docdex 0.2.36 → 0.2.39

package/CHANGELOG.md

@@ -1,5 +1,14 @@
 # Changelog
 
+## 0.2.39
+- Bump release metadata to 0.2.39.
+
+## 0.2.38
+- Bump release metadata to 0.2.38.
+
+## 0.2.37
+- Bump release metadata to 0.2.37.
+
 ## 0.2.36
 - Bump release metadata to 0.2.36.
 

package/assets/agents.md

@@ -1,4 +1,4 @@
----- START OF DOCDEX INFO V0.2.36 ----
+---- START OF DOCDEX INFO V0.2.39 ----
 Docdex URL: http://127.0.0.1:28491
 Use this base URL for Docdex HTTP endpoints.
 Health check endpoint: `GET /healthz` (not `/v1/health`).
@@ -6,6 +6,7 @@ Health check endpoint: `GET /healthz` (not `/v1/health`).
 ## Priority Directives (Mandatory)
 
 - Always use both memory lobes early: docdex_get_profile + docdex_memory_recall; save new facts via docdex_memory_save and new preferences via docdex_save_preference.
+- Profile memory is always-on and global; never gate on DOCDEX_ENABLE_MEMORY or repo state. docdex_save_preference must persist (fallback if embeddings/LLM unavailable). If profile calls fail, treat it as a bug.
 - Maintain agent-specific profile memory: use your agent_id with docdex_get_profile/docdex_save_preference; store generic self-knowledge (role, tooling, preferences).
 - Use impact analysis for every code change: prefer MCP tools `docdex_impact_graph` / `docdex_dag_export` (IPC/HTTP). If shell networking is blocked, do not use curl; use MCP/IPC instead. If unavailable, state it and proceed cautiously.
 - Apply DAG reasoning for planning: prefer dependency graph facts (impact results and /v1/dag/export) to choose the right change order and scope.
@@ -250,7 +251,7 @@ Query params:
 
 - SSE: `/v1/mcp/sse` + `/v1/mcp/message`. When multiple repos are mounted, initialize with `rootUri` first.
 - HTTP: `/v1/mcp` accepts repo context in the payload or via prior initialize.
-- If HTTP/SSE is unreachable (sandboxed clients), fall back to local IPC: configure `transport = "ipc"` with `socket_path` (Unix) or `pipe_name` (Windows) and send MCP JSON-RPC to `/v1/mcp` over IPC.
+- If HTTP/SSE is unreachable or fails (e.g., connection refused or sandboxed clients), fall back to local IPC: configure `transport = "ipc"` with `socket_path` (Unix) or `pipe_name` (Windows) and send MCP JSON-RPC to `/v1/mcp` over IPC.
 - For stdio-only clients (e.g., Smithery), use the `docdex-mcp-stdio` entrypoint to bridge stdio JSON-RPC to Docdex MCP.
 - For impact/DAG in sandboxed shells, prefer MCP/IPC tools over `curl` to `/v1/graph/impact` or `/v1/dag/export`.
 - MCP tools: `docdex_impact_graph` (impact traversal) and `docdex_dag_export` (DAG export).
@@ -304,9 +305,10 @@ When answering a complex coding query, follow this "Reasoning Trace":
 Save more memories for both lobes during the task, not just at the end.
 
 1. Repo memory: After each meaningful discovery or code change, save at least one durable fact (file location, behavior, config, gotcha) via `docdex_memory_save`.
-2. Profile memory: When the user expresses a preference, constraint, or workflow correction, call `docdex_save_preference` immediately with the right category.
-3. Keep it crisp: 1-3 short sentences, include file paths when relevant, avoid raw code blobs.
-4. Safety: Never store secrets, tokens, or sensitive user data. Skip transient or speculative info.
+2. Memory overrides: When a new repo memory replaces older facts, include `metadata.supersedes` with the prior memory id(s). Docdex marks the superseded entries with `supersededBy`/`supersededAtMs`, down-ranks them during recall, and they can be removed via `docdex memory compact` (dry-run unless `--apply`).
+3. Profile memory: When the user expresses a preference, constraint, or workflow correction, call `docdex_save_preference` immediately with the right category.
+4. Keep it crisp: 1-3 short sentences, include file paths when relevant, avoid raw code blobs.
+5. Safety: Never store secrets, tokens, or sensitive user data. Skip transient or speculative info.
 
 ### 3. Index Health + Diff-Aware Search (Mandatory)
 

package/lib/install.js

@@ -2258,7 +2258,7 @@ async function main() {
   }
   const result = await runInstaller({ env, distBaseDir });
   try {
-    const skipDaemon = Boolean(env?.npm_lifecycle_event);
+    const skipDaemon = parseEnvBool(env?.DOCDEX_DAEMON_SKIP_SETUP);
     await runPostInstallSetup({ binaryPath: result?.binaryPath, env, skipDaemon, distBaseDir });
   } catch (err) {
     console.warn(`[docdex] postinstall setup failed: ${err?.message || err}`);
@@ -2286,6 +2286,14 @@ function printPostInstallBanner() {
       return false;
     }
   };
+  const writeStderr = (message) => {
+    try {
+      process.stderr.write(message);
+      return true;
+    } catch {
+      return false;
+    }
+  };
   let width = 0;
   const content = [
     "\x1b[31m      _               _           \x1b[0m",
@@ -2320,7 +2328,9 @@ function printPostInstallBanner() {
   lines.push(bottom);
   const banner = `\r\x1b[2K${lines.join("\n")}\n`;
   if (!writeDirect(banner)) {
-    console.log(banner);
+    if (!writeStderr(banner)) {
+      console.log(banner);
+    }
   }
 }
 

package/lib/paths.js

@@ -102,11 +102,20 @@ function resolveWindowsRunnerPath(options = {}) {
   return pathModule.join(resolveDocdexDataDir({ ...options, pathModule }), "run-daemon.cmd");
 }
 
+function resolveWindowsSetupRunnerPath(options = {}) {
+  const pathModule = options.pathModule || path;
+  if (options.distBaseDir) {
+    return pathModule.join(pathModule.dirname(options.distBaseDir), "run-setup.cmd");
+  }
+  return pathModule.join(resolveDocdexDataDir({ ...options, pathModule }), "run-setup.cmd");
+}
+
 module.exports = {
   resolveUserDataDir,
   resolveDocdexDataDir,
   resolveDistBaseCandidates,
   resolveDistBaseDir,
   resolveBinDir,
-  resolveWindowsRunnerPath
+  resolveWindowsRunnerPath,
+  resolveWindowsSetupRunnerPath
 };

package/lib/postinstall_setup.js

@@ -15,7 +15,8 @@ const {
   resolveDistBaseDir,
   resolveDistBaseCandidates,
   resolveBinDir,
-  resolveWindowsRunnerPath
+  resolveWindowsRunnerPath,
+  resolveWindowsSetupRunnerPath
 } = require("./paths");
 
 const DEFAULT_HOST = "127.0.0.1";
@@ -313,6 +314,73 @@ function stopDaemonService({ logger } = {}) {
   return false;
 }
 
+function removeDaemonService({ logger, distBaseDir, env } = {}) {
+  if (process.platform === "darwin") {
+    const uid = typeof process.getuid === "function" ? process.getuid() : null;
+    const domain = uid != null ? `gui/${uid}` : null;
+    const plistPath = path.join(os.homedir(), "Library", "LaunchAgents", "com.docdex.daemon.plist");
+    const systemPlistPath = "/Library/LaunchDaemons/com.docdex.daemon.plist";
+    if (domain) {
+      spawnSync("launchctl", ["bootout", domain, "com.docdex.daemon"]);
+      spawnSync("launchctl", ["bootout", domain, plistPath]);
+    } else {
+      spawnSync("launchctl", ["bootout", "com.docdex.daemon"]);
+      spawnSync("launchctl", ["bootout", plistPath]);
+    }
+    spawnSync("launchctl", ["remove", "com.docdex.daemon"]);
+    spawnSync("launchctl", ["unload", "-w", plistPath]);
+    if (fs.existsSync(plistPath)) {
+      try {
+        fs.unlinkSync(plistPath);
+      } catch (err) {
+        logger?.warn?.(`[docdex] failed to remove LaunchAgent plist: ${err?.message || err}`);
+      }
+    }
+    if (fs.existsSync(systemPlistPath)) {
+      spawnSync("launchctl", ["bootout", "system", systemPlistPath]);
+      spawnSync("launchctl", ["remove", "com.docdex.daemon"]);
+      try {
+        fs.unlinkSync(systemPlistPath);
+      } catch (err) {
+        logger?.warn?.(`[docdex] failed to remove LaunchDaemon plist: ${err?.message || err}`);
+      }
+    }
+    return true;
+  }
+  if (process.platform === "linux") {
+    const systemdDir = path.join(os.homedir(), ".config", "systemd", "user");
+    const unitPath = path.join(systemdDir, "docdexd.service");
+    spawnSync("systemctl", ["--user", "stop", "docdexd.service"]);
+    spawnSync("systemctl", ["--user", "disable", "--now", "docdexd.service"]);
+    spawnSync("systemctl", ["--user", "reset-failed", "docdexd.service"]);
+    if (fs.existsSync(unitPath)) {
+      try {
+        fs.unlinkSync(unitPath);
+      } catch (err) {
+        logger?.warn?.(`[docdex] failed to remove systemd unit: ${err?.message || err}`);
+      }
+      spawnSync("systemctl", ["--user", "daemon-reload"]);
+    }
+    return true;
+  }
+  if (process.platform === "win32") {
+    const taskName = "Docdex Daemon";
+    spawnSync("schtasks", ["/End", "/TN", taskName]);
+    spawnSync("schtasks", ["/Delete", "/TN", taskName, "/F"]);
+    const resolvedDistBaseDir = distBaseDir || resolveDistBaseDir({ env, fsModule: fs });
+    const runnerPath = resolveWindowsRunnerPath({ distBaseDir: resolvedDistBaseDir, pathModule: path });
+    if (runnerPath && fs.existsSync(runnerPath)) {
+      try {
+        fs.unlinkSync(runnerPath);
+      } catch (err) {
+        logger?.warn?.(`[docdex] failed to remove Windows runner: ${err?.message || err}`);
+      }
+    }
+    return true;
+  }
+  return false;
+}
+
 function startDaemonService({ logger } = {}) {
   if (process.platform === "darwin") {
     const uid = typeof process.getuid === "function" ? process.getuid() : null;
@@ -356,6 +424,21 @@ function stopDaemonByName({ logger } = {}) {
   return true;
 }
 
+async function cleanupExistingDaemon({ logger, env, distBaseDir, host, port } = {}) {
+  const log = logger || console;
+  stopDaemonService({ logger: log });
+  stopDaemonFromLock({ logger: log });
+  stopDaemonByName({ logger: log });
+  removeDaemonService({ logger: log, distBaseDir, env });
+  clearDaemonLocks();
+  if (!host || !port) return true;
+  const released = await waitForPortAvailable({ host, port });
+  if (!released) {
+    log.warn?.(`[docdex] ${host}:${port} still in use after daemon cleanup.`);
+  }
+  return released;
+}
+
 function clearDaemonLocks() {
   let removed = false;
   for (const lockPath of daemonLockPaths()) {
@@ -2179,6 +2262,27 @@ function writeWindowsRunner({ binaryPath, args, envPairs, workingDir, logger, di
   }
 }
 
+function writeWindowsSetupRunner({ binaryPath, args, logger, distBaseDir } = {}) {
+  if (!binaryPath) return null;
+  const runnerPath = resolveWindowsSetupRunnerPath({ distBaseDir });
+  const lines = [
+    "@echo off",
+    "setlocal",
+    "set \"DOCDEX_SETUP_AUTO=1\"",
+    "set \"DOCDEX_SETUP_MODE=auto\""
+  ];
+  const argString = (args || []).map((arg) => escapeCmdArg(arg)).join(" ");
+  lines.push(`${escapeCmdArg(binaryPath)} ${argString}`.trim());
+  try {
+    fs.mkdirSync(path.dirname(runnerPath), { recursive: true });
+    fs.writeFileSync(runnerPath, `${lines.join("\r\n")}\r\n`);
+    return runnerPath;
+  } catch (err) {
+    logger?.warn?.(`[docdex] failed to write Windows setup runner: ${err?.message || err}`);
+    return null;
+  }
+}
+
 function registerStartup({ binaryPath, port, repoRoot, logger, distBaseDir }) {
   if (!binaryPath) return { ok: false, reason: "missing_binary" };
   stopDaemonService({ logger });
@@ -2360,7 +2464,6 @@ function isNpmLifecycle(env = process.env) {
 
 function shouldSkipDaemonSideEffects({ env = process.env, skipDaemon } = {}) {
   if (skipDaemon) return true;
-  if (isNpmLifecycle(env)) return true;
   if (parseEnvBool(env?.DOCDEX_DAEMON_SKIP_SETUP)) return true;
   return false;
 }
@@ -2433,7 +2536,8 @@ function launchSetupWizard({
   spawnFn = spawn,
   spawnSyncFn = spawnSync,
   platform = process.platform,
-  canPrompt = canPromptWithTty
+  canPrompt = canPromptWithTty,
+  distBaseDir
 }) {
   if (!binaryPath) return { ok: false, reason: "missing_binary" };
   if (shouldSkipSetup(env)) return { ok: false, reason: "skipped" };
@@ -2454,9 +2558,21 @@ function launchSetupWizard({
   }
 
   if (platform === "win32") {
-    const quoted = `"${binaryPath}" ${args.map((arg) => `"${arg}"`).join(" ")}`;
-    const cmdline = `set DOCDEX_SETUP_AUTO=1 && set DOCDEX_SETUP_MODE=auto && ${quoted}`;
-    const result = spawnSyncFn("cmd", ["/c", "start", "", "cmd", "/c", cmdline]);
+    const runnerPath = writeWindowsSetupRunner({
+      binaryPath,
+      args,
+      logger,
+      distBaseDir
+    });
+    if (!runnerPath) return { ok: false, reason: "runner_failed" };
+    const result = spawnSyncFn("cmd", [
+      "/c",
+      "start",
+      "",
+      "cmd",
+      "/c",
+      escapeCmdArg(runnerPath)
+    ]);
     if (result.status === 0) return { ok: true };
     logger?.warn?.(`[docdex] cmd start failed: ${result.stderr || "unknown error"}`);
     return { ok: false, reason: "terminal_launch_failed" };
@@ -2478,6 +2594,22 @@ async function runPostInstallSetup({ binaryPath, logger, env, skipDaemon, distBa
   }
   const port = DEFAULT_DAEMON_PORT;
   let portState = { available: true, reuseExisting: false };
+  if (allowDaemon) {
+    const cleaned = await cleanupExistingDaemon({
+      logger: log,
+      env: effectiveEnv,
+      distBaseDir: resolvedDistBaseDir,
+      host: DEFAULT_HOST,
+      port
+    });
+    if (!cleaned) {
+      log.warn?.(
+        `[docdex] ${DEFAULT_HOST}:${port} is still in use after removing the daemon service; skipping daemon startup.`
+      );
+      recordStartupFailure({ reason: "port_in_use", host: DEFAULT_HOST, port });
+      allowDaemon = false;
+    }
+  }
   if (allowDaemon) {
     portState = await resolveDaemonPortState({
       host: DEFAULT_HOST,
@@ -2584,13 +2716,20 @@ async function runPostInstallSetup({ binaryPath, logger, env, skipDaemon, distBa
   if (startupOk) {
     clearStartupFailure();
   }
-  const skipWizard = isNpmLifecycle(effectiveEnv) || shouldSkipSetup(effectiveEnv);
+  const skipExplicit = shouldSkipSetup(effectiveEnv);
+  const skipWizard = isNpmLifecycle(effectiveEnv) || skipExplicit;
   const setupLaunch = skipWizard
-    ? { ok: false, reason: "skipped" }
-    : launchSetupWizard({ binaryPath: startupBinaries.binaryPath, logger: log });
-  if (!setupLaunch.ok && setupLaunch.reason !== "skipped") {
-    log.warn?.("[docdex] setup wizard did not launch. Run `docdex setup`.");
-    recordSetupPending({ reason: setupLaunch.reason, port, repoRoot: daemonRoot });
+    ? { ok: false, reason: skipExplicit ? "skipped" : "npm_lifecycle" }
+    : launchSetupWizard({
+        binaryPath: startupBinaries.binaryPath,
+        logger: log,
+        distBaseDir: resolvedDistBaseDir
+      });
+  if (!setupLaunch.ok) {
+    if (setupLaunch.reason !== "skipped") {
+      log.warn?.("[docdex] setup wizard did not launch. Run `docdex setup`.");
+      recordSetupPending({ reason: setupLaunch.reason, port, repoRoot: daemonRoot });
+    }
   }
   return { port, url, configPath };
 }

package/package.json

@@ -1,6 +1,6 @@
 {
   "name": "docdex",
-  "version": "0.2.36",
+  "version": "0.2.39",
   "mcpName": "io.github.bekirdag/docdex",
   "description": "Local-first documentation and code indexer with HTTP/MCP search, AST, and agent memory.",
   "bin": {