3456;\n    let webhookStarted = false;\n    let ngrokStarted = false;\n\n    // Check if webhook is already running\n    const webhookRunning = await fetch(\n      `http://localhost:${WEBHOOK_PORT}/health`\n    )\n      .then((r) => r.ok)\n      .catch(() => false);\n\n    if (!webhookRunning) {\n      // Start webhook in background using the dist path\n      const webhookPath = join(__dirname, '../hooks/sms-webhook.js');\n      const webhookProcess = spawn('node', [webhookPath], {\n        detached: true,\n        stdio: 'ignore',\n        env: { ...process.env, SMS_WEBHOOK_PORT: String(WEBHOOK_PORT) },\n      });\n      webhookProcess.unref();\n      webhookStarted = true;\n    }\n\n    // Check if ngrok is running\n    const ngrokRunning = await fetch('http://localhost:4040/api/tunnels')\n      .then((r) => r.ok)\n      .catch(() => false);\n\n    if (!ngrokRunning) {\n      // Start ngrok in background\n      const ngrokProcess = spawn('ngrok', ['http', String(WEBHOOK_PORT)], {\n        detached: true,\n        stdio: 'ignore',\n      });\n      ngrokProcess.unref();\n      ngrokStarted = true;\n    }\n\n    // Save ngrok URL after startup\n    if (webhookStarted || ngrokStarted) {\n      setTimeout(async () => {\n        try {\n          const tunnels = await fetch('http://localhost:4040/api/tunnels').then(\n            (r) =>\n              r.json() as Promise<{ tunnels: Array<{ public_url: string }> }>\n          );\n          const publicUrl = tunnels?.tunnels?.[0]?.public_url;\n          if (publicUrl) {\n            const configDir = join(homedir(), '.stackmemory');\n            const configPath = join(configDir, 'ngrok-url.txt');\n            const { writeFileSync, mkdirSync, existsSync } = await import('fs');\n            if (!existsSync(configDir)) {\n              mkdirSync(configDir, { recursive: true });\n            }\n            writeFileSync(configPath, publicUrl);\n            console.log(\n              chalk.gray(`[notify] Webhook: ${publicUrl}/sms/incoming`)\n            );\n          }\n        } catch {\n          // Ignore errors\n        }\n      }, 4000);\n    }\n  } catch {\n    // Silently ignore - notifications are optional\n  }\n}\n\nstartNotificationServices();\n\nprogram\n  .name('stackmemory')\n  .description(\n    'Lossless memory runtime for AI coding tools - organizes context as a call stack instead of linear chat logs, with team collaboration and infinite retention'\n  )\n  .version(VERSION);\n\nprogram\n  .command('init')\n  .description(\n    `Initialize StackMemory in current project\n\nStorage Modes:\n  SQLite (default): Local only, fast, no setup required\n  ChromaDB (hybrid): Adds semantic search and cloud backup, requires API key`\n  )\n  .option('--sqlite', 'Use SQLite-only storage (default, skip prompts)')\n  .option(\n    '--chromadb',\n    'Enable ChromaDB for semantic search (prompts for API key)'\n  )\n  .option('--skip-storage-prompt', 'Skip storage configuration prompt')\n  .action(async (options) => {\n    try {\n      const projectRoot = process.cwd();\n      const dbDir = join(projectRoot, '.stackmemory');\n\n      if (!existsSync(dbDir)) {\n        mkdirSync(dbDir, { recursive: true });\n      }\n\n      // Handle storage configuration\n      let storageConfig = loadStorageConfig();\n      const isFirstTimeSetup =\n        !storageConfig.chromadb.enabled && storageConfig.mode === 'sqlite';\n\n      // Skip prompts if --sqlite flag or --skip-storage-prompt\n      if (options.sqlite || options.skipStoragePrompt) {\n        // Use SQLite-only (default)\n        console.log(chalk.gray('Using SQLite-only storage mode.'));\n      } else if (options.chromadb) {\n        // User explicitly requested ChromaDB, prompt for API key\n        await promptAndEnableChromaDB();\n      } else if (isFirstTimeSetup && process.stdin.isTTY) {\n        // Interactive mode - ask user about ChromaDB\n        console.log(chalk.cyan('\\nStorage Configuration'));\n        console.log(chalk.gray('StackMemory supports two storage modes:\\n'));\n        console.log(chalk.white('  SQLite (default):'));\n        console.log(chalk.gray('    - Local storage only'));\n        console.log(chalk.gray('    - Fast and simple'));\n        console.log(chalk.gray('    - No external dependencies\\n'));\n        console.log(chalk.white('  ChromaDB (hybrid):'));\n        console.log(chalk.gray('    - Semantic search across your context'));\n        console.log(chalk.gray('    - Cloud backup capability'));\n        console.log(chalk.gray('    - Requires ChromaDB API key\\n'));\n\n        const { enableChroma } = await inquirer.prompt([\n          {\n            type: 'confirm',\n            name: 'enableChroma',\n            message: 'Enable ChromaDB for semantic search? (requires API key)',\n            default: false,\n          },\n        ]);\n\n        if (enableChroma) {\n          await promptAndEnableChromaDB();\n        } else {\n          console.log(chalk.gray('Using SQLite-only storage mode.'));\n        }\n      }\n\n      // Initialize SQLite database\n      const dbPath = join(dbDir, 'context.db');\n      const db = new Database(dbPath);\n      new FrameManager(db, 'cli-project');\n\n      logger.info('StackMemory initialized successfully', { projectRoot });\n      console.log(\n        chalk.green('\\n[OK] StackMemory initialized in'),\n        projectRoot\n      );\n\n      // Show current storage mode\n      storageConfig = loadStorageConfig();\n      console.log(chalk.gray(`Storage mode: ${getStorageModeDescription()}`));\n\n      db.close();\n    } catch (error: unknown) {\n      logger.error('Failed to initialize StackMemory', error as Error);\n      console.error(\n        chalk.red('[ERROR] Initialization failed:'),\n        (error as Error).message\n      );\n      process.exit(1);\n    }\n  });\n\n/**\n * Prompt user for ChromaDB configuration and enable it\n */\nasync function promptAndEnableChromaDB(): Promise<void> {\n  const answers = await inquirer.prompt([\n    {\n      type: 'password',\n      name: 'apiKey',\n      message: 'Enter your ChromaDB API key:',\n      validate: (input: string) => {\n        if (!input || input.trim().length === 0) {\n          return 'API key is required for ChromaDB';\n        }\n        return true;\n      },\n    },\n    {\n      type: 'input',\n      name: 'apiUrl',\n      message: 'ChromaDB API URL (press Enter for default):',\n      default: 'https://api.trychroma.com',\n    },\n  ]);\n\n  enableChromaDB({\n    apiKey: answers.apiKey,\n    apiUrl: answers.apiUrl,\n  });\n\n  console.log(chalk.green('[OK] ChromaDB enabled for semantic search.'));\n  console.log(\n    chalk.gray('API key saved to ~/.stackmemory/storage-config.json')\n  );\n}\n\nprogram\n  .command('status')\n  .description('Show current StackMemory status')\n  .option('--all', 'Show all active frames across sessions')\n  .option('--project', 'Show all active frames in current project')\n  .option('--session <id>', 'Show frames for specific session')\n  .action(async (options) => {\n    return trace.command('stackmemory-status', options, async () => {\n      try {\n        const projectRoot = process.cwd();\n        const dbPath = join(projectRoot, '.stackmemory', 'context.db');\n\n        if (!existsSync(dbPath)) {\n          console.log(\n            '\u274C StackMemory not initialized. Run \"stackmemory init\" first.'\n          );\n          return;\n        }\n\n        // Check for updates and display if available\n        await UpdateChecker.checkForUpdates(VERSION);\n\n        // Initialize session manager and shared context\n        await sessionManager.initialize();\n        await sharedContextLayer.initialize();\n\n        const session = await sessionManager.getOrCreateSession({\n          projectPath: projectRoot,\n          sessionId: options.session,\n        });\n\n        // Auto-discover shared context on startup\n        const contextDiscovery = await sharedContextLayer.autoDiscoverContext();\n\n        // Show context hints if available\n        if (\n          contextDiscovery.hasSharedContext &&\n          contextDiscovery.sessionCount > 1\n        ) {\n          console.log(`\\n\uD83D\uDCA1 Shared Context Available:`);\n          console.log(\n            `   ${contextDiscovery.sessionCount} sessions with shared context`\n          );\n\n          if (contextDiscovery.recentPatterns.length > 0) {\n            console.log(`   Recent patterns:`);\n            contextDiscovery.recentPatterns.slice(0, 3).forEach((p) => {\n              console.log(\n                `     \u2022 ${p.type}: ${p.pattern.slice(0, 50)} (${p.frequency}x)`\n              );\n            });\n          }\n\n          if (contextDiscovery.lastDecisions.length > 0) {\n            console.log(\n              `   Last decision: ${contextDiscovery.lastDecisions[0].decision.slice(0, 60)}`\n            );\n          }\n        }\n\n        const db = new Database(dbPath);\n        const frameManager = new FrameManager(db, session.projectId);\n\n        // Set query mode based on options\n        if (options.all) {\n          frameManager.setQueryMode(FrameQueryMode.ALL_ACTIVE);\n        } else if (options.project) {\n          frameManager.setQueryMode(FrameQueryMode.PROJECT_ACTIVE);\n        }\n\n        const activeFrames = frameManager.getActiveFramePath();\n        const stackDepth = frameManager.getStackDepth();\n\n        // Always get total counts across all sessions\n        const totalStats = db\n          .prepare(\n            `\n        SELECT \n          COUNT(*) as total_frames,\n          SUM(CASE WHEN state = 'active' THEN 1 ELSE 0 END) as active_frames,\n          SUM(CASE WHEN state = 'closed' THEN 1 ELSE 0 END) as closed_frames,\n          COUNT(DISTINCT run_id) as total_sessions\n        FROM frames\n        WHERE project_id = ?\n      `\n          )\n          .get(session.projectId) as {\n          total_frames: number;\n          active_frames: number;\n          closed_frames: number;\n          total_sessions: number;\n        };\n\n        const contextCount = db\n          .prepare(\n            `\n        SELECT COUNT(*) as count FROM contexts\n      `\n          )\n          .get() as { count: number };\n\n        const eventCount = db\n          .prepare(\n            `\n        SELECT COUNT(*) as count FROM events e\n        JOIN frames f ON e.frame_id = f.frame_id\n        WHERE f.project_id = ?\n      `\n          )\n          .get(session.projectId) as { count: number };\n\n        console.log('\uD83D\uDCCA StackMemory Status:');\n        console.log(\n          `   Session: ${session.sessionId.slice(0, 8)} (${session.state}, ${Math.round((Date.now() - session.startedAt) / 1000 / 60)}min old)`\n        );\n        console.log(`   Project: ${session.projectId}`);\n        if (session.branch) {\n          console.log(`   Branch: ${session.branch}`);\n        }\n\n        // Show total database statistics\n        console.log(`\\n   Database Statistics (this project):`);\n        console.log(\n          `     Frames: ${totalStats.total_frames || 0} (${totalStats.active_frames || 0} active, ${totalStats.closed_frames || 0} closed)`\n        );\n        console.log(`     Events: ${eventCount.count || 0}`);\n        console.log(`     Sessions: ${totalStats.total_sessions || 0}`);\n        console.log(\n          `     Cached contexts: ${contextCount.count || 0} (global)`\n        );\n\n        // Show recent activity\n        const recentFrames = db\n          .prepare(\n            `\n        SELECT name, type, state, datetime(created_at, 'unixepoch') as created\n        FROM frames\n        WHERE project_id = ?\n        ORDER BY created_at DESC\n        LIMIT 3\n      `\n          )\n          .all(session.projectId) as Array<{\n          name: string;\n          type: string;\n          state: string;\n          created: string;\n        }>;\n\n        if (recentFrames.length > 0) {\n          console.log(`\\n   Recent Activity:`);\n          recentFrames.forEach((f) => {\n            const stateIcon = f.state === 'active' ? '\uD83D\uDFE2' : '\u26AB';\n            console.log(\n              `     ${stateIcon} ${f.name} [${f.type}] - ${f.created}`\n            );\n          });\n        }\n\n        console.log(`\\n   Current Session:`);\n        console.log(`     Stack depth: ${stackDepth}`);\n        console.log(`     Active frames: ${activeFrames.length}`);\n\n        if (activeFrames.length > 0) {\n          activeFrames.forEach((frame, i) => {\n            const indent = '     ' + '  '.repeat(frame.depth || i);\n            const prefix = i === 0 ? '\u2514\u2500' : '  \u2514\u2500';\n            console.log(`${indent}${prefix} ${frame.name} [${frame.type}]`);\n          });\n        }\n\n        // Show other sessions if in default mode\n        if (!options.all && !options.project) {\n          const otherSessions = await sessionManager.listSessions({\n            projectId: session.projectId,\n            state: 'active',\n          });\n\n          const otherActive = otherSessions.filter(\n            (s) => s.sessionId !== session.sessionId\n          );\n          if (otherActive.length > 0) {\n            console.log(`\\n   Other Active Sessions (same project):`);\n            otherActive.forEach((s) => {\n              const age = Math.round(\n                (Date.now() - s.lastActiveAt) / 1000 / 60 / 60\n              );\n              console.log(\n                `     - ${s.sessionId.slice(0, 8)}: ${s.branch || 'main'}, ${age}h old`\n              );\n            });\n            console.log(`\\n   Tip: Use --all to see frames across sessions`);\n          }\n        }\n\n        db.close();\n      } catch (error: unknown) {\n        logger.error('Failed to get status', error as Error);\n        console.error('\u274C Status check failed:', (error as Error).message);\n        process.exit(1);\n      }\n    });\n  });\n\nprogram\n  .command('update-check')\n  .description('Check for StackMemory updates')\n  .action(async () => {\n    try {\n      console.log('\uD83D\uDD0D Checking for updates...');\n      await UpdateChecker.forceCheck(VERSION);\n    } catch (error: unknown) {\n      logger.error('Update check failed', error as Error);\n      console.error('\u274C Update check failed:', (error as Error).message);\n      process.exit(1);\n    }\n  });\n\nprogram\n  .command('progress')\n  .description('Show current progress and recent changes')\n  .action(async () => {\n    try {\n      const projectRoot = process.cwd();\n      const dbPath = join(projectRoot, '.stackmemory', 'context.db');\n\n      if (!existsSync(dbPath)) {\n        console.log(\n          '\u274C StackMemory not initialized. Run \"stackmemory init\" first.'\n        );\n        return;\n      }\n\n      const progress = new ProgressTracker(projectRoot);\n      console.log(progress.getSummary());\n    } catch (error: unknown) {\n      logger.error('Failed to show progress', error as Error);\n      console.error('\u274C Failed to show progress:', (error as Error).message);\n      process.exit(1);\n    }\n  });\n\nprogram\n  .command('mcp-server')\n  .description('Start StackMemory MCP server for Claude Desktop')\n  .option('-p, --project <path>', 'Project root directory', process.cwd())\n  .action(async (options) => {\n    try {\n      const { runMCPServer } = await import('../integrations/mcp/server.js');\n\n      // Set project root\n      process.env['PROJECT_ROOT'] = options.project;\n\n      console.log('\uD83D\uDE80 Starting StackMemory MCP Server...');\n      console.log(`   Project: ${options.project}`);\n      console.log(`   Version: ${VERSION}`);\n\n      // Check for updates silently\n      UpdateChecker.checkForUpdates(VERSION, true).catch(() => {});\n\n      // Start the MCP server\n      await runMCPServer();\n    } catch (error: unknown) {\n      logger.error('Failed to start MCP server', error as Error);\n      console.error('\u274C MCP server failed:', (error as Error).message);\n      process.exit(1);\n    }\n  });\n\n// Add test context command\nprogram\n  .command('context:test')\n  .description('Test context persistence by creating sample frames')\n  .action(async () => {\n    try {\n      const projectRoot = process.cwd();\n      const dbPath = join(projectRoot, '.stackmemory', 'context.db');\n\n      if (!existsSync(dbPath)) {\n        console.log(\n          '\u274C StackMemory not initialized. Run \"stackmemory init\" first.'\n        );\n        return;\n      }\n\n      const db = new Database(dbPath);\n      const frameManager = new FrameManager(db, 'cli-project');\n\n      // Create test frames\n      console.log('\uD83D\uDCDD Creating test context frames...');\n\n      const rootFrame = frameManager.createFrame({\n        type: 'task',\n        name: 'Test Session',\n        inputs: { test: true, timestamp: new Date().toISOString() },\n      });\n\n      const taskFrame = frameManager.createFrame({\n        type: 'subtask',\n        name: 'Sample Task',\n        inputs: { description: 'Testing context persistence' },\n        parentFrameId: rootFrame,\n      });\n\n      const commandFrame = frameManager.createFrame({\n        type: 'tool_scope',\n        name: 'test-command',\n        inputs: { args: ['--test'] },\n        parentFrameId: taskFrame,\n      });\n\n      // Add some events\n      frameManager.addEvent(\n        'observation',\n        {\n          message: 'Test event recorded',\n        },\n        commandFrame\n      );\n\n      console.log('\u2705 Test frames created!');\n      console.log(`\uD83D\uDCCA Stack depth: ${frameManager.getStackDepth()}`);\n      console.log(\n        `\uD83D\uDD04 Active frames: ${frameManager.getActiveFramePath().length}`\n      );\n\n      // Close one frame to test state changes\n      frameManager.closeFrame(commandFrame);\n      console.log(\n        `\uD83D\uDCCA After closing command frame: depth = ${frameManager.getStackDepth()}`\n      );\n\n      db.close();\n    } catch (error: unknown) {\n      logger.error('Test context failed', error as Error);\n      console.error('\u274C Test failed:', (error as Error).message);\n      process.exit(1);\n    }\n  });\n\n// Register project management commands\n// Register command modules\nregisterOnboardingCommand(program);\nregisterSignupCommand(program);\nregisterLoginCommand(program);\nregisterLogoutCommand(program);\nregisterDbCommands(program);\nregisterProjectCommands(program);\nregisterWorktreeCommands(program);\n\n// Register Linear integration commands (lazy-loaded, optional)\nif (isFeatureEnabled('linear')) {\n  import('./commands/linear.js')\n    .then(({ registerLinearCommands }) => registerLinearCommands(program))\n    .catch(() => {\n      // Linear integration not available - silently skip\n    });\n}\n\n// Register session management commands\nprogram.addCommand(createSessionCommands());\n\n// Register enhanced CLI commands\nprogram.addCommand(createTaskCommands());\nprogram.addCommand(createSearchCommand());\nprogram.addCommand(createLogCommand());\nprogram.addCommand(createContextCommands());\nprogram.addCommand(createConfigCommand());\nprogram.addCommand(createHandoffCommand());\nprogram.addCommand(createDecisionCommand());\nprogram.addCommand(createMemoryCommand());\nprogram.addCommand(createSkillsCommand());\nprogram.addCommand(createTestCommand());\nprogram.addCommand(clearCommand);\nprogram.addCommand(createWorkflowCommand());\nprogram.addCommand(monitorCommand);\nprogram.addCommand(qualityCommand);\nprogram.addCommand(createRalphCommand());\nprogram.addCommand(serviceCommand);\nprogram.addCommand(createSweepCommand());\nprogram.addCommand(createHooksCommand());\nprogram.addCommand(createShellCommand());\nprogram.addCommand(createAPICommand());\nprogram.addCommand(createCleanupProcessesCommand());\nprogram.addCommand(createAutoBackgroundCommand());\nprogram.addCommand(createSettingsCommand());\n\n// Register WhatsApp/SMS commands (lazy-loaded, optional)\nif (isFeatureEnabled('whatsapp')) {\n  import('./commands/sms-notify.js')\n    .then(({ createSMSNotifyCommand }) =>\n      program.addCommand(createSMSNotifyCommand())\n    )\n    .catch(() => {\n      // WhatsApp integration not available - silently skip\n    });\n}\nprogram.addCommand(createRetrievalCommands());\nprogram.addCommand(createDiscoveryCommands());\nprogram.addCommand(createModelCommand());\n\n// Register dashboard command\nprogram\n  .command('dashboard')\n  .description('Display monitoring dashboard in terminal')\n  .option('-w, --watch', 'Auto-refresh dashboard')\n  .option('-i, --interval <seconds>', 'Refresh interval in seconds', '5')\n  .action(async (options) => {\n    const { dashboardCommand } = await import('./commands/dashboard.js');\n    await dashboardCommand.handler(options);\n  });\n\n// Auto-detect current project on startup\nif (process.argv.length > 2) {\n  const manager = ProjectManager.getInstance();\n  manager.detectProject().catch(() => {\n    // Silently fail if not in a project directory\n  });\n}\n\n// Only parse when running as main module (not when imported for testing)\nconst isMainModule =\n  import.meta.url === `file://${process.argv[1]}` ||\n  process.argv[1]?.endsWith('/stackmemory') ||\n  process.argv[1]?.endsWith('index.ts') ||\n  process.argv[1]?.includes('tsx');\n\nif (isMainModule) {\n  program.parse();\n}\n\nexport { program };\n"],
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+  "sourcesContent": ["#!/usr/bin/env node\n/**\n * StackMemory CLI\n * Command-line interface for StackMemory operations\n */\n\n// Set environment flag for CLI usage to skip async context bridge\nprocess.env['STACKMEMORY_CLI'] = 'true';\n\n// Load environment variables\nimport 'dotenv/config';\n\n// Initialize tracing system early\nimport { initializeTracing, trace } from '../core/trace/index.js';\ninitializeTracing();\n\nimport { program } from 'commander';\nimport { logger } from '../core/monitoring/logger.js';\nimport { FrameManager } from '../core/context/index.js';\nimport { sessionManager, FrameQueryMode } from '../core/session/index.js';\nimport { sharedContextLayer } from '../core/context/shared-context-layer.js';\nimport { UpdateChecker } from '../core/utils/update-checker.js';\nimport { ProgressTracker } from '../core/monitoring/progress-tracker.js';\nimport { registerProjectCommands } from './commands/projects.js';\nimport { createSessionCommands } from 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qualityCommand from './commands/quality.js';\nimport createRalphCommand from './commands/ralph.js';\nimport serviceCommand from './commands/service.js';\nimport { registerLoginCommand } from './commands/login.js';\nimport { registerSignupCommand } from './commands/signup.js';\nimport { registerLogoutCommand, registerDbCommands } from './commands/db.js';\nimport { createSweepCommand } from './commands/sweep.js';\nimport { createHooksCommand } from './commands/hooks.js';\nimport { createShellCommand } from './commands/shell.js';\nimport { createAPICommand } from './commands/api.js';\nimport { createCleanupProcessesCommand } from './commands/cleanup-processes.js';\nimport { createAutoBackgroundCommand } from './commands/auto-background.js';\nimport { createSettingsCommand } from './commands/settings.js';\nimport { createRetrievalCommands } from './commands/retrieval.js';\nimport { createDiscoveryCommands } from './commands/discovery.js';\nimport { createModelCommand } from './commands/model.js';\nimport { registerSetupCommands } from './commands/setup.js';\nimport { ProjectManager } from '../core/projects/project-manager.js';\nimport Database from 'better-sqlite3';\nimport { join } from 'path';\nimport { existsSync, mkdirSync } from 'fs';\nimport inquirer from 'inquirer';\nimport chalk from 'chalk';\nimport { enableChromaDB } from '../core/config/storage-config.js';\nimport { spawn } from 'child_process';\nimport { homedir } from 'os';\n\n// Read version from package.json\nimport { createRequire } from 'module';\nconst require = createRequire(import.meta.url);\nconst pkg = require('../../package.json');\nconst VERSION = pkg.version;\n\n// Check for updates on CLI startup\nUpdateChecker.checkForUpdates(VERSION, true).catch(() => {\n  // Silently ignore errors\n});\n\n// Auto-start webhook and ngrok if notifications are enabled\nasync function startNotificationServices(): Promise<void> {\n  // Skip in local-only mode\n  if (isLocalOnly() || !isFeatureEnabled('whatsapp')) return;\n\n  try {\n    const { loadSMSConfig } = await import('../hooks/sms-notify.js');\n    const config = loadSMSConfig();\n    if (!config.enabled) return;\n\n    const WEBHOOK_PORT = 3456;\n    let webhookStarted = false;\n    let ngrokStarted = false;\n\n    // Check if webhook is already running\n    const webhookRunning = await fetch(\n      `http://localhost:${WEBHOOK_PORT}/health`\n    )\n      .then((r) => r.ok)\n      .catch(() => false);\n\n    if (!webhookRunning) {\n      // Start webhook in background using the dist path\n      const webhookPath = join(__dirname, '../hooks/sms-webhook.js');\n      const webhookProcess = spawn('node', [webhookPath], {\n        detached: true,\n        stdio: 'ignore',\n        env: { ...process.env, SMS_WEBHOOK_PORT: String(WEBHOOK_PORT) },\n      });\n      webhookProcess.unref();\n      webhookStarted = true;\n    }\n\n    // Check if ngrok is running\n    const ngrokRunning = await fetch('http://localhost:4040/api/tunnels')\n      .then((r) => r.ok)\n      .catch(() => false);\n\n    if (!ngrokRunning) {\n      // Start ngrok in background\n      const ngrokProcess = spawn('ngrok', ['http', String(WEBHOOK_PORT)], {\n        detached: true,\n        stdio: 'ignore',\n      });\n      ngrokProcess.unref();\n      ngrokStarted = true;\n    }\n\n    // Save ngrok URL after startup\n    if (webhookStarted || ngrokStarted) {\n      setTimeout(async () => {\n        try {\n          const tunnels = await fetch('http://localhost:4040/api/tunnels').then(\n            (r) =>\n              r.json() as Promise<{ tunnels: Array<{ public_url: string }> }>\n          );\n          const publicUrl = tunnels?.tunnels?.[0]?.public_url;\n          if (publicUrl) {\n            const configDir = join(homedir(), '.stackmemory');\n            const configPath = join(configDir, 'ngrok-url.txt');\n            const { writeFileSync, mkdirSync, existsSync } = await import('fs');\n        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console.log(chalk.cyan('\\nStorage Configuration'));\n        console.log(\n          chalk.gray('SQLite (default) is fast and requires no setup.')\n        );\n        console.log(\n          chalk.gray('ChromaDB adds semantic search but requires an API key.\\n')\n        );\n\n        const { enableChroma } = await inquirer.prompt([\n          {\n            type: 'confirm',\n            name: 'enableChroma',\n            message: 'Enable ChromaDB for semantic search?',\n            default: false,\n          },\n        ]);\n\n        if (enableChroma) {\n          await promptAndEnableChromaDB();\n        }\n      }\n\n      // Initialize SQLite database\n      const dbPath = join(dbDir, 'context.db');\n      const db = new Database(dbPath);\n      new FrameManager(db, 'cli-project');\n\n      logger.info('StackMemory initialized successfully', { projectRoot });\n      console.log(chalk.green('\\n[OK] StackMemory initialized'));\n      console.log(chalk.gray(`    Project: ${projectRoot}`));\n      console.log(chalk.gray(`    Storage: SQLite (local)`));\n\n      // Show next steps\n      console.log(chalk.cyan('\\nNext steps:'));\n      console.log(\n        chalk.white('  1. stackmemory setup-mcp') +\n          chalk.gray('  # Configure Claude Code integration')\n      );\n      console.log(\n        chalk.white('  2. stackmemory status') +\n          chalk.gray('     # Check status')\n      );\n      console.log(\n        chalk.white('  3. stackmemory doctor') +\n          chalk.gray('     # Diagnose issues')\n      );\n\n      db.close();\n    } catch (error: unknown) {\n      logger.error('Failed to initialize StackMemory', error as Error);\n      console.error(chalk.red('\\n[ERROR] Initialization failed'));\n      console.error(chalk.gray(`  Reason: ${(error as Error).message}`));\n      console.error(\n        chalk.gray(\n          '  Fix: Ensure you have write permissions to the current directory'\n        )\n      );\n      console.error(chalk.gray('  Run: stackmemory doctor'));\n      process.exit(1);\n    }\n  });\n\n/**\n * Prompt user for ChromaDB configuration and enable it\n */\nasync function promptAndEnableChromaDB(): Promise<void> {\n  const answers = await inquirer.prompt([\n    {\n      type: 'password',\n      name: 'apiKey',\n      message: 'Enter your ChromaDB API key:',\n      validate: (input: string) => {\n        if (!input || input.trim().length === 0) {\n          return 'API key is required for ChromaDB';\n        }\n        return true;\n      },\n    },\n    {\n      type: 'input',\n      name: 'apiUrl',\n      message: 'ChromaDB API URL (press Enter for default):',\n      default: 'https://api.trychroma.com',\n    },\n  ]);\n\n  enableChromaDB({\n    apiKey: answers.apiKey,\n    apiUrl: answers.apiUrl,\n  });\n\n  console.log(chalk.green('[OK] ChromaDB enabled for semantic search.'));\n  console.log(\n    chalk.gray('API key saved to ~/.stackmemory/storage-config.json')\n  );\n}\n\nprogram\n  .command('status')\n  .description('Show current StackMemory status')\n  .option('--all', 'Show all active frames across sessions')\n  .option('--project', 'Show all active frames in current project')\n  .option('--session <id>', 'Show frames for specific session')\n  .action(async (options) => {\n    return trace.command('stackmemory-status', options, async () => {\n      try {\n        const projectRoot = process.cwd();\n        const dbPath = join(projectRoot, '.stackmemory', 'context.db');\n\n        if (!existsSync(dbPath)) {\n          console.log(\n            '\u274C StackMemory not initialized. Run \"stackmemory init\" first.'\n          );\n          return;\n        }\n\n        // Check for updates and display if available\n        await UpdateChecker.checkForUpdates(VERSION);\n\n        // Initialize session manager and shared context\n        await sessionManager.initialize();\n        await sharedContextLayer.initialize();\n\n        const session = await sessionManager.getOrCreateSession({\n          projectPath: projectRoot,\n          sessionId: options.session,\n        });\n\n        // Auto-discover shared context on startup\n        const contextDiscovery = await sharedContextLayer.autoDiscoverContext();\n\n        // Show context hints if available\n        if (\n          contextDiscovery.hasSharedContext &&\n          contextDiscovery.sessionCount > 1\n        ) {\n          console.log(`\\n\uD83D\uDCA1 Shared Context Available:`);\n          console.log(\n            `   ${contextDiscovery.sessionCount} sessions with shared context`\n          );\n\n          if (contextDiscovery.recentPatterns.length > 0) {\n            console.log(`   Recent patterns:`);\n            contextDiscovery.recentPatterns.slice(0, 3).forEach((p) => {\n              console.log(\n                `     \u2022 ${p.type}: ${p.pattern.slice(0, 50)} (${p.frequency}x)`\n              );\n            });\n          }\n\n          if (contextDiscovery.lastDecisions.length > 0) {\n            console.log(\n              `   Last decision: ${contextDiscovery.lastDecisions[0].decision.slice(0, 60)}`\n            );\n          }\n        }\n\n        const db = new Database(dbPath);\n        const frameManager = new FrameManager(db, session.projectId);\n\n        // Set query mode based on options\n        if (options.all) {\n          frameManager.setQueryMode(FrameQueryMode.ALL_ACTIVE);\n        } else if (options.project) {\n          frameManager.setQueryMode(FrameQueryMode.PROJECT_ACTIVE);\n        }\n\n        const activeFrames = frameManager.getActiveFramePath();\n        const stackDepth = frameManager.getStackDepth();\n\n        // Always get total counts across all sessions\n        const totalStats = db\n          .prepare(\n            `\n        SELECT \n          COUNT(*) as total_frames,\n          SUM(CASE WHEN state = 'active' THEN 1 ELSE 0 END) as active_frames,\n          SUM(CASE WHEN state = 'closed' THEN 1 ELSE 0 END) as closed_frames,\n          COUNT(DISTINCT run_id) as total_sessions\n        FROM frames\n        WHERE project_id = ?\n      `\n          )\n          .get(session.projectId) as {\n          total_frames: number;\n          active_frames: number;\n          closed_frames: number;\n          total_sessions: number;\n        };\n\n        const contextCount = db\n          .prepare(\n            `\n        SELECT COUNT(*) as count FROM contexts\n      `\n          )\n          .get() as { count: number };\n\n        const eventCount = db\n          .prepare(\n            `\n        SELECT COUNT(*) as count FROM events e\n        JOIN frames f ON e.frame_id = f.frame_id\n        WHERE f.project_id = ?\n      `\n          )\n          .get(session.projectId) as { count: number };\n\n        console.log('\uD83D\uDCCA StackMemory Status:');\n        console.log(\n          `   Session: ${session.sessionId.slice(0, 8)} (${session.state}, ${Math.round((Date.now() - session.startedAt) / 1000 / 60)}min old)`\n        );\n        console.log(`   Project: ${session.projectId}`);\n        if (session.branch) {\n          console.log(`   Branch: ${session.branch}`);\n        }\n\n        // Show total database statistics\n        console.log(`\\n   Database Statistics (this project):`);\n        console.log(\n          `     Frames: ${totalStats.total_frames || 0} (${totalStats.active_frames || 0} active, ${totalStats.closed_frames || 0} closed)`\n        );\n        console.log(`     Events: ${eventCount.count || 0}`);\n        console.log(`     Sessions: ${totalStats.total_sessions || 0}`);\n        console.log(\n          `     Cached contexts: ${contextCount.count || 0} (global)`\n        );\n\n        // Show recent activity\n        const recentFrames = db\n          .prepare(\n            `\n        SELECT name, type, state, datetime(created_at, 'unixepoch') as created\n        FROM frames\n        WHERE project_id = ?\n        ORDER BY created_at DESC\n        LIMIT 3\n      `\n          )\n          .all(session.projectId) as Array<{\n          name: string;\n          type: string;\n          state: string;\n          created: string;\n        }>;\n\n        if (recentFrames.length > 0) {\n          console.log(`\\n   Recent Activity:`);\n          recentFrames.forEach((f) => {\n            const stateIcon = f.state === 'active' ? '\uD83D\uDFE2' : '\u26AB';\n            console.log(\n              `     ${stateIcon} ${f.name} [${f.type}] - ${f.created}`\n            );\n          });\n        }\n\n        console.log(`\\n   Current Session:`);\n        console.log(`     Stack depth: ${stackDepth}`);\n        console.log(`     Active frames: ${activeFrames.length}`);\n\n        if (activeFrames.length > 0) {\n          activeFrames.forEach((frame, i) => {\n            const indent = '     ' + '  '.repeat(frame.depth || i);\n            const prefix = i === 0 ? '\u2514\u2500' : '  \u2514\u2500';\n            console.log(`${indent}${prefix} ${frame.name} [${frame.type}]`);\n          });\n        }\n\n        // Show other sessions if in default mode\n        if (!options.all && !options.project) {\n          const otherSessions = await sessionManager.listSessions({\n            projectId: session.projectId,\n            state: 'active',\n          });\n\n          const otherActive = otherSessions.filter(\n            (s) => s.sessionId !== session.sessionId\n          );\n          if (otherActive.length > 0) {\n            console.log(`\\n   Other Active Sessions (same project):`);\n            otherActive.forEach((s) => {\n              const age = Math.round(\n                (Date.now() - s.lastActiveAt) / 1000 / 60 / 60\n              );\n              console.log(\n                `     - ${s.sessionId.slice(0, 8)}: ${s.branch || 'main'}, ${age}h old`\n              );\n            });\n            console.log(`\\n   Tip: Use --all to see frames across sessions`);\n          }\n        }\n\n        db.close();\n      } catch (error: unknown) {\n        logger.error('Failed to get status', error as Error);\n        console.error('\u274C Status check failed:', (error as Error).message);\n        process.exit(1);\n      }\n    });\n  });\n\nprogram\n  .command('update-check')\n  .description('Check for StackMemory updates')\n  .action(async () => {\n    try {\n      console.log('\uD83D\uDD0D Checking for updates...');\n      await UpdateChecker.forceCheck(VERSION);\n    } catch (error: unknown) {\n      logger.error('Update check failed', error as Error);\n      console.error('\u274C Update check failed:', (error as Error).message);\n      process.exit(1);\n    }\n  });\n\nprogram\n  .command('progress')\n  .description('Show current progress and recent changes')\n  .action(async () => {\n    try {\n      const projectRoot = process.cwd();\n      const dbPath = join(projectRoot, '.stackmemory', 'context.db');\n\n      if (!existsSync(dbPath)) {\n        console.log(\n          '\u274C StackMemory not initialized. Run \"stackmemory init\" first.'\n        );\n        return;\n      }\n\n      const progress = new ProgressTracker(projectRoot);\n      console.log(progress.getSummary());\n    } catch (error: unknown) {\n      logger.error('Failed to show progress', error as Error);\n      console.error('\u274C Failed to show progress:', (error as Error).message);\n      process.exit(1);\n    }\n  });\n\nprogram\n  .command('mcp-server')\n  .description('Start StackMemory MCP server for Claude Desktop')\n  .option('-p, --project <path>', 'Project root directory', process.cwd())\n  .action(async (options) => {\n    try {\n      const { runMCPServer } = await import('../integrations/mcp/server.js');\n\n      // Set project root\n      process.env['PROJECT_ROOT'] = options.project;\n\n      console.log('\uD83D\uDE80 Starting StackMemory MCP Server...');\n      console.log(`   Project: ${options.project}`);\n      console.log(`   Version: ${VERSION}`);\n\n      // Check for updates silently\n      UpdateChecker.checkForUpdates(VERSION, true).catch(() => {});\n\n      // Start the MCP server\n      await runMCPServer();\n    } catch (error: unknown) {\n      logger.error('Failed to start MCP server', error as Error);\n      console.error('\u274C MCP server failed:', (error as Error).message);\n      process.exit(1);\n    }\n  });\n\n// Add test context command\nprogram\n  .command('context:test')\n  .description('Test context persistence by creating sample frames')\n  .action(async () => {\n    try {\n      const projectRoot = process.cwd();\n      const dbPath = join(projectRoot, '.stackmemory', 'context.db');\n\n      if (!existsSync(dbPath)) {\n        console.log(\n          '\u274C StackMemory not initialized. Run \"stackmemory init\" first.'\n        );\n        return;\n      }\n\n      const db = new Database(dbPath);\n      const frameManager = new FrameManager(db, 'cli-project');\n\n      // Create test frames\n      console.log('\uD83D\uDCDD Creating test context frames...');\n\n      const rootFrame = frameManager.createFrame({\n        type: 'task',\n        name: 'Test Session',\n        inputs: { test: true, timestamp: new Date().toISOString() },\n      });\n\n      const taskFrame = frameManager.createFrame({\n        type: 'subtask',\n        name: 'Sample Task',\n        inputs: { description: 'Testing context persistence' },\n        parentFrameId: rootFrame,\n      });\n\n      const commandFrame = frameManager.createFrame({\n        type: 'tool_scope',\n        name: 'test-command',\n        inputs: { args: ['--test'] },\n        parentFrameId: taskFrame,\n      });\n\n      // Add some events\n      frameManager.addEvent(\n        'observation',\n        {\n          message: 'Test event recorded',\n        },\n        commandFrame\n      );\n\n      console.log('\u2705 Test frames created!');\n      console.log(`\uD83D\uDCCA Stack depth: ${frameManager.getStackDepth()}`);\n      console.log(\n        `\uD83D\uDD04 Active frames: ${frameManager.getActiveFramePath().length}`\n      );\n\n      // Close one frame to test state changes\n      frameManager.closeFrame(commandFrame);\n      console.log(\n        `\uD83D\uDCCA After closing command frame: depth = ${frameManager.getStackDepth()}`\n      );\n\n      db.close();\n    } catch (error: unknown) {\n      logger.error('Test context failed', error as Error);\n      console.error('\u274C Test failed:', (error as Error).message);\n      process.exit(1);\n    }\n  });\n\n// Register project management commands\n// Register command modules\nregisterOnboardingCommand(program);\nregisterSignupCommand(program);\nregisterLoginCommand(program);\nregisterLogoutCommand(program);\nregisterDbCommands(program);\nregisterProjectCommands(program);\nregisterWorktreeCommands(program);\n\n// Register Linear integration commands (lazy-loaded, optional)\nif (isFeatureEnabled('linear')) {\n  import('./commands/linear.js')\n    .then(({ registerLinearCommands }) => registerLinearCommands(program))\n    .catch(() => {\n      // Linear integration not available - silently skip\n    });\n}\n\n// Register session management commands\nprogram.addCommand(createSessionCommands());\n\n// Register enhanced CLI commands\nprogram.addCommand(createTaskCommands());\nprogram.addCommand(createSearchCommand());\nprogram.addCommand(createLogCommand());\nprogram.addCommand(createContextCommands());\nprogram.addCommand(createConfigCommand());\nprogram.addCommand(createHandoffCommand());\nprogram.addCommand(createDecisionCommand());\nprogram.addCommand(createMemoryCommand());\nprogram.addCommand(createSkillsCommand());\nprogram.addCommand(createTestCommand());\nprogram.addCommand(clearCommand);\nprogram.addCommand(createWorkflowCommand());\nprogram.addCommand(monitorCommand);\nprogram.addCommand(qualityCommand);\nprogram.addCommand(createRalphCommand());\nprogram.addCommand(serviceCommand);\nprogram.addCommand(createSweepCommand());\nprogram.addCommand(createHooksCommand());\nprogram.addCommand(createShellCommand());\nprogram.addCommand(createAPICommand());\nprogram.addCommand(createCleanupProcessesCommand());\nprogram.addCommand(createAutoBackgroundCommand());\nprogram.addCommand(createSettingsCommand());\n\n// Register WhatsApp/SMS commands (lazy-loaded, optional)\nif (isFeatureEnabled('whatsapp')) {\n  import('./commands/sms-notify.js')\n    .then(({ createSMSNotifyCommand }) =>\n      program.addCommand(createSMSNotifyCommand())\n    )\n    .catch(() => {\n      // WhatsApp integration not available - silently skip\n    });\n}\nprogram.addCommand(createRetrievalCommands());\nprogram.addCommand(createDiscoveryCommands());\nprogram.addCommand(createModelCommand());\n\n// Register setup and diagnostic commands\nregisterSetupCommands(program);\n\n// Register dashboard command\nprogram\n  .command('dashboard')\n  .description('Display monitoring dashboard in terminal')\n  .option('-w, --watch', 'Auto-refresh dashboard')\n  .option('-i, --interval <seconds>', 'Refresh interval in seconds', '5')\n  .action(async (options) => {\n    const { dashboardCommand } = await import('./commands/dashboard.js');\n    await dashboardCommand.handler(options);\n  });\n\n// Auto-detect current project on startup\nif (process.argv.length > 2) {\n  const manager = ProjectManager.getInstance();\n  manager.detectProject().catch(() => {\n    // Silently fail if not in a project directory\n  });\n}\n\n// Only parse when running as main module (not when imported for testing)\nconst isMainModule =\n  import.meta.url === `file://${process.argv[1]}` ||\n  process.argv[1]?.endsWith('/stackmemory') ||\n  process.argv[1]?.endsWith('index.ts') ||\n  process.argv[1]?.includes('tsx');\n\nif (isMainModule) {\n  program.parse();\n}\n\nexport { program };\n"],
+  "mappings": 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   "names": ["require", "mkdirSync", "existsSync"]
 }

package/package.json

@@ -1,6 +1,6 @@
 {
   "name": "@stackmemoryai/stackmemory",
-  "version": "0.5.39",
+  "version": "0.5.40",
   "description": "Lossless memory runtime for AI coding tools - organizes context as a call stack instead of linear chat logs, with team collaboration and infinite retention",
   "engines": {
     "node": ">=20.0.0",

package/scripts/install-claude-hooks-auto.js

@@ -3,6 +3,8 @@
 /**
  * Auto-install Claude hooks during npm install
  * This runs as a postinstall script to set up tracing hooks and daemon
+ *
+ * INTERACTIVE: Asks for user consent before modifying ~/.claude
  */
 
 import {
@@ -14,6 +16,7 @@ import {
 } from 'fs';
 import { join } from 'path';
 import { homedir } from 'os';
+import { createInterface } from 'readline';
 
 import { fileURLToPath } from 'url';
 import { dirname } from 'path';
@@ -27,12 +30,63 @@ const templatesDir = join(__dirname, '..', 'templates', 'claude-hooks');
 const stackmemoryBinDir = join(homedir(), '.stackmemory', 'bin');
 const distDir = join(__dirname, '..', 'dist');
 
+/**
+ * Ask user for confirmation before installing hooks
+ * Returns true if user consents, false otherwise
+ */
+async function askForConsent() {
+  // Skip prompt if:
+  // 1. Not a TTY (CI/CD, piped input)
+  // 2. STACKMEMORY_AUTO_HOOKS=true is set
+  // 3. Running in CI environment
+  if (
+    !process.stdin.isTTY ||
+    process.env.STACKMEMORY_AUTO_HOOKS === 'true' ||
+    process.env.CI === 'true'
+  ) {
+    // In non-interactive mode, skip hook installation silently
+    console.log(
+      'StackMemory installed. Run "stackmemory setup-mcp" to configure Claude Code integration.'
+    );
+    return false;
+  }
+
+  console.log('\n📦 StackMemory Post-Install\n');
+  console.log(
+    'StackMemory can integrate with Claude Code by installing hooks that:'
+  );
+  console.log('  - Track tool usage for better context');
+  console.log('  - Enable session persistence across restarts');
+  console.log('  - Sync context with Linear (optional)');
+  console.log('\nThis will modify files in ~/.claude/\n');
+
+  return new Promise((resolve) => {
+    const rl = createInterface({
+      input: process.stdin,
+      output: process.stdout,
+    });
+
+    rl.question('Install Claude Code hooks? [y/N] ', (answer) => {
+      rl.close();
+      const normalized = answer.toLowerCase().trim();
+      resolve(normalized === 'y' || normalized === 'yes');
+    });
+
+    // Timeout after 30 seconds - default to no
+    setTimeout(() => {
+      console.log('\n(Timed out, skipping hook installation)');
+      rl.close();
+      resolve(false);
+    }, 30000);
+  });
+}
+
 async function installClaudeHooks() {
   try {
     // Create Claude hooks directory if it doesn't exist
     if (!existsSync(claudeHooksDir)) {
       mkdirSync(claudeHooksDir, { recursive: true });
-      console.log('📁 Created Claude hooks directory');
+      console.log('Created ~/.claude/hooks directory');
     }
 
     // Copy hook files
@@ -48,7 +102,7 @@ async function installClaudeHooks() {
         if (existsSync(destPath)) {
           const backupPath = `${destPath}.backup-${Date.now()}`;
           copyFileSync(destPath, backupPath);
-          console.log(`📋 Backed up existing hook: ${hookFile}`);
+          console.log(`  Backed up: ${hookFile}`);
         }
 
         copyFileSync(srcPath, destPath);
@@ -62,7 +116,7 @@ async function installClaudeHooks() {
         }
 
         installed++;
-        console.log(`✅ Installed hook: ${hookFile}`);
+        console.log(`  Installed: ${hookFile}`);
       }
     }
 
@@ -71,9 +125,8 @@ async function installClaudeHooks() {
     if (existsSync(claudeConfigFile)) {
       try {
         hooksConfig = JSON.parse(readFileSync(claudeConfigFile, 'utf8'));
-        console.log('📋 Loaded existing hooks.json');
       } catch {
-        console.log('⚠️  Could not parse existing hooks.json, creating new');
+        // Start fresh if parse fails
       }
     }
 
@@ -86,21 +139,11 @@ async function installClaudeHooks() {
     };
 
     writeFileSync(claudeConfigFile, JSON.stringify(newHooksConfig, null, 2));
-    console.log('🔧 Updated hooks.json configuration');
 
     if (installed > 0) {
-      console.log(
-        `\nSuccessfully installed ${installed} Claude hooks for StackMemory tracing!`
-      );
-      console.log(
-        'Tool usage and session data will now be automatically logged'
-      );
-      console.log(
-        `Traces saved to: ${join(homedir(), '.stackmemory', 'traces')}`
-      );
-      console.log(
-        '\nTo disable tracing, set DEBUG_TRACE=false in your .env file'
-      );
+      console.log(`\n[OK] Installed ${installed} Claude hooks`);
+      console.log(`     Traces: ~/.stackmemory/traces/`);
+      console.log('     To disable: set DEBUG_TRACE=false in .env');
     }
 
     // Install session daemon binary
@@ -108,10 +151,8 @@ async function installClaudeHooks() {
 
     return true;
   } catch (error) {
-    console.error('Failed to install Claude hooks:', error.message);
-    console.error(
-      '   This is not critical - StackMemory will still work without hooks'
-    );
+    console.error('Hook installation failed:', error.message);
+    console.error('(Non-critical - StackMemory works without hooks)');
     return false;
   }
 }
@@ -154,8 +195,17 @@ async function installSessionDaemon() {
 
 // Only run if called directly (not imported)
 if (import.meta.url === `file://${process.argv[1]}`) {
-  console.log('🔧 Installing StackMemory Claude Code integration hooks...\n');
-  await installClaudeHooks();
+  const consent = await askForConsent();
+  if (consent) {
+    await installClaudeHooks();
+    console.log(
+      '\nNext: Run "stackmemory setup-mcp" to complete Claude Code integration.'
+    );
+  } else {
+    console.log(
+      'Skipped hook installation. Run "stackmemory hooks install" later if needed.'
+    );
+  }
 }
 
 export { installClaudeHooks };