@ncukondo/reference-manager 0.1.0 → 0.4.0

package/dist/index.js

@@ -1,15 +1,12 @@
-import { C as CslLibrarySchema, c as computeFileHash, a as computeHash, b as backupConfigSchema, d as configSchema, e as defaultConfig, g as getDefaultBackupDirectory, f as getDefaultCurrentDirConfigFilename, h as getDefaultLibraryPath, i as getDefaultUserConfigPath, l as loadConfig, j as logLevelSchema, n as normalizePartialConfig, p as partialConfigSchema, w as watchConfigSchema, k as normalize, s as search, m as sortResults, t as tokenize, o as detectDuplicate } from "./chunks/detector-BF8Mcc72.js";
-import { q, L, R, D, E, x, y, A, B, z, r, u, v } from "./chunks/detector-BF8Mcc72.js";
-import * as fs from "node:fs/promises";
+import { C as CslLibrarySchema, c as computeFileHash, a as computeHash, n as normalize, s as search, b as sortResults, t as tokenize, d as detectDuplicate } from "./chunks/file-watcher-B-SiUw5f.js";
+import { e, F, L, R, l, m, g, h, j, k, i, p, f, w } from "./chunks/file-watcher-B-SiUw5f.js";
 import { mkdir, readFile, copyFile, stat, unlink, readdir } from "node:fs/promises";
-import * as path from "node:path";
 import { dirname, join } from "node:path";
 import writeFileAtomicLib from "write-file-atomic";
 import { existsSync } from "node:fs";
 import { tmpdir } from "node:os";
 import { fileURLToPath } from "node:url";
-import { EventEmitter } from "node:events";
-import chokidar from "chokidar";
+import { b as backupConfigSchema, c as configSchema, d as defaultConfig, g as getDefaultBackupDirectory, a as getDefaultCurrentDirConfigFilename, e as getDefaultLibraryPath, f as getDefaultUserConfigPath, l as loadConfig, h as logLevelSchema, n as normalizePartialConfig, p as partialConfigSchema, w as watchConfigSchema } from "./chunks/loader-DuzyKV70.js";
 function validateCslJson(data) {
   const parseResult = CslLibrarySchema.safeParse(data);
   if (!parseResult.success) {
@@ -53,7 +50,7 @@ async function resolvePackageName() {
   try {
     const currentFile = fileURLToPath(import.meta.url);
     let currentDir = dirname(currentFile);
-    for (let i = 0; i < 10; i++) {
+    for (let i2 = 0; i2 < 10; i2++) {
       const packageJsonPath = join(currentDir, "package.json");
       if (existsSync(packageJsonPath)) {
         const content = await readFile(packageJsonPath, "utf-8");
@@ -86,7 +83,7 @@ async function listBackups(libraryName) {
     return [];
   }
   const files = await readdir(backupDir);
-  const backupFiles = files.filter((f) => f.endsWith(".backup")).map((f) => join(backupDir, f));
+  const backupFiles = files.filter((f2) => f2.endsWith(".backup")).map((f2) => join(backupDir, f2));
   const filesWithStats = await Promise.all(
     backupFiles.map(async (file) => {
       const stats = await stat(file);
@@ -94,7 +91,7 @@ async function listBackups(libraryName) {
     })
   );
   filesWithStats.sort((a, b) => b.mtime - a.mtime);
-  return filesWithStats.map((f) => f.file);
+  return filesWithStats.map((f2) => f2.file);
 }
 async function cleanupOldBackups(libraryName, options) {
   const maxGenerations = options?.maxGenerations ?? DEFAULT_MAX_GENERATIONS;
@@ -102,12 +99,12 @@ async function cleanupOldBackups(libraryName, options) {
   const backups = await listBackups(libraryName);
   const now = Date.now();
   const backupsToDelete = [];
-  for (let i = 0; i < backups.length; i++) {
-    const backupPath = backups[i];
+  for (let i2 = 0; i2 < backups.length; i2++) {
+    const backupPath = backups[i2];
     if (!backupPath) continue;
     const stats = await stat(backupPath);
     const age = now - stats.mtimeMs;
-    if (i >= maxGenerations || age > maxAgeMs) {
+    if (i2 >= maxGenerations || age > maxAgeMs) {
       backupsToDelete.push(backupPath);
     }
   }
@@ -370,190 +367,27 @@ const index = /* @__PURE__ */ Object.freeze(/* @__PURE__ */ Object.definePropert
   __proto__: null,
   threeWayMerge
 }, Symbol.toStringTag, { value: "Module" }));
-const DEFAULT_DEBOUNCE_MS = 500;
-const DEFAULT_POLL_INTERVAL_MS = 5e3;
-const DEFAULT_RETRY_DELAY_MS = 200;
-const DEFAULT_MAX_RETRIES = 10;
-function shouldIgnore(filePath) {
-  const basename = path.basename(filePath);
-  if (basename.endsWith(".tmp")) return true;
-  if (basename.endsWith(".bak")) return true;
-  if (basename.includes(".conflict.")) return true;
-  if (basename.endsWith(".lock")) return true;
-  if (basename.startsWith(".") && basename.endsWith(".swp")) return true;
-  if (basename.endsWith("~")) return true;
-  return false;
-}
-class FileWatcher extends EventEmitter {
-  watchPath;
-  debounceMs;
-  pollIntervalMs;
-  usePolling;
-  retryDelayMs;
-  maxRetries;
-  watcher = null;
-  watching = false;
-  debounceTimers = /* @__PURE__ */ new Map();
-  constructor(watchPath, options) {
-    super();
-    this.watchPath = watchPath;
-    this.debounceMs = options?.debounceMs ?? DEFAULT_DEBOUNCE_MS;
-    this.pollIntervalMs = options?.pollIntervalMs ?? DEFAULT_POLL_INTERVAL_MS;
-    this.usePolling = options?.usePolling ?? false;
-    this.retryDelayMs = options?.retryDelayMs ?? DEFAULT_RETRY_DELAY_MS;
-    this.maxRetries = options?.maxRetries ?? DEFAULT_MAX_RETRIES;
-  }
-  /**
-   * Start watching for file changes
-   */
-  async start() {
-    if (this.watching) {
-      return;
-    }
-    return new Promise((resolve, reject) => {
-      this.watcher = chokidar.watch(this.watchPath, {
-        ignored: shouldIgnore,
-        persistent: true,
-        usePolling: this.usePolling,
-        interval: this.pollIntervalMs,
-        ignoreInitial: true,
-        awaitWriteFinish: false
-      });
-      this.watcher.on("ready", () => {
-        this.watching = true;
-        this.emit("ready");
-        resolve();
-      });
-      this.watcher.on("error", (error) => {
-        this.emit("error", error);
-        if (!this.watching) {
-          reject(error);
-        }
-      });
-      this.watcher.on("change", (filePath) => {
-        this.handleFileChange(filePath);
-      });
-      this.watcher.on("add", (filePath) => {
-        this.handleFileChange(filePath);
-      });
-    });
-  }
-  /**
-   * Handle file change with debouncing
-   */
-  handleFileChange(filePath) {
-    const existingTimer = this.debounceTimers.get(filePath);
-    if (existingTimer) {
-      clearTimeout(existingTimer);
-    }
-    const timer = setTimeout(() => {
-      this.debounceTimers.delete(filePath);
-      this.emit("change", filePath);
-      this.tryParseJsonFile(filePath);
-    }, this.debounceMs);
-    this.debounceTimers.set(filePath, timer);
-  }
-  /**
-   * Try to parse JSON file with retries
-   */
-  async tryParseJsonFile(filePath) {
-    if (path.extname(filePath).toLowerCase() !== ".json") {
-      return;
-    }
-    let lastError = null;
-    for (let attempt = 0; attempt <= this.maxRetries; attempt++) {
-      try {
-        const content = await fs.readFile(filePath, "utf-8");
-        const parsed = JSON.parse(content);
-        this.emit("parsed", filePath, parsed);
-        return;
-      } catch (error) {
-        lastError = error;
-        if (attempt < this.maxRetries) {
-          await this.delay(this.retryDelayMs);
-        }
-      }
-    }
-    this.emit("parseError", filePath, lastError);
-  }
-  /**
-   * Delay helper
-   */
-  delay(ms) {
-    return new Promise((resolve) => setTimeout(resolve, ms));
-  }
-  /**
-   * Stop watching for file changes
-   */
-  close() {
-    if (this.watcher) {
-      this.watcher.close();
-      this.watcher = null;
-    }
-    for (const timer of this.debounceTimers.values()) {
-      clearTimeout(timer);
-    }
-    this.debounceTimers.clear();
-    this.watching = false;
-  }
-  /**
-   * Get the watched path
-   */
-  getPath() {
-    return this.watchPath;
-  }
-  /**
-   * Check if the watcher is currently active
-   */
-  isWatching() {
-    return this.watching;
-  }
-  /**
-   * Get the debounce time in milliseconds
-   */
-  getDebounceMs() {
-    return this.debounceMs;
-  }
-  /**
-   * Get the poll interval in milliseconds
-   */
-  getPollIntervalMs() {
-    return this.pollIntervalMs;
-  }
-  /**
-   * Get the retry delay in milliseconds
-   */
-  getRetryDelayMs() {
-    return this.retryDelayMs;
-  }
-  /**
-   * Get the maximum number of retries
-   */
-  getMaxRetries() {
-    return this.maxRetries;
-  }
-}
 export {
   index$3 as Config,
-  q as CslItemSchema,
+  e as CslItemSchema,
   CslLibrarySchema,
   index$1 as Duplicate,
-  FileWatcher,
+  F as FileWatcher,
   L as Library,
   index as Merge,
   R as Reference,
   index$2 as Search,
   index$4 as Utils,
-  D as ensureCustomMetadata,
-  E as extractUuidFromCustom,
-  x as generateId,
-  y as generateIdWithCollisionCheck,
-  A as generateUuid,
-  B as isValidUuid,
-  z as normalizeText,
-  r as parseCslJson,
-  u as serializeCslJson,
+  l as ensureCustomMetadata,
+  m as extractUuidFromCustom,
+  g as generateId,
+  h as generateIdWithCollisionCheck,
+  j as generateUuid,
+  k as isValidUuid,
+  i as normalizeText,
+  p as parseCslJson,
+  f as serializeCslJson,
   validateCslJson,
-  v as writeCslJson
+  w as writeCslJson
 };
 //# sourceMappingURL=index.js.map

package/dist/index.js.map

@@ -1 +1 @@
-{"version":3,"file":"index.js","sources":["../src/core/csl-json/validator.ts","../src/utils/logger.ts","../src/utils/file.ts","../src/utils/backup.ts","../src/features/merge/three-way.ts","../src/features/file-watcher/file-watcher.ts"],"sourcesContent":["import { CslItemSchema, CslLibrarySchema } from \"./types\";\nimport type { CslItem, CslLibrary } from \"./types\";\n\n/**\n * Validate CSL-JSON library structure\n * @param data - Data to validate (can be any type)\n * @returns Validated CSL-JSON library\n * @throws Error if validation fails\n */\nexport function validateCslJson(data: unknown): CslLibrary {\n  const parseResult = CslLibrarySchema.safeParse(data);\n\n  if (!parseResult.success) {\n    throw new Error(`Invalid CSL-JSON structure: ${parseResult.error.message}`);\n  }\n\n  return parseResult.data;\n}\n\n/**\n * Validate a single CSL-JSON item\n * @param data - Data to validate (can be any type)\n * @returns Validation result with valid flag and errors\n */\nexport function validateCslItem(data: unknown): {\n  valid: boolean;\n  data?: CslItem;\n  errors?: string[];\n} {\n  const parseResult = CslItemSchema.safeParse(data);\n\n  if (!parseResult.success) {\n    return {\n      valid: false,\n      errors: parseResult.error.issues.map((issue) => issue.message),\n    };\n  }\n\n  return {\n    valid: true,\n    data: parseResult.data,\n  };\n}\n","export type LogLevel = \"silent\" | \"info\" | \"debug\";\n\nexport interface Logger {\n  info(...args: unknown[]): void;\n  debug(...args: unknown[]): void;\n  error(...args: unknown[]): void;\n}\n\nexport function createLogger(level: LogLevel = \"info\"): Logger {\n  const shouldLogInfo = level === \"info\" || level === \"debug\";\n  const shouldLogDebug = level === \"debug\";\n\n  function formatMessage(...args: unknown[]): string {\n    return `${args.map((arg) => String(arg)).join(\" \")}\\n`;\n  }\n\n  return {\n    info(...args: unknown[]): void {\n      if (shouldLogInfo) {\n        process.stderr.write(formatMessage(...args));\n      }\n    },\n\n    debug(...args: unknown[]): void {\n      if (shouldLogDebug) {\n        process.stderr.write(formatMessage(...args));\n      }\n    },\n\n    error(...args: unknown[]): void {\n      process.stderr.write(formatMessage(...args));\n    },\n  };\n}\n","import { mkdir } from \"node:fs/promises\";\nimport { dirname } from \"node:path\";\nimport writeFileAtomicLib from \"write-file-atomic\";\n\n/**\n * Write file atomically with parent directory creation\n */\nexport async function writeFileAtomic(filePath: string, content: string): Promise<void> {\n  await ensureDirectoryExists(dirname(filePath));\n  await writeFileAtomicLib(filePath, content, { encoding: \"utf-8\" });\n}\n\n/**\n * Ensure directory exists, creating it recursively if necessary\n */\nexport async function ensureDirectoryExists(dirPath: string): Promise<void> {\n  await mkdir(dirPath, { recursive: true });\n}\n","import { existsSync } from \"node:fs\";\nimport { copyFile, readFile, readdir, stat, unlink } from \"node:fs/promises\";\nimport { tmpdir } from \"node:os\";\nimport { dirname, join } from \"node:path\";\nimport { fileURLToPath } from \"node:url\";\nimport { ensureDirectoryExists } from \"./file\";\n\nexport interface BackupOptions {\n  maxGenerations?: number;\n  maxAgeMs?: number;\n}\n\nconst DEFAULT_MAX_GENERATIONS = 50;\nconst DEFAULT_MAX_AGE_MS = 365 * 24 * 60 * 60 * 1000; // 1 year\n\n/**\n * Get package name from package.json\n */\nasync function resolvePackageName(): Promise<string> {\n  try {\n    const currentFile = fileURLToPath(import.meta.url);\n    let currentDir = dirname(currentFile);\n\n    for (let i = 0; i < 10; i++) {\n      const packageJsonPath = join(currentDir, \"package.json\");\n      if (existsSync(packageJsonPath)) {\n        const content = await readFile(packageJsonPath, \"utf-8\");\n        const pkg = JSON.parse(content);\n        return pkg.name;\n      }\n      currentDir = dirname(currentDir);\n    }\n  } catch {\n    // Fall back to hardcoded name if package.json is not found\n  }\n\n  return \"reference-manager\";\n}\n\nconst packageName = await resolvePackageName();\n\n/**\n * Get backup directory path for a library\n */\nexport function getBackupDirectory(libraryName: string): string {\n  const pkgName = packageName ?? \"reference-manager\";\n  return join(tmpdir(), pkgName, \"backups\", libraryName);\n}\n\n/**\n * Create a backup of the given file\n */\nexport async function createBackup(sourceFile: string, libraryName: string): Promise<string> {\n  const backupDir = getBackupDirectory(libraryName);\n  await ensureDirectoryExists(backupDir);\n\n  const timestamp = Date.now();\n  const backupFileName = `${timestamp}.backup`;\n  const backupPath = join(backupDir, backupFileName);\n\n  await copyFile(sourceFile, backupPath);\n\n  return backupPath;\n}\n\n/**\n * List all backups for a library (sorted by modification time, newest first)\n */\nexport async function listBackups(libraryName: string): Promise<string[]> {\n  const backupDir = getBackupDirectory(libraryName);\n\n  if (!existsSync(backupDir)) {\n    return [];\n  }\n\n  const files = await readdir(backupDir);\n  const backupFiles = files.filter((f) => f.endsWith(\".backup\")).map((f) => join(backupDir, f));\n\n  const filesWithStats = await Promise.all(\n    backupFiles.map(async (file) => {\n      const stats = await stat(file);\n      return { file, mtime: stats.mtimeMs };\n    })\n  );\n\n  filesWithStats.sort((a, b) => b.mtime - a.mtime);\n\n  return filesWithStats.map((f) => f.file);\n}\n\n/**\n * Clean up old backups based on generation count and age\n */\nexport async function cleanupOldBackups(\n  libraryName: string,\n  options?: BackupOptions\n): Promise<void> {\n  const maxGenerations = options?.maxGenerations ?? DEFAULT_MAX_GENERATIONS;\n  const maxAgeMs = options?.maxAgeMs ?? DEFAULT_MAX_AGE_MS;\n\n  const backups = await listBackups(libraryName);\n  const now = Date.now();\n\n  const backupsToDelete: string[] = [];\n\n  for (let i = 0; i < backups.length; i++) {\n    const backupPath = backups[i];\n    if (!backupPath) continue;\n\n    const stats = await stat(backupPath);\n    const age = now - stats.mtimeMs;\n\n    if (i >= maxGenerations || age > maxAgeMs) {\n      backupsToDelete.push(backupPath);\n    }\n  }\n\n  await Promise.all(backupsToDelete.map((backup) => unlink(backup)));\n}\n","/**\n * 3-way merge implementation with Last-Write-Wins (LWW) strategy\n */\n\nimport type { CslItem } from \"../../core/csl-json/types.js\";\nimport type {\n  FieldConflict,\n  ItemConflict,\n  MergeOptions,\n  MergeResult,\n  MergeStatus,\n} from \"./types.js\";\n\n/**\n * Get UUID from item, with fallback to id if uuid is missing\n */\nfunction getItemUuid(item: CslItem): string {\n  return item.custom?.uuid || item.id || \"unknown\";\n}\n\n/**\n * Get timestamp from item, with fallback to created_at\n */\nfunction getTimestamp(item: CslItem): string {\n  return item.custom?.timestamp || item.custom?.created_at || \"1970-01-01T00:00:00.000Z\";\n}\n\n/**\n * Deep equality check for field values\n */\nfunction deepEqual(a: unknown, b: unknown): boolean {\n  return JSON.stringify(a) === JSON.stringify(b);\n}\n\n/**\n * Resolve a field conflict using LWW or prefer option\n */\nfunction resolveFieldConflict(\n  localValue: unknown,\n  remoteValue: unknown,\n  localTimestamp: string,\n  remoteTimestamp: string,\n  options?: MergeOptions\n): unknown {\n  if (localTimestamp > remoteTimestamp) {\n    return localValue;\n  }\n  if (remoteTimestamp > localTimestamp) {\n    return remoteValue;\n  }\n  // Timestamps equal: use prefer option or default to local\n  if (options?.prefer === \"remote\") {\n    return remoteValue;\n  }\n  return localValue;\n}\n\n/**\n * Determine conflict resolution type\n */\nfunction determineResolution(\n  fieldConflicts: FieldConflict[],\n  localTimestamp: string,\n  remoteTimestamp: string,\n  options?: MergeOptions\n): ItemConflict[\"resolution\"] {\n  const hasRealConflicts = fieldConflicts.every((fc) => fc.resolved !== undefined);\n  const localIsNewer = fieldConflicts.some(\n    (fc) => fc.local !== fc.remote && localTimestamp > remoteTimestamp\n  );\n  const remoteIsNewer = fieldConflicts.some(\n    (fc) => fc.local !== fc.remote && remoteTimestamp > localTimestamp\n  );\n\n  if (hasRealConflicts && localIsNewer) return \"auto-lww\";\n  if (hasRealConflicts && remoteIsNewer) return \"auto-lww\";\n  if (options?.prefer === \"local\") return \"prefer-local\";\n  if (options?.prefer === \"remote\") return \"prefer-remote\";\n  return \"unresolved\";\n}\n\n/**\n * Merge a single field from base, local, and remote versions\n */\nfunction mergeField(\n  key: string,\n  baseValue: unknown,\n  localValue: unknown,\n  remoteValue: unknown,\n  localTimestamp: string,\n  remoteTimestamp: string,\n  options?: MergeOptions\n): { value: unknown; conflict: FieldConflict | null } {\n  const localChanged = !deepEqual(baseValue, localValue);\n  const remoteChanged = !deepEqual(baseValue, remoteValue);\n\n  if (!localChanged && !remoteChanged) {\n    return { value: baseValue, conflict: null };\n  }\n\n  if (localChanged && !remoteChanged) {\n    return { value: localValue, conflict: null };\n  }\n\n  if (!localChanged && remoteChanged) {\n    return { value: remoteValue, conflict: null };\n  }\n\n  // Both changed\n  if (deepEqual(localValue, remoteValue)) {\n    return { value: localValue, conflict: null };\n  }\n\n  // Both changed to different values\n  const resolved = resolveFieldConflict(\n    localValue,\n    remoteValue,\n    localTimestamp,\n    remoteTimestamp,\n    options\n  );\n\n  // Don't record conflicts for 'custom' metadata field\n  if (key === \"custom\") {\n    return { value: resolved, conflict: null };\n  }\n\n  return {\n    value: resolved,\n    conflict: {\n      field: key,\n      base: baseValue,\n      local: localValue,\n      remote: remoteValue,\n      resolved,\n    },\n  };\n}\n\n/**\n * Merge a single item from base, local, and remote versions\n */\nfunction mergeItem(\n  base: CslItem,\n  local: CslItem,\n  remote: CslItem,\n  options?: MergeOptions\n): { merged: CslItem; conflict: ItemConflict | null } {\n  const uuid = getItemUuid(base);\n  const localTimestamp = getTimestamp(local);\n  const remoteTimestamp = getTimestamp(remote);\n\n  const merged: CslItem = { ...base };\n  const fieldConflicts: FieldConflict[] = [];\n\n  // Get all unique keys from all three versions\n  const allKeys = new Set<string>([\n    ...Object.keys(base),\n    ...Object.keys(local),\n    ...Object.keys(remote),\n  ]);\n\n  for (const key of allKeys) {\n    const baseValue = (base as Record<string, unknown>)[key];\n    const localValue = (local as Record<string, unknown>)[key];\n    const remoteValue = (remote as Record<string, unknown>)[key];\n\n    const { value, conflict } = mergeField(\n      key,\n      baseValue,\n      localValue,\n      remoteValue,\n      localTimestamp,\n      remoteTimestamp,\n      options\n    );\n\n    (merged as Record<string, unknown>)[key] = value;\n\n    if (conflict) {\n      fieldConflicts.push(conflict);\n    }\n  }\n\n  // If there are field conflicts, create ItemConflict\n  if (fieldConflicts.length > 0) {\n    const resolution = determineResolution(\n      fieldConflicts,\n      localTimestamp,\n      remoteTimestamp,\n      options\n    );\n\n    return {\n      merged,\n      conflict: {\n        uuid,\n        id: base.id || \"unknown\",\n        fields: fieldConflicts,\n        localTimestamp,\n        remoteTimestamp,\n        resolution,\n      },\n    };\n  }\n\n  return { merged, conflict: null };\n}\n\n/**\n * Build UUID-indexed maps from item arrays\n */\nfunction buildItemMaps(base: CslItem[], local: CslItem[], remote: CslItem[]) {\n  const baseMap = new Map<string, CslItem>();\n  const localMap = new Map<string, CslItem>();\n  const remoteMap = new Map<string, CslItem>();\n\n  for (const item of base) {\n    baseMap.set(getItemUuid(item), item);\n  }\n  for (const item of local) {\n    localMap.set(getItemUuid(item), item);\n  }\n  for (const item of remote) {\n    remoteMap.set(getItemUuid(item), item);\n  }\n\n  return { baseMap, localMap, remoteMap };\n}\n\n/**\n * Handle items that exist in all three versions\n */\nfunction mergeExistingItem(\n  baseItem: CslItem,\n  localItem: CslItem,\n  remoteItem: CslItem,\n  options: MergeOptions | undefined,\n  merged: CslItem[],\n  conflicts: ItemConflict[]\n): void {\n  const { merged: mergedItem, conflict } = mergeItem(baseItem, localItem, remoteItem, options);\n  merged.push(mergedItem);\n  if (conflict) {\n    conflicts.push(conflict);\n  }\n}\n\n/**\n * Handle items added in both local and remote\n */\nfunction handleDualAddition(\n  uuid: string,\n  localItem: CslItem,\n  remoteItem: CslItem,\n  options: MergeOptions | undefined,\n  merged: CslItem[],\n  conflicts: ItemConflict[]\n): void {\n  if (deepEqual(localItem, remoteItem)) {\n    merged.push(localItem);\n  } else {\n    const syntheticBase: CslItem = {\n      id: uuid,\n      type: \"article\",\n      custom: {\n        uuid,\n        created_at: \"1970-01-01T00:00:00.000Z\",\n        timestamp: \"1970-01-01T00:00:00.000Z\",\n      },\n    };\n    const { merged: mergedItem, conflict } = mergeItem(\n      syntheticBase,\n      localItem,\n      remoteItem,\n      options\n    );\n    merged.push(mergedItem);\n    if (conflict) {\n      conflicts.push(conflict);\n    }\n  }\n}\n\n/**\n * Process a single UUID across all three versions\n */\nfunction processItem(\n  uuid: string,\n  baseMap: Map<string, CslItem>,\n  localMap: Map<string, CslItem>,\n  remoteMap: Map<string, CslItem>,\n  options: MergeOptions | undefined,\n  result: {\n    merged: CslItem[];\n    conflicts: ItemConflict[];\n    localOnly: CslItem[];\n    remoteOnly: CslItem[];\n    deletedInLocal: CslItem[];\n    deletedInRemote: CslItem[];\n  }\n): void {\n  const baseItem = baseMap.get(uuid);\n  const localItem = localMap.get(uuid);\n  const remoteItem = remoteMap.get(uuid);\n\n  if (baseItem && localItem && remoteItem) {\n    mergeExistingItem(baseItem, localItem, remoteItem, options, result.merged, result.conflicts);\n  } else if (!baseItem && localItem && remoteItem) {\n    handleDualAddition(uuid, localItem, remoteItem, options, result.merged, result.conflicts);\n  } else if (!baseItem && localItem && !remoteItem) {\n    result.merged.push(localItem);\n    result.localOnly.push(localItem);\n  } else if (!baseItem && !localItem && remoteItem) {\n    result.merged.push(remoteItem);\n    result.remoteOnly.push(remoteItem);\n  } else if (baseItem && !localItem && remoteItem) {\n    result.deletedInLocal.push(baseItem);\n  } else if (baseItem && localItem && !remoteItem) {\n    result.deletedInRemote.push(baseItem);\n  } else if 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DEFAULT_MAX_AGE_MS;\n\n  const backups = await listBackups(libraryName);\n  const now = Date.now();\n\n  const backupsToDelete: string[] = [];\n\n  for (let i = 0; i < backups.length; i++) {\n    const backupPath = backups[i];\n    if (!backupPath) continue;\n\n    const stats = await stat(backupPath);\n    const age = now - stats.mtimeMs;\n\n    if (i >= maxGenerations || age > maxAgeMs) {\n      backupsToDelete.push(backupPath);\n    }\n  }\n\n  await Promise.all(backupsToDelete.map((backup) => unlink(backup)));\n}\n","/**\n * 3-way merge implementation with Last-Write-Wins (LWW) strategy\n */\n\nimport type { CslItem } from \"../../core/csl-json/types.js\";\nimport type {\n  FieldConflict,\n  ItemConflict,\n  MergeOptions,\n  MergeResult,\n  MergeStatus,\n} from \"./types.js\";\n\n/**\n * Get UUID from item, with fallback to id if uuid is missing\n */\nfunction getItemUuid(item: CslItem): string {\n  return item.custom?.uuid || item.id || \"unknown\";\n}\n\n/**\n * Get timestamp 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FieldConflict[],\n  localTimestamp: string,\n  remoteTimestamp: string,\n  options?: MergeOptions\n): ItemConflict[\"resolution\"] {\n  const hasRealConflicts = fieldConflicts.every((fc) => fc.resolved !== undefined);\n  const localIsNewer = fieldConflicts.some(\n    (fc) => fc.local !== fc.remote && localTimestamp > remoteTimestamp\n  );\n  const remoteIsNewer = fieldConflicts.some(\n    (fc) => fc.local !== fc.remote && remoteTimestamp > localTimestamp\n  );\n\n  if (hasRealConflicts && localIsNewer) return \"auto-lww\";\n  if (hasRealConflicts && remoteIsNewer) return \"auto-lww\";\n  if (options?.prefer === \"local\") return \"prefer-local\";\n  if (options?.prefer === \"remote\") return \"prefer-remote\";\n  return \"unresolved\";\n}\n\n/**\n * Merge a single field from base, local, and remote versions\n */\nfunction mergeField(\n  key: string,\n  baseValue: unknown,\n  localValue: unknown,\n  remoteValue: unknown,\n  localTimestamp: string,\n  remoteTimestamp: string,\n  options?: MergeOptions\n): { value: unknown; conflict: FieldConflict | null } {\n  const localChanged = !deepEqual(baseValue, localValue);\n  const remoteChanged = !deepEqual(baseValue, remoteValue);\n\n  if (!localChanged && !remoteChanged) {\n    return { value: baseValue, conflict: null };\n  }\n\n  if (localChanged && !remoteChanged) {\n    return { value: localValue, conflict: null };\n  }\n\n  if (!localChanged && remoteChanged) {\n    return { value: remoteValue, conflict: null };\n  }\n\n  // Both changed\n  if (deepEqual(localValue, remoteValue)) {\n    return { value: localValue, conflict: null };\n  }\n\n  // Both changed to different values\n  const resolved = resolveFieldConflict(\n    localValue,\n    remoteValue,\n    localTimestamp,\n    remoteTimestamp,\n    options\n  );\n\n  // Don't record conflicts for 'custom' metadata field\n  if (key === \"custom\") {\n    return { value: resolved, conflict: null };\n  }\n\n  return {\n    value: resolved,\n    conflict: {\n      field: key,\n      base: baseValue,\n      local: localValue,\n      remote: remoteValue,\n      resolved,\n    },\n  };\n}\n\n/**\n * Merge a single item from base, local, and remote versions\n */\nfunction mergeItem(\n  base: CslItem,\n  local: CslItem,\n  remote: CslItem,\n  options?: MergeOptions\n): { merged: CslItem; conflict: ItemConflict | null } {\n  const uuid = getItemUuid(base);\n  const localTimestamp = getTimestamp(local);\n  const remoteTimestamp = getTimestamp(remote);\n\n  const merged: CslItem = { ...base };\n  const fieldConflicts: FieldConflict[] = [];\n\n  // Get all unique keys from all three versions\n  const allKeys = new Set<string>([\n    ...Object.keys(base),\n    ...Object.keys(local),\n    ...Object.keys(remote),\n  ]);\n\n  for (const key of allKeys) {\n    const baseValue = (base as Record<string, unknown>)[key];\n    const localValue = (local as Record<string, unknown>)[key];\n    const remoteValue = (remote as Record<string, unknown>)[key];\n\n    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const localMap = new Map<string, CslItem>();\n  const remoteMap = new Map<string, CslItem>();\n\n  for (const item of base) {\n    baseMap.set(getItemUuid(item), item);\n  }\n  for (const item of local) {\n    localMap.set(getItemUuid(item), item);\n  }\n  for (const item of remote) {\n    remoteMap.set(getItemUuid(item), item);\n  }\n\n  return { baseMap, localMap, remoteMap };\n}\n\n/**\n * Handle items that exist in all three versions\n */\nfunction mergeExistingItem(\n  baseItem: CslItem,\n  localItem: CslItem,\n  remoteItem: CslItem,\n  options: MergeOptions | undefined,\n  merged: CslItem[],\n  conflicts: ItemConflict[]\n): void {\n  const { merged: mergedItem, conflict } = mergeItem(baseItem, localItem, remoteItem, options);\n  merged.push(mergedItem);\n  if (conflict) {\n    conflicts.push(conflict);\n  }\n}\n\n/**\n * Handle items added in both local and remote\n */\nfunction handleDualAddition(\n  uuid: string,\n  localItem: CslItem,\n  remoteItem: CslItem,\n  options: 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package/dist/mcp/context.d.ts

@@ -0,0 +1,19 @@
+import type { Config } from "../config/schema.js";
+import { Library } from "../core/library.js";
+import { FileWatcher } from "../features/file-watcher/file-watcher.js";
+/**
+ * MCP context containing library, config, and file watcher.
+ * Simplified context for MCP server (no ExecutionContext pattern).
+ */
+export interface McpContext {
+    library: Library;
+    config: Config;
+    fileWatcher: FileWatcher;
+    dispose: () => Promise<void>;
+}
+export interface CreateMcpContextOptions {
+    configPath: string;
+    libraryPath?: string;
+}
+export declare function createMcpContext(options: CreateMcpContextOptions): Promise<McpContext>;
+//# sourceMappingURL=context.d.ts.map

package/dist/mcp/context.d.ts.map

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package/dist/mcp/index.d.ts

@@ -0,0 +1,20 @@
+import type { Readable, Writable } from "node:stream";
+import { McpServer } from "@modelcontextprotocol/sdk/server/mcp.js";
+import { type McpContext } from "./context.js";
+export interface CreateMcpServerOptions {
+    configPath: string;
+    libraryPath?: string;
+    stdin?: Readable;
+    stdout?: Writable;
+}
+export interface McpServerResult {
+    server: McpServer;
+    context: McpContext;
+    serverInfo: {
+        name: string;
+        version: string;
+    };
+    dispose: () => Promise<void>;
+}
+export declare function createMcpServer(options: CreateMcpServerOptions): Promise<McpServerResult>;
+//# sourceMappingURL=index.d.ts.map

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

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package/dist/mcp/resources/index.d.ts

@@ -0,0 +1,10 @@
+import type { McpServer } from "@modelcontextprotocol/sdk/server/mcp.js";
+import type { Library } from "../../core/library.js";
+/**
+ * Register all resources with the MCP server.
+ *
+ * @param server - The MCP server instance
+ * @param getLibrary - Function to get the current library instance
+ */
+export declare function registerAllResources(server: McpServer, getLibrary: () => Library): void;
+//# sourceMappingURL=index.d.ts.map

package/dist/mcp/resources/index.d.ts.map

@@ -0,0 +1 @@
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package/dist/mcp/resources/library.d.ts

@@ -0,0 +1,26 @@
+import type { McpServer } from "@modelcontextprotocol/sdk/server/mcp.js";
+import type { Library } from "../../core/library.js";
+/**
+ * Register the references resource with the MCP server.
+ * Returns all references as CSL-JSON.
+ *
+ * @param server - The MCP server instance
+ * @param getLibrary - Function to get the current library instance
+ */
+export declare function registerReferencesResource(server: McpServer, getLibrary: () => Library): void;
+/**
+ * Register the single reference resource with the MCP server.
+ * Returns a single reference by ID.
+ *
+ * @param server - The MCP server instance
+ * @param getLibrary - Function to get the current library instance
+ */
+export declare function registerReferenceResource(server: McpServer, getLibrary: () => Library): void;
+/**
+ * Register the styles resource with the MCP server.
+ * Returns available citation styles.
+ *
+ * @param server - The MCP server instance
+ */
+export declare function registerStylesResource(server: McpServer): void;
+//# sourceMappingURL=library.d.ts.map

package/dist/mcp/resources/library.d.ts.map

@@ -0,0 +1 @@
+{"version":3,"file":"library.d.ts","sourceRoot":"","sources":["../../../src/mcp/resources/library.ts"],"names":[],"mappings":"AACA,OAAO,KAAK,EAAE,SAAS,EAAE,MAAM,yCAAyC,CAAC;AAEzE,OAAO,KAAK,EAAE,OAAO,EAAE,MAAM,uBAAuB,CAAC;AAErD;;;;;;GAMG;AACH,wBAAgB,0BAA0B,CAAC,MAAM,EAAE,SAAS,EAAE,UAAU,EAAE,MAAM,OAAO,GAAG,IAAI,CAwB7F;AAED;;;;;;GAMG;AACH,wBAAgB,yBAAyB,CAAC,MAAM,EAAE,SAAS,EAAE,UAAU,EAAE,MAAM,OAAO,GAAG,IAAI,CA4C5F;AAED;;;;;GAKG;AACH,wBAAgB,sBAAsB,CAAC,MAAM,EAAE,SAAS,GAAG,IAAI,CAyB9D"}

package/dist/mcp/tools/add.d.ts

@@ -0,0 +1,17 @@
+import type { McpServer } from "@modelcontextprotocol/sdk/server/mcp.js";
+import type { Library } from "../../core/library.js";
+/**
+ * Parameters for the add tool
+ */
+export interface AddToolParams {
+    /** Input string or array of strings (PMID, DOI, BibTeX, RIS, CSL-JSON) */
+    input: string | string[];
+}
+/**
+ * Register the add tool with the MCP server.
+ *
+ * @param server - The MCP server instance
+ * @param getLibrary - Function to get the current library instance
+ */
+export declare function registerAddTool(server: McpServer, getLibrary: () => Library): void;
+//# sourceMappingURL=add.d.ts.map

package/dist/mcp/tools/add.d.ts.map

@@ -0,0 +1 @@
+{"version":3,"file":"add.d.ts","sourceRoot":"","sources":["../../../src/mcp/tools/add.ts"],"names":[],"mappings":"AAAA,OAAO,KAAK,EAAE,SAAS,EAAE,MAAM,yCAAyC,CAAC;AAEzE,OAAO,KAAK,EAAE,OAAO,EAAE,MAAM,uBAAuB,CAAC;AAGrD;;GAEG;AACH,MAAM,WAAW,aAAa;IAC5B,0EAA0E;IAC1E,KAAK,EAAE,MAAM,GAAG,MAAM,EAAE,CAAC;CAC1B;AAqCD;;;;;GAKG;AACH,wBAAgB,eAAe,CAAC,MAAM,EAAE,SAAS,EAAE,UAAU,EAAE,MAAM,OAAO,GAAG,IAAI,CAkClF"}

package/dist/mcp/tools/cite.d.ts

@@ -0,0 +1,15 @@
+import type { McpServer } from "@modelcontextprotocol/sdk/server/mcp.js";
+import type { Library } from "../../core/library.js";
+export interface CiteToolParams {
+    ids: string[];
+    style?: string | undefined;
+    format?: "text" | "html" | undefined;
+}
+/**
+ * Register the cite tool with the MCP server.
+ *
+ * @param server - The MCP server instance
+ * @param getLibrary - Function to get the current library instance
+ */
+export declare function registerCiteTool(server: McpServer, getLibrary: () => Library): void;
+//# sourceMappingURL=cite.d.ts.map

package/dist/mcp/tools/cite.d.ts.map

@@ -0,0 +1 @@
+{"version":3,"file":"cite.d.ts","sourceRoot":"","sources":["../../../src/mcp/tools/cite.ts"],"names":[],"mappings":"AAAA,OAAO,KAAK,EAAE,SAAS,EAAE,MAAM,yCAAyC,CAAC;AAEzE,OAAO,KAAK,EAAE,OAAO,EAAE,MAAM,uBAAuB,CAAC;AAGrD,MAAM,WAAW,cAAc;IAC7B,GAAG,EAAE,MAAM,EAAE,CAAC;IACd,KAAK,CAAC,EAAE,MAAM,GAAG,SAAS,CAAC;IAC3B,MAAM,CAAC,EAAE,MAAM,GAAG,MAAM,GAAG,SAAS,CAAC;CACtC;AAED;;;;;GAKG;AACH,wBAAgB,gBAAgB,CAAC,MAAM,EAAE,SAAS,EAAE,UAAU,EAAE,MAAM,OAAO,GAAG,IAAI,CAkCnF"}

package/dist/mcp/tools/fulltext.d.ts

@@ -0,0 +1,51 @@
+import type { McpServer } from "@modelcontextprotocol/sdk/server/mcp.js";
+import type { Config } from "../../config/schema.js";
+import type { Library } from "../../core/library.js";
+/**
+ * Parameters for the fulltext_attach tool
+ */
+export interface FulltextAttachToolParams {
+    /** Reference ID */
+    id: string;
+    /** Path to the file to attach */
+    path: string;
+}
+/**
+ * Parameters for the fulltext_get tool
+ */
+export interface FulltextGetToolParams {
+    /** Reference ID */
+    id: string;
+}
+/**
+ * Parameters for the fulltext_detach tool
+ */
+export interface FulltextDetachToolParams {
+    /** Reference ID */
+    id: string;
+}
+/**
+ * Register the fulltext_attach tool with the MCP server.
+ *
+ * @param server - The MCP server instance
+ * @param getLibrary - Function to get the current library instance
+ * @param getConfig - Function to get the current config
+ */
+export declare function registerFulltextAttachTool(server: McpServer, getLibrary: () => Library, getConfig: () => Config): void;
+/**
+ * Register the fulltext_get tool with the MCP server.
+ *
+ * @param server - The MCP server instance
+ * @param getLibrary - Function to get the current library instance
+ * @param getConfig - Function to get the current config
+ */
+export declare function registerFulltextGetTool(server: McpServer, getLibrary: () => Library, getConfig: () => Config): void;
+/**
+ * Register the fulltext_detach tool with the MCP server.
+ *
+ * @param server - The MCP server instance
+ * @param getLibrary - Function to get the current library instance
+ * @param getConfig - Function to get the current config
+ */
+export declare function registerFulltextDetachTool(server: McpServer, getLibrary: () => Library, getConfig: () => Config): void;
+//# sourceMappingURL=fulltext.d.ts.map

package/dist/mcp/tools/fulltext.d.ts.map

@@ -0,0 +1 @@
+{"version":3,"file":"fulltext.d.ts","sourceRoot":"","sources":["../../../src/mcp/tools/fulltext.ts"],"names":[],"mappings":"AAAA,OAAO,KAAK,EAAE,SAAS,EAAE,MAAM,yCAAyC,CAAC;AAEzE,OAAO,KAAK,EAAE,MAAM,EAAE,MAAM,wBAAwB,CAAC;AACrD,OAAO,KAAK,EAAE,OAAO,EAAE,MAAM,uBAAuB,CAAC;AAOrD;;GAEG;AACH,MAAM,WAAW,wBAAwB;IACvC,mBAAmB;IACnB,EAAE,EAAE,MAAM,CAAC;IACX,iCAAiC;IACjC,IAAI,EAAE,MAAM,CAAC;CACd;AAED;;GAEG;AACH,MAAM,WAAW,qBAAqB;IACpC,mBAAmB;IACnB,EAAE,EAAE,MAAM,CAAC;CACZ;AAED;;GAEG;AACH,MAAM,WAAW,wBAAwB;IACvC,mBAAmB;IACnB,EAAE,EAAE,MAAM,CAAC;CACZ;AAED;;;;;;GAMG;AACH,wBAAgB,0BAA0B,CACxC,MAAM,EAAE,SAAS,EACjB,UAAU,EAAE,MAAM,OAAO,EACzB,SAAS,EAAE,MAAM,MAAM,GACtB,IAAI,CAuCN;AAED;;;;;;GAMG;AACH,wBAAgB,uBAAuB,CACrC,MAAM,EAAE,SAAS,EACjB,UAAU,EAAE,MAAM,OAAO,EACzB,SAAS,EAAE,MAAM,MAAM,GACtB,IAAI,CAgEN;AAED;;;;;;GAMG;AACH,wBAAgB,0BAA0B,CACxC,MAAM,EAAE,SAAS,EACjB,UAAU,EAAE,MAAM,OAAO,EACzB,SAAS,EAAE,MAAM,MAAM,GACtB,IAAI,CAqCN"}

package/dist/mcp/tools/index.d.ts

@@ -0,0 +1,12 @@
+import type { McpServer } from "@modelcontextprotocol/sdk/server/mcp.js";
+import type { Config } from "../../config/schema.js";
+import type { Library } from "../../core/library.js";
+/**
+ * Register all tools with the MCP server.
+ *
+ * @param server - The MCP server instance
+ * @param getLibrary - Function to get the current library instance
+ * @param getConfig - Function to get the current config (required for fulltext tools)
+ */
+export declare function registerAllTools(server: McpServer, getLibrary: () => Library, getConfig: () => Config): void;
+//# sourceMappingURL=index.d.ts.map

package/dist/mcp/tools/index.d.ts.map

@@ -0,0 +1 @@
+{"version":3,"file":"index.d.ts","sourceRoot":"","sources":["../../../src/mcp/tools/index.ts"],"names":[],"mappings":"AAAA,OAAO,KAAK,EAAE,SAAS,EAAE,MAAM,yCAAyC,CAAC;AACzE,OAAO,KAAK,EAAE,MAAM,EAAE,MAAM,wBAAwB,CAAC;AACrD,OAAO,KAAK,EAAE,OAAO,EAAE,MAAM,uBAAuB,CAAC;AAYrD;;;;;;GAMG;AACH,wBAAgB,gBAAgB,CAC9B,MAAM,EAAE,SAAS,EACjB,UAAU,EAAE,MAAM,OAAO,EACzB,SAAS,EAAE,MAAM,MAAM,GACtB,IAAI,CASN"}

package/dist/mcp/tools/list.d.ts

@@ -0,0 +1,13 @@
+import type { McpServer } from "@modelcontextprotocol/sdk/server/mcp.js";
+import type { Library } from "../../core/library.js";
+export interface ListToolParams {
+    format?: "json" | "bibtex" | "pretty" | undefined;
+}
+/**
+ * Register the list tool with the MCP server.
+ *
+ * @param server - The MCP server instance
+ * @param getLibrary - Function to get the current library instance
+ */
+export declare function registerListTool(server: McpServer, getLibrary: () => Library): void;
+//# sourceMappingURL=list.d.ts.map

package/dist/mcp/tools/list.d.ts.map

@@ -0,0 +1 @@
+{"version":3,"file":"list.d.ts","sourceRoot":"","sources":["../../../src/mcp/tools/list.ts"],"names":[],"mappings":"AAAA,OAAO,KAAK,EAAE,SAAS,EAAE,MAAM,yCAAyC,CAAC;AAEzE,OAAO,KAAK,EAAE,OAAO,EAAE,MAAM,uBAAuB,CAAC;AAGrD,MAAM,WAAW,cAAc;IAC7B,MAAM,CAAC,EAAE,MAAM,GAAG,QAAQ,GAAG,QAAQ,GAAG,SAAS,CAAC;CACnD;AAED;;;;;GAKG;AACH,wBAAgB,gBAAgB,CAAC,MAAM,EAAE,SAAS,EAAE,UAAU,EAAE,MAAM,OAAO,GAAG,IAAI,CA0BnF"}