symbiote-cli 0.1.0

package/dist/src/hooks/types.js

@@ -0,0 +1,28 @@
+export function readStdinPayload() {
+    return new Promise((resolve, reject) => {
+        let data = '';
+        process.stdin.setEncoding('utf-8');
+        process.stdin.on('data', (chunk) => {
+            data += chunk;
+        });
+        process.stdin.on('end', () => {
+            try {
+                resolve(JSON.parse(data));
+            }
+            catch (err) {
+                reject(new Error(`Failed to parse hook payload: ${err}`));
+            }
+        });
+        process.stdin.on('error', reject);
+    });
+}
+export function writeResponse(response) {
+    process.stdout.write(JSON.stringify(response) + '\n');
+}
+import { createEvent } from '#events/types.js';
+import { sendEvent } from '#events/ipc.js';
+export function fireHookEvent(type, data, port) {
+    const event = createEvent(type, data);
+    return sendEvent(event, port);
+}
+//# sourceMappingURL=types.js.map

package/dist/src/hooks/types.js.map

@@ -0,0 +1 @@
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package/dist/src/index.d.ts

@@ -0,0 +1,16 @@
+export { createDatabase, type SymbioteDB } from '#storage/db.js';
+export { Repository, type NodeRecord, type EdgeRecord, type FileRecord, } from '#storage/repository.js';
+export { Scanner, type ScanOptions, type ScanResult } from '#core/scanner.js';
+export { GraphQuery, type FileContext, type ProjectOverview } from '#core/graph.js';
+export { parseFile, type ParseResult } from '#core/parser.js';
+export { GraphAlgorithms, type AlgorithmResults } from '#core/algorithms.js';
+export { detectLanguage, getGrammar, SUPPORTED_LANGUAGES } from '#core/languages.js';
+export { walkFiles, hashFileContent } from '#utils/files.js';
+export { ensureBrainDir, ensureSymbioteHome, getBrainDbPath, BRAIN_DIR, SYMBIOTE_HOME, } from '#utils/config.js';
+export { DnaStorage, DnaEngine, EmbeddingModel, cosineSimilarity, parseFrontmatter, serializeEntry, DNA_CATEGORIES, DNA_STATUSES, EMBEDDING_DIM, type DnaCategory, type DnaStatus, type DnaSource, type DnaFrontmatter, type DnaEntry, type DnaIndex, type DnaIndexEntry, type ListOptions, type SimilarMatch, } from '#dna/index.js';
+export { IntentStore, parseIntentFrontmatter, serializeIntentEntry, type IntentEntry, type IntentFrontmatter, type IntentType, type IntentStatus, type ListIntentOptions, HealthEngine, type HealthReport, type HealthSnapshot, type ConstraintViolation, type DescriptiveConstraint, type CircularDep, type DeadCodeEntry, type CouplingHotspot, type CategoryScore, } from '#brain/index.js';
+export { EmbeddingService } from '#core/embeddings.js';
+export { HybridSearch, type SearchResult, type SearchOptions } from '#core/search.js';
+export { createMcpServer, createServerContext, type ServerContext, type ServerContextOptions, } from '#mcp/index.js';
+export declare const VERSION = "0.1.0";
+//# sourceMappingURL=index.d.ts.map

package/dist/src/index.d.ts.map

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package/dist/src/index.js

@@ -0,0 +1,16 @@
+export { createDatabase } from '#storage/db.js';
+export { Repository, } from '#storage/repository.js';
+export { Scanner } from '#core/scanner.js';
+export { GraphQuery } from '#core/graph.js';
+export { parseFile } from '#core/parser.js';
+export { GraphAlgorithms } from '#core/algorithms.js';
+export { detectLanguage, getGrammar, SUPPORTED_LANGUAGES } from '#core/languages.js';
+export { walkFiles, hashFileContent } from '#utils/files.js';
+export { ensureBrainDir, ensureSymbioteHome, getBrainDbPath, BRAIN_DIR, SYMBIOTE_HOME, } from '#utils/config.js';
+export { DnaStorage, DnaEngine, EmbeddingModel, cosineSimilarity, parseFrontmatter, serializeEntry, DNA_CATEGORIES, DNA_STATUSES, EMBEDDING_DIM, } from '#dna/index.js';
+export { IntentStore, parseIntentFrontmatter, serializeIntentEntry, HealthEngine, } from '#brain/index.js';
+export { EmbeddingService } from '#core/embeddings.js';
+export { HybridSearch } from '#core/search.js';
+export { createMcpServer, createServerContext, } from '#mcp/index.js';
+export const VERSION = '0.1.0';
+//# sourceMappingURL=index.js.map

package/dist/src/index.js.map

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package/dist/src/init/agent-connector.d.ts

@@ -0,0 +1,43 @@
+export interface AgentInfo {
+    name: string;
+    id: string;
+    installed: boolean;
+    configPath: string;
+    configType: 'cli-command' | 'json-file';
+    configKey: 'mcpServers' | 'mcp';
+}
+export declare function detectInstalledAgents(): AgentInfo[];
+export declare function connectAgent(agent: AgentInfo): {
+    success: boolean;
+    message: string;
+};
+export declare function isBonded(agent: AgentInfo): boolean;
+export declare function connectWithHooks(agent: AgentInfo): {
+    mcp: {
+        success: boolean;
+        message: string;
+    };
+    hooks: {
+        success: boolean;
+        message: string;
+    };
+};
+export declare function disconnectWithHooks(agent: AgentInfo): {
+    mcp: {
+        success: boolean;
+        message: string;
+    };
+    hooks: {
+        success: boolean;
+        message: string;
+    };
+};
+export declare function ensureClaudeHooks(): {
+    success: boolean;
+    message: string;
+};
+export declare function disconnectAgent(agent: AgentInfo): {
+    success: boolean;
+    message: string;
+};
+//# sourceMappingURL=agent-connector.d.ts.map

package/dist/src/init/agent-connector.d.ts.map

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package/dist/src/init/agent-connector.js

@@ -0,0 +1,338 @@
+import fs from 'node:fs';
+import path from 'node:path';
+import { execSync } from 'node:child_process';
+import { homedir } from 'node:os';
+import { getProjectPort } from '#utils/config.js';
+const CLAUDE_SETTINGS_PATH = path.join(homedir(), '.claude', 'settings.json');
+const CLAUDE_HOOKS_DIR = path.join(homedir(), '.claude', 'hooks', 'symbiote');
+const AGENTS = [
+    {
+        name: 'Claude Code',
+        id: 'claude-code',
+        configPath: '',
+        configType: 'cli-command',
+        configKey: 'mcpServers',
+    },
+    {
+        name: 'Cursor',
+        id: 'cursor',
+        configPath: path.join(homedir(), '.cursor', 'mcp.json'),
+        configType: 'json-file',
+        configKey: 'mcpServers',
+    },
+    {
+        name: 'Windsurf',
+        id: 'windsurf',
+        configPath: path.join(homedir(), '.windsurf', 'mcp.json'),
+        configType: 'json-file',
+        configKey: 'mcpServers',
+    },
+    {
+        name: 'Copilot',
+        id: 'copilot',
+        configPath: path.join(homedir(), '.github', 'copilot', 'mcp.json'),
+        configType: 'json-file',
+        configKey: 'mcpServers',
+    },
+    {
+        name: 'OpenCode',
+        id: 'opencode',
+        configPath: path.join(homedir(), '.config', 'opencode', '.opencode.json'),
+        configType: 'json-file',
+        configKey: 'mcpServers',
+    },
+];
+export function detectInstalledAgents() {
+    return AGENTS.map((agent) => ({
+        ...agent,
+        installed: isAgentInstalled(agent),
+    }));
+}
+function isAgentInstalled(agent) {
+    if (agent.id === 'claude-code') {
+        try {
+            execSync('which claude', { stdio: 'ignore' });
+            return true;
+        }
+        catch {
+            return false;
+        }
+    }
+    if (agent.configType === 'json-file') {
+        const dir = path.dirname(agent.configPath);
+        return fs.existsSync(dir);
+    }
+    return false;
+}
+export function connectAgent(agent) {
+    try {
+        if (agent.id === 'claude-code') {
+            try {
+                execSync('claude mcp remove symbiote', { stdio: 'ignore' });
+            }
+            catch {
+                // not registered yet
+            }
+            execSync('claude mcp add symbiote -- npx -y symbiote-cli mcp', { stdio: 'ignore' });
+            return {
+                success: true,
+                message: 'MCP server added to Claude Code (stdio)',
+            };
+        }
+        if (agent.configType === 'json-file') {
+            return writeJsonMcpConfig(agent);
+        }
+        return {
+            success: false,
+            message: 'Unknown agent type',
+        };
+    }
+    catch (err) {
+        return {
+            success: false,
+            message: err instanceof Error ? err.message : 'Unknown error',
+        };
+    }
+}
+function writeJsonMcpConfig(agent) {
+    const configPath = agent.configPath;
+    const dir = path.dirname(configPath);
+    if (!fs.existsSync(dir)) {
+        fs.mkdirSync(dir, { recursive: true });
+    }
+    let config = {};
+    if (fs.existsSync(configPath)) {
+        try {
+            config = JSON.parse(fs.readFileSync(configPath, 'utf-8'));
+        }
+        catch {
+            config = {};
+        }
+    }
+    const key = agent.configKey;
+    const servers = config[key] ?? {};
+    servers.symbiote = {
+        command: 'npx',
+        args: ['-y', 'symbiote-cli', 'mcp'],
+    };
+    config[key] = servers;
+    const tmpPath = configPath + '.tmp';
+    fs.writeFileSync(tmpPath, JSON.stringify(config, null, 4) + '\n');
+    fs.renameSync(tmpPath, configPath);
+    return {
+        success: true,
+        message: `MCP config written to ${configPath}`,
+    };
+}
+export function isBonded(agent) {
+    if (agent.id === 'claude-code') {
+        try {
+            const output = execSync('claude mcp list', { encoding: 'utf-8' });
+            return output.includes('symbiote');
+        }
+        catch {
+            return false;
+        }
+    }
+    if (agent.configType === 'json-file' && fs.existsSync(agent.configPath)) {
+        try {
+            const config = JSON.parse(fs.readFileSync(agent.configPath, 'utf-8'));
+            const servers = config[agent.configKey];
+            return !!servers?.symbiote;
+        }
+        catch {
+            return false;
+        }
+    }
+    return false;
+}
+export function connectWithHooks(agent) {
+    const mcp = connectAgent(agent);
+    if (agent.id !== 'claude-code') {
+        return { mcp, hooks: { success: true, message: 'Hooks not available' } };
+    }
+    const hooks = installGlobalClaudeHooks();
+    return { mcp, hooks };
+}
+export function disconnectWithHooks(agent) {
+    const mcp = disconnectAgent(agent);
+    if (agent.id !== 'claude-code') {
+        return { mcp, hooks: { success: true, message: 'No hooks to remove' } };
+    }
+    const hooks = removeGlobalClaudeHooks();
+    return { mcp, hooks };
+}
+export function ensureClaudeHooks() {
+    return installGlobalClaudeHooks();
+}
+const HOOK_EVENTS = [
+    'SessionStart',
+    'UserPromptSubmit',
+    'PreToolUse',
+    'PostToolUse',
+    'PostToolUseFailure',
+    'SubagentStart',
+    'PreCompact',
+    'Stop',
+    'SessionEnd',
+];
+function installGlobalClaudeHooks() {
+    try {
+        if (fs.existsSync(CLAUDE_HOOKS_DIR)) {
+            fs.rmSync(CLAUDE_HOOKS_DIR, { recursive: true });
+        }
+        let settings = {};
+        if (fs.existsSync(CLAUDE_SETTINGS_PATH)) {
+            try {
+                settings = JSON.parse(fs.readFileSync(CLAUDE_SETTINGS_PATH, 'utf-8'));
+            }
+            catch {
+                settings = {};
+            }
+        }
+        const hooks = settings.hooks ?? {};
+        for (const eventName of HOOK_EVENTS) {
+            if (Array.isArray(hooks[eventName])) {
+                hooks[eventName] = hooks[eventName].filter((h) => !h.hooks?.some((hh) => hh.command?.includes('symbiote') ||
+                    hh.url?.includes('localhost') ||
+                    hh.url?.includes('/internal/hooks/')));
+                if (hooks[eventName].length === 0) {
+                    delete hooks[eventName];
+                }
+            }
+        }
+        const port = getProjectPort(process.cwd());
+        const base = `http://localhost:${port}/internal/hooks`;
+        hooks['SessionStart'] = [
+            {
+                matcher: 'startup|compact',
+                hooks: [
+                    {
+                        type: 'command',
+                        command: 'npx symbiote-cli hook session-start',
+                        timeout: 30,
+                    },
+                ],
+            },
+        ];
+        hooks['UserPromptSubmit'] = [
+            {
+                hooks: [
+                    {
+                        type: 'prompt',
+                        prompt: 'Analyze if this message contains a coding correction or preference. Message: $ARGUMENTS\nRespond JSON only: {"is_instruction":boolean,"type":"correction|preference|reinforcement|none","instruction":"extracted or null","anti_pattern":"what to avoid or null"}',
+                        model: 'claude-haiku-4-5-20251001',
+                    },
+                    {
+                        type: 'http',
+                        url: `${base}/user-prompt-submit`,
+                    },
+                ],
+            },
+        ];
+        hooks['PreToolUse'] = [
+            { matcher: '*', hooks: [{ type: 'http', url: `${base}/pre-tool-use` }] },
+        ];
+        hooks['PostToolUse'] = [
+            { matcher: '*', hooks: [{ type: 'http', url: `${base}/post-tool-use` }] },
+        ];
+        hooks['PostToolUseFailure'] = [
+            {
+                matcher: '*',
+                hooks: [{ type: 'http', url: `${base}/post-tool-use-failure` }],
+            },
+        ];
+        hooks['SubagentStart'] = [{ hooks: [{ type: 'http', url: `${base}/subagent-start` }] }];
+        hooks['PreCompact'] = [
+            {
+                matcher: 'manual|auto',
+                hooks: [{ type: 'http', url: `${base}/pre-compact` }],
+            },
+        ];
+        hooks['Stop'] = [{ hooks: [{ type: 'http', url: `${base}/stop` }] }];
+        hooks['SessionEnd'] = [{ hooks: [{ type: 'http', url: `${base}/session-end` }] }];
+        settings.hooks = hooks;
+        const tmpSettings = CLAUDE_SETTINGS_PATH + '.tmp';
+        fs.writeFileSync(tmpSettings, JSON.stringify(settings, null, 4) + '\n');
+        fs.renameSync(tmpSettings, CLAUDE_SETTINGS_PATH);
+        return { success: true, message: 'Hooks installed' };
+    }
+    catch (err) {
+        return {
+            success: false,
+            message: err instanceof Error ? err.message : 'Hook install failed',
+        };
+    }
+}
+function removeGlobalClaudeHooks() {
+    try {
+        if (fs.existsSync(CLAUDE_SETTINGS_PATH)) {
+            const settings = JSON.parse(fs.readFileSync(CLAUDE_SETTINGS_PATH, 'utf-8'));
+            const hooks = settings.hooks;
+            if (hooks) {
+                for (const eventName of HOOK_EVENTS) {
+                    if (Array.isArray(hooks[eventName])) {
+                        hooks[eventName] = hooks[eventName].filter((h) => !h.hooks?.some((hh) => hh.command?.includes('symbiote') ||
+                            hh.url?.includes('/internal/hooks/')));
+                        if (hooks[eventName].length === 0) {
+                            delete hooks[eventName];
+                        }
+                    }
+                }
+                if (Object.keys(hooks).length === 0) {
+                    delete settings.hooks;
+                }
+                fs.writeFileSync(CLAUDE_SETTINGS_PATH, JSON.stringify(settings, null, 4) + '\n');
+            }
+        }
+        if (fs.existsSync(CLAUDE_HOOKS_DIR)) {
+            fs.rmSync(CLAUDE_HOOKS_DIR, { recursive: true });
+        }
+        return { success: true, message: 'Hooks removed' };
+    }
+    catch (err) {
+        return {
+            success: false,
+            message: err instanceof Error ? err.message : 'Hook removal failed',
+        };
+    }
+}
+export function disconnectAgent(agent) {
+    try {
+        if (agent.id === 'claude-code') {
+            try {
+                execSync('claude mcp remove symbiote', { stdio: 'ignore' });
+            }
+            catch {
+                // already removed
+            }
+            return {
+                success: true,
+                message: 'Removed from Claude Code',
+            };
+        }
+        if (agent.configType === 'json-file' && fs.existsSync(agent.configPath)) {
+            const config = JSON.parse(fs.readFileSync(agent.configPath, 'utf-8'));
+            const key = agent.configKey;
+            const servers = config[key] ?? {};
+            delete servers.symbiote;
+            config[key] = servers;
+            fs.writeFileSync(agent.configPath, JSON.stringify(config, null, 4) + '\n');
+            return {
+                success: true,
+                message: `Removed from ${agent.configPath}`,
+            };
+        }
+        return {
+            success: false,
+            message: 'Config not found',
+        };
+    }
+    catch (err) {
+        return {
+            success: false,
+            message: err instanceof Error ? err.message : 'Unknown error',
+        };
+    }
+}
+//# sourceMappingURL=agent-connector.js.map

package/dist/src/init/agent-connector.js.map

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package/dist/src/init/dna-bootstrap.d.ts

@@ -0,0 +1,10 @@
+import type { DnaEntry } from '#dna/types.js';
+import type { ClassifiedRule } from './parsers/types.js';
+export interface DnaBootstrapResult {
+    existingEntries: number;
+    loadedEntries: DnaEntry[];
+    importedEntries: number;
+    skippedEntries: number;
+}
+export declare function bootstrapDna(symbioteHome: string, newRules?: ClassifiedRule[]): DnaBootstrapResult;
+//# sourceMappingURL=dna-bootstrap.d.ts.map

package/dist/src/init/dna-bootstrap.d.ts.map

@@ -0,0 +1 @@
+{"version":3,"file":"dna-bootstrap.d.ts","sourceRoot":"","sources":["../../../src/init/dna-bootstrap.ts"],"names":[],"mappings":"AAGA,OAAO,KAAK,EAAE,QAAQ,EAAE,MAAM,eAAe,CAAC;AAC9C,OAAO,KAAK,EAAE,cAAc,EAAE,MAAM,oBAAoB,CAAC;AAEzD,MAAM,WAAW,kBAAkB;IAC/B,eAAe,EAAE,MAAM,CAAC;IACxB,aAAa,EAAE,QAAQ,EAAE,CAAC;IAC1B,eAAe,EAAE,MAAM,CAAC;IACxB,cAAc,EAAE,MAAM,CAAC;CAC1B;AAED,wBAAgB,YAAY,CACxB,YAAY,EAAE,MAAM,EACpB,QAAQ,CAAC,EAAE,cAAc,EAAE,GAC5B,kBAAkB,CAiCpB"}

package/dist/src/init/dna-bootstrap.js

@@ -0,0 +1,32 @@
+import path from 'node:path';
+import { DnaStorage } from '#dna/storage.js';
+import { DnaEngine } from '#dna/engine.js';
+export function bootstrapDna(symbioteHome, newRules) {
+    const dnaDir = path.join(symbioteHome, 'dna');
+    const storage = new DnaStorage(dnaDir);
+    storage.ensureDirectories();
+    const existing = storage.listEntries();
+    const result = {
+        existingEntries: existing.length,
+        loadedEntries: existing,
+        importedEntries: 0,
+        skippedEntries: 0,
+    };
+    if (!newRules || newRules.length === 0)
+        return result;
+    const dnaRules = newRules.filter((r) => r.target === 'dna');
+    const engine = new DnaEngine(storage);
+    const existingIds = new Set(existing.map((e) => e.frontmatter.id));
+    for (const rule of dnaRules) {
+        const category = DnaEngine.classifyCategory(rule.text);
+        const id = DnaEngine.generateId(category, rule.text);
+        if (existingIds.has(id)) {
+            result.skippedEntries++;
+            continue;
+        }
+        engine.captureInstruction(rule.text, `init-${rule.source}`, 'explicit');
+        result.importedEntries++;
+    }
+    return result;
+}
+//# sourceMappingURL=dna-bootstrap.js.map

package/dist/src/init/dna-bootstrap.js.map

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package/dist/src/init/index.d.ts

@@ -0,0 +1,29 @@
+import type { TechStackEntry, ArchitectureSignal } from './parsers/types.js';
+import type { ScanResult } from '#core/scanner.js';
+export interface SmartInitOptions {
+    projectRoot: string;
+    symbioteHome: string;
+    brainDir: string;
+    scanResult?: ScanResult;
+}
+export interface SmartInitResult {
+    rulesImported: number;
+    techStack: TechStackEntry[];
+    architectureSignals: ArchitectureSignal[];
+    entryPoints: string[];
+    dnaEntriesLoaded: number;
+    dnaEntriesImported: number;
+    intentEntriesCreated: number;
+    overviewGenerated: boolean;
+}
+export declare class SmartInit {
+    private projectRoot;
+    private symbioteHome;
+    private brainDir;
+    private scanResult;
+    constructor(options: SmartInitOptions);
+    run(): Promise<SmartInitResult>;
+    private writeIntentEntries;
+    private writeOverview;
+}
+//# sourceMappingURL=index.d.ts.map

package/dist/src/init/index.d.ts.map

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package/dist/src/init/index.js

@@ -0,0 +1,81 @@
+import fs from 'node:fs';
+import path from 'node:path';
+import { importRules } from './rule-importer.js';
+import { analyzeProject } from './project-analyzer.js';
+import { bootstrapDna } from './dna-bootstrap.js';
+import { generateSmartOverview } from './overview-generator.js';
+import { IntentStore } from '#brain/intent.js';
+import { slugify } from '#utils/strings.js';
+const DEFAULT_SCAN_RESULT = {
+    filesScanned: 0,
+    filesSkipped: 0,
+    nodesCreated: 0,
+    edgesCreated: 0,
+    embeddingsGenerated: 0,
+    errors: [],
+};
+export class SmartInit {
+    projectRoot;
+    symbioteHome;
+    brainDir;
+    scanResult;
+    constructor(options) {
+        this.projectRoot = options.projectRoot;
+        this.symbioteHome = options.symbioteHome;
+        this.brainDir = options.brainDir;
+        this.scanResult = options.scanResult ?? DEFAULT_SCAN_RESULT;
+    }
+    async run() {
+        const rules = importRules(this.projectRoot);
+        const analysis = analyzeProject(this.projectRoot);
+        const intentCount = await this.writeIntentEntries(rules);
+        const dnaResult = bootstrapDna(this.symbioteHome, rules);
+        const projectName = path.basename(this.projectRoot);
+        const overviewContent = generateSmartOverview(projectName, analysis, this.scanResult, rules);
+        this.writeOverview(overviewContent);
+        return {
+            rulesImported: rules.length,
+            techStack: analysis.techStack,
+            architectureSignals: analysis.architecture,
+            entryPoints: analysis.entryPoints,
+            dnaEntriesLoaded: dnaResult.existingEntries,
+            dnaEntriesImported: dnaResult.importedEntries,
+            intentEntriesCreated: intentCount,
+            overviewGenerated: true,
+        };
+    }
+    async writeIntentEntries(rules) {
+        const intentRules = rules.filter((r) => r.target === 'intent');
+        if (intentRules.length === 0)
+            return 0;
+        const store = new IntentStore(this.brainDir);
+        let count = 0;
+        for (const rule of intentRules) {
+            const type = rule.classification === 'decision' ? 'decision' : 'constraint';
+            const id = `${type}-${slugify(rule.text)}`;
+            const existing = await store.readEntry(id);
+            if (existing)
+                continue;
+            const entry = {
+                frontmatter: {
+                    id,
+                    type,
+                    scope: 'global',
+                    status: 'active',
+                    author: `init-${rule.source}`,
+                    createdAt: new Date().toISOString().split('T')[0],
+                },
+                content: rule.text,
+            };
+            store.writeEntry(entry);
+            count++;
+        }
+        return count;
+    }
+    writeOverview(content) {
+        const overviewDir = path.join(this.brainDir, 'intent');
+        fs.mkdirSync(overviewDir, { recursive: true });
+        fs.writeFileSync(path.join(overviewDir, 'overview.md'), content);
+    }
+}
+//# sourceMappingURL=index.js.map