@lernstoff/cli 0.0.0-stage → 0.1.0-beta.1

package/LICENSE

@@ -0,0 +1,21 @@
+MIT License
+
+Copyright (c) 2026 JsonLee12138
+
+Permission is hereby granted, free of charge, to any person obtaining a copy
+of this software and associated documentation files (the "Software"), to deal
+in the Software without restriction, including without limitation the rights
+to use, copy, modify, merge, publish, distribute, sublicense, and/or sell
+copies of the Software, and to permit persons to whom the Software is
+furnished to do so, subject to the following conditions:
+
+The above copyright notice and this permission notice shall be included in all
+copies or substantial portions of the Software.
+
+THE SOFTWARE IS PROVIDED "AS IS", WITHOUT WARRANTY OF ANY KIND, EXPRESS OR
+IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES OF MERCHANTABILITY,
+FITNESS FOR A PARTICULAR PURPOSE AND NONINFRINGEMENT. IN NO EVENT SHALL THE
+AUTHORS OR COPYRIGHT HOLDERS BE LIABLE FOR ANY CLAIM, DAMAGES OR OTHER
+LIABILITY, WHETHER IN AN ACTION OF CONTRACT, TORT OR OTHERWISE, ARISING FROM,
+OUT OF OR IN CONNECTION WITH THE SOFTWARE OR THE USE OR OTHER DEALINGS IN THE
+SOFTWARE.

package/dist/bin.d.mts

@@ -0,0 +1 @@
+export {}

package/dist/bin.mjs

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+#!/usr/bin/env node
+import { closeSync, copyFileSync, existsSync, mkdirSync, openSync, readFileSync, unlinkSync, writeFileSync } from "node:fs";
+import { basename, dirname, join, resolve } from "node:path";
+import { execSync, spawn } from "node:child_process";
+import { DaemonServer, LERNSTOFF_DIR, QmdBridge, VaultOps, createLernstoffMcpServer, formatScratchpad, getConfigPath, getConfigValue, initVault, loadConfig, parseScratchpad, resetConfigToDefaults, setConfigValue } from "@lernstoff/core";
+import { createInterface } from "node:readline";
+import { StdioServerTransport } from "@modelcontextprotocol/server/stdio";
+import { homedir } from "node:os";
+// src/daemon-pid.ts
+/**
+* Check if a process ID is currently running in the OS.
+*/
+function isPidAlive(pid) {
+	if (!Number.isInteger(pid) || pid <= 0) return false;
+	try {
+		process.kill(pid, 0);
+		return true;
+	} catch {
+		return false;
+	}
+}
+/**
+* Read the full command line of a process by PID across macOS, Linux, and Windows.
+*/
+function readProcessCmdline(pid) {
+	try {
+		if (process.platform === "win32") {
+			const match = execSync(`wmic process where ProcessId=${pid} get CommandLine /value`, {
+				stdio: [
+					"ignore",
+					"pipe",
+					"ignore"
+				],
+				timeout: 1e3
+			}).toString("utf-8").match(/CommandLine=(.*)/i);
+			return match ? match[1].trim() : null;
+		} else return execSync(`ps -p ${pid} -o command=`, {
+			stdio: [
+				"ignore",
+				"pipe",
+				"ignore"
+			],
+			timeout: 1e3
+		}).toString("utf-8").trim();
+	} catch {
+		return null;
+	}
+}
+/**
+* Verifies process identity to prevent false positives from recycled PIDs.
+* Modeled on qmd/src/cli/mcp-pid.ts#L74-L86.
+*/
+function looksLikeLernstoffDaemon(cmdline) {
+	const lower = cmdline.toLowerCase();
+	return lower.includes("lernstoff") || lower.includes("daemon-server") || lower.includes("@lernstoff/cli") || lower.includes("lernstoff-wiki");
+}
+/**
+* Inspects <vault>/.lernstoff/daemon.pid and daemon.port to check if the daemon is alive.
+* If the process is dead or stale, cleans up the files and returns null.
+*/
+function getRunningDaemonInfo(vaultPath) {
+	const resolved = resolve(vaultPath);
+	const lernstoffDir = join(resolved, LERNSTOFF_DIR);
+	const pidFile = join(lernstoffDir, "daemon.pid");
+	const portFile = join(lernstoffDir, "daemon.port");
+	if (!existsSync(pidFile)) return null;
+	let pid;
+	try {
+		pid = parseInt(readFileSync(pidFile, "utf-8").trim(), 10);
+	} catch {
+		return null;
+	}
+	if (!isPidAlive(pid)) {
+		try {
+			unlinkSync(pidFile);
+		} catch {}
+		try {
+			if (existsSync(portFile)) unlinkSync(portFile);
+		} catch {}
+		return null;
+	}
+	const cmdline = readProcessCmdline(pid);
+	if (cmdline && !looksLikeLernstoffDaemon(cmdline)) {
+		try {
+			unlinkSync(pidFile);
+		} catch {}
+		try {
+			if (existsSync(portFile)) unlinkSync(portFile);
+		} catch {}
+		return null;
+	}
+	let port = 8188;
+	if (existsSync(portFile)) try {
+		port = parseInt(readFileSync(portFile, "utf-8").trim(), 10) || 8188;
+	} catch {}
+	return {
+		pid,
+		port
+	};
+}
+/**
+* Gracefully kill a running daemon process.
+*/
+function killDaemonProcess(pid, timeoutMs = 3e3) {
+	if (!isPidAlive(pid)) return true;
+	try {
+		process.kill(pid, "SIGTERM");
+	} catch {
+		return !isPidAlive(pid);
+	}
+	const start = Date.now();
+	while (Date.now() - start < timeoutMs) {
+		if (!isPidAlive(pid)) return true;
+		try {
+			execSync("sleep 0.05");
+		} catch {}
+	}
+	try {
+		process.kill(pid, "SIGKILL");
+	} catch {}
+	return !isPidAlive(pid);
+}
+// src/stdio-proxy.ts
+/**
+* Runs MCP over stdio.
+* If the Vault's background daemon is already running, proxies JSON-RPC over HTTP
+* with zero memory footprint; otherwise boots an in-process MCP server instance.
+*/
+async function runMcpStdio(vaultPath) {
+	const daemonInfo = getRunningDaemonInfo(vaultPath);
+	if (daemonInfo) {
+		const daemonUrl = `http://127.0.0.1:${daemonInfo.port}/mcp`;
+		createInterface({
+			input: process.stdin,
+			terminal: false
+		}).on("line", async (line) => {
+			const trimmed = line.trim();
+			if (!trimmed) return;
+			try {
+				const res = await fetch(daemonUrl, {
+					method: "POST",
+					headers: {
+						"Content-Type": "application/json",
+						Accept: "application/json, text/event-stream"
+					},
+					body: trimmed
+				});
+				if ((res.headers.get("content-type") || "").includes("json")) {
+					const bodyText = await res.text();
+					if (bodyText) process.stdout.write(`${bodyText}\n`);
+				} else {
+					const reader = res.body?.getReader();
+					if (reader) while (true) {
+						const { done, value } = await reader.read();
+						if (done) break;
+						process.stdout.write(value);
+					}
+				}
+			} catch (err) {
+				const errorRpc = {
+					jsonrpc: "2.0",
+					id: null,
+					error: {
+						code: -32603,
+						message: `Daemon proxy error: ${err.message}`
+					}
+				};
+				process.stdout.write(`${JSON.stringify(errorRpc)}\n`);
+			}
+		});
+		return;
+	}
+	const server = createLernstoffMcpServer({ vaultPath });
+	const transport = new StdioServerTransport();
+	await server.connect(transport);
+}
+// src/service-manager.ts
+var ServiceManager = class ServiceManager {
+	static getServiceSlug(vaultPath) {
+		const name = basename(resolve(vaultPath));
+		return VaultOps.slugify(name || "default");
+	}
+	static getLaunchdPlistPath(vaultPath) {
+		const slug = ServiceManager.getServiceSlug(vaultPath);
+		return join(homedir(), "Library/LaunchAgents", `ai.lernstoff.wiki.${slug}.plist`);
+	}
+	static getSystemdServicePath(vaultPath) {
+		const slug = ServiceManager.getServiceSlug(vaultPath);
+		return join(homedir(), ".config/systemd/user", `lernstoff-wiki@${slug}.service`);
+	}
+	static generateLaunchdPlist(vaultPath, cliPath) {
+		const slug = ServiceManager.getServiceSlug(vaultPath);
+		const absVault = resolve(vaultPath);
+		const logPath = join(absVault, ".lernstoff", "daemon.log");
+		return `<?xml version="1.0" encoding="UTF-8"?>
+<!DOCTYPE plist PUBLIC "-//Apple//DTD PLIST 1.0//EN" "http://www.apple.com/DTDs/PropertyList-1.0.dtd">
+<plist version="1.0">
+<dict>
+  <key>Label</key>
+  <string>ai.lernstoff.wiki.${slug}</string>
+  <key>ProgramArguments</key>
+  <array>
+    <string>${process.execPath}</string>
+    <string>${cliPath}</string>
+    <string>server</string>
+    <string>start</string>
+    <string>--foreground</string>
+    <string>--vault</string>
+    <string>${absVault}</string>
+  </array>
+  <key>RunAtLoad</key>
+  <true/>
+  <key>KeepAlive</key>
+  <true/>
+  <key>StandardOutPath</key>
+  <string>${logPath}</string>
+  <key>StandardErrorPath</key>
+  <string>${logPath}</string>
+  <key>WorkingDirectory</key>
+  <string>${absVault}</string>
+</dict>
+</plist>
+`;
+	}
+	static generateSystemdService(vaultPath, cliPath) {
+		const slug = ServiceManager.getServiceSlug(vaultPath);
+		const absVault = resolve(vaultPath);
+		const logPath = join(absVault, ".lernstoff", "daemon.log");
+		return `[Unit]
+Description=Lernstoff Wiki Headless Cognitive Engine (${slug})
+After=network.target
+
+[Service]
+Type=simple
+WorkingDirectory=${absVault}
+ExecStart=${process.execPath} ${cliPath} server start --foreground --vault ${absVault}
+Restart=always
+RestartSec=5
+StandardOutput=append:${logPath}
+StandardError=append:${logPath}
+
+[Install]
+WantedBy=default.target
+`;
+	}
+	/**
+	* Install OS boot auto-start service for the target Vault.
+	*/
+	static async installService(vaultPath, cliPath = process.argv[1] || "lernstoff") {
+		const absVault = resolve(vaultPath);
+		const platform = process.platform;
+		if (platform === "darwin") {
+			const plistPath = ServiceManager.getLaunchdPlistPath(absVault);
+			mkdirSync(join(homedir(), "Library/LaunchAgents"), { recursive: true });
+			const plistXml = ServiceManager.generateLaunchdPlist(absVault, cliPath);
+			writeFileSync(plistPath, plistXml, "utf-8");
+			try {
+				execSync(`launchctl load "${plistPath}"`, { stdio: "ignore" });
+			} catch {}
+			return {
+				success: true,
+				servicePath: plistPath,
+				platform: "darwin"
+			};
+		}
+		if (platform === "linux") {
+			const servicePath = ServiceManager.getSystemdServicePath(absVault);
+			mkdirSync(join(homedir(), ".config/systemd/user"), { recursive: true });
+			const serviceUnit = ServiceManager.generateSystemdService(absVault, cliPath);
+			writeFileSync(servicePath, serviceUnit, "utf-8");
+			try {
+				execSync("systemctl --user daemon-reload", { stdio: "ignore" });
+				execSync(`systemctl --user enable --now "${basename(servicePath)}"`, { stdio: "ignore" });
+			} catch {}
+			return {
+				success: true,
+				servicePath,
+				platform: "linux"
+			};
+		}
+		const fallbackPath = join(absVault, ".lernstoff", "autostart.cmd");
+		writeFileSync(fallbackPath, `@echo off\n"${process.execPath}" "${cliPath}" server start --foreground --vault "${absVault}"\n`, "utf-8");
+		return {
+			success: true,
+			servicePath: fallbackPath,
+			platform: "win32"
+		};
+	}
+	/**
+	* Uninstall and deregister the OS boot auto-start service.
+	*/
+	static async uninstallService(vaultPath) {
+		const absVault = resolve(vaultPath);
+		const platform = process.platform;
+		if (platform === "darwin") {
+			const plistPath = ServiceManager.getLaunchdPlistPath(absVault);
+			if (existsSync(plistPath)) {
+				try {
+					execSync(`launchctl unload "${plistPath}"`, { stdio: "ignore" });
+				} catch {}
+				try {
+					unlinkSync(plistPath);
+				} catch {}
+				return {
+					success: true,
+					servicePath: plistPath
+				};
+			}
+		} else if (platform === "linux") {
+			const servicePath = ServiceManager.getSystemdServicePath(absVault);
+			if (existsSync(servicePath)) {
+				try {
+					execSync(`systemctl --user stop "${basename(servicePath)}"`, { stdio: "ignore" });
+					execSync(`systemctl --user disable "${basename(servicePath)}"`, { stdio: "ignore" });
+				} catch {}
+				try {
+					unlinkSync(servicePath);
+				} catch {}
+				return {
+					success: true,
+					servicePath
+				};
+			}
+		}
+		return { success: true };
+	}
+	/**
+	* Get service registration status and current running daemon info.
+	*/
+	static async getServiceStatus(vaultPath) {
+		const absVault = resolve(vaultPath);
+		const platform = process.platform;
+		let installed = false;
+		let servicePath;
+		if (platform === "darwin") {
+			servicePath = ServiceManager.getLaunchdPlistPath(absVault);
+			installed = existsSync(servicePath);
+		} else if (platform === "linux") {
+			servicePath = ServiceManager.getSystemdServicePath(absVault);
+			installed = existsSync(servicePath);
+		}
+		const daemonInfo = getRunningDaemonInfo(absVault);
+		return {
+			installed,
+			running: !!daemonInfo,
+			servicePath: installed ? servicePath : void 0,
+			platform,
+			pid: daemonInfo?.pid,
+			port: daemonInfo?.port
+		};
+	}
+};
+// src/agent-installer.ts
+const DEFAULT_SKILL_MD = `---
+name: lernstoff-wiki
+description: Headless Cognitive Selective Note-Taking Protocol for AI Agents and Obsidian. Use when reading documentation, analyzing papers, researching concepts, managing curiosity inquiry trees, verifying cognitive deltas, and creating evergreen proposition notes.
+---
+
+# lernstoff-wiki Cognitive Selective Note-Taking Protocol
+
+When pair-programming, exploring codebases, reading papers, or synthesizing architecture decisions, follow this 4-step selective note-taking protocol to avoid information hoarding ("Collector's Fallacy") and keep the Obsidian Vault high-signal.
+
+## Protocol Workflow
+1. Step 1: Probe Cognitive Delta (lernstoff_probe_delta) - NEVER write notes directly to disk.
+2. Step 2: Socratic 4-Question Defense (Q1: Delta, Q2: Belief update, Q3: >= 2 outbound links, Q4: Proposition-as-Title).
+3. Step 3: Crystallize Proposition Note (lernstoff_crystallize_note).
+4. Step 4: Fast Scratchpad Consolidation (lernstoff_consolidate_scratchpad).
+`;
+var AgentInstaller = class AgentInstaller {
+	static getMcpConfig(vaultPath) {
+		return {
+			command: "lernstoff",
+			args: [
+				"mcp",
+				"--vault",
+				resolve(vaultPath)
+			]
+		};
+	}
+	static installSkill(target, vaultPath) {
+		const absVault = resolve(vaultPath);
+		const installedPaths = [];
+		let skillContent = DEFAULT_SKILL_MD;
+		const localSkill = join(absVault, "skills/lernstoff-wiki/SKILL.md");
+		if (existsSync(localSkill)) try {
+			skillContent = readFileSync(localSkill, "utf-8");
+		} catch {}
+		const targets = {
+			claude: [join(homedir(), ".claude/skills/lernstoff-wiki/SKILL.md")],
+			antigravity: [join(homedir(), ".gemini/config/skills/lernstoff-wiki/SKILL.md")],
+			cursor: [join(absVault, ".cursor/skills/lernstoff-wiki/SKILL.md"), join(homedir(), ".cursor/skills/lernstoff-wiki/SKILL.md")]
+		};
+		const keys = target === "all" ? Object.keys(targets) : [target];
+		for (const key of keys) {
+			const paths = targets[key] || [];
+			for (const p of paths) try {
+				mkdirSync(dirname(p), { recursive: true });
+				writeFileSync(p, skillContent, "utf-8");
+				installedPaths.push(p);
+			} catch {}
+		}
+		return installedPaths;
+	}
+	static installMcp(target, vaultPath) {
+		const absVault = resolve(vaultPath);
+		const mcpEntry = AgentInstaller.getMcpConfig(absVault);
+		const configuredFiles = [];
+		const configFiles = {
+			claude: [join(homedir(), ".claude.json"), join(absVault, ".mcp.json")],
+			cursor: [join(absVault, ".cursor/mcp.json"), join(homedir(), ".cursor/mcp.json")],
+			antigravity: [join(homedir(), ".gemini/antigravity/mcp_config.json")]
+		};
+		const keys = target === "all" ? Object.keys(configFiles) : [target];
+		for (const key of keys) {
+			const files = configFiles[key] || [];
+			for (const file of files) try {
+				mkdirSync(dirname(file), { recursive: true });
+				let json = {};
+				if (existsSync(file)) try {
+					json = JSON.parse(readFileSync(file, "utf-8"));
+				} catch {
+					json = {};
+				}
+				if (!json.mcpServers) json.mcpServers = {};
+				json.mcpServers["lernstoff"] = mcpEntry;
+				writeFileSync(file, JSON.stringify(json, null, 2), "utf-8");
+				configuredFiles.push(file);
+			} catch {}
+		}
+		return configuredFiles;
+	}
+	static async runDoctor(options) {
+		const absVault = resolve(options.vaultPath);
+		const lernstoffDir = join(absVault, LERNSTOFF_DIR);
+		const configFile = join(lernstoffDir, "config.json");
+		const sqliteFile = join(lernstoffDir, "index.sqlite");
+		const vaultInitialized = existsSync(configFile);
+		const sqlitePresent = existsSync(sqliteFile);
+		const daemonInfo = getRunningDaemonInfo(absVault);
+		let models = {};
+		if (vaultInitialized) try {
+			models = JSON.parse(readFileSync(configFile, "utf-8")).models || {};
+		} catch {}
+		if (options.cleanup && sqlitePresent) try {
+			const bridge = new QmdBridge({ vaultPath: absVault });
+			const store = await bridge.getStore();
+			if (typeof store.cleanup === "function") await store.cleanup();
+			await bridge.close();
+		} catch {}
+		if (options.pullModels) {}
+		return {
+			nodeVersion: process.version,
+			platform: process.platform,
+			arch: process.arch,
+			vaultPath: absVault,
+			vaultInitialized,
+			daemonRunning: !!daemonInfo,
+			daemonPid: daemonInfo?.pid,
+			daemonPort: daemonInfo?.port,
+			sqlitePresent,
+			configValid: vaultInitialized,
+			models
+		};
+	}
+};
+// src/cognitive-cmds.ts
+/**
+* Builds editor URI (e.g. obsidian://open?path={path}) for terminal hyperlinks.
+* Modeled on qmd/src/cli/qmd.ts#L2660-L2675.
+*/
+function buildEditorUri(template, absPath, line = 1, col = 1) {
+	return template.replace("{path}", encodeURIComponent(absPath)).replace("{line}", String(line)).replace("{col}", String(col));
+}
+/**
+* OSC-8 terminal hyperlink format.
+*/
+function termLink(text, url, isTTY = !!process.stdout.isTTY) {
+	if (!isTTY) return text;
+	return `\x1b]8;;${url}\x07${text}\x1b]8;;\x07`;
+}
+async function searchCmd(vaultPath, query, options = {}) {
+	const absVault = resolve(vaultPath);
+	const config = loadConfig(absVault);
+	const limit = options.limit || 5;
+	let daemonInfo = getRunningDaemonInfo(absVault);
+	let searchResult;
+	if (daemonInfo) try {
+		searchResult = await (await fetch(`http://127.0.0.1:${daemonInfo.port}/api/search`, {
+			method: "POST",
+			headers: { "Content-Type": "application/json" },
+			body: JSON.stringify({
+				queries: [{
+					type: options.lex ? "lex" : "vec",
+					query
+				}],
+				limit
+			})
+		})).json();
+	} catch {
+		daemonInfo = null;
+	}
+	if (!daemonInfo) {
+		const bridge = new QmdBridge({
+			vaultPath: absVault,
+			config
+		});
+		try {
+			searchResult = await bridge.search({
+				queries: [{
+					type: options.lex ? "lex" : "vec",
+					query
+				}],
+				limit
+			});
+		} finally {
+			await bridge.close();
+		}
+	}
+	if (options.json) {
+		console.log(JSON.stringify(searchResult, null, 2));
+		return searchResult;
+	}
+	const hits = Array.isArray(searchResult) ? searchResult : searchResult.directHits || [];
+	if (hits.length === 0) {
+		console.log(`No results found for "${query}".`);
+		return hits;
+	}
+	console.log(`\n🔍 Found ${hits.length} note(s) for "${query}":\n`);
+	for (const hit of hits) {
+		const filePath = hit.displayPath || hit.file || "";
+		const fullPath = join(absVault, filePath);
+		const link = termLink(filePath, buildEditorUri(config.paths.editorUriTemplate, fullPath));
+		const title = hit.title || filePath;
+		const score = hit.score !== void 0 ? ` (score: ${(hit.score * 100).toFixed(1)}%)` : "";
+		console.log(`  • ${title}${score}`);
+		console.log(`    ${link}\n`);
+	}
+	return searchResult;
+}
+async function inquiryCmd(vaultPath, action, textOrId, options = {}) {
+	const absVault = resolve(vaultPath);
+	let daemonInfo = getRunningDaemonInfo(absVault);
+	let result;
+	const payload = { action };
+	if (action === "add") payload.question = textOrId;
+	if (action === "close" || action === "reopen") payload.id = textOrId;
+	if (daemonInfo) try {
+		result = await (await fetch(`http://127.0.0.1:${daemonInfo.port}/api/inquiries`, {
+			method: "POST",
+			headers: { "Content-Type": "application/json" },
+			body: JSON.stringify(payload)
+		})).json();
+	} catch {
+		daemonInfo = null;
+	}
+	if (!daemonInfo) result = await new VaultOps(absVault).manageInquiries(payload);
+	if (options.json) {
+		console.log(JSON.stringify(result, null, 2));
+		return result;
+	}
+	if (action === "list" && Array.isArray(result)) {
+		console.log(`\n🧠 Active Inquiry Tree (${result.length} questions):\n`);
+		for (const inq of result) {
+			const statusIcon = inq.status === "OPEN" ? "🟢" : "⚪";
+			console.log(`  ${statusIcon} [${inq.id || "#"}] ${inq.question}`);
+			if (inq.supportingNoteCount > 0) console.log(`     ↳ ${inq.supportingNoteCount} supporting proposition note(s)`);
+		}
+		console.log("");
+	} else console.log(`Inquiry updated:`, result);
+	return result;
+}
+async function scratchpadCmd(vaultPath, action, text, options = {}) {
+	const absVault = resolve(vaultPath);
+	const config = loadConfig(absVault);
+	const scratchFile = join(absVault, config.paths.scratchpadFile);
+	if (action === "add") {
+		if (!text) throw new Error("Text is required for scratchpad add.");
+		let entries = [];
+		if (existsSync(scratchFile)) entries = parseScratchpad(readFileSync(scratchFile, "utf-8"));
+		entries.push({
+			firstSeen: (/* @__PURE__ */ new Date()).toISOString().slice(0, 10),
+			claim: text.trim(),
+			hitCount: 1,
+			relatedEntities: [],
+			sources: ["cli"],
+			status: "DEFERRED"
+		});
+		writeFileSync(scratchFile, formatScratchpad(entries), "utf-8");
+		console.log(`Recorded note to ${config.paths.scratchpadFile}`);
+		return { added: text };
+	}
+	let daemonInfo = getRunningDaemonInfo(absVault);
+	let result;
+	const opAction = action === "gc" ? "gc" : "inspect";
+	if (daemonInfo) try {
+		result = await (await fetch(`http://127.0.0.1:${daemonInfo.port}/api/scratchpad`, {
+			method: "POST",
+			headers: { "Content-Type": "application/json" },
+			body: JSON.stringify({ action: opAction })
+		})).json();
+	} catch {
+		daemonInfo = null;
+	}
+	if (!daemonInfo) result = await new VaultOps(absVault).consolidateScratchpad({ action: opAction });
+	if (options.json) {
+		console.log(JSON.stringify(result, null, 2));
+		return result;
+	}
+	console.log(`\n⚡ Scratchpad Buffer (Total: ${result.activeCount}, Ready for Promotion: ${result.promotions.length}):`);
+	for (const p of result.promotions) console.log(`  ⭐ [PROMOTION READY] ${p.claim} (hits: ${p.hitCount}, sources: ${p.sources.join(", ")})`);
+	if (result.decayedArchivedCount) console.log(`  🗑️  Pruned & archived ${result.decayedArchivedCount} expired entries to .lernstoff/archive/decayed.jsonl`);
+	console.log("");
+	return result;
+}
+async function lintCmd(vaultPath, options = {}) {
+	const absVault = resolve(vaultPath);
+	let daemonInfo = getRunningDaemonInfo(absVault);
+	let result;
+	if (daemonInfo) try {
+		result = await (await fetch(`http://127.0.0.1:${daemonInfo.port}/api/lint`, {
+			method: "POST",
+			headers: { "Content-Type": "application/json" },
+			body: JSON.stringify({
+				checkOrphans: true,
+				checkContradictions: true,
+				checkSynthesisReady: true
+			})
+		})).json();
+	} catch {
+		daemonInfo = null;
+	}
+	if (!daemonInfo) result = await new VaultOps(absVault).lintWiki();
+	if (options.json) {
+		console.log(JSON.stringify(result, null, 2));
+		return result;
+	}
+	console.log(`\n🏛️  Socratic Health Audit:`);
+	console.log(`   Total Notes: ${result.summary.totalNotes}`);
+	console.log(`   Orphan Notes (in-degree 0): ${result.summary.orphanCount}`);
+	for (const o of result.orphans) console.log(`     ⚠️  Orphan: [[${o.title}]] (in: ${o.inDegree}, out: ${o.outDegree})`);
+	console.log(`   Contradictions: ${result.summary.contradictionCount}`);
+	for (const c of result.contradictions) console.log(`     ⚡ Latent Contradiction: [[${c.noteA}]] vs [[${c.noteB}]]`);
+	console.log(`   Synthesis Ready Inquiries: ${result.summary.synthesisReadyCount}`);
+	for (const s of result.synthesisReady) console.log(`     🌟 Ready: ${s.inquiryId} has ${s.supportingNoteCount} supporting notes -> ready for survey note!`);
+	console.log("");
+	return result;
+}
+// src/bin.ts
+function parseArgs(args) {
+	const flags = {};
+	const positional = [];
+	for (let i = 0; i < args.length; i++) {
+		const arg = args[i];
+		if (arg.startsWith("--")) {
+			const key = arg.slice(2);
+			if (i + 1 < args.length && !args[i + 1].startsWith("--")) {
+				flags[key] = args[i + 1];
+				i++;
+			} else flags[key] = true;
+		} else if (arg.startsWith("-")) flags[arg.slice(1)] = true;
+		else positional.push(arg);
+	}
+	return {
+		flags,
+		positional
+	};
+}
+async function main() {
+	const { flags, positional } = parseArgs(process.argv.slice(2));
+	const vaultPath = resolve(typeof flags.vault === "string" ? flags.vault : process.cwd());
+	const command = positional[0] || "help";
+	const subCommand = positional[1];
+	switch (command) {
+		case "init":
+			await initVault(vaultPath);
+			console.log(`✨ Initialized lernstoff-wiki in: ${vaultPath}`);
+			console.log(`   Created .lernstoff/config.json and starter templates.`);
+			break;
+		case "config": {
+			const action = subCommand || "list";
+			const key = positional[2];
+			const val = positional[3];
+			if (action === "path") console.log(getConfigPath(vaultPath));
+			else if (action === "get" && key) {
+				const value = getConfigValue(vaultPath, key);
+				console.log(typeof value === "object" ? JSON.stringify(value, null, 2) : value);
+			} else if (action === "set" && key && val !== void 0) {
+				let parsedVal = val;
+				if (val === "true") parsedVal = true;
+				else if (val === "false") parsedVal = false;
+				else if (!isNaN(Number(val))) parsedVal = Number(val);
+				setConfigValue(vaultPath, key, parsedVal);
+				console.log(`Updated ${key} = ${JSON.stringify(parsedVal)}`);
+				const daemonInfo = getRunningDaemonInfo(vaultPath);
+				if (daemonInfo) try {
+					await fetch(`http://127.0.0.1:${daemonInfo.port}/api/reload-config`, { method: "POST" });
+				} catch {}
+			} else if (action === "reset") {
+				const conf = resetConfigToDefaults(vaultPath, key);
+				console.log(`Reset configuration to defaults:`, conf);
+			} else {
+				const conf = loadConfig(vaultPath);
+				console.log(JSON.stringify(conf, null, 2));
+			}
+			break;
+		}
+		case "server": {
+			const action = subCommand || "status";
+			if (action === "start") {
+				if (flags.daemon !== void 0 || flags.d !== void 0) {
+					const existing = getRunningDaemonInfo(vaultPath);
+					if (existing) {
+						console.log(`Daemon already running on http://127.0.0.1:${existing.port} (PID ${existing.pid})`);
+						return;
+					}
+					const logPath = join(vaultPath, LERNSTOFF_DIR, "daemon.log");
+					const logFd = openSync(logPath, "a");
+					const child = spawn(process.execPath, [
+						process.argv[1] || "",
+						"server",
+						"start",
+						"--foreground",
+						"--vault",
+						vaultPath
+					], {
+						stdio: [
+							"ignore",
+							logFd,
+							logFd
+						],
+						detached: true,
+						cwd: vaultPath,
+						env: process.env
+					});
+					child.unref();
+					closeSync(logFd);
+					console.log(`🚀 Started lernstoff daemon in background (PID ${child.pid})`);
+					console.log(`   Logs: ${logPath}`);
+				} else {
+					const daemon = new DaemonServer({ vaultPath });
+					if (flags.port) daemon.config.server.port = Number(flags.port);
+					const port = await daemon.start();
+					console.log(`🧠 Lernstoff daemon running on http://127.0.0.1:${port} (PID ${process.pid})`);
+					const shutdown = async () => {
+						console.log("\nShutting down lernstoff daemon...");
+						await daemon.stop();
+						process.exit(0);
+					};
+					process.on("SIGINT", shutdown);
+					process.on("SIGTERM", shutdown);
+				}
+			} else if (action === "stop") {
+				const existing = getRunningDaemonInfo(vaultPath);
+				if (!existing) {
+					console.log(`No daemon running for vault: ${vaultPath}`);
+					return;
+				}
+				killDaemonProcess(existing.pid);
+				console.log(`🛑 Stopped daemon (PID ${existing.pid})`);
+			} else if (action === "restart") {
+				const existing = getRunningDaemonInfo(vaultPath);
+				if (existing) killDaemonProcess(existing.pid);
+				const port = await new DaemonServer({ vaultPath }).start();
+				console.log(`🔄 Restarted daemon on port ${port} (PID ${process.pid})`);
+			} else if (action === "status") {
+				const existing = getRunningDaemonInfo(vaultPath);
+				if (existing) console.log(`🟢 Daemon Running (PID ${existing.pid}, Port ${existing.port})`);
+				else console.log(`⚪ Daemon Stopped`);
+			} else if (action === "logs") {
+				const logPath = join(vaultPath, LERNSTOFF_DIR, "daemon.log");
+				if (existsSync(logPath)) {
+					const lines = readFileSync(logPath, "utf-8").split("\n").slice(-50).join("\n");
+					console.log(lines);
+				} else console.log(`No logs found at ${logPath}`);
+			}
+			break;
+		}
+		case "service": {
+			const action = subCommand || "status";
+			if (action === "install") {
+				const res = await ServiceManager.installService(vaultPath, process.argv[1]);
+				console.log(`✅ Installed OS boot auto-start service (${res.platform}): ${res.servicePath}`);
+			} else if (action === "uninstall") {
+				await ServiceManager.uninstallService(vaultPath);
+				console.log(`🗑️  Uninstalled OS boot auto-start service for: ${vaultPath}`);
+			} else {
+				const status = await ServiceManager.getServiceStatus(vaultPath);
+				console.log(`Service Status:`, status);
+			}
+			break;
+		}
+		case "mcp":
+			await runMcpStdio(vaultPath);
+			break;
+		case "search": {
+			const query = positional.slice(1).join(" ");
+			if (!query) {
+				console.error("Usage: lernstoff search <query>");
+				process.exit(1);
+			}
+			await searchCmd(vaultPath, query, {
+				lex: !!flags.lex,
+				vec: !!flags.vec,
+				limit: flags.limit ? Number(flags.limit) : 5,
+				json: !!flags.json
+			});
+			break;
+		}
+		case "inquiry": {
+			const action = subCommand || "list";
+			const textOrId = positional[2];
+			await inquiryCmd(vaultPath, action, textOrId, { json: !!flags.json });
+			break;
+		}
+		case "scratchpad":
+			await scratchpadCmd(vaultPath, subCommand || "list", positional.slice(2).join(" "), { json: !!flags.json });
+			break;
+		case "lint":
+			await lintCmd(vaultPath, { json: !!flags.json });
+			break;
+		case "skill":
+			if ((subCommand || "show") === "install") {
+				const target = flags.target || "all";
+				const skills = AgentInstaller.installSkill(target, vaultPath);
+				const mcps = AgentInstaller.installMcp(target, vaultPath);
+				console.log(`✅ Installed SKILL.md to:\n   ${skills.join("\n   ")}`);
+				console.log(`✅ Injected MCP configuration to:\n   ${mcps.join("\n   ")}`);
+			} else console.log(DEFAULT_SKILL_MD);
+			break;
+		case "doctor": {
+			const report = await AgentInstaller.runDoctor({
+				vaultPath,
+				pullModels: !!flags["pull-models"],
+				cleanup: !!flags.cleanup
+			});
+			console.log(`\n🩺 Lernstoff Doctor Report:`);
+			console.log(JSON.stringify(report, null, 2));
+			break;
+		}
+		case "plugin":
+			if ((subCommand || "install") === "install") {
+				const obsidianDir = join(vaultPath, ".obsidian");
+				const targetPluginDir = join(obsidianDir, "plugins", "lernstoff-wiki");
+				mkdirSync(targetPluginDir, { recursive: true });
+				const candidateDirs = [
+					join(import.meta.dirname, "../../obsidian-plugin/dist"),
+					join(import.meta.dirname, "../node_modules/@lernstoff/obsidian-plugin/dist"),
+					join(process.cwd(), "packages/obsidian-plugin/dist")
+				];
+				let foundDir = null;
+				for (const dir of candidateDirs) if (existsSync(join(dir, "main.js")) && existsSync(join(dir, "manifest.json"))) {
+					foundDir = dir;
+					break;
+				}
+				if (!foundDir) {
+					console.error("Could not find compiled plugin assets (main.js, manifest.json). Please run 'pnpm build' first.");
+					process.exit(1);
+				}
+				copyFileSync(join(foundDir, "main.js"), join(targetPluginDir, "main.js"));
+				copyFileSync(join(foundDir, "manifest.json"), join(targetPluginDir, "manifest.json"));
+				if (existsSync(join(foundDir, "styles.css"))) copyFileSync(join(foundDir, "styles.css"), join(targetPluginDir, "styles.css"));
+				const communityPluginsPath = join(obsidianDir, "community-plugins.json");
+				try {
+					let plugins = [];
+					if (existsSync(communityPluginsPath)) plugins = JSON.parse(readFileSync(communityPluginsPath, "utf-8"));
+					if (!plugins.includes("lernstoff-wiki")) {
+						plugins.push("lernstoff-wiki");
+						writeFileSync(communityPluginsPath, JSON.stringify(plugins, null, 2), "utf-8");
+					}
+				} catch {}
+				console.log(`✅ Successfully installed Obsidian plugin into:\n   ${targetPluginDir}`);
+				console.log(`   Copied: main.js, manifest.json, styles.css`);
+				console.log(`   Enabled in community-plugins.json`);
+			}
+			break;
+		default: console.log(`
+🧠 lernstoff-wiki (v0.1.0-beta.1) - Headless Cognitive Selective Note-Taking Engine
+
+Usage:
+  lernstoff init [--vault <path>]
+  lernstoff config <get|set|list|reset|path> [key] [value] [--vault <path>]
+  lernstoff server <start|stop|restart|status|logs> [--daemon|--foreground] [--port <n>]
+  lernstoff service <install|uninstall|status> [--vault <path>]
+  lernstoff mcp [--vault <path>]
+  lernstoff search <query> [--lex|--vec] [--limit <n>] [--json]
+  lernstoff inquiry <list|add|close|reopen> [textOrId] [--json]
+  lernstoff scratchpad <list|add|consolidate|gc> [text] [--json]
+  lernstoff lint [--vault <path>] [--json]
+  lernstoff skill <install|show> [--target <all|claude|cursor|antigravity>]
+  lernstoff plugin install [--vault <path>]
+  lernstoff doctor [--pull-models|--cleanup]
+`);
+	}
+}
+main().catch((err) => {
+	console.error("CLI Error:", err);
+	process.exit(1);
+});
+export {};
+
+//# sourceMappingURL=bin.mjs.map

package/dist/bin.mjs.map

@@ -0,0 +1 @@
+{"version":3,"file":"bin.mjs","names":[],"sources":["../src/daemon-pid.ts","../src/stdio-proxy.ts","../src/service-manager.ts","../src/agent-installer.ts","../src/cognitive-cmds.ts","../src/bin.ts"],"sourcesContent":["import { existsSync, readFileSync, unlinkSync } from \"node:fs\";\nimport { join, resolve } from \"node:path\";\nimport { execSync } from \"node:child_process\";\nimport { LERNSTOFF_DIR } from \"@lernstoff/core\";\n\n/**\n * Check if a process ID is currently running in the OS.\n */\nexport function isPidAlive(pid: number): boolean {\n  if (!Number.isInteger(pid) || pid <= 0) return false;\n  try {\n    process.kill(pid, 0);\n    return true;\n  } catch {\n    return false;\n  }\n}\n\n/**\n * Read the full command line of a process by PID across macOS, Linux, and Windows.\n */\nexport function readProcessCmdline(pid: number): string | null {\n  try {\n    if (process.platform === \"win32\") {\n      const output = execSync(`wmic process where ProcessId=${pid} get CommandLine /value`, {\n        stdio: [\"ignore\", \"pipe\", \"ignore\"],\n        timeout: 1000,\n      }).toString(\"utf-8\");\n      const match = output.match(/CommandLine=(.*)/i);\n      return match ? match[1]!.trim() : null;\n    } else {\n      const output = execSync(`ps -p ${pid} -o command=`, {\n        stdio: [\"ignore\", \"pipe\", \"ignore\"],\n        timeout: 1000,\n      }).toString(\"utf-8\");\n      return output.trim();\n    }\n  } catch {\n    return null;\n  }\n}\n\n/**\n * Verifies process identity to prevent false positives from recycled PIDs.\n * Modeled on qmd/src/cli/mcp-pid.ts#L74-L86.\n */\nexport function looksLikeLernstoffDaemon(cmdline: string): boolean {\n  const lower = cmdline.toLowerCase();\n  return (\n    lower.includes(\"lernstoff\") ||\n    lower.includes(\"daemon-server\") ||\n    lower.includes(\"@lernstoff/cli\") ||\n    lower.includes(\"lernstoff-wiki\")\n  );\n}\n\nexport interface RunningDaemonInfo {\n  pid: number;\n  port: number;\n}\n\n/**\n * Inspects <vault>/.lernstoff/daemon.pid and daemon.port to check if the daemon is alive.\n * If the process is dead or stale, cleans up the files and returns null.\n */\nexport function getRunningDaemonInfo(vaultPath: string): RunningDaemonInfo | null {\n  const resolved = resolve(vaultPath);\n  const lernstoffDir = join(resolved, LERNSTOFF_DIR);\n  const pidFile = join(lernstoffDir, \"daemon.pid\");\n  const portFile = join(lernstoffDir, \"daemon.port\");\n\n  if (!existsSync(pidFile)) {\n    return null;\n  }\n\n  let pid: number;\n  try {\n    pid = parseInt(readFileSync(pidFile, \"utf-8\").trim(), 10);\n  } catch {\n    return null;\n  }\n\n  if (!isPidAlive(pid)) {\n    // Stale PID file, clean up\n    try {\n      unlinkSync(pidFile);\n    } catch {}\n    try {\n      if (existsSync(portFile)) unlinkSync(portFile);\n    } catch {}\n    return null;\n  }\n\n  const cmdline = readProcessCmdline(pid);\n  if (cmdline && !looksLikeLernstoffDaemon(cmdline)) {\n    // Process ID was recycled by another unrelated process\n    try {\n      unlinkSync(pidFile);\n    } catch {}\n    try {\n      if (existsSync(portFile)) unlinkSync(portFile);\n    } catch {}\n    return null;\n  }\n\n  let port = 8188;\n  if (existsSync(portFile)) {\n    try {\n      port = parseInt(readFileSync(portFile, \"utf-8\").trim(), 10) || 8188;\n    } catch {}\n  }\n\n  return { pid, port };\n}\n\n/**\n * Gracefully kill a running daemon process.\n */\nexport function killDaemonProcess(pid: number, timeoutMs = 3000): boolean {\n  if (!isPidAlive(pid)) return true;\n\n  try {\n    process.kill(pid, \"SIGTERM\");\n  } catch {\n    return !isPidAlive(pid);\n  }\n\n  const start = Date.now();\n  while (Date.now() - start < timeoutMs) {\n    if (!isPidAlive(pid)) return true;\n    try {\n      execSync(\"sleep 0.05\");\n    } catch {}\n  }\n\n  // Force kill if SIGTERM didn't succeed\n  try {\n    process.kill(pid, \"SIGKILL\");\n  } catch {}\n\n  return !isPidAlive(pid);\n}\n","import { createInterface } from \"node:readline\";\nimport { StdioServerTransport } from \"@modelcontextprotocol/server/stdio\";\nimport { createLernstoffMcpServer } from \"@lernstoff/core\";\nimport { getRunningDaemonInfo } from \"./daemon-pid.js\";\n\n/**\n * Runs MCP over stdio.\n * If the Vault's background daemon is already running, proxies JSON-RPC over HTTP\n * with zero memory footprint; otherwise boots an in-process MCP server instance.\n */\nexport async function runMcpStdio(vaultPath: string): Promise<void> {\n  const daemonInfo = getRunningDaemonInfo(vaultPath);\n\n  if (daemonInfo) {\n    // Mode A: Stdio-to-HTTP Proxy (0 Memory Overhead)\n    const daemonUrl = `http://127.0.0.1:${daemonInfo.port}/mcp`;\n\n    const rl = createInterface({\n      input: process.stdin,\n      terminal: false,\n    });\n\n    rl.on(\"line\", async (line) => {\n      const trimmed = line.trim();\n      if (!trimmed) return;\n\n      try {\n        const res = await fetch(daemonUrl, {\n          method: \"POST\",\n          headers: {\n            \"Content-Type\": \"application/json\",\n            Accept: \"application/json, text/event-stream\",\n          },\n          body: trimmed,\n        });\n\n        const contentType = res.headers.get(\"content-type\") || \"\";\n        if (contentType.includes(\"json\")) {\n          const bodyText = await res.text();\n          if (bodyText) {\n            process.stdout.write(`${bodyText}\\n`);\n          }\n        } else {\n          // Streamable response\n          const reader = res.body?.getReader();\n          if (reader) {\n            while (true) {\n              const { done, value } = await reader.read();\n              if (done) break;\n              process.stdout.write(value);\n            }\n          }\n        }\n      } catch (err: any) {\n        const errorRpc = {\n          jsonrpc: \"2.0\",\n          id: null,\n          error: {\n            code: -32603,\n            message: `Daemon proxy error: ${err.message}`,\n          },\n        };\n        process.stdout.write(`${JSON.stringify(errorRpc)}\\n`);\n      }\n    });\n\n    return;\n  }\n\n  // Mode B: Direct in-process Stdio MCP Server\n  const server = createLernstoffMcpServer({ vaultPath });\n  const transport = new StdioServerTransport();\n  await server.connect(transport);\n}\n","import { existsSync, writeFileSync, unlinkSync, mkdirSync } from \"node:fs\";\nimport { join, resolve, basename } from \"node:path\";\nimport { homedir } from \"node:os\";\nimport { execSync } from \"node:child_process\";\nimport { VaultOps } from \"@lernstoff/core\";\nimport { getRunningDaemonInfo } from \"./daemon-pid.js\";\n\nexport interface ServiceStatus {\n  installed: boolean;\n  running: boolean;\n  servicePath?: string;\n  platform: string;\n  pid?: number;\n  port?: number;\n}\n\nexport class ServiceManager {\n  public static getServiceSlug(vaultPath: string): string {\n    const name = basename(resolve(vaultPath));\n    return VaultOps.slugify(name || \"default\");\n  }\n\n  public static getLaunchdPlistPath(vaultPath: string): string {\n    const slug = ServiceManager.getServiceSlug(vaultPath);\n    return join(homedir(), \"Library/LaunchAgents\", `ai.lernstoff.wiki.${slug}.plist`);\n  }\n\n  public static getSystemdServicePath(vaultPath: string): string {\n    const slug = ServiceManager.getServiceSlug(vaultPath);\n    return join(homedir(), \".config/systemd/user\", `lernstoff-wiki@${slug}.service`);\n  }\n\n  public static generateLaunchdPlist(vaultPath: string, cliPath: string): string {\n    const slug = ServiceManager.getServiceSlug(vaultPath);\n    const absVault = resolve(vaultPath);\n    const logPath = join(absVault, \".lernstoff\", \"daemon.log\");\n\n    return `<?xml version=\"1.0\" encoding=\"UTF-8\"?>\n<!DOCTYPE plist PUBLIC \"-//Apple//DTD PLIST 1.0//EN\" \"http://www.apple.com/DTDs/PropertyList-1.0.dtd\">\n<plist version=\"1.0\">\n<dict>\n  <key>Label</key>\n  <string>ai.lernstoff.wiki.${slug}</string>\n  <key>ProgramArguments</key>\n  <array>\n    <string>${process.execPath}</string>\n    <string>${cliPath}</string>\n    <string>server</string>\n    <string>start</string>\n    <string>--foreground</string>\n    <string>--vault</string>\n    <string>${absVault}</string>\n  </array>\n  <key>RunAtLoad</key>\n  <true/>\n  <key>KeepAlive</key>\n  <true/>\n  <key>StandardOutPath</key>\n  <string>${logPath}</string>\n  <key>StandardErrorPath</key>\n  <string>${logPath}</string>\n  <key>WorkingDirectory</key>\n  <string>${absVault}</string>\n</dict>\n</plist>\n`;\n  }\n\n  public static generateSystemdService(vaultPath: string, cliPath: string): string {\n    const slug = ServiceManager.getServiceSlug(vaultPath);\n    const absVault = resolve(vaultPath);\n    const logPath = join(absVault, \".lernstoff\", \"daemon.log\");\n\n    return `[Unit]\nDescription=Lernstoff Wiki Headless Cognitive Engine (${slug})\nAfter=network.target\n\n[Service]\nType=simple\nWorkingDirectory=${absVault}\nExecStart=${process.execPath} ${cliPath} server start --foreground --vault ${absVault}\nRestart=always\nRestartSec=5\nStandardOutput=append:${logPath}\nStandardError=append:${logPath}\n\n[Install]\nWantedBy=default.target\n`;\n  }\n\n  /**\n   * Install OS boot auto-start service for the target Vault.\n   */\n  public static async installService(\n    vaultPath: string,\n    cliPath = process.argv[1] || \"lernstoff\",\n  ): Promise<{ success: boolean; servicePath: string; platform: string }> {\n    const absVault = resolve(vaultPath);\n    const platform = process.platform;\n\n    if (platform === \"darwin\") {\n      const plistPath = ServiceManager.getLaunchdPlistPath(absVault);\n      mkdirSync(join(homedir(), \"Library/LaunchAgents\"), { recursive: true });\n      const plistXml = ServiceManager.generateLaunchdPlist(absVault, cliPath);\n      writeFileSync(plistPath, plistXml, \"utf-8\");\n\n      try {\n        execSync(`launchctl load \"${plistPath}\"`, { stdio: \"ignore\" });\n      } catch {\n        // May already be loaded or in dry-run\n      }\n\n      return { success: true, servicePath: plistPath, platform: \"darwin\" };\n    }\n\n    if (platform === \"linux\") {\n      const servicePath = ServiceManager.getSystemdServicePath(absVault);\n      mkdirSync(join(homedir(), \".config/systemd/user\"), { recursive: true });\n      const serviceUnit = ServiceManager.generateSystemdService(absVault, cliPath);\n      writeFileSync(servicePath, serviceUnit, \"utf-8\");\n\n      try {\n        execSync(\"systemctl --user daemon-reload\", { stdio: \"ignore\" });\n        execSync(`systemctl --user enable --now \"${basename(servicePath)}\"`, { stdio: \"ignore\" });\n      } catch {}\n\n      return { success: true, servicePath, platform: \"linux\" };\n    }\n\n    // Windows or other fallback\n    const fallbackPath = join(absVault, \".lernstoff\", \"autostart.cmd\");\n    writeFileSync(\n      fallbackPath,\n      `@echo off\\n\"${process.execPath}\" \"${cliPath}\" server start --foreground --vault \"${absVault}\"\\n`,\n      \"utf-8\",\n    );\n    return { success: true, servicePath: fallbackPath, platform: \"win32\" };\n  }\n\n  /**\n   * Uninstall and deregister the OS boot auto-start service.\n   */\n  public static async uninstallService(\n    vaultPath: string,\n  ): Promise<{ success: boolean; servicePath?: string }> {\n    const absVault = resolve(vaultPath);\n    const platform = process.platform;\n\n    if (platform === \"darwin\") {\n      const plistPath = ServiceManager.getLaunchdPlistPath(absVault);\n      if (existsSync(plistPath)) {\n        try {\n          execSync(`launchctl unload \"${plistPath}\"`, { stdio: \"ignore\" });\n        } catch {}\n        try {\n          unlinkSync(plistPath);\n        } catch {}\n        return { success: true, servicePath: plistPath };\n      }\n    } else if (platform === \"linux\") {\n      const servicePath = ServiceManager.getSystemdServicePath(absVault);\n      if (existsSync(servicePath)) {\n        try {\n          execSync(`systemctl --user stop \"${basename(servicePath)}\"`, { stdio: \"ignore\" });\n          execSync(`systemctl --user disable \"${basename(servicePath)}\"`, { stdio: \"ignore\" });\n        } catch {}\n        try {\n          unlinkSync(servicePath);\n        } catch {}\n        return { success: true, servicePath };\n      }\n    }\n\n    return { success: true };\n  }\n\n  /**\n   * Get service registration status and current running daemon info.\n   */\n  public static async getServiceStatus(vaultPath: string): Promise<ServiceStatus> {\n    const absVault = resolve(vaultPath);\n    const platform = process.platform;\n    let installed = false;\n    let servicePath: string | undefined;\n\n    if (platform === \"darwin\") {\n      servicePath = ServiceManager.getLaunchdPlistPath(absVault);\n      installed = existsSync(servicePath);\n    } else if (platform === \"linux\") {\n      servicePath = ServiceManager.getSystemdServicePath(absVault);\n      installed = existsSync(servicePath);\n    }\n\n    const daemonInfo = getRunningDaemonInfo(absVault);\n\n    return {\n      installed,\n      running: !!daemonInfo,\n      servicePath: installed ? servicePath : undefined,\n      platform,\n      pid: daemonInfo?.pid,\n      port: daemonInfo?.port,\n    };\n  }\n}\n","import { existsSync, readFileSync, writeFileSync, mkdirSync } from \"node:fs\";\nimport { join, resolve, dirname } from \"node:path\";\nimport { homedir } from \"node:os\";\nimport { QmdBridge, LERNSTOFF_DIR } from \"@lernstoff/core\";\nimport { getRunningDaemonInfo } from \"./daemon-pid.js\";\n\nexport const DEFAULT_SKILL_MD = `---\nname: lernstoff-wiki\ndescription: Headless Cognitive Selective Note-Taking Protocol for AI Agents and Obsidian. Use when reading documentation, analyzing papers, researching concepts, managing curiosity inquiry trees, verifying cognitive deltas, and creating evergreen proposition notes.\n---\n\n# lernstoff-wiki Cognitive Selective Note-Taking Protocol\n\nWhen pair-programming, exploring codebases, reading papers, or synthesizing architecture decisions, follow this 4-step selective note-taking protocol to avoid information hoarding (\"Collector's Fallacy\") and keep the Obsidian Vault high-signal.\n\n## Protocol Workflow\n1. Step 1: Probe Cognitive Delta (lernstoff_probe_delta) - NEVER write notes directly to disk.\n2. Step 2: Socratic 4-Question Defense (Q1: Delta, Q2: Belief update, Q3: >= 2 outbound links, Q4: Proposition-as-Title).\n3. Step 3: Crystallize Proposition Note (lernstoff_crystallize_note).\n4. Step 4: Fast Scratchpad Consolidation (lernstoff_consolidate_scratchpad).\n`;\n\nexport interface InstallAgentOptions {\n  target: \"all\" | \"claude\" | \"cursor\" | \"antigravity\";\n  vaultPath: string;\n}\n\nexport interface DoctorReport {\n  nodeVersion: string;\n  platform: string;\n  arch: string;\n  vaultPath: string;\n  vaultInitialized: boolean;\n  daemonRunning: boolean;\n  daemonPid?: number;\n  daemonPort?: number;\n  sqlitePresent: boolean;\n  configValid: boolean;\n  models: Record<string, string>;\n}\n\nexport class AgentInstaller {\n  public static getMcpConfig(vaultPath: string): { command: string; args: string[] } {\n    return {\n      command: \"lernstoff\",\n      args: [\"mcp\", \"--vault\", resolve(vaultPath)],\n    };\n  }\n\n  public static installSkill(\n    target: \"all\" | \"claude\" | \"cursor\" | \"antigravity\",\n    vaultPath: string,\n  ): string[] {\n    const absVault = resolve(vaultPath);\n    const installedPaths: string[] = [];\n\n    // Resolve SKILL.md template from repo if available, else fallback to embedded\n    let skillContent = DEFAULT_SKILL_MD;\n    const localSkill = join(absVault, \"skills/lernstoff-wiki/SKILL.md\");\n    if (existsSync(localSkill)) {\n      try {\n        skillContent = readFileSync(localSkill, \"utf-8\");\n      } catch {}\n    }\n\n    const targets: Record<string, string[]> = {\n      claude: [join(homedir(), \".claude/skills/lernstoff-wiki/SKILL.md\")],\n      antigravity: [join(homedir(), \".gemini/config/skills/lernstoff-wiki/SKILL.md\")],\n      cursor: [\n        join(absVault, \".cursor/skills/lernstoff-wiki/SKILL.md\"),\n        join(homedir(), \".cursor/skills/lernstoff-wiki/SKILL.md\"),\n      ],\n    };\n\n    const keys = target === \"all\" ? Object.keys(targets) : [target];\n    for (const key of keys) {\n      const paths = targets[key] || [];\n      for (const p of paths) {\n        try {\n          mkdirSync(dirname(p), { recursive: true });\n          writeFileSync(p, skillContent, \"utf-8\");\n          installedPaths.push(p);\n        } catch {}\n      }\n    }\n\n    return installedPaths;\n  }\n\n  public static installMcp(\n    target: \"all\" | \"claude\" | \"cursor\" | \"antigravity\",\n    vaultPath: string,\n  ): string[] {\n    const absVault = resolve(vaultPath);\n    const mcpEntry = AgentInstaller.getMcpConfig(absVault);\n    const configuredFiles: string[] = [];\n\n    const configFiles: Record<string, string[]> = {\n      claude: [join(homedir(), \".claude.json\"), join(absVault, \".mcp.json\")],\n      cursor: [join(absVault, \".cursor/mcp.json\"), join(homedir(), \".cursor/mcp.json\")],\n      antigravity: [join(homedir(), \".gemini/antigravity/mcp_config.json\")],\n    };\n\n    const keys = target === \"all\" ? Object.keys(configFiles) : [target];\n    for (const key of keys) {\n      const files = configFiles[key] || [];\n      for (const file of files) {\n        try {\n          mkdirSync(dirname(file), { recursive: true });\n          let json: any = {};\n          if (existsSync(file)) {\n            try {\n              json = JSON.parse(readFileSync(file, \"utf-8\"));\n            } catch {\n              json = {};\n            }\n          }\n\n          if (!json.mcpServers) json.mcpServers = {};\n          json.mcpServers[\"lernstoff\"] = mcpEntry;\n\n          writeFileSync(file, JSON.stringify(json, null, 2), \"utf-8\");\n          configuredFiles.push(file);\n        } catch {}\n      }\n    }\n\n    return configuredFiles;\n  }\n\n  public static async runDoctor(options: {\n    vaultPath: string;\n    pullModels?: boolean;\n    cleanup?: boolean;\n  }): Promise<DoctorReport> {\n    const absVault = resolve(options.vaultPath);\n    const lernstoffDir = join(absVault, LERNSTOFF_DIR);\n    const configFile = join(lernstoffDir, \"config.json\");\n    const sqliteFile = join(lernstoffDir, \"index.sqlite\");\n\n    const vaultInitialized = existsSync(configFile);\n    const sqlitePresent = existsSync(sqliteFile);\n    const daemonInfo = getRunningDaemonInfo(absVault);\n\n    let models: Record<string, string> = {};\n    if (vaultInitialized) {\n      try {\n        const conf = JSON.parse(readFileSync(configFile, \"utf-8\"));\n        models = conf.models || {};\n      } catch {}\n    }\n\n    if (options.cleanup && sqlitePresent) {\n      try {\n        const bridge = new QmdBridge({ vaultPath: absVault });\n        const store = await bridge.getStore();\n        // Trigger SQLite vacuum and cleanup if supported by store\n        if (typeof (store as any).cleanup === \"function\") {\n          await (store as any).cleanup();\n        }\n        await bridge.close();\n      } catch {}\n    }\n\n    if (options.pullModels) {\n      // In offline/test environments, verify model paths exist or trigger download\n    }\n\n    return {\n      nodeVersion: process.version,\n      platform: process.platform,\n      arch: process.arch,\n      vaultPath: absVault,\n      vaultInitialized,\n      daemonRunning: !!daemonInfo,\n      daemonPid: daemonInfo?.pid,\n      daemonPort: daemonInfo?.port,\n      sqlitePresent,\n      configValid: vaultInitialized,\n      models,\n    };\n  }\n}\n","import { resolve, join } from \"node:path\";\nimport { readFileSync, writeFileSync, existsSync } from \"node:fs\";\nimport {\n  VaultOps,\n  QmdBridge,\n  loadConfig,\n  parseScratchpad,\n  formatScratchpad,\n  type ScratchpadEntry,\n} from \"@lernstoff/core\";\nimport { getRunningDaemonInfo } from \"./daemon-pid.js\";\n\n/**\n * Builds editor URI (e.g. obsidian://open?path={path}) for terminal hyperlinks.\n * Modeled on qmd/src/cli/qmd.ts#L2660-L2675.\n */\nexport function buildEditorUri(template: string, absPath: string, line = 1, col = 1): string {\n  return template\n    .replace(\"{path}\", encodeURIComponent(absPath))\n    .replace(\"{line}\", String(line))\n    .replace(\"{col}\", String(col));\n}\n\n/**\n * OSC-8 terminal hyperlink format.\n */\nexport function termLink(\n  text: string,\n  url: string,\n  isTTY: boolean = !!process.stdout.isTTY,\n): string {\n  if (!isTTY) return text;\n  return `\\x1b]8;;${url}\\x07${text}\\x1b]8;;\\x07`;\n}\n\nexport async function searchCmd(\n  vaultPath: string,\n  query: string,\n  options: { lex?: boolean; vec?: boolean; ppr?: boolean; limit?: number; json?: boolean } = {},\n): Promise<any> {\n  const absVault = resolve(vaultPath);\n  const config = loadConfig(absVault);\n  const limit = options.limit || 5;\n\n  let daemonInfo = getRunningDaemonInfo(absVault);\n  let searchResult: any;\n\n  if (daemonInfo) {\n    try {\n      const res = await fetch(`http://127.0.0.1:${daemonInfo.port}/api/search`, {\n        method: \"POST\",\n        headers: { \"Content-Type\": \"application/json\" },\n        body: JSON.stringify({\n          queries: [{ type: options.lex ? \"lex\" : \"vec\", query }],\n          limit,\n        }),\n      });\n      searchResult = await res.json();\n    } catch {\n      daemonInfo = null;\n    }\n  }\n\n  if (!daemonInfo) {\n    const bridge = new QmdBridge({ vaultPath: absVault, config });\n    try {\n      searchResult = await bridge.search({\n        queries: [{ type: options.lex ? \"lex\" : \"vec\", query }],\n        limit,\n      });\n    } finally {\n      await bridge.close();\n    }\n  }\n\n  if (options.json) {\n    console.log(JSON.stringify(searchResult, null, 2));\n    return searchResult;\n  }\n\n  const hits = Array.isArray(searchResult) ? searchResult : searchResult.directHits || [];\n  if (hits.length === 0) {\n    console.log(`No results found for \"${query}\".`);\n    return hits;\n  }\n\n  console.log(`\\n🔍 Found ${hits.length} note(s) for \"${query}\":\\n`);\n  for (const hit of hits) {\n    const filePath = hit.displayPath || hit.file || \"\";\n    const fullPath = join(absVault, filePath);\n    const link = termLink(filePath, buildEditorUri(config.paths.editorUriTemplate, fullPath));\n    const title = hit.title || filePath;\n    const score = hit.score !== undefined ? ` (score: ${(hit.score * 100).toFixed(1)}%)` : \"\";\n    console.log(`  • ${title}${score}`);\n    console.log(`    ${link}\\n`);\n  }\n\n  return searchResult;\n}\n\nexport async function inquiryCmd(\n  vaultPath: string,\n  action: \"list\" | \"add\" | \"close\" | \"reopen\",\n  textOrId?: string,\n  options: { json?: boolean } = {},\n): Promise<any> {\n  const absVault = resolve(vaultPath);\n  let daemonInfo = getRunningDaemonInfo(absVault);\n  let result: any;\n\n  const payload: any = { action };\n  if (action === \"add\") payload.question = textOrId;\n  if (action === \"close\" || action === \"reopen\") payload.id = textOrId;\n\n  if (daemonInfo) {\n    try {\n      const res = await fetch(`http://127.0.0.1:${daemonInfo.port}/api/inquiries`, {\n        method: \"POST\",\n        headers: { \"Content-Type\": \"application/json\" },\n        body: JSON.stringify(payload),\n      });\n      result = await res.json();\n    } catch {\n      daemonInfo = null;\n    }\n  }\n\n  if (!daemonInfo) {\n    const ops = new VaultOps(absVault);\n    result = await ops.manageInquiries(payload);\n  }\n\n  if (options.json) {\n    console.log(JSON.stringify(result, null, 2));\n    return result;\n  }\n\n  if (action === \"list\" && Array.isArray(result)) {\n    console.log(`\\n🧠 Active Inquiry Tree (${result.length} questions):\\n`);\n    for (const inq of result) {\n      const statusIcon = inq.status === \"OPEN\" ? \"🟢\" : \"⚪\";\n      console.log(`  ${statusIcon} [${inq.id || \"#\"}] ${inq.question}`);\n      if (inq.supportingNoteCount > 0) {\n        console.log(`     ↳ ${inq.supportingNoteCount} supporting proposition note(s)`);\n      }\n    }\n    console.log(\"\");\n  } else {\n    console.log(`Inquiry updated:`, result);\n  }\n\n  return result;\n}\n\nexport async function scratchpadCmd(\n  vaultPath: string,\n  action: \"list\" | \"add\" | \"consolidate\" | \"gc\",\n  text?: string,\n  options: { json?: boolean } = {},\n): Promise<any> {\n  const absVault = resolve(vaultPath);\n  const config = loadConfig(absVault);\n  const scratchFile = join(absVault, config.paths.scratchpadFile);\n\n  if (action === \"add\") {\n    if (!text) throw new Error(\"Text is required for scratchpad add.\");\n    let entries: ScratchpadEntry[] = [];\n    if (existsSync(scratchFile)) {\n      entries = parseScratchpad(readFileSync(scratchFile, \"utf-8\"));\n    }\n    entries.push({\n      firstSeen: new Date().toISOString().slice(0, 10),\n      claim: text.trim(),\n      hitCount: 1,\n      relatedEntities: [],\n      sources: [\"cli\"],\n      status: \"DEFERRED\",\n    });\n    writeFileSync(scratchFile, formatScratchpad(entries), \"utf-8\");\n    console.log(`Recorded note to ${config.paths.scratchpadFile}`);\n    return { added: text };\n  }\n\n  let daemonInfo = getRunningDaemonInfo(absVault);\n  let result: any;\n  const opAction = action === \"gc\" ? \"gc\" : \"inspect\";\n\n  if (daemonInfo) {\n    try {\n      const res = await fetch(`http://127.0.0.1:${daemonInfo.port}/api/scratchpad`, {\n        method: \"POST\",\n        headers: { \"Content-Type\": \"application/json\" },\n        body: JSON.stringify({ action: opAction }),\n      });\n      result = await res.json();\n    } catch {\n      daemonInfo = null;\n    }\n  }\n\n  if (!daemonInfo) {\n    const ops = new VaultOps(absVault);\n    result = await ops.consolidateScratchpad({ action: opAction });\n  }\n\n  if (options.json) {\n    console.log(JSON.stringify(result, null, 2));\n    return result;\n  }\n\n  console.log(\n    `\\n⚡ Scratchpad Buffer (Total: ${result.activeCount}, Ready for Promotion: ${result.promotions.length}):`,\n  );\n  for (const p of result.promotions) {\n    console.log(\n      `  ⭐ [PROMOTION READY] ${p.claim} (hits: ${p.hitCount}, sources: ${p.sources.join(\", \")})`,\n    );\n  }\n  if (result.decayedArchivedCount) {\n    console.log(\n      `  🗑️  Pruned & archived ${result.decayedArchivedCount} expired entries to .lernstoff/archive/decayed.jsonl`,\n    );\n  }\n  console.log(\"\");\n\n  return result;\n}\n\nexport async function lintCmd(vaultPath: string, options: { json?: boolean } = {}): Promise<any> {\n  const absVault = resolve(vaultPath);\n  let daemonInfo = getRunningDaemonInfo(absVault);\n  let result: any;\n\n  if (daemonInfo) {\n    try {\n      const res = await fetch(`http://127.0.0.1:${daemonInfo.port}/api/lint`, {\n        method: \"POST\",\n        headers: { \"Content-Type\": \"application/json\" },\n        body: JSON.stringify({\n          checkOrphans: true,\n          checkContradictions: true,\n          checkSynthesisReady: true,\n        }),\n      });\n      result = await res.json();\n    } catch {\n      daemonInfo = null;\n    }\n  }\n\n  if (!daemonInfo) {\n    const ops = new VaultOps(absVault);\n    result = await ops.lintWiki();\n  }\n\n  if (options.json) {\n    console.log(JSON.stringify(result, null, 2));\n    return result;\n  }\n\n  console.log(`\\n🏛️  Socratic Health Audit:`);\n  console.log(`   Total Notes: ${result.summary.totalNotes}`);\n  console.log(`   Orphan Notes (in-degree 0): ${result.summary.orphanCount}`);\n  for (const o of result.orphans) {\n    console.log(`     ⚠️  Orphan: [[${o.title}]] (in: ${o.inDegree}, out: ${o.outDegree})`);\n  }\n\n  console.log(`   Contradictions: ${result.summary.contradictionCount}`);\n  for (const c of result.contradictions) {\n    console.log(`     ⚡ Latent Contradiction: [[${c.noteA}]] vs [[${c.noteB}]]`);\n  }\n\n  console.log(`   Synthesis Ready Inquiries: ${result.summary.synthesisReadyCount}`);\n  for (const s of result.synthesisReady) {\n    console.log(\n      `     🌟 Ready: ${s.inquiryId} has ${s.supportingNoteCount} supporting notes -> ready for survey note!`,\n    );\n  }\n  console.log(\"\");\n\n  return result;\n}\n","#!/usr/bin/env node\nimport {\n  existsSync,\n  readFileSync,\n  writeFileSync,\n  mkdirSync,\n  copyFileSync,\n  openSync,\n  closeSync,\n} from \"node:fs\";\nimport { resolve, join } from \"node:path\";\nimport { spawn } from \"node:child_process\";\nimport {\n  initVault,\n  loadConfig,\n  getConfigValue,\n  setConfigValue,\n  resetConfigToDefaults,\n  getConfigPath,\n  DaemonServer,\n  LERNSTOFF_DIR,\n} from \"@lernstoff/core\";\nimport { getRunningDaemonInfo, killDaemonProcess } from \"./daemon-pid.js\";\nimport { runMcpStdio } from \"./stdio-proxy.js\";\nimport { ServiceManager } from \"./service-manager.js\";\nimport { AgentInstaller, DEFAULT_SKILL_MD } from \"./agent-installer.js\";\nimport { searchCmd, inquiryCmd, scratchpadCmd, lintCmd } from \"./cognitive-cmds.js\";\n\n// Minimal helper to parse flags and arguments\nfunction parseArgs(args: string[]) {\n  const flags: Record<string, string | boolean> = {};\n  const positional: string[] = [];\n\n  for (let i = 0; i < args.length; i++) {\n    const arg = args[i]!;\n    if (arg.startsWith(\"--\")) {\n      const key = arg.slice(2);\n      if (i + 1 < args.length && !args[i + 1]!.startsWith(\"--\")) {\n        flags[key] = args[i + 1]!;\n        i++;\n      } else {\n        flags[key] = true;\n      }\n    } else if (arg.startsWith(\"-\")) {\n      flags[arg.slice(1)] = true;\n    } else {\n      positional.push(arg);\n    }\n  }\n\n  return { flags, positional };\n}\n\nasync function main() {\n  const rawArgs = process.argv.slice(2);\n  const { flags, positional } = parseArgs(rawArgs);\n\n  const vaultPath = resolve(typeof flags.vault === \"string\" ? flags.vault : process.cwd());\n  const command = positional[0] || \"help\";\n  const subCommand = positional[1];\n\n  switch (command) {\n    case \"init\": {\n      await initVault(vaultPath);\n      console.log(`✨ Initialized lernstoff-wiki in: ${vaultPath}`);\n      console.log(`   Created .lernstoff/config.json and starter templates.`);\n      break;\n    }\n\n    case \"config\": {\n      const action = subCommand || \"list\";\n      const key = positional[2];\n      const val = positional[3];\n\n      if (action === \"path\") {\n        console.log(getConfigPath(vaultPath));\n      } else if (action === \"get\" && key) {\n        const value = getConfigValue(vaultPath, key);\n        console.log(typeof value === \"object\" ? JSON.stringify(value, null, 2) : value);\n      } else if (action === \"set\" && key && val !== undefined) {\n        let parsedVal: any = val;\n        if (val === \"true\") parsedVal = true;\n        else if (val === \"false\") parsedVal = false;\n        else if (!isNaN(Number(val))) parsedVal = Number(val);\n\n        setConfigValue(vaultPath, key, parsedVal);\n        console.log(`Updated ${key} = ${JSON.stringify(parsedVal)}`);\n\n        // Notify daemon if running\n        const daemonInfo = getRunningDaemonInfo(vaultPath);\n        if (daemonInfo) {\n          try {\n            await fetch(`http://127.0.0.1:${daemonInfo.port}/api/reload-config`, {\n              method: \"POST\",\n            });\n          } catch {}\n        }\n      } else if (action === \"reset\") {\n        const conf = resetConfigToDefaults(vaultPath, key);\n        console.log(`Reset configuration to defaults:`, conf);\n      } else {\n        const conf = loadConfig(vaultPath);\n        console.log(JSON.stringify(conf, null, 2));\n      }\n      break;\n    }\n\n    case \"server\": {\n      const action = subCommand || \"status\";\n\n      if (action === \"start\") {\n        const isDaemon = flags.daemon !== undefined || flags.d !== undefined;\n\n        if (isDaemon) {\n          const existing = getRunningDaemonInfo(vaultPath);\n          if (existing) {\n            console.log(\n              `Daemon already running on http://127.0.0.1:${existing.port} (PID ${existing.pid})`,\n            );\n            return;\n          }\n\n          const logPath = join(vaultPath, LERNSTOFF_DIR, \"daemon.log\");\n          const logFd = openSync(logPath, \"a\");\n\n          const child = spawn(\n            process.execPath,\n            [process.argv[1] || \"\", \"server\", \"start\", \"--foreground\", \"--vault\", vaultPath],\n            {\n              stdio: [\"ignore\", logFd, logFd],\n              detached: true,\n              cwd: vaultPath,\n              env: process.env,\n            },\n          );\n          child.unref();\n          closeSync(logFd);\n\n          console.log(`🚀 Started lernstoff daemon in background (PID ${child.pid})`);\n          console.log(`   Logs: ${logPath}`);\n        } else {\n          // Foreground server mode\n          const daemon = new DaemonServer({ vaultPath });\n          if (flags.port) {\n            daemon.config.server.port = Number(flags.port);\n          }\n          const port = await daemon.start();\n          console.log(\n            `🧠 Lernstoff daemon running on http://127.0.0.1:${port} (PID ${process.pid})`,\n          );\n\n          const shutdown = async () => {\n            console.log(\"\\nShutting down lernstoff daemon...\");\n            await daemon.stop();\n            process.exit(0);\n          };\n\n          process.on(\"SIGINT\", shutdown);\n          process.on(\"SIGTERM\", shutdown);\n        }\n      } else if (action === \"stop\") {\n        const existing = getRunningDaemonInfo(vaultPath);\n        if (!existing) {\n          console.log(`No daemon running for vault: ${vaultPath}`);\n          return;\n        }\n        killDaemonProcess(existing.pid);\n        console.log(`🛑 Stopped daemon (PID ${existing.pid})`);\n      } else if (action === \"restart\") {\n        const existing = getRunningDaemonInfo(vaultPath);\n        if (existing) {\n          killDaemonProcess(existing.pid);\n        }\n        const daemon = new DaemonServer({ vaultPath });\n        const port = await daemon.start();\n        console.log(`🔄 Restarted daemon on port ${port} (PID ${process.pid})`);\n      } else if (action === \"status\") {\n        const existing = getRunningDaemonInfo(vaultPath);\n        if (existing) {\n          console.log(`🟢 Daemon Running (PID ${existing.pid}, Port ${existing.port})`);\n        } else {\n          console.log(`⚪ Daemon Stopped`);\n        }\n      } else if (action === \"logs\") {\n        const logPath = join(vaultPath, LERNSTOFF_DIR, \"daemon.log\");\n        if (existsSync(logPath)) {\n          const lines = readFileSync(logPath, \"utf-8\").split(\"\\n\").slice(-50).join(\"\\n\");\n          console.log(lines);\n        } else {\n          console.log(`No logs found at ${logPath}`);\n        }\n      }\n      break;\n    }\n\n    case \"service\": {\n      const action = subCommand || \"status\";\n      if (action === \"install\") {\n        const res = await ServiceManager.installService(vaultPath, process.argv[1]);\n        console.log(\n          `✅ Installed OS boot auto-start service (${res.platform}): ${res.servicePath}`,\n        );\n      } else if (action === \"uninstall\") {\n        await ServiceManager.uninstallService(vaultPath);\n        console.log(`🗑️  Uninstalled OS boot auto-start service for: ${vaultPath}`);\n      } else {\n        const status = await ServiceManager.getServiceStatus(vaultPath);\n        console.log(`Service Status:`, status);\n      }\n      break;\n    }\n\n    case \"mcp\": {\n      await runMcpStdio(vaultPath);\n      break;\n    }\n\n    case \"search\": {\n      const query = positional.slice(1).join(\" \");\n      if (!query) {\n        console.error(\"Usage: lernstoff search <query>\");\n        process.exit(1);\n      }\n      await searchCmd(vaultPath, query, {\n        lex: !!flags.lex,\n        vec: !!flags.vec,\n        limit: flags.limit ? Number(flags.limit) : 5,\n        json: !!flags.json,\n      });\n      break;\n    }\n\n    case \"inquiry\": {\n      const action = (subCommand as any) || \"list\";\n      const textOrId = positional[2];\n      await inquiryCmd(vaultPath, action, textOrId, { json: !!flags.json });\n      break;\n    }\n\n    case \"scratchpad\": {\n      const action = (subCommand as any) || \"list\";\n      const text = positional.slice(2).join(\" \");\n      await scratchpadCmd(vaultPath, action, text, { json: !!flags.json });\n      break;\n    }\n\n    case \"lint\": {\n      await lintCmd(vaultPath, { json: !!flags.json });\n      break;\n    }\n\n    case \"skill\": {\n      const action = subCommand || \"show\";\n      if (action === \"install\") {\n        const target = (flags.target as any) || \"all\";\n        const skills = AgentInstaller.installSkill(target, vaultPath);\n        const mcps = AgentInstaller.installMcp(target, vaultPath);\n        console.log(`✅ Installed SKILL.md to:\\n   ${skills.join(\"\\n   \")}`);\n        console.log(`✅ Injected MCP configuration to:\\n   ${mcps.join(\"\\n   \")}`);\n      } else {\n        console.log(DEFAULT_SKILL_MD);\n      }\n      break;\n    }\n\n    case \"doctor\": {\n      const report = await AgentInstaller.runDoctor({\n        vaultPath,\n        pullModels: !!flags[\"pull-models\"],\n        cleanup: !!flags.cleanup,\n      });\n      console.log(`\\n🩺 Lernstoff Doctor Report:`);\n      console.log(JSON.stringify(report, null, 2));\n      break;\n    }\n\n    case \"plugin\": {\n      const action = subCommand || \"install\";\n      if (action === \"install\") {\n        const obsidianDir = join(vaultPath, \".obsidian\");\n        const targetPluginDir = join(obsidianDir, \"plugins\", \"lernstoff-wiki\");\n        mkdirSync(targetPluginDir, { recursive: true });\n\n        // Look for plugin assets in known locations\n        const candidateDirs = [\n          join(import.meta.dirname, \"../../obsidian-plugin/dist\"),\n          join(import.meta.dirname, \"../node_modules/@lernstoff/obsidian-plugin/dist\"),\n          join(process.cwd(), \"packages/obsidian-plugin/dist\"),\n        ];\n        let foundDir: string | null = null;\n        for (const dir of candidateDirs) {\n          if (existsSync(join(dir, \"main.js\")) && existsSync(join(dir, \"manifest.json\"))) {\n            foundDir = dir;\n            break;\n          }\n        }\n\n        if (!foundDir) {\n          console.error(\n            \"Could not find compiled plugin assets (main.js, manifest.json). Please run 'pnpm build' first.\",\n          );\n          process.exit(1);\n        }\n\n        copyFileSync(join(foundDir, \"main.js\"), join(targetPluginDir, \"main.js\"));\n        copyFileSync(join(foundDir, \"manifest.json\"), join(targetPluginDir, \"manifest.json\"));\n        if (existsSync(join(foundDir, \"styles.css\"))) {\n          copyFileSync(join(foundDir, \"styles.css\"), join(targetPluginDir, \"styles.css\"));\n        }\n\n        // Enable in community-plugins.json if it exists\n        const communityPluginsPath = join(obsidianDir, \"community-plugins.json\");\n        try {\n          let plugins: string[] = [];\n          if (existsSync(communityPluginsPath)) {\n            plugins = JSON.parse(readFileSync(communityPluginsPath, \"utf-8\"));\n          }\n          if (!plugins.includes(\"lernstoff-wiki\")) {\n            plugins.push(\"lernstoff-wiki\");\n            writeFileSync(communityPluginsPath, JSON.stringify(plugins, null, 2), \"utf-8\");\n          }\n        } catch {}\n\n        console.log(`✅ Successfully installed Obsidian plugin into:\\n   ${targetPluginDir}`);\n        console.log(`   Copied: main.js, manifest.json, styles.css`);\n        console.log(`   Enabled in community-plugins.json`);\n      }\n      break;\n    }\n\n    default: {\n      console.log(`\n🧠 lernstoff-wiki (v0.1.0-beta.1) - Headless Cognitive Selective Note-Taking Engine\n\nUsage:\n  lernstoff init [--vault <path>]\n  lernstoff config <get|set|list|reset|path> [key] [value] [--vault <path>]\n  lernstoff server <start|stop|restart|status|logs> [--daemon|--foreground] [--port <n>]\n  lernstoff service <install|uninstall|status> [--vault <path>]\n  lernstoff mcp [--vault <path>]\n  lernstoff search <query> [--lex|--vec] [--limit <n>] [--json]\n  lernstoff inquiry <list|add|close|reopen> [textOrId] [--json]\n  lernstoff scratchpad <list|add|consolidate|gc> [text] [--json]\n  lernstoff lint [--vault <path>] [--json]\n  lernstoff skill <install|show> [--target <all|claude|cursor|antigravity>]\n  lernstoff plugin install [--vault <path>]\n  lernstoff doctor [--pull-models|--cleanup]\n`);\n      break;\n    }\n  }\n}\n\nmain().catch((err) => {\n  console.error(\"CLI Error:\", err);\n  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package/package.json

@@ -1,6 +1,37 @@
 {
   "name": "@lernstoff/cli",
-  "version": "0.0.0-stage",
-  "stub": true,
-  "description": "Temporary package placeholder for staged publishing"
+  "version": "0.1.0-beta.1",
+  "description": "Headless CLI and daemon manager for Lernstoff cognitive note-taking engine",
+  "homepage": "https://github.com/JsonLee12138/lernstoff-wiki#readme",
+  "license": "MIT",
+  "repository": {
+    "type": "git",
+    "url": "https://github.com/JsonLee12138/lernstoff-wiki.git",
+    "directory": "packages/cli"
+  },
+  "bin": {
+    "lernstoff": "./dist/bin.mjs"
+  },
+  "files": [
+    "dist",
+    "README.md",
+    "LICENSE"
+  ],
+  "type": "module",
+  "main": "./dist/bin.mjs",
+  "publishConfig": {
+    "access": "public"
+  },
+  "dependencies": {
+    "@modelcontextprotocol/server": "^2.4.0",
+    "zod": "^4.6.7",
+    "@lernstoff/core": "0.1.0-beta.1"
+  },
+  "devDependencies": {
+    "@types/node": "^22.13.0"
+  },
+  "scripts": {
+    "build": "tsdown",
+    "test": "vp test"
+  }
 }

package/README.md

@@ -1,3 +0,0 @@
-# Temporary Holding Version
-
-This version is a temporary placeholder for this package. An operational version to replace this has been submitted for review and is awaiting a staged release.