@triedotdev/mcp 1.0.138 → 1.0.140

package/dist/chunk-NKHO34UZ.js.map

@@ -0,0 +1 @@
+{"version":3,"sources":["../src/config/loader.ts","../src/config/validation.ts"],"sourcesContent":["import { readFile, writeFile, mkdir } from 'fs/promises';\nimport { existsSync } from 'fs';\nimport { join, dirname } from 'path';\nimport { ConfigValidator, DEFAULT_CONFIG, type TrieConfig } from './validation.js';\nimport { getWorkingDirectory, getTrieDirectory } from '../utils/workspace.js';\nimport { isInteractiveMode } from '../utils/progress.js';\n\nexport async function loadConfig(): Promise<TrieConfig> {\n  const validator = new ConfigValidator();\n  const configPath = join(getTrieDirectory(getWorkingDirectory(undefined, true)), 'config.json');\n\n  try {\n    // Look for config in .trie/config.json\n    if (!existsSync(configPath)) {\n      return DEFAULT_CONFIG;\n    }\n\n    const configFile = await readFile(configPath, 'utf-8');\n    const userConfig = JSON.parse(configFile) as Record<string, unknown>;\n\n    // Deep merge with defaults\n    const merged = mergeConfig(DEFAULT_CONFIG, userConfig);\n\n    // Validate merged config\n    const result = validator.validateConfig(merged);\n    if (!result.success) {\n      // Suppress console output in interactive mode (TUI handles display)\n      if (!isInteractiveMode()) {\n        console.error('Configuration validation failed:');\n        for (const error of result.errors) {\n          console.error(`  - ${error}`);\n        }\n      }\n      return DEFAULT_CONFIG;\n    }\n\n    // Environment validation warnings (skip in interactive mode)\n    if (!isInteractiveMode()) {\n      const envValidation = validator.validateEnvironment();\n      for (const warning of envValidation.warnings) {\n        console.warn(warning);\n      }\n      for (const error of envValidation.errors) {\n        console.error(error);\n      }\n    }\n\n    return result.data;\n  } catch (error) {\n    // If no config found, return defaults (suppress in interactive mode)\n    if (!isInteractiveMode()) {\n      console.error('Failed to load config, using defaults:', error);\n    }\n    return DEFAULT_CONFIG;\n  }\n}\n\nexport async function saveConfig(config: TrieConfig): Promise<void> {\n  const configPath = join(getTrieDirectory(getWorkingDirectory(undefined, true)), 'config.json');\n  const dir = dirname(configPath);\n\n  if (!existsSync(dir)) {\n    await mkdir(dir, { recursive: true });\n  }\n\n  // Preserve autonomy and other top-level keys (e.g. cursorApiKey) when saving TrieConfig\n  let existing: Record<string, unknown> = {};\n  if (existsSync(configPath)) {\n    try {\n      const content = await readFile(configPath, 'utf-8');\n      existing = JSON.parse(content) as Record<string, unknown>;\n    } catch {\n      // Ignore parse errors, overwrite\n    }\n  }\n\n  const toWrite = {\n    ...existing,\n    ...config,\n    // Preserve autonomy block (used by Cursor key, etc.) - TrieConfig doesn't include it\n    autonomy: existing.autonomy ?? undefined,\n  };\n\n  await writeFile(configPath, JSON.stringify(toWrite, null, 2), 'utf-8');\n}\n\nfunction mergeConfig<T extends Record<string, unknown>>(defaults: T, user: Record<string, unknown>): T {\n  if (typeof user !== 'object' || user === null || Array.isArray(user)) {\n    return { ...defaults };\n  }\n\n  const result = { ...defaults } as T;\n\n  for (const [key, value] of Object.entries(user)) {\n    const defaultValue = defaults[key as keyof T];\n    if (typeof value === 'object' && value !== null && !Array.isArray(value) && typeof defaultValue === 'object' && defaultValue !== null) {\n      result[key as keyof T] = mergeConfig(defaultValue as Record<string, unknown>, value as Record<string, unknown>) as T[keyof T];\n    } else {\n      result[key as keyof T] = value as T[keyof T];\n    }\n  }\n\n  return result;\n}","import { z } from 'zod';\nimport { existsSync, readFileSync, mkdirSync } from 'fs';\nimport { resolve, join } from 'path';\nimport { getWorkingDirectory, getTrieDirectory } from '../utils/workspace.js';\n\n// API key validation patterns (strict for Anthropic/OpenAI; lenient for integrations)\nconst API_KEY_PATTERNS = {\n  anthropic: /^sk-ant-api\\d{2}-[\\w-]{95}$/,\n  openai: /^sk-[\\w]{48}$/,\n  github: /^ghp_[\\w]{36}$/,\n  vercel: /^[\\w]{24}$/,\n  linear: /^lin_api_[\\w]{40,60}$/,\n} as const;\n\n// Configuration schemas\nconst ApiKeysSchema = z.object({\n  anthropic: z.string().regex(API_KEY_PATTERNS.anthropic, 'Invalid Anthropic API key format').optional(),\n  openai: z.string().regex(API_KEY_PATTERNS.openai, 'Invalid OpenAI API key format').optional(),\n  // Lenient: accept GitHub classic (ghp_*), fine-grained (github_pat_*), or any string 10+ chars\n  github: z.string().min(10).optional(),\n  vercel: z.string().regex(API_KEY_PATTERNS.vercel, 'Invalid Vercel token format').optional(),\n  linear: z.string().optional(),\n  cursor: z.string().optional(),\n});\n\nconst AgentConfigSchema = z.object({\n  enabled: z.array(z.string()).optional().default([]),\n  disabled: z.array(z.string()).optional().default([]),\n  parallel: z.boolean().optional().default(true),\n  maxConcurrency: z.number().int().min(1).max(20).optional().default(4),\n  timeout: z.number().int().min(1000).max(300000).optional().default(120000), // 2 minutes\n  cache: z.boolean().optional().default(true),\n});\n\nconst ComplianceSchema = z.object({\n  standards: z.array(z.enum(['SOC2', 'GDPR', 'HIPAA', 'CCPA', 'PCI-DSS'])).optional().default(['SOC2']),\n  enforceCompliance: z.boolean().optional().default(false),\n  reportFormat: z.enum(['json', 'sarif', 'csv', 'html']).optional().default('json'),\n});\n\nconst OutputSchema = z.object({\n  format: z.enum(['console', 'json', 'sarif', 'junit']).optional().default('console'),\n  level: z.enum(['critical', 'serious', 'moderate', 'low', 'all']).optional().default('all'),\n  interactive: z.boolean().optional().default(false),\n  streaming: z.boolean().optional().default(true),\n  colors: z.boolean().optional().default(true),\n});\n\nconst PathsSchema = z.object({\n  include: z.array(z.string()).optional().default([]),\n  exclude: z.array(z.string()).optional().default(['node_modules', 'dist', 'build', '.git']),\n  configDir: z.string().optional().default('.trie'),\n  outputDir: z.string().optional().default('trie-reports'),\n});\n\nconst IntegrationsSchema = z.object({\n  github: z.object({\n    enabled: z.boolean().optional().default(false),\n    token: z.string().optional(),\n    webhook: z.string().url().optional(),\n  }).optional(),\n  slack: z.object({\n    enabled: z.boolean().optional().default(false),\n    webhook: z.string().url().optional(),\n    channel: z.string().optional(),\n  }).optional(),\n  jira: z.object({\n    enabled: z.boolean().optional().default(false),\n    url: z.string().url().optional(),\n    token: z.string().optional(),\n    project: z.string().optional(),\n  }).optional(),\n});\n\n// User identity for attribution tracking\nconst UserSchema = z.object({\n  name: z.string().min(1).optional(),\n  email: z.string().email().optional(),\n  role: z.enum([\n    'developer',\n    'designer', \n    'qa',\n    'devops',\n    'security',\n    'architect',\n    'manager',\n    'contributor'\n  ]).optional().default('developer'),\n  github: z.string().optional(),  // GitHub username\n  url: z.string().url().optional(), // Personal/portfolio URL\n});\n\nexport const TrieConfigSchema = z.object({\n  version: z.string().optional().default('1.0.0'),\n  apiKeys: ApiKeysSchema.optional(),\n  agents: AgentConfigSchema.optional(),\n  compliance: ComplianceSchema.optional(),\n  output: OutputSchema.optional(),\n  paths: PathsSchema.optional(),\n  integrations: IntegrationsSchema.optional(),\n  user: UserSchema.optional(),  // User identity for attribution\n});\n\nexport type TrieConfig = z.infer<typeof TrieConfigSchema>;\nexport type ApiKeys = z.infer<typeof ApiKeysSchema>;\nexport type AgentConfig = z.infer<typeof AgentConfigSchema>;\n\n/**\n * Configuration validator with detailed error reporting\n */\nexport class ConfigValidator {\n  /**\n   * Validate configuration object\n   */\n  validateConfig(config: unknown): { success: true; data: TrieConfig } | { success: false; errors: string[] } {\n    try {\n      const validated = TrieConfigSchema.parse(config);\n\n      // Additional business logic validation\n      const businessErrors = this.validateBusinessLogic(validated);\n      if (businessErrors.length > 0) {\n        return { success: false, errors: businessErrors };\n      }\n\n      return { success: true, data: validated };\n    } catch (error) {\n      if (error instanceof z.ZodError) {\n        const errors = error.errors.map(err =>\n          `${err.path.join('.')}: ${err.message}`\n        );\n        return { success: false, errors };\n      }\n\n      return {\n        success: false,\n        errors: [`Configuration validation failed: ${error instanceof Error ? error.message : 'Unknown error'}`]\n      };\n    }\n  }\n\n  /**\n   * Validate environment variables for API keys\n   */\n  validateEnvironment(): { valid: boolean; warnings: string[]; errors: string[] } {\n    const warnings: string[] = [];\n    const errors: string[] = [];\n\n    // Check for potentially exposed secrets\n    const exposedPatterns = [\n      'NEXT_PUBLIC_ANTHROPIC',\n      'REACT_APP_ANTHROPIC',\n      'VITE_ANTHROPIC',\n      'PUBLIC_ANTHROPIC'\n    ];\n\n    for (const pattern of exposedPatterns) {\n      const envVars = Object.keys(process.env).filter(key => key.includes(pattern));\n      for (const envVar of envVars) {\n        errors.push(`[!] Security risk: API key in client-side environment variable: ${envVar}`);\n      }\n    }\n\n    // Check API key format if present (check env var first, then config)\n    let anthropicKey = process.env.ANTHROPIC_API_KEY;\n    \n    // Also check config file if available (for validation purposes)\n    // Note: This is a read-only check for validation, actual usage goes through isAIAvailable()\n    if (!anthropicKey) {\n      try {\n        const configPath = join(getTrieDirectory(getWorkingDirectory(undefined, true)), 'config.json');\n        if (existsSync(configPath)) {\n          const config = JSON.parse(readFileSync(configPath, 'utf-8'));\n          anthropicKey = config.apiKeys?.anthropic;\n        }\n      } catch {\n        // Config file check failed, continue with env var only\n      }\n    }\n    \n    if (anthropicKey && !API_KEY_PATTERNS.anthropic.test(anthropicKey)) {\n      errors.push('ANTHROPIC_API_KEY does not match expected format');\n    }\n\n    // Warnings for missing optional keys\n    if (!anthropicKey) {\n      warnings.push('ANTHROPIC_API_KEY not set - AI features will be disabled. Set in environment, .trie/config.json, or .env file');\n    }\n\n    if (!process.env.GITHUB_TOKEN && process.env.CI) {\n      warnings.push('GITHUB_TOKEN not set - GitHub integration disabled');\n    }\n\n    return {\n      valid: errors.length === 0,\n      warnings,\n      errors\n    };\n  }\n\n  /**\n   * Validate file paths in configuration\n   */\n  validatePaths(paths: z.infer<typeof PathsSchema>): { valid: boolean; errors: string[] } {\n    const errors: string[] = [];\n\n    if (paths?.include) {\n      for (const path of paths.include) {\n        const resolvedPath = resolve(path);\n        if (!existsSync(resolvedPath)) {\n          errors.push(`Include path does not exist: ${path}`);\n        }\n      }\n    }\n\n    if (paths?.configDir) {\n      const configPath = resolve(paths.configDir);\n      if (!existsSync(configPath)) {\n        try {\n          // Try to create the directory\n          mkdirSync(configPath, { recursive: true });\n        } catch {\n          errors.push(`Cannot create config directory: ${paths.configDir}`);\n        }\n      }\n    }\n\n    return {\n      valid: errors.length === 0,\n      errors\n    };\n  }\n\n  /**\n   * Validate integration configurations\n   */\n  validateIntegrations(integrations: z.infer<typeof IntegrationsSchema>): { valid: boolean; errors: string[] } {\n    const errors: string[] = [];\n\n    // GitHub integration\n    if (integrations?.github?.enabled) {\n      if (!integrations.github.token) {\n        errors.push('GitHub integration enabled but no token provided');\n      }\n    }\n\n    // Slack integration\n    if (integrations?.slack?.enabled) {\n      if (!integrations.slack.webhook) {\n        errors.push('Slack integration enabled but no webhook URL provided');\n      }\n    }\n\n    // JIRA integration\n    if (integrations?.jira?.enabled) {\n      if (!integrations.jira.url || !integrations.jira.token || !integrations.jira.project) {\n        errors.push('JIRA integration enabled but missing required fields (url, token, project)');\n      }\n    }\n\n    return {\n      valid: errors.length === 0,\n      errors\n    };\n  }\n\n  /**\n   * Business logic validation\n   */\n  private validateBusinessLogic(config: TrieConfig): string[] {\n    const errors: string[] = [];\n\n    // Agent configuration validation\n    if (config.agents?.enabled && config.agents?.disabled) {\n      const overlap = config.agents.enabled.filter(agent =>\n        config.agents?.disabled?.includes(agent)\n      );\n      if (overlap.length > 0) {\n        errors.push(`Agents cannot be both enabled and disabled: ${overlap.join(', ')}`);\n      }\n    }\n\n    // Concurrency validation\n    if (config.agents?.maxConcurrency && config.agents.maxConcurrency > 10) {\n      errors.push('maxConcurrency should not exceed 10 for optimal performance');\n    }\n\n    // Compliance standards validation\n    if (config.compliance?.standards) {\n      const invalidStandards = config.compliance.standards.filter(standard =>\n        !['SOC2', 'GDPR', 'HIPAA', 'CCPA', 'PCI-DSS'].includes(standard)\n      );\n      if (invalidStandards.length > 0) {\n        errors.push(`Invalid compliance standards: ${invalidStandards.join(', ')}`);\n      }\n    }\n\n    // Path validation\n    if (config.paths) {\n      const pathValidation = this.validatePaths(config.paths);\n      errors.push(...pathValidation.errors);\n    }\n\n    // Integration validation\n    if (config.integrations) {\n      const integrationValidation = this.validateIntegrations(config.integrations);\n      errors.push(...integrationValidation.errors);\n    }\n\n    return errors;\n  }\n\n  /**\n   * Generate configuration template\n   */\n  generateTemplate(): TrieConfig {\n    return {\n      version: '1.0.0',\n      agents: {\n        enabled: ['security', 'bugs', 'types'],\n        disabled: [],\n        parallel: true,\n        maxConcurrency: 4,\n        timeout: 120000,\n        cache: true\n      },\n      compliance: {\n        standards: ['SOC2'],\n        enforceCompliance: false,\n        reportFormat: 'json'\n      },\n      output: {\n        format: 'console',\n        level: 'all',\n        interactive: false,\n        streaming: true,\n        colors: true\n      },\n      paths: {\n        include: [],\n        exclude: ['node_modules', 'dist', 'build', '.git'],\n        configDir: '.trie',\n        outputDir: 'trie-reports'\n      }\n    };\n  }\n\n  /**\n   * Validate and provide suggestions for improvement\n   */\n  analyze(config: TrieConfig): {\n    score: number;\n    suggestions: string[];\n    securityIssues: string[];\n    optimizations: string[];\n  } {\n    const suggestions: string[] = [];\n    const securityIssues: string[] = [];\n    const optimizations: string[] = [];\n    let score = 100;\n\n    // Check for AI enhancement (check config, env var, and .env files)\n    let hasApiKey = Boolean(config.apiKeys?.anthropic || process.env.ANTHROPIC_API_KEY);\n    if (!hasApiKey) {\n      // Check .env files as well\n      try {\n        const workDir = getWorkingDirectory(undefined, true);\n        const envFiles = ['.env', '.env.local', '.env.production'];\n        for (const envFile of envFiles) {\n          const envPath = join(workDir, envFile);\n          if (existsSync(envPath)) {\n            const envContent = readFileSync(envPath, 'utf-8');\n            if (envContent.includes('ANTHROPIC_API_KEY=')) {\n              hasApiKey = true;\n              break;\n            }\n          }\n        }\n      } catch {\n        // .env check failed, continue\n      }\n    }\n    \n    if (!hasApiKey) {\n      suggestions.push('Add ANTHROPIC_API_KEY to enable AI-powered analysis for better issue detection. Set in environment, .trie/config.json, or .env file');\n      score -= 10;\n    }\n\n    // Check parallel execution\n    if (config.agents?.parallel === false) {\n      optimizations.push('Enable parallel agent execution for 3-5x faster scans');\n      score -= 15;\n    }\n\n    // Check caching\n    if (config.agents?.cache === false) {\n      optimizations.push('Enable result caching to speed up repeated scans');\n      score -= 10;\n    }\n\n    // Check compliance standards\n    if (!config.compliance?.standards || config.compliance.standards.length === 0) {\n      suggestions.push('Configure compliance standards (SOC2, GDPR, etc.) for regulatory requirements');\n      score -= 5;\n    }\n\n    // Check integrations for team collaboration\n    const hasIntegrations = config.integrations && (\n      config.integrations.github?.enabled ||\n      config.integrations.slack?.enabled ||\n      config.integrations.jira?.enabled\n    );\n    if (!hasIntegrations) {\n      suggestions.push('Consider enabling GitHub/Slack/JIRA integrations for better team collaboration');\n      score -= 5;\n    }\n\n    // Security checks\n    if (config.apiKeys) {\n      securityIssues.push('API keys in config file - consider using environment variables instead');\n      score -= 20;\n    }\n\n    return {\n      score: Math.max(0, score),\n      suggestions,\n      securityIssues,\n      optimizations\n    };\n  }\n}\n\n/**\n * Default configuration with security best practices\n */\nexport const DEFAULT_CONFIG: TrieConfig = {\n  version: '1.0.0',\n  agents: {\n    enabled: [],\n    disabled: [],\n    parallel: true,\n    maxConcurrency: 4,\n    timeout: 120000,\n    cache: true,\n  },\n  compliance: {\n    standards: ['SOC2'],\n    enforceCompliance: false,\n    reportFormat: 'json',\n  },\n  output: {\n    format: 'console',\n    level: 'all',\n    interactive: false,\n    streaming: true,\n    colors: true,\n  },\n  paths: {\n    include: [],\n    exclude: ['node_modules', 'dist', 'build', '.git', '.next', '.nuxt', 'coverage'],\n    configDir: '.trie',\n    outputDir: 'trie-reports',\n  },\n};\n\n/**\n * Validate startup configuration\n */\nexport function validateStartupConfig(): {\n  valid: boolean;\n  config: TrieConfig;\n  warnings: string[];\n  errors: string[];\n} {\n  const validator = new ConfigValidator();\n\n  // Validate environment\n  const envValidation = validator.validateEnvironment();\n\n  // Use default config as base\n  const configResult = validator.validateConfig(DEFAULT_CONFIG);\n\n  if (!configResult.success) {\n    return {\n      valid: false,\n      config: DEFAULT_CONFIG,\n      warnings: envValidation.warnings,\n      errors: [...envValidation.errors, ...configResult.errors]\n    };\n  }\n\n  return {\n    valid: envValidation.valid,\n    config: configResult.data,\n    warnings: envValidation.warnings,\n    errors: envValidation.errors\n  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package/dist/{chunk-YOKQ25IW.js → chunk-OQ4A3RDY.js}

@@ -1,9 +1,9 @@
 import {
   getGoalManager
-} from "./chunk-FOCXXIXY.js";
+} from "./chunk-YEIJW6X6.js";
 import {
   getHypothesisEngine
-} from "./chunk-67GSG2ST.js";
+} from "./chunk-XTTZAQWJ.js";
 import {
   getInsightStore
 } from "./chunk-3MUCUZ46.js";
@@ -11,27 +11,27 @@ import {
   GotchaPredictor,
   findCrossProjectPatterns,
   recordToGlobalMemory
-} from "./chunk-6LLH3TBZ.js";
+} from "./chunk-UOSTOLU7.js";
+import {
+  ContextGraph
+} from "./chunk-FH335WL5.js";
 import {
   isAIAvailable,
   runAIAnalysis
-} from "./chunk-Y32FM3MR.js";
+} from "./chunk-FPEMP54L.js";
 import {
   getProjectState
 } from "./chunk-LT6VUZG2.js";
-import {
-  getStorage
-} from "./chunk-FG467PDD.js";
-import {
-  ContextGraph
-} from "./chunk-QSWUPSLK.js";
 import {
   autoResolveIssues,
   getHistoricalInsights,
   getIssueHash,
   searchIssues,
   storeIssues
-} from "./chunk-Z2P4WST6.js";
+} from "./chunk-62POBLFC.js";
+import {
+  getStorage
+} from "./chunk-FG467PDD.js";
 
 // src/agent/trie-agent.ts
 import { basename as basename2 } from "path";
@@ -1677,7 +1677,7 @@ var TrieAgent = class {
       try {
         const { IncidentIndex } = await import("./incident-index-BWW2UEY7.js");
         const { TriePatternDiscovery } = await import("./pattern-discovery-F7LU5K6E.js");
-        const { ContextGraph: ContextGraph2 } = await import("./graph-X2FMRQLG.js");
+        const { ContextGraph: ContextGraph2 } = await import("./graph-J4OGTYCO.js");
         const graph = new ContextGraph2(this.projectPath);
         const incidentIndex = await IncidentIndex.build(graph, this.projectPath);
         const discovery = new TriePatternDiscovery(graph, incidentIndex);
@@ -1934,7 +1934,7 @@ var TrieAgent = class {
     await this.projectState.recordScan();
     try {
       const riskLevel = issues.filter((i) => i.severity === "critical").length > 0 ? "critical" : issues.filter((i) => i.severity === "serious").length >= 3 ? "high" : issues.length > 10 ? "medium" : "low";
-      const { calculateAdaptiveScanFrequency } = await import("./goal-manager-6BJQ36AH.js");
+      const { calculateAdaptiveScanFrequency } = await import("./goal-manager-ZBWKWEML.js");
       const result = await calculateAdaptiveScanFrequency(riskLevel);
       await this.projectState.setScanFrequency(result.frequencyMs);
     } catch {
@@ -2163,4 +2163,4 @@ export {
   TrieAgent,
   getTrieAgent
 };
-//# sourceMappingURL=chunk-YOKQ25IW.js.map
+//# sourceMappingURL=chunk-OQ4A3RDY.js.map

package/dist/{chunk-6LLH3TBZ.js → chunk-UOSTOLU7.js}

@@ -1,18 +1,9 @@
 import {
   tryGetClient
-} from "./chunk-Y32FM3MR.js";
-import {
-  scanForVulnerabilities
-} from "./chunk-F4NJ4CBP.js";
-import {
-  scanForVibeCodeIssues
-} from "./chunk-IXO4G4D3.js";
-import {
-  getStorage
-} from "./chunk-FG467PDD.js";
+} from "./chunk-FPEMP54L.js";
 import {
   searchIssues
-} from "./chunk-Z2P4WST6.js";
+} from "./chunk-62POBLFC.js";
 import {
   BackupManager,
   GlobalPatternsIndexSchema,
@@ -21,6 +12,15 @@ import {
 import {
   atomicWriteJSON
 } from "./chunk-43X6JBEM.js";
+import {
+  scanForVulnerabilities
+} from "./chunk-F4NJ4CBP.js";
+import {
+  scanForVibeCodeIssues
+} from "./chunk-IXO4G4D3.js";
+import {
+  getStorage
+} from "./chunk-FG467PDD.js";
 
 // src/memory/global-memory.ts
 import { mkdir, writeFile, readFile, readdir } from "fs/promises";
@@ -466,4 +466,4 @@ export {
   searchGlobalPatterns,
   GotchaPredictor
 };
-//# sourceMappingURL=chunk-6LLH3TBZ.js.map
+//# sourceMappingURL=chunk-UOSTOLU7.js.map

package/dist/{chunk-67GSG2ST.js → chunk-XTTZAQWJ.js}

@@ -6,7 +6,7 @@ import {
 } from "./chunk-LT6VUZG2.js";
 import {
   searchIssues
-} from "./chunk-Z2P4WST6.js";
+} from "./chunk-62POBLFC.js";
 
 // src/agent/hypothesis.ts
 import { dirname } from "path";
@@ -122,11 +122,10 @@ var HypothesisEngine = class {
             await this.projectState.addEvidence(hypothesis.id, e);
           }
           generated.push(hypothesis);
-          if (generated.length >= 2) break;
+          if (generated.length >= 4) break;
         }
       }
     } catch (error) {
-      console.error("Failed to auto-generate hypotheses:", error);
     }
     return generated;
   }
@@ -135,7 +134,7 @@ var HypothesisEngine = class {
    * This enables fully agentic hypothesis creation based on actual codebase observations
    */
   async generateHypothesesWithAI(context) {
-    const { isAIAvailable, runAIAnalysis } = await import("./client-JTU5TRLB.js");
+    const { isAIAvailable, runAIAnalysis } = await import("./client-INNE2GGZ.js");
     if (!isAIAvailable()) {
       return [];
     }
@@ -197,7 +196,8 @@ Return empty array [] if no novel hypotheses can be generated from the data.`;
       const result = await runAIAnalysis({
         systemPrompt: "You are an expert code quality analyst who identifies patterns and generates testable hypotheses.",
         userPrompt: prompt,
-        maxTokens: 1024,
+        maxTokens: 2048,
+        // Increased to prevent truncation of hypothesis generation
         temperature: 0.7
         // Higher temperature for creative hypothesis generation
       });
@@ -212,9 +212,9 @@ Return empty array [] if no novel hypotheses can be generated from the data.`;
       } catch {
         return generated;
       }
-      for (const aiHypo of aiHypotheses.slice(0, 3)) {
+      for (const aiHypo of aiHypotheses.slice(0, 5)) {
         const isDuplicate = existingStatements.some(
-          (existing2) => existing2.toLowerCase().includes(aiHypo.statement.toLowerCase().slice(0, 30))
+          (existing2) => existing2.toLowerCase() === aiHypo.statement.toLowerCase() || existing2.toLowerCase().includes(aiHypo.statement.toLowerCase()) || aiHypo.statement.toLowerCase().includes(existing2.toLowerCase())
         );
         if (isDuplicate) continue;
         const hypothesis = await this.createHypothesis(aiHypo.statement, {
@@ -231,7 +231,6 @@ Return empty array [] if no novel hypotheses can be generated from the data.`;
         generated.push(hypothesis);
       }
     } catch (error) {
-      console.error("Failed to generate hypotheses with AI:", error);
     }
     return generated;
   }
@@ -261,8 +260,8 @@ Return empty array [] if no novel hypotheses can be generated from the data.`;
     }
     const dayNames = ["Sun", "Mon", "Tue", "Wed", "Thu", "Fri", "Sat"];
     const dayDistribution = Object.entries(dayOfWeekCounts).sort(([a], [b]) => Number(a) - Number(b)).map(([day, count]) => `${dayNames[Number(day)]}: ${count}`).join(", ");
-    const topDirs = Object.entries(fileCounts).sort(([, a], [, b]) => b - a).slice(0, 5).map(([dir, count]) => `${dir}: ${count}`).join(", ");
-    const topAgents = Object.entries(agentCounts).sort(([, a], [, b]) => b - a).slice(0, 5).map(([agent, count]) => `${agent}: ${count}`).join(", ");
+    const topDirs = Object.entries(fileCounts).sort(([, a], [, b]) => b - a).slice(0, 8).map(([dir, count]) => `${dir}: ${count}`).join(", ");
+    const topAgents = Object.entries(agentCounts).sort(([, a], [, b]) => b - a).slice(0, 8).map(([agent, count]) => `${agent}: ${count}`).join(", ");
     return `Total Issues: ${totalIssues}
 Severities: ${Object.entries(severityCounts).map(([s, c]) => `${s}=${c}`).join(", ")}
 Top Agents: ${topAgents}
@@ -419,19 +418,20 @@ Day Distribution: ${dayDistribution}`;
       }
       await this.projectState.updateHypothesisAccuracy();
     } catch (error) {
-      console.error("Failed to update hypothesis confidence:", error);
     }
     return analyses;
   }
   /**
    * Analyze a single hypothesis
    */
-  async analyzeHypothesis(hypothesis) {
+  async analyzeHypothesis(hypothesis, signal) {
+    if (signal?.aborted) throw new DOMException("Scan cancelled", "AbortError");
     const issues = await searchIssues("", {
       workDir: this.projectPath,
       limit: 100,
       includeResolved: false
     });
+    if (signal?.aborted) throw new DOMException("Scan cancelled", "AbortError");
     const template = HYPOTHESIS_TEMPLATES.find(
       (t) => t.statement.toLowerCase() === hypothesis.statement.toLowerCase()
     );
@@ -451,6 +451,7 @@ Day Distribution: ${dayDistribution}`;
       }
     }
     let statusChange;
+    if (signal?.aborted) throw new DOMException("Scan cancelled", "AbortError");
     if (newConfidence >= 0.8 && hypothesis.evidence.length >= 3) {
       statusChange = "validated";
       await this.projectState.updateHypothesis(hypothesis.id, {
@@ -699,15 +700,17 @@ function getHypothesisEngine(projectPath) {
 function clearHypothesisEngines() {
   hypothesisEngines.clear();
 }
-async function gatherEvidenceForHypothesis(hypothesisId, projectPath) {
+async function gatherEvidenceForHypothesis(hypothesisId, projectPath, signal) {
+  if (signal?.aborted) throw new DOMException("Scan cancelled", "AbortError");
   const engine = getHypothesisEngine(projectPath);
   const projectState = getProjectState(projectPath);
   await projectState.load();
+  if (signal?.aborted) throw new DOMException("Scan cancelled", "AbortError");
   const hypothesis = projectState.getAllHypotheses().find((h) => h.id === hypothesisId);
   if (!hypothesis) {
     throw new Error(`Hypothesis ${hypothesisId} not found`);
   }
-  const analysis = await engine.analyzeHypothesis(hypothesis);
+  const analysis = await engine.analyzeHypothesis(hypothesis, signal);
   return analysis.recentEvidence.map((e) => ({
     supports: e.type === "supporting",
     description: e.description,
@@ -721,4 +724,4 @@ export {
   clearHypothesisEngines,
   gatherEvidenceForHypothesis
 };
-//# sourceMappingURL=chunk-67GSG2ST.js.map
+//# sourceMappingURL=chunk-XTTZAQWJ.js.map

package/dist/chunk-XTTZAQWJ.js.map

@@ -0,0 +1 @@
+{"version":3,"sources":["../src/agent/hypothesis.ts"],"sourcesContent":["/**\n * Hypothesis System - Self-improving hypothesis generation and validation\n * \n * Features:\n * - Generate hypotheses from patterns\n * - Track evidence for/against hypotheses\n * - Auto-validate/invalidate based on evidence\n * - Adjust confidence over time\n * - Learn from hypothesis outcomes\n */\n\nimport type { Hypothesis } from './project-state.js';\nimport { getProjectState } from './project-state.js';\nimport { getInsightStore, type Insight } from './insight-store.js';\nimport { searchIssues } from '../memory/issue-store.js';\nimport { dirname } from 'path';\n\n// ============================================================================\n// Types\n// ============================================================================\n\n/**\n * Hypothesis template for auto-generation\n */\nexport interface HypothesisTemplate {\n  category: 'timing' | 'pattern' | 'team' | 'code' | 'general';\n  statement: string;\n  testCriteria: string;\n  minConfidence: number;\n  dataRequired: string[];\n}\n\n/**\n * Evidence for a hypothesis\n */\nexport interface HypothesisEvidence {\n  type: 'supporting' | 'contradicting';\n  description: string;\n  weight: number; // 0-1\n  timestamp: string;\n}\n\n/**\n * Hypothesis analysis result\n */\nexport interface HypothesisAnalysis {\n  hypothesis: Hypothesis;\n  recentEvidence: HypothesisEvidence[];\n  confidenceChange: number;\n  statusChange?: 'validated' | 'invalidated';\n  actionRequired: boolean;\n}\n\n// ============================================================================\n// Hypothesis Templates\n// ============================================================================\n\nconst HYPOTHESIS_TEMPLATES: HypothesisTemplate[] = [\n  {\n    category: 'timing',\n    statement: 'Issues spike after weekend deployments',\n    testCriteria: 'Compare Monday issue counts to other days',\n    minConfidence: 0.3,\n    dataRequired: ['issue_timestamps', 'deployment_data'],\n  },\n  {\n    category: 'timing',\n    statement: 'Code quality declines on Fridays',\n    testCriteria: 'Compare Friday issue introduction rate to weekly average',\n    minConfidence: 0.3,\n    dataRequired: ['issue_timestamps'],\n  },\n  {\n    category: 'pattern',\n    statement: 'Auth-related code has the highest incident rate',\n    testCriteria: 'Compare auth/ issue count to other directories',\n    minConfidence: 0.4,\n    dataRequired: ['issue_files'],\n  },\n  {\n    category: 'pattern',\n    statement: 'Security issues cluster in specific directories',\n    testCriteria: 'Check if security issues are concentrated (>50% in <3 dirs)',\n    minConfidence: 0.4,\n    dataRequired: ['issue_files', 'issue_agents'],\n  },\n  {\n    category: 'code',\n    statement: 'Files with multiple authors have more issues',\n    testCriteria: 'Correlate file author count with issue count',\n    minConfidence: 0.4,\n    dataRequired: ['issue_files', 'git_blame'],\n  },\n  {\n    category: 'code',\n    statement: 'Recently modified files are more likely to have issues',\n    testCriteria: 'Compare issue rate for recent vs old files',\n    minConfidence: 0.3,\n    dataRequired: ['issue_timestamps', 'file_modification_times'],\n  },\n  {\n    category: 'pattern',\n    statement: 'Critical issues often come in clusters',\n    testCriteria: 'Check temporal clustering of critical issues',\n    minConfidence: 0.3,\n    dataRequired: ['issue_timestamps', 'issue_severities'],\n  },\n];\n\n// ============================================================================\n// HypothesisEngine Class\n// ============================================================================\n\n/**\n * Engine for generating and validating hypotheses\n */\nexport class HypothesisEngine {\n  private projectPath: string;\n  private projectState;\n  private insightStore;\n  \n  constructor(projectPath: string) {\n    this.projectPath = projectPath;\n    this.projectState = getProjectState(projectPath);\n    this.insightStore = getInsightStore(projectPath);\n  }\n  \n  /**\n   * Create a new hypothesis\n   */\n  async createHypothesis(statement: string, options?: {\n    category?: Hypothesis['category'];\n    testCriteria?: string;\n    initialConfidence?: number;\n    autoGenerated?: boolean;\n  }): Promise<Hypothesis> {\n    const hypothesis: Hypothesis = {\n      id: `hyp-${Date.now()}-${Math.random().toString(36).slice(2, 8)}`,\n      statement,\n      confidence: options?.initialConfidence ?? 0,\n      status: 'proposed',\n      evidence: [],\n      createdAt: new Date().toISOString(),\n      updatedAt: new Date().toISOString(),\n      testCriteria: options?.testCriteria,\n      category: options?.category ?? 'general',\n      autoGenerated: options?.autoGenerated ?? false,\n    };\n    \n    await this.projectState.addHypothesis(hypothesis);\n    \n    return hypothesis;\n  }\n  \n  /**\n   * Auto-generate hypotheses based on detected patterns\n   */\n  async autoGenerateHypotheses(): Promise<Hypothesis[]> {\n    const generated: Hypothesis[] = [];\n    \n    try {\n      // Get existing hypotheses to avoid duplicates\n      await this.projectState.load();\n      const existing = this.projectState.getAllHypotheses();\n      const existingStatements = new Set(existing.map(h => h.statement.toLowerCase()));\n      \n      // Get data for pattern detection\n      const issues = await searchIssues('', {\n        workDir: this.projectPath,\n        limit: 500,\n        includeResolved: true,\n      });\n      \n      if (issues.length < 10) {\n        return generated; // Not enough data\n      }\n      \n      // Check each template for applicability\n      for (const template of HYPOTHESIS_TEMPLATES) {\n        // Skip if already have similar hypothesis\n        if (existingStatements.has(template.statement.toLowerCase())) {\n          continue;\n        }\n        \n        // Check if we have enough evidence to propose this hypothesis\n        const evidence = await this.gatherInitialEvidence(template, issues);\n        \n        if (evidence.length > 0 && evidence[0]!.weight >= template.minConfidence) {\n          const hypothesis = await this.createHypothesis(template.statement, {\n            category: template.category,\n            testCriteria: template.testCriteria,\n            initialConfidence: evidence[0]!.weight,\n            autoGenerated: true,\n          });\n          \n          // Add initial evidence\n          for (const e of evidence) {\n            await this.projectState.addEvidence(hypothesis.id, e);\n          }\n          \n          generated.push(hypothesis);\n          \n          // Allow more hypotheses to avoid truncating insights\n          if (generated.length >= 4) break;\n        }\n      }\n      \n    } catch (error) {\n      // Silently handle auto-generation failures\n    }\n    \n    return generated;\n  }\n  \n  /**\n   * Use Claude AI to generate novel hypotheses from observed patterns\n   * This enables fully agentic hypothesis creation based on actual codebase observations\n   */\n  async generateHypothesesWithAI(context: {\n    recentIssues?: any[];\n    patterns?: string[];\n    observations?: string[];\n  }): Promise<Hypothesis[]> {\n    const { isAIAvailable, runAIAnalysis } = await import('../ai/client.js');\n    \n    if (!isAIAvailable()) {\n      return []; // Fall back to template-based generation\n    }\n    \n    const generated: Hypothesis[] = [];\n    \n    try {\n      // Get existing hypotheses to avoid duplicates\n      await this.projectState.load();\n      const existing = this.projectState.getAllHypotheses();\n      const existingStatements = existing.map(h => h.statement);\n      \n      // Get recent issue data\n      const issues = context.recentIssues || await searchIssues('', {\n        workDir: this.projectPath,\n        limit: 100,\n        includeResolved: true,\n      });\n      \n      if (issues.length < 5) {\n        return generated; // Not enough data for AI\n      }\n      \n      // Build context for Claude\n      const issuesSummary = this.summarizeIssuesForAI(issues);\n      const patternsSummary = context.patterns?.join('\\n') || 'No explicit patterns provided';\n      const observationsSummary = context.observations?.join('\\n') || 'No explicit observations provided';\n      \n      const prompt = `You are an AI agent observing a codebase over time. Based on the patterns below, generate 1-3 testable hypotheses about this codebase's quality patterns.\n\n## Recent Issues Summary\n${issuesSummary}\n\n## Observed Patterns\n${patternsSummary}\n\n## Additional Observations\n${observationsSummary}\n\n## Existing Hypotheses (avoid duplicates)\n${existingStatements.length > 0 ? existingStatements.map(s => `- ${s}`).join('\\n') : 'None yet'}\n\nGenerate hypotheses that are:\n1. Specific and testable (can be validated with data)\n2. Actionable (if validated, can guide improvements)\n3. Novel (not duplicates of existing hypotheses)\n4. Based on real patterns in the data above\n\nReturn ONLY a JSON array of hypotheses. Each hypothesis must have:\n- \"statement\": Clear, concise hypothesis statement\n- \"category\": One of: \"timing\", \"pattern\", \"team\", \"code\", \"general\"\n- \"testCriteria\": How to test this hypothesis\n- \"confidence\": Initial confidence (0-1)\n- \"reasoning\": Why you think this hypothesis is worth testing\n\nExample format:\n[\n  {\n    \"statement\": \"Authentication code changes correlate with security issues\",\n    \"category\": \"pattern\",\n    \"testCriteria\": \"Track auth file changes and subsequent security issue rates\",\n    \"confidence\": 0.6,\n    \"reasoning\": \"65% of security issues occur in files modified in the past week\"\n  }\n]\n\nReturn empty array [] if no novel hypotheses can be generated from the data.`;\n      \n      const result = await runAIAnalysis({\n        systemPrompt: 'You are an expert code quality analyst who identifies patterns and generates testable hypotheses.',\n        userPrompt: prompt,\n        maxTokens: 2048, // Increased to prevent truncation of hypothesis generation\n        temperature: 0.7, // Higher temperature for creative hypothesis generation\n      });\n      \n      if (!result.success || !result.content.trim()) {\n        return generated;\n      }\n      \n      // Parse AI response\n      let aiHypotheses: Array<{\n        statement: string;\n        category: Hypothesis['category'];\n        testCriteria: string;\n        confidence: number;\n        reasoning: string;\n      }> = [];\n      \n      try {\n        const cleaned = result.content.replace(/```json?\\n?|\\n?```/g, '').trim();\n        aiHypotheses = JSON.parse(cleaned);\n        if (!Array.isArray(aiHypotheses)) aiHypotheses = [];\n      } catch {\n        return generated; // AI response wasn't valid JSON\n      }\n      \n      // Create hypotheses from AI suggestions - process all to avoid truncation\n      for (const aiHypo of aiHypotheses.slice(0, 5)) { // Increased limit to reduce truncation\n        // Check for duplicates - compare full statements to avoid truncation issues\n        const isDuplicate = existingStatements.some(existing =>\n          existing.toLowerCase() === aiHypo.statement.toLowerCase() ||\n          existing.toLowerCase().includes(aiHypo.statement.toLowerCase()) ||\n          aiHypo.statement.toLowerCase().includes(existing.toLowerCase())\n        );\n        \n        if (isDuplicate) continue;\n        \n        const hypothesis = await this.createHypothesis(aiHypo.statement, {\n          category: aiHypo.category,\n          testCriteria: aiHypo.testCriteria,\n          initialConfidence: Math.max(0.3, Math.min(0.7, aiHypo.confidence)),\n          autoGenerated: true,\n        });\n        \n        // Add AI reasoning as initial evidence\n        await this.projectState.addEvidence(hypothesis.id, {\n          type: 'supporting',\n          description: `AI observed: ${aiHypo.reasoning}`,\n          weight: aiHypo.confidence,\n        });\n        \n        generated.push(hypothesis);\n      }\n      \n    } catch (error) {\n      // Silently handle AI generation failures\n    }\n    \n    return generated;\n  }\n  \n  /**\n   * Summarize issues for AI context\n   */\n  private summarizeIssuesForAI(issues: Array<{ issue: any; score: number }>): string {\n    const totalIssues = issues.length;\n    \n    // Severity breakdown\n    const severityCounts: Record<string, number> = {};\n    for (const { issue } of issues) {\n      severityCounts[issue.severity] = (severityCounts[issue.severity] || 0) + 1;\n    }\n    \n    // Agent breakdown\n    const agentCounts: Record<string, number> = {};\n    for (const { issue } of issues) {\n      agentCounts[issue.agent] = (agentCounts[issue.agent] || 0) + 1;\n    }\n    \n    // File/directory patterns\n    const fileCounts: Record<string, number> = {};\n    for (const { issue } of issues) {\n      const dir = dirname(issue.file);\n      fileCounts[dir] = (fileCounts[dir] || 0) + 1;\n    }\n    \n    // Time patterns\n    const dayOfWeekCounts: Record<number, number> = {};\n    for (const { issue } of issues) {\n      const date = new Date(issue.timestamp);\n      const day = date.getDay();\n      dayOfWeekCounts[day] = (dayOfWeekCounts[day] || 0) + 1;\n    }\n    \n    const dayNames = ['Sun', 'Mon', 'Tue', 'Wed', 'Thu', 'Fri', 'Sat'];\n    const dayDistribution = Object.entries(dayOfWeekCounts)\n      .sort(([a], [b]) => Number(a) - Number(b))\n      .map(([day, count]) => `${dayNames[Number(day)]}: ${count}`)\n      .join(', ');\n    \n    const topDirs = Object.entries(fileCounts)\n      .sort(([, a], [, b]) => b - a)\n      .slice(0, 8) // Increased to show more context without truncation\n      .map(([dir, count]) => `${dir}: ${count}`)\n      .join(', ');\n\n    const topAgents = Object.entries(agentCounts)\n      .sort(([, a], [, b]) => b - a)\n      .slice(0, 8) // Increased to show more context without truncation\n      .map(([agent, count]) => `${agent}: ${count}`)\n      .join(', ');\n    \n    return `Total Issues: ${totalIssues}\nSeverities: ${Object.entries(severityCounts).map(([s, c]) => `${s}=${c}`).join(', ')}\nTop Agents: ${topAgents}\nTop Directories: ${topDirs}\nDay Distribution: ${dayDistribution}`;\n  }\n  \n  /**\n   * Gather initial evidence for a hypothesis template\n   */\n  private async gatherInitialEvidence(\n    template: HypothesisTemplate,\n    issues: Array<{ issue: any; score: number }>\n  ): Promise<HypothesisEvidence[]> {\n    const evidence: HypothesisEvidence[] = [];\n    \n    switch (template.category) {\n      case 'timing':\n        evidence.push(...this.analyzeTimingPatterns(template, issues));\n        break;\n      case 'pattern':\n        evidence.push(...this.analyzeLocationPatterns(template, issues));\n        break;\n      case 'code':\n        evidence.push(...this.analyzeCodePatterns(template, issues));\n        break;\n    }\n    \n    return evidence;\n  }\n  \n  /**\n   * Analyze timing patterns in issues\n   */\n  private analyzeTimingPatterns(\n    template: HypothesisTemplate,\n    issues: Array<{ issue: any; score: number }>\n  ): HypothesisEvidence[] {\n    const evidence: HypothesisEvidence[] = [];\n    \n    // Analyze day-of-week patterns\n    const dayOfWeekCounts: Record<number, number> = {};\n    for (const { issue } of issues) {\n      const date = new Date(issue.timestamp);\n      const day = date.getDay();\n      dayOfWeekCounts[day] = (dayOfWeekCounts[day] || 0) + 1;\n    }\n    \n    // Check for Friday pattern\n    if (template.statement.includes('Friday')) {\n      const fridayCount = dayOfWeekCounts[5] || 0;\n      const avgOtherDays = (Object.values(dayOfWeekCounts).reduce((a, b) => a + b, 0) - fridayCount) / 4;\n      \n      if (fridayCount > avgOtherDays * 1.5) {\n        evidence.push({\n          type: 'supporting',\n          description: `Friday has ${((fridayCount / avgOtherDays - 1) * 100).toFixed(0)}% more issues than average`,\n          weight: Math.min(0.8, 0.3 + (fridayCount / avgOtherDays - 1) * 0.2),\n          timestamp: new Date().toISOString(),\n        });\n      } else {\n        evidence.push({\n          type: 'contradicting',\n          description: 'Friday issue count is not significantly higher',\n          weight: 0.3,\n          timestamp: new Date().toISOString(),\n        });\n      }\n    }\n    \n    // Check for Monday/weekend pattern\n    if (template.statement.includes('weekend') || template.statement.includes('Monday')) {\n      const mondayCount = dayOfWeekCounts[1] || 0;\n      const avgOtherDays = (Object.values(dayOfWeekCounts).reduce((a, b) => a + b, 0) - mondayCount) / 4;\n      \n      if (mondayCount > avgOtherDays * 1.5) {\n        evidence.push({\n          type: 'supporting',\n          description: `Monday has ${((mondayCount / avgOtherDays - 1) * 100).toFixed(0)}% more issues than average`,\n          weight: Math.min(0.8, 0.3 + (mondayCount / avgOtherDays - 1) * 0.2),\n          timestamp: new Date().toISOString(),\n        });\n      }\n    }\n    \n    return evidence;\n  }\n  \n  /**\n   * Analyze location patterns in issues\n   */\n  private analyzeLocationPatterns(\n    template: HypothesisTemplate,\n    issues: Array<{ issue: any; score: number }>\n  ): HypothesisEvidence[] {\n    const evidence: HypothesisEvidence[] = [];\n    \n    // Analyze directory distribution\n    const dirCounts: Record<string, number> = {};\n    for (const { issue } of issues) {\n      const dir = dirname(issue.file);\n      dirCounts[dir] = (dirCounts[dir] || 0) + 1;\n    }\n    \n    const sortedDirs = Object.entries(dirCounts)\n      .sort(([, a], [, b]) => b - a);\n    \n    // Check for auth pattern\n    if (template.statement.includes('Auth')) {\n      const authDirs = sortedDirs.filter(([dir]) => \n        dir.toLowerCase().includes('auth') || \n        dir.toLowerCase().includes('login') ||\n        dir.toLowerCase().includes('session')\n      );\n      \n      const authCount = authDirs.reduce((sum, [, count]) => sum + count, 0);\n      const percentage = (authCount / issues.length) * 100;\n      \n      if (percentage >= 20) {\n        evidence.push({\n          type: 'supporting',\n          description: `Auth-related code has ${percentage.toFixed(0)}% of issues`,\n          weight: Math.min(0.85, 0.4 + percentage / 100),\n          timestamp: new Date().toISOString(),\n        });\n      }\n    }\n    \n    // Check for clustering pattern - intentionally analyze top 3 for clustering metric\n    if (template.statement.includes('cluster')) {\n      const topThreeDirs = sortedDirs.slice(0, 3); // Clustering analysis requires top N comparison\n      const topThreeCount = topThreeDirs.reduce((sum, [, count]) => sum + count, 0);\n      const percentage = (topThreeCount / issues.length) * 100;\n      \n      if (percentage >= 50) {\n        evidence.push({\n          type: 'supporting',\n          description: `Top 3 directories have ${percentage.toFixed(0)}% of issues`,\n          weight: Math.min(0.8, 0.3 + percentage / 100),\n          timestamp: new Date().toISOString(),\n        });\n      }\n    }\n    \n    return evidence;\n  }\n  \n  /**\n   * Analyze code patterns\n   */\n  private analyzeCodePatterns(\n    template: HypothesisTemplate,\n    issues: Array<{ issue: any; score: number }>\n  ): HypothesisEvidence[] {\n    const evidence: HypothesisEvidence[] = [];\n    \n    // Analyze temporal clustering (critical issues in bursts)\n    if (template.statement.includes('cluster')) {\n      const criticalIssues = issues.filter(r => r.issue.severity === 'critical');\n      \n      if (criticalIssues.length >= 3) {\n        // Check if critical issues are clustered in time\n        const timestamps = criticalIssues\n          .map(r => new Date(r.issue.timestamp).getTime())\n          .sort((a, b) => a - b);\n        \n        let clusteredCount = 0;\n        for (let i = 1; i < timestamps.length; i++) {\n          // If within 24 hours of previous\n          if (timestamps[i]! - timestamps[i - 1]! < 24 * 60 * 60 * 1000) {\n            clusteredCount++;\n          }\n        }\n        \n        const clusterRatio = clusteredCount / (timestamps.length - 1);\n        \n        if (clusterRatio >= 0.5) {\n          evidence.push({\n            type: 'supporting',\n            description: `${(clusterRatio * 100).toFixed(0)}% of critical issues occur within 24h of another`,\n            weight: Math.min(0.75, 0.3 + clusterRatio * 0.4),\n            timestamp: new Date().toISOString(),\n          });\n        }\n      }\n    }\n    \n    return evidence;\n  }\n  \n  /**\n   * Update confidence scores based on new data\n   */\n  async updateConfidenceFromOutcomes(): Promise<HypothesisAnalysis[]> {\n    const analyses: HypothesisAnalysis[] = [];\n    \n    try {\n      await this.projectState.load();\n      const activeHypotheses = this.projectState.getActiveHypotheses();\n      \n      for (const hypothesis of activeHypotheses) {\n        const analysis = await this.analyzeHypothesis(hypothesis);\n        analyses.push(analysis);\n        \n        // Create insight if hypothesis was validated or invalidated\n        if (analysis.statusChange && this.insightStore.canCreateInsight('hypothesis-update')) {\n          const insight = this.createHypothesisInsight(analysis);\n          await this.insightStore.addInsight(insight);\n          await this.insightStore.markInsightCreated('hypothesis-update');\n        }\n      }\n      \n      // Update hypothesis accuracy metric\n      await this.projectState.updateHypothesisAccuracy();\n      \n    } catch (error) {\n      // Silently handle confidence update failures\n    }\n    \n    return analyses;\n  }\n  \n  /**\n   * Analyze a single hypothesis\n   */\n  private async analyzeHypothesis(hypothesis: Hypothesis, signal?: AbortSignal): Promise<HypothesisAnalysis> {\n    if (signal?.aborted) throw new DOMException('Scan cancelled', 'AbortError');\n\n    // Get recent issues for new evidence\n    const issues = await searchIssues('', {\n      workDir: this.projectPath,\n      limit: 100,\n      includeResolved: false,\n    });\n    if (signal?.aborted) throw new DOMException('Scan cancelled', 'AbortError');\n\n    // Find the matching template\n    const template = HYPOTHESIS_TEMPLATES.find(t => \n      t.statement.toLowerCase() === hypothesis.statement.toLowerCase()\n    );\n    \n    const recentEvidence: HypothesisEvidence[] = [];\n    \n    if (template) {\n      recentEvidence.push(...await this.gatherInitialEvidence(template, issues));\n    } else {\n      // For user-created hypotheses, use semantic evidence gathering\n      recentEvidence.push(...this.gatherSemanticEvidence(hypothesis, issues));\n    }\n    \n    // Calculate confidence change\n    const oldConfidence = hypothesis.confidence;\n    let newConfidence = oldConfidence;\n    \n    for (const evidence of recentEvidence) {\n      if (evidence.type === 'supporting') {\n        newConfidence = Math.min(1, newConfidence + evidence.weight * 0.1);\n      } else {\n        newConfidence = Math.max(0, newConfidence - evidence.weight * 0.1);\n      }\n    }\n    \n    // Determine status change\n    let statusChange: 'validated' | 'invalidated' | undefined;\n    \n    if (signal?.aborted) throw new DOMException('Scan cancelled', 'AbortError');\n\n    if (newConfidence >= 0.8 && hypothesis.evidence.length >= 3) {\n      statusChange = 'validated';\n      await this.projectState.updateHypothesis(hypothesis.id, {\n        status: 'validated',\n        confidence: newConfidence,\n        validatedAt: new Date().toISOString(),\n      });\n    } else if (newConfidence <= 0.2 && hypothesis.evidence.length >= 3) {\n      statusChange = 'invalidated';\n      await this.projectState.updateHypothesis(hypothesis.id, {\n        status: 'invalidated',\n        confidence: newConfidence,\n      });\n    } else {\n      // Just update confidence\n      await this.projectState.updateHypothesis(hypothesis.id, {\n        confidence: newConfidence,\n      });\n    }\n    \n    // Add new evidence\n    for (const evidence of recentEvidence) {\n      await this.projectState.addEvidence(hypothesis.id, evidence);\n    }\n    \n    const analysis: HypothesisAnalysis = {\n      hypothesis: { ...hypothesis, confidence: newConfidence },\n      recentEvidence,\n      confidenceChange: newConfidence - oldConfidence,\n      actionRequired: statusChange !== undefined,\n    };\n    \n    if (statusChange) {\n      analysis.statusChange = statusChange;\n    }\n    \n    return analysis;\n  }\n  \n  /**\n   * Gather evidence for user-created hypotheses using semantic matching\n   * \n   * This enables agentic tracking for natural language hypotheses like:\n   * - \"Mondays have more bugs than Fridays\"\n   * - \"Code reviews reduce bug rate\"\n   * - \"Security issues cluster in auth code\"\n   */\n  private gatherSemanticEvidence(\n    hypothesis: Hypothesis,\n    issues: Array<{ issue: any; score: number }>\n  ): HypothesisEvidence[] {\n    const evidence: HypothesisEvidence[] = [];\n    const stmt = hypothesis.statement.toLowerCase();\n    \n    // Time-based hypotheses (days of week patterns)\n    if (stmt.includes('monday') || stmt.includes('friday') || stmt.includes('weekend') ||\n        stmt.includes('morning') || stmt.includes('afternoon')) {\n      const dayNames = ['sunday', 'monday', 'tuesday', 'wednesday', 'thursday', 'friday', 'saturday'];\n      const dayOfWeekCounts: Record<number, number> = { 0: 0, 1: 0, 2: 0, 3: 0, 4: 0, 5: 0, 6: 0 };\n      \n      for (const { issue } of issues) {\n        const date = new Date(issue.timestamp);\n        const day = date.getDay();\n        dayOfWeekCounts[day] = (dayOfWeekCounts[day] || 0) + 1;\n      }\n      \n      const totalIssues = Object.values(dayOfWeekCounts).reduce((a, b) => a + b, 0);\n      const avgPerDay = totalIssues / 7;\n      \n      // Check each day mentioned\n      for (let dayIdx = 0; dayIdx < 7; dayIdx++) {\n        const dayName = dayNames[dayIdx]!;\n        if (stmt.includes(dayName)) {\n          const dayCount = dayOfWeekCounts[dayIdx] || 0;\n          \n          if (stmt.includes('more') || stmt.includes('higher') || stmt.includes('spike')) {\n            // Testing if this day has MORE issues\n            if (dayCount > avgPerDay * 1.3) {\n              evidence.push({\n                type: 'supporting',\n                description: `${dayName.charAt(0).toUpperCase() + dayName.slice(1)} has ${dayCount} issues (${((dayCount/avgPerDay - 1) * 100).toFixed(0)}% above average)`,\n                weight: Math.min(0.7, 0.3 + (dayCount / avgPerDay - 1) * 0.3),\n                timestamp: new Date().toISOString(),\n              });\n            } else {\n              evidence.push({\n                type: 'contradicting',\n                description: `${dayName.charAt(0).toUpperCase() + dayName.slice(1)} has average or below average issue count`,\n                weight: 0.3,\n                timestamp: new Date().toISOString(),\n              });\n            }\n          } else if (stmt.includes('fewer') || stmt.includes('less') || stmt.includes('reduce')) {\n            // Testing if this day has FEWER issues\n            if (dayCount < avgPerDay * 0.7) {\n              evidence.push({\n                type: 'supporting',\n                description: `${dayName.charAt(0).toUpperCase() + dayName.slice(1)} has ${dayCount} issues (${((1 - dayCount/avgPerDay) * 100).toFixed(0)}% below average)`,\n                weight: Math.min(0.7, 0.3 + (1 - dayCount / avgPerDay) * 0.3),\n                timestamp: new Date().toISOString(),\n              });\n            }\n          }\n        }\n      }\n    }\n    \n    // Code review hypotheses\n    if (stmt.includes('review') || stmt.includes('pr') || stmt.includes('pull request')) {\n      // Look for patterns in reviewed vs unreviewed code (approximated by commit patterns)\n      const recentIssues = issues.slice(0, 30); // Most recent\n      const olderIssues = issues.slice(30); // Older\n      \n      if (recentIssues.length >= 10 && olderIssues.length >= 10) {\n        const recentRate = recentIssues.length;\n        const olderRate = olderIssues.length;\n        \n        if (stmt.includes('reduce') || stmt.includes('fewer') || stmt.includes('less')) {\n          if (recentRate < olderRate) {\n            evidence.push({\n              type: 'supporting',\n              description: `Recent period has ${((1 - recentRate/olderRate) * 100).toFixed(0)}% fewer issues`,\n              weight: Math.min(0.6, 0.3 + (1 - recentRate/olderRate) * 0.3),\n              timestamp: new Date().toISOString(),\n            });\n          } else {\n            evidence.push({\n              type: 'contradicting',\n              description: `Issue rate has not decreased recently`,\n              weight: 0.2,\n              timestamp: new Date().toISOString(),\n            });\n          }\n        }\n      }\n    }\n    \n    // Directory/location clustering hypotheses\n    if (stmt.includes('cluster') || stmt.includes('concentrate') || stmt.includes('auth') ||\n        stmt.includes('specific') || stmt.includes('certain files')) {\n      const dirCounts: Record<string, number> = {};\n      for (const { issue } of issues) {\n        const dir = dirname(issue.file);\n        dirCounts[dir] = (dirCounts[dir] || 0) + 1;\n      }\n      \n      const sortedDirs = Object.entries(dirCounts).sort(([, a], [, b]) => b - a);\n      const topThreeCount = sortedDirs.slice(0, 3).reduce((sum, [, count]) => sum + count, 0); // Top 3 analysis for clustering detection\n      const totalCount = issues.length;\n      const concentration = topThreeCount / totalCount;\n      \n      if (concentration >= 0.5) {\n        evidence.push({\n          type: 'supporting',\n          description: `Top 3 directories have ${(concentration * 100).toFixed(0)}% of issues (concentrated)`,\n          weight: Math.min(0.7, 0.3 + concentration * 0.4),\n          timestamp: new Date().toISOString(),\n        });\n      } else {\n        evidence.push({\n          type: 'contradicting',\n          description: `Issues are distributed across many directories`,\n          weight: 0.3,\n          timestamp: new Date().toISOString(),\n        });\n      }\n    }\n    \n    // Severity trend hypotheses\n    if (stmt.includes('critical') || stmt.includes('security') || stmt.includes('severity')) {\n      const criticalCount = issues.filter(r => r.issue.severity === 'critical').length;\n      const seriousCount = issues.filter(r => r.issue.severity === 'serious').length;\n      const highSeverityRatio = (criticalCount + seriousCount) / issues.length;\n      \n      if (stmt.includes('increase') || stmt.includes('more') || stmt.includes('rise')) {\n        if (highSeverityRatio > 0.3) {\n          evidence.push({\n            type: 'supporting',\n            description: `${(highSeverityRatio * 100).toFixed(0)}% of issues are high severity`,\n            weight: Math.min(0.7, 0.3 + highSeverityRatio),\n            timestamp: new Date().toISOString(),\n          });\n        }\n      } else if (stmt.includes('decrease') || stmt.includes('fewer') || stmt.includes('reduce')) {\n        if (highSeverityRatio < 0.2) {\n          evidence.push({\n            type: 'supporting',\n            description: `Only ${(highSeverityRatio * 100).toFixed(0)}% of issues are high severity`,\n            weight: 0.5,\n            timestamp: new Date().toISOString(),\n          });\n        }\n      }\n    }\n    \n    // Agent/skill specific hypotheses\n    const agents = ['security', 'performance', 'accessibility', 'test', 'typecheck', 'bug-finding'];\n    for (const agent of agents) {\n      if (stmt.includes(agent) || stmt.includes(agent.replace('-', ' '))) {\n        const agentIssues = issues.filter(r => r.issue.agent === agent);\n        const agentRatio = agentIssues.length / issues.length;\n        \n        if (stmt.includes('most') || stmt.includes('majority') || stmt.includes('main')) {\n          if (agentRatio > 0.4) {\n            evidence.push({\n              type: 'supporting',\n              description: `${agent} accounts for ${(agentRatio * 100).toFixed(0)}% of issues`,\n              weight: Math.min(0.7, 0.3 + agentRatio),\n              timestamp: new Date().toISOString(),\n            });\n          } else {\n            evidence.push({\n              type: 'contradicting',\n              description: `${agent} only accounts for ${(agentRatio * 100).toFixed(0)}% of issues`,\n              weight: 0.3,\n              timestamp: new Date().toISOString(),\n            });\n          }\n        }\n      }\n    }\n    \n    return evidence;\n  }\n  \n  /**\n   * Create an insight for hypothesis status change\n   */\n  private createHypothesisInsight(analysis: HypothesisAnalysis): Insight {\n    const isValidated = analysis.statusChange === 'validated';\n    \n    return {\n      id: `insight-hyp-${analysis.hypothesis.id}`,\n      type: isValidated ? 'celebration' : 'observation',\n      message: isValidated\n        ? `Hypothesis confirmed: \"${analysis.hypothesis.statement}\"`\n        : `Hypothesis disproven: \"${analysis.hypothesis.statement}\"`,\n      context: `Confidence: ${(analysis.hypothesis.confidence * 100).toFixed(0)}%. ${analysis.recentEvidence.length} evidence points analyzed.`,\n      relatedIssues: [],\n      priority: 5,\n      timestamp: Date.now(),\n      dismissed: false,\n      category: 'pattern',\n      details: {\n        examples: analysis.recentEvidence.map(e => `${e.type}: ${e.description}`),\n      },\n    };\n  }\n  \n  /**\n   * Get hypothesis by ID\n   */\n  async getHypothesis(hypothesisId: string): Promise<Hypothesis | undefined> {\n    await this.projectState.load();\n    return this.projectState.getHypothesis(hypothesisId);\n  }\n  \n  /**\n   * Get all hypotheses\n   */\n  async getAllHypotheses(): Promise<Hypothesis[]> {\n    await this.projectState.load();\n    return this.projectState.getAllHypotheses();\n  }\n  \n  /**\n   * Get validated hypotheses\n   */\n  async getValidatedHypotheses(): Promise<Hypothesis[]> {\n    await this.projectState.load();\n    return this.projectState.getValidatedHypotheses();\n  }\n  \n  /**\n   * Get hypothesis accuracy stats\n   */\n  getAccuracy(): number {\n    const metrics = this.projectState.getMetrics();\n    return metrics.hypothesisAccuracy;\n  }\n}\n\n// ============================================================================\n// Singleton Management\n// ============================================================================\n\nconst hypothesisEngines: Map<string, HypothesisEngine> = new Map();\n\n/**\n * Get the HypothesisEngine for a project (singleton per project)\n */\nexport function getHypothesisEngine(projectPath: string): HypothesisEngine {\n  let engine = hypothesisEngines.get(projectPath);\n  if (!engine) {\n    engine = new HypothesisEngine(projectPath);\n    hypothesisEngines.set(projectPath, engine);\n  }\n  return engine;\n}\n\n/**\n * Clear all HypothesisEngine instances (for testing)\n */\nexport function clearHypothesisEngines(): void {\n  hypothesisEngines.clear();\n}\n\n/**\n * Gather evidence for a specific hypothesis (manual check from UI)\n */\nexport async function gatherEvidenceForHypothesis(\n  hypothesisId: string,\n  projectPath: string,\n  signal?: AbortSignal\n): Promise<Array<{ supports: boolean; description: string; weight: number }>> {\n  if (signal?.aborted) throw new DOMException('Scan cancelled', 'AbortError');\n\n  const engine = getHypothesisEngine(projectPath);\n  const projectState = getProjectState(projectPath);\n  await projectState.load();\n  if (signal?.aborted) throw new DOMException('Scan cancelled', 'AbortError');\n\n  const hypothesis = projectState.getAllHypotheses().find(h => h.id === hypothesisId);\n  if (!hypothesis) {\n    throw new Error(`Hypothesis ${hypothesisId} not found`);\n  }\n\n  // Get the analysis - access private method via bracket notation\n  const analysis = await (engine as any).analyzeHypothesis(hypothesis, signal);\n  \n  // Convert evidence to simpler format\n  return analysis.recentEvidence.map((e: HypothesisEvidence) => ({\n    supports: e.type === 'supporting',\n    description: e.description,\n    weight: e.weight,\n  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package/dist/{chunk-FOCXXIXY.js → chunk-YEIJW6X6.js}

@@ -7,7 +7,7 @@ import {
 import {
   getMemoryStats,
   searchIssues
-} from "./chunk-Z2P4WST6.js";
+} from "./chunk-62POBLFC.js";
 
 // src/agent/goal-manager.ts
 import { basename } from "path";
@@ -648,4 +648,4 @@ export {
   getGoalManager,
   clearGoalManagers
 };
-//# sourceMappingURL=chunk-FOCXXIXY.js.map
+//# sourceMappingURL=chunk-YEIJW6X6.js.map