@ncukondo/reference-manager 0.27.2 → 0.28.1

package/dist/chunks/{index-Cf5bYLrr.js → index-gwWeJC-c.js}

@@ -1,8 +1,8 @@
 import { useApp, Box, render } from "ink";
 import { useState, useEffect, createElement } from "react";
-import { getActionChoices, OUTPUT_FORMAT_CHOICES, STYLE_CHOICES, isSideEffectAction, generateOutput } from "./action-menu-Crcd5X1-.js";
-import { S as SearchableMultiSelect, t as toChoice$1, c as calculateEffectiveLimit, f as formatAuthors, a as formatIdentifiers } from "./SearchableMultiSelect-0cyizees.js";
-import { S as Select, r as restoreStdinAfterInk } from "./index-DkJT7s7N.js";
+import { getActionChoices, OUTPUT_FORMAT_CHOICES, STYLE_CHOICES, isSideEffectAction, generateOutput } from "./action-menu-BhuUnwdz.js";
+import { S as SearchableMultiSelect, t as toChoice$1, c as calculateEffectiveLimit, f as formatAuthors, a as formatIdentifiers } from "./SearchableMultiSelect-BVp72Ptt.js";
+import { S as Select, r as restoreStdinAfterInk } from "./index-Dk83ayti.js";
 function SearchFlowApp({
   choices,
   filterFn,
@@ -392,4 +392,4 @@ export {
   runCiteFlow,
   runSearchFlow
 };
-//# sourceMappingURL=index-Cf5bYLrr.js.map
+//# sourceMappingURL=index-gwWeJC-c.js.map

package/dist/chunks/{index-Cf5bYLrr.js.map → index-gwWeJC-c.js.map}

@@ -1 +1 @@
-{"version":3,"file":"index-Cf5bYLrr.js","sources":["../../src/features/interactive/apps/SearchFlowApp.tsx","../../src/features/interactive/apps/runSearchFlow.ts","../../src/features/interactive/apps/CiteFlowApp.tsx","../../src/features/interactive/apps/runCiteFlow.ts"],"sourcesContent":["/**\n * SearchFlowApp - Single App for search -t flow\n *\n * Manages state transitions: search → action → (style/output-format if needed)\n * Following React Ink Single App Pattern (ADR-015)\n */\n\nimport { Box, useApp } from \"ink\";\nimport type React from \"react\";\nimport { createElement, useEffect, useState } from \"react\";\nimport type { CitationKeyFormat } from \"../../../config/schema.js\";\nimport type { CslItem } from \"../../../core/csl-json/types.js\";\nimport {\n  type ActionMenuResult,\n  type ActionType,\n  OUTPUT_FORMAT_CHOICES,\n  type OutputFormatType,\n  STYLE_CHOICES,\n  generateOutput,\n  getActionChoices,\n  isSideEffectAction,\n} from \"../action-menu.js\";\nimport {\n  type Choice,\n  SearchableMultiSelect,\n  Select,\n  type SortOption,\n} from \"../components/index.js\";\n\n/**\n * Flow states for the search flow\n */\ntype FlowState = \"search\" | \"action\" | \"style\" | \"output-format\" | \"exiting\";\n\n/**\n * Props for SearchFlowApp\n */\nexport interface SearchFlowAppProps {\n  /** Choices for the search prompt */\n  choices: Choice<CslItem>[];\n  /** Filter function for search */\n  filterFn: (query: string, choices: Choice<CslItem>[]) => Choice<CslItem>[];\n  /** Number of visible items */\n  visibleCount: number;\n  /** Default sort option */\n  defaultSort: SortOption;\n  /** Default citation key format */\n  defaultKeyFormat: CitationKeyFormat;\n  /** Default citation style */\n  defaultStyle: string;\n  /** Debounce delay in milliseconds for search filtering */\n  debounceMs?: number;\n  /** Callback when flow completes */\n  onComplete: (result: ActionMenuResult) => void;\n  /** Callback when flow is cancelled */\n  onCancel: () => void;\n}\n\n/**\n * SearchFlowApp component\n *\n * Single App that manages search → action → style/output-format flow\n */\nexport function SearchFlowApp({\n  choices,\n  filterFn,\n  visibleCount,\n  defaultSort,\n  defaultKeyFormat,\n  defaultStyle,\n  debounceMs,\n  onComplete,\n  onCancel,\n}: SearchFlowAppProps): React.ReactElement {\n  const { exit } = useApp();\n  const [state, setState] = useState<FlowState>(\"search\");\n  const [selectedItems, setSelectedItems] = useState<CslItem[]>([]);\n  const [pendingResult, setPendingResult] = useState<ActionMenuResult | null>(null);\n\n  // Exit when entering \"exiting\" state (after rendering empty component)\n  useEffect(() => {\n    if (state === \"exiting\" && pendingResult) {\n      exit();\n      if (pendingResult.cancelled) {\n        onCancel();\n      } else {\n        onComplete(pendingResult);\n      }\n    }\n  }, [state, pendingResult, exit, onCancel, onComplete]);\n\n  // Transition to exiting state with result\n  const exitWith = (result: ActionMenuResult) => {\n    setPendingResult(result);\n    setState(\"exiting\");\n  };\n\n  // Handle search submission\n  const handleSearchSubmit = (selected: Choice<CslItem>[]) => {\n    if (selected.length === 0) {\n      exitWith({ action: \"cancel\", output: \"\", cancelled: true });\n      return;\n    }\n    setSelectedItems(selected.map((c) => c.value));\n    setState(\"action\");\n  };\n\n  // Handle search cancel\n  const handleSearchCancel = () => {\n    exitWith({ action: \"cancel\", output: \"\", cancelled: true });\n  };\n\n  // Handle action selection\n  const handleActionSelect = (action: ActionType) => {\n    if (action === \"cancel\") {\n      exitWith({ action: \"cancel\", output: \"\", cancelled: true });\n      return;\n    }\n\n    // If cite-choose, go to style selection\n    if (action === \"cite-choose\") {\n      setState(\"style\");\n      return;\n    }\n\n    // If output-format, go to output format submenu\n    if (action === \"output-format\") {\n      setState(\"output-format\");\n      return;\n    }\n\n    // Handle side-effect actions\n    if (isSideEffectAction(action)) {\n      exitWith({ action, output: \"\", cancelled: false, selectedItems });\n      return;\n    }\n\n    // Generate output and complete\n    const output = generateOutput(action, selectedItems, {\n      defaultKeyFormat,\n      defaultStyle,\n    });\n    exitWith({ action, output, cancelled: false });\n  };\n\n  // Handle action cancel (go back to search)\n  const handleActionCancel = () => {\n    setState(\"search\");\n  };\n\n  // Handle style selection\n  const handleStyleSelect = (style: string) => {\n    const output = generateOutput(\"cite-choose\", selectedItems, {\n      defaultKeyFormat,\n      defaultStyle: style,\n    });\n    exitWith({ action: \"cite-choose\", output, cancelled: false });\n  };\n\n  // Handle style cancel (go back to action)\n  const handleStyleCancel = () => {\n    setState(\"action\");\n  };\n\n  // Handle output format selection\n  const handleOutputFormatSelect = (format: OutputFormatType) => {\n    if (format === \"cancel\") {\n      setState(\"action\");\n      return;\n    }\n\n    const output = generateOutput(format, selectedItems, {\n      defaultKeyFormat,\n      defaultStyle,\n    });\n    exitWith({ action: \"output-format\", output, cancelled: false });\n  };\n\n  // Handle output format cancel (go back to action)\n  const handleOutputFormatCancel = () => {\n    setState(\"action\");\n  };\n\n  // Render based on current state\n  if (state === \"exiting\") {\n    // Empty component - Ink will clear the previous content\n    return createElement(Box);\n  }\n\n  if (state === \"search\") {\n    return createElement(SearchableMultiSelect<CslItem>, {\n      choices,\n      filterFn,\n      visibleCount,\n      onSubmit: handleSearchSubmit,\n      onCancel: handleSearchCancel,\n      header: \"Search references\",\n      placeholder: \"Type to search...\",\n      defaultSort,\n      ...(debounceMs !== undefined && { debounceMs }),\n    });\n  }\n\n  if (state === \"action\") {\n    const count = selectedItems.length;\n    const refWord = count === 1 ? \"reference\" : \"references\";\n    return createElement(Select<ActionType>, {\n      key: \"action\",\n      options: getActionChoices(count, { defaultKeyFormat }),\n      message: `Action for ${count} selected ${refWord}:`,\n      onSelect: handleActionSelect,\n      onCancel: handleActionCancel,\n    });\n  }\n\n  if (state === \"output-format\") {\n    return createElement(Select<OutputFormatType>, {\n      key: \"output-format\",\n      options: OUTPUT_FORMAT_CHOICES,\n      message: \"Select output format:\",\n      onSelect: handleOutputFormatSelect,\n      onCancel: handleOutputFormatCancel,\n    });\n  }\n\n  // state === \"style\"\n  return createElement(Select<string>, {\n    key: \"style\",\n    options: STYLE_CHOICES,\n    message: \"Select citation style:\",\n    onSelect: handleStyleSelect,\n    onCancel: handleStyleCancel,\n  });\n}\n","/**\n * Runner for SearchFlowApp\n *\n * Provides the public API for running the search flow.\n */\n\nimport { render } from \"ink\";\nimport { createElement } from \"react\";\nimport type { CitationKeyFormat } from \"../../../config/schema.js\";\nimport type { CslItem } from \"../../../core/csl-json/types.js\";\nimport type { SearchResult } from \"../../search/types.js\";\nimport type { ActionMenuResult } from \"../action-menu.js\";\nimport { restoreStdinAfterInk } from \"../alternate-screen.js\";\nimport { toChoice } from \"../choice-builder.js\";\nimport { type Choice, type SortOption, calculateEffectiveLimit } from \"../components/index.js\";\nimport { SearchFlowApp } from \"./SearchFlowApp.js\";\n\n/**\n * Configuration for the search flow\n */\nexport interface SearchFlowConfig {\n  /** Maximum number of results to display */\n  limit: number;\n  /** Debounce delay in milliseconds for search filtering */\n  debounceMs: number;\n  /** Default citation key format */\n  defaultKeyFormat?: CitationKeyFormat;\n  /** Default citation style */\n  defaultStyle?: string;\n}\n\n/**\n * Search function type for filtering references\n */\nexport type SearchFunction = (query: string) => SearchResult[];\n\n/**\n * Run the search flow (search → action → style if needed)\n *\n * This is the main entry point for the `search -t` command.\n */\nexport async function runSearchFlow(\n  allReferences: CslItem[],\n  searchFn: SearchFunction,\n  config: SearchFlowConfig\n): Promise<ActionMenuResult> {\n  // Convert references to choices and build lookup map\n  const choices = allReferences.map(toChoice);\n  const choiceMap = new Map(choices.map((c) => [c.id, c]));\n\n  // Calculate effective visible count\n  const effectiveLimit = calculateEffectiveLimit(config.limit);\n\n  // Create filter function using the provided search function\n  const filterFn = (query: string, choices: Choice<CslItem>[]): Choice<CslItem>[] => {\n    if (!query.trim()) return choices;\n\n    const results = searchFn(query);\n    return results.flatMap((r) => {\n      const choice = choiceMap.get(r.reference.id);\n      return choice ? [choice] : [];\n    });\n  };\n\n  // Default sort option\n  const defaultSort: SortOption = \"updated-desc\";\n\n  // Create a promise to capture the result\n  return new Promise<ActionMenuResult>((resolve) => {\n    let flowResult: ActionMenuResult = {\n      action: \"cancel\",\n      output: \"\",\n      cancelled: true,\n    };\n\n    const handleComplete = (result: ActionMenuResult): void => {\n      flowResult = result;\n    };\n\n    const handleCancel = (): void => {\n      flowResult = {\n        action: \"cancel\",\n        output: \"\",\n        cancelled: true,\n      };\n    };\n\n    // Render the Ink app (single render for entire flow)\n    const { waitUntilExit } = render(\n      createElement(SearchFlowApp, {\n        choices,\n        filterFn,\n        visibleCount: effectiveLimit,\n        defaultSort,\n        defaultKeyFormat: config.defaultKeyFormat ?? \"pandoc\",\n        defaultStyle: config.defaultStyle ?? \"apa\",\n        debounceMs: config.debounceMs,\n        onComplete: handleComplete,\n        onCancel: handleCancel,\n      })\n    );\n\n    // Wait for the app to exit, then resolve\n    waitUntilExit()\n      .then(() => {\n        restoreStdinAfterInk();\n        resolve(flowResult);\n      })\n      .catch(() => {\n        restoreStdinAfterInk();\n        resolve({\n          action: \"cancel\",\n          output: \"\",\n          cancelled: true,\n        });\n      });\n  });\n}\n","/**\n * CiteFlowApp - Single App for cite command flow\n *\n * Implements the Single App Pattern (ADR-015) for the cite command.\n * Manages state transitions: reference selection → style selection → exiting\n */\n\nimport { Box, useApp } from \"ink\";\nimport type React from \"react\";\nimport { createElement, useEffect, useState } from \"react\";\nimport type { CslItem } from \"../../../core/csl-json/types.js\";\nimport { SearchableMultiSelect } from \"../components/SearchableMultiSelect.js\";\nimport { Select, type SelectOption } from \"../components/Select.js\";\nimport type { Choice, SortOption } from \"../components/index.js\";\n\n// Flow states\ntype FlowState = \"search\" | \"style\" | \"exiting\";\n\n/**\n * Result from the cite flow\n */\nexport interface CiteFlowResult {\n  /** Selected reference IDs */\n  identifiers: string[];\n  /** Selected style (if style selection was shown) */\n  style?: string;\n  /** Whether the flow was cancelled */\n  cancelled: boolean;\n}\n\n/**\n * Props for CiteFlowApp\n */\nexport interface CiteFlowAppProps {\n  /** All reference choices */\n  choices: Choice<CslItem>[];\n  /** Filter function for search */\n  filterFn: (query: string, choices: Choice<CslItem>[]) => Choice<CslItem>[];\n  /** Number of visible items */\n  visibleCount: number;\n  /** Default sort option */\n  defaultSort: SortOption;\n  /** Style options for style selection */\n  styleOptions: SelectOption<string>[];\n  /** Whether to show style selection (false if style already specified) */\n  showStyleSelect: boolean;\n  /** Callback when flow completes */\n  onComplete: (result: CiteFlowResult) => void;\n  /** Callback when flow is cancelled */\n  onCancel: () => void;\n}\n\n/**\n * CiteFlowApp component\n *\n * Single Ink app that handles the entire cite flow:\n * 1. Reference selection (SearchableMultiSelect)\n * 2. Style selection (Select) - optional\n * 3. Exit\n */\nexport function CiteFlowApp({\n  choices,\n  filterFn,\n  visibleCount,\n  defaultSort,\n  styleOptions,\n  showStyleSelect,\n  onComplete,\n  onCancel,\n}: CiteFlowAppProps): React.ReactElement {\n  const { exit } = useApp();\n  const [state, setState] = useState<FlowState>(\"search\");\n  const [selectedItems, setSelectedItems] = useState<CslItem[]>([]);\n  const [pendingResult, setPendingResult] = useState<CiteFlowResult | null>(null);\n\n  // Exit when entering \"exiting\" state\n  useEffect(() => {\n    if (state === \"exiting\" && pendingResult) {\n      exit();\n      if (pendingResult.cancelled) {\n        onCancel();\n      } else {\n        onComplete(pendingResult);\n      }\n    }\n  }, [state, pendingResult, exit, onCancel, onComplete]);\n\n  // Transition to exiting state with result\n  const exitWith = (result: CiteFlowResult) => {\n    setPendingResult(result);\n    setState(\"exiting\");\n  };\n\n  // Handle search submission\n  const handleSearchSubmit = (selected: Choice<CslItem>[]) => {\n    if (selected.length === 0) {\n      exitWith({ identifiers: [], cancelled: true });\n      return;\n    }\n    const items = selected.map((c) => c.value);\n    setSelectedItems(items);\n\n    if (showStyleSelect) {\n      setState(\"style\");\n    } else {\n      // No style selection needed, complete immediately\n      exitWith({\n        identifiers: items.map((item) => item.id),\n        cancelled: false,\n      });\n    }\n  };\n\n  // Handle search cancel\n  const handleSearchCancel = () => {\n    exitWith({ identifiers: [], cancelled: true });\n  };\n\n  // Handle style selection\n  const handleStyleSelect = (style: string) => {\n    exitWith({\n      identifiers: selectedItems.map((item) => item.id),\n      style,\n      cancelled: false,\n    });\n  };\n\n  // Handle style cancel (go back to search)\n  const handleStyleCancel = () => {\n    setState(\"search\");\n  };\n\n  // Render based on current state\n  if (state === \"exiting\") {\n    return createElement(Box);\n  }\n\n  if (state === \"search\") {\n    return createElement(SearchableMultiSelect<CslItem>, {\n      choices,\n      filterFn,\n      visibleCount,\n      onSubmit: handleSearchSubmit,\n      onCancel: handleSearchCancel,\n      header: \"Select references to cite\",\n      placeholder: \"Type to search...\",\n      defaultSort,\n    });\n  }\n\n  // state === \"style\"\n  const count = selectedItems.length;\n  const refWord = count === 1 ? \"reference\" : \"references\";\n  return createElement(Select<string>, {\n    options: styleOptions,\n    message: `Select citation style for ${count} ${refWord}:`,\n    onSelect: handleStyleSelect,\n    onCancel: handleStyleCancel,\n  });\n}\n","/**\n * Runner for CiteFlowApp\n *\n * Provides the public API for running the cite flow.\n */\n\nimport { render } from \"ink\";\nimport { createElement } from \"react\";\nimport type { CslItem } from \"../../../core/csl-json/types.js\";\nimport type { SearchResult } from \"../../search/types.js\";\nimport { restoreStdinAfterInk } from \"../alternate-screen.js\";\nimport { formatIdentifiers } from \"../choice-builder.js\";\nimport {\n  type Choice,\n  type SelectOption,\n  type SortOption,\n  calculateEffectiveLimit,\n} from \"../components/index.js\";\nimport { formatAuthors } from \"../format.js\";\nimport { CiteFlowApp, type CiteFlowResult } from \"./CiteFlowApp.js\";\n\n/**\n * Configuration for the cite flow\n */\nexport interface CiteFlowConfig {\n  /** Maximum number of results to display */\n  limit: number;\n}\n\n/**\n * Search function type for filtering references\n */\nexport type SearchFunction = (query: string) => SearchResult[];\n\n/**\n * Extract year from CSL item\n */\nfunction extractYear(item: CslItem): number | undefined {\n  const dateParts = item.issued?.[\"date-parts\"];\n  if (!dateParts || dateParts.length === 0) return undefined;\n  const firstDatePart = dateParts[0];\n  if (!firstDatePart || firstDatePart.length === 0) return undefined;\n  return firstDatePart[0];\n}\n\n/**\n * Extract published date from CSL item\n */\nfunction extractPublishedDate(item: CslItem): Date | undefined {\n  const dateParts = item.issued?.[\"date-parts\"];\n  if (!dateParts || dateParts.length === 0) return undefined;\n  const firstDatePart = dateParts[0];\n  if (!firstDatePart || firstDatePart.length === 0) return undefined;\n  const [year, month = 1, day = 1] = firstDatePart;\n  if (year === undefined) return undefined;\n  return new Date(year, month - 1, day);\n}\n\n/**\n * Extract updated date from CSL item (from custom.timestamp)\n */\nfunction extractUpdatedDate(item: CslItem): Date | undefined {\n  const dateStr = item.custom?.timestamp;\n  if (!dateStr || typeof dateStr !== \"string\") return undefined;\n  const date = new Date(dateStr);\n  return Number.isNaN(date.getTime()) ? undefined : date;\n}\n\n/**\n * Extract created date from CSL item (from custom.created_at)\n */\nfunction extractCreatedDate(item: CslItem): Date | undefined {\n  const dateStr = item.custom?.created_at;\n  if (!dateStr || typeof dateStr !== \"string\") return undefined;\n  const date = new Date(dateStr);\n  return Number.isNaN(date.getTime()) ? undefined : date;\n}\n\n/**\n * Format item type for display\n */\nfunction formatType(type: string): string {\n  const typeMap: Record<string, string> = {\n    \"article-journal\": \"Journal article\",\n    \"article-magazine\": \"Magazine article\",\n    \"article-newspaper\": \"Newspaper article\",\n    book: \"Book\",\n    chapter: \"Book chapter\",\n    \"paper-conference\": \"Conference paper\",\n    thesis: \"Thesis\",\n    report: \"Report\",\n    webpage: \"Web page\",\n  };\n  return typeMap[type] ?? type;\n}\n\n/**\n * Convert CslItem to Choice for SearchableMultiSelect\n */\nfunction toChoice(item: CslItem): Choice<CslItem> {\n  const authors = formatAuthors(item.author);\n  const year = extractYear(item);\n  const identifiers = formatIdentifiers(item);\n  const itemType = formatType(item.type);\n\n  // Build meta line: Year · Type · Identifiers\n  const metaParts: string[] = [];\n  if (year) metaParts.push(String(year));\n  metaParts.push(itemType);\n  if (identifiers) metaParts.push(identifiers);\n\n  const updatedDate = extractUpdatedDate(item);\n  const createdDate = extractCreatedDate(item);\n  const publishedDate = extractPublishedDate(item);\n\n  return {\n    id: item.id,\n    title: item.title ?? \"(No title)\",\n    subtitle: authors || \"(No authors)\",\n    meta: metaParts.join(\" · \"),\n    value: item,\n    ...(updatedDate && { updatedDate }),\n    ...(createdDate && { createdDate }),\n    ...(publishedDate && { publishedDate }),\n  };\n}\n\n/**\n * Options for running the cite flow\n */\nexport interface RunCiteFlowOptions {\n  /** All references available for selection */\n  allReferences: CslItem[];\n  /** Search function for filtering */\n  searchFn: SearchFunction;\n  /** Flow configuration */\n  config: CiteFlowConfig;\n  /** Style options for style selection */\n  styleOptions: SelectOption<string>[];\n  /** Whether to show style selection */\n  showStyleSelect: boolean;\n}\n\n/**\n * Run the cite flow (reference selection → style selection if needed)\n *\n * This is the main entry point for interactive cite command.\n */\nexport async function runCiteFlow(options: RunCiteFlowOptions): Promise<CiteFlowResult> {\n  const { allReferences, searchFn, config, styleOptions, showStyleSelect } = options;\n\n  // Convert references to choices\n  const choices = allReferences.map(toChoice);\n\n  // Calculate effective visible count\n  const effectiveLimit = calculateEffectiveLimit(config.limit);\n\n  // Create filter function using the provided search function\n  const filterFn = (query: string, choices: Choice<CslItem>[]): Choice<CslItem>[] => {\n    if (!query.trim()) return choices;\n\n    const results = searchFn(query);\n    return results.map((r) => toChoice(r.reference));\n  };\n\n  // Default sort option\n  const defaultSort: SortOption = \"updated-desc\";\n\n  // Create a promise to capture the result\n  return new Promise<CiteFlowResult>((resolve) => {\n    let flowResult: CiteFlowResult = {\n      identifiers: [],\n      cancelled: true,\n    };\n\n    const handleComplete = (result: CiteFlowResult): void => {\n      flowResult = result;\n    };\n\n    const handleCancel = (): void => {\n      flowResult = {\n        identifiers: [],\n        cancelled: true,\n      };\n    };\n\n    // Render the Ink app (single render for entire flow)\n    const { waitUntilExit } = render(\n      createElement(CiteFlowApp, {\n        choices,\n        filterFn,\n        visibleCount: effectiveLimit,\n        defaultSort,\n        styleOptions,\n        showStyleSelect,\n        onComplete: handleComplete,\n        onCancel: handleCancel,\n      })\n    );\n\n    // Wait for the app to exit, then resolve\n    waitUntilExit()\n      .then(() => {\n        restoreStdinAfterInk();\n        resolve(flowResult);\n      })\n      .catch(() => {\n        restoreStdinAfterInk();\n        resolve({\n          identifiers: [],\n          cancelled: true,\n        });\n      });\n  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debounceMs: number;\n  /** Default citation key format */\n  defaultKeyFormat?: CitationKeyFormat;\n  /** Default citation style */\n  defaultStyle?: string;\n}\n\n/**\n * Search function type for filtering references\n */\nexport type SearchFunction = (query: string) => SearchResult[];\n\n/**\n * Run the search flow (search → action → style if needed)\n *\n * This is the main entry point for the `search -t` command.\n */\nexport async function runSearchFlow(\n  allReferences: CslItem[],\n  searchFn: SearchFunction,\n  config: SearchFlowConfig\n): Promise<ActionMenuResult> {\n  // Convert references to choices and build lookup map\n  const choices = allReferences.map(toChoice);\n  const choiceMap = new Map(choices.map((c) => [c.id, c]));\n\n  // Calculate effective visible count\n  const effectiveLimit = calculateEffectiveLimit(config.limit);\n\n  // Create filter function using the provided search function\n  const filterFn = (query: string, choices: Choice<CslItem>[]): Choice<CslItem>[] => {\n    if (!query.trim()) return choices;\n\n    const results = searchFn(query);\n    return results.flatMap((r) => {\n      const choice = choiceMap.get(r.reference.id);\n      return choice ? 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Reference selection (SearchableMultiSelect)\n * 2. Style selection (Select) - optional\n * 3. Exit\n */\nexport function CiteFlowApp({\n  choices,\n  filterFn,\n  visibleCount,\n  defaultSort,\n  styleOptions,\n  showStyleSelect,\n  onComplete,\n  onCancel,\n}: CiteFlowAppProps): React.ReactElement {\n  const { exit } = useApp();\n  const [state, setState] = useState<FlowState>(\"search\");\n  const [selectedItems, setSelectedItems] = useState<CslItem[]>([]);\n  const [pendingResult, setPendingResult] = useState<CiteFlowResult | null>(null);\n\n  // Exit when entering \"exiting\" state\n  useEffect(() => {\n    if (state === \"exiting\" && pendingResult) {\n      exit();\n      if (pendingResult.cancelled) {\n        onCancel();\n      } else {\n        onComplete(pendingResult);\n      }\n    }\n  }, [state, pendingResult, exit, onCancel, onComplete]);\n\n  // Transition to exiting state with result\n  const exitWith = (result: CiteFlowResult) => {\n    setPendingResult(result);\n    setState(\"exiting\");\n  };\n\n  // Handle search submission\n  const handleSearchSubmit = (selected: Choice<CslItem>[]) => {\n    if (selected.length === 0) {\n      exitWith({ identifiers: [], cancelled: true });\n      return;\n    }\n    const items = selected.map((c) => c.value);\n    setSelectedItems(items);\n\n    if (showStyleSelect) {\n      setState(\"style\");\n    } else {\n      // No style selection needed, complete immediately\n      exitWith({\n        identifiers: items.map((item) => item.id),\n        cancelled: false,\n      });\n    }\n  };\n\n  // Handle search cancel\n  const handleSearchCancel = () => {\n    exitWith({ identifiers: [], cancelled: true });\n  };\n\n  // Handle style selection\n  const handleStyleSelect = (style: string) => {\n    exitWith({\n      identifiers: selectedItems.map((item) => item.id),\n      style,\n      cancelled: false,\n    });\n  };\n\n  // Handle style cancel (go back to search)\n  const handleStyleCancel = () => {\n    setState(\"search\");\n  };\n\n  // Render based on current state\n  if (state === \"exiting\") {\n 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\"../../search/types.js\";\nimport { restoreStdinAfterInk } from \"../alternate-screen.js\";\nimport { formatIdentifiers } from \"../choice-builder.js\";\nimport {\n  type Choice,\n  type SelectOption,\n  type SortOption,\n  calculateEffectiveLimit,\n} from \"../components/index.js\";\nimport { formatAuthors } from \"../format.js\";\nimport { CiteFlowApp, type CiteFlowResult } from \"./CiteFlowApp.js\";\n\n/**\n * Configuration for the cite flow\n */\nexport interface CiteFlowConfig {\n  /** Maximum number of results to display */\n  limit: number;\n}\n\n/**\n * Search function type for filtering references\n */\nexport type SearchFunction = (query: string) => SearchResult[];\n\n/**\n * Extract year from CSL item\n */\nfunction extractYear(item: CslItem): number | undefined {\n  const dateParts = item.issued?.[\"date-parts\"];\n  if (!dateParts || dateParts.length === 0) return undefined;\n  const firstDatePart = dateParts[0];\n  if (!firstDatePart || firstDatePart.length === 0) return undefined;\n  return firstDatePart[0];\n}\n\n/**\n * Extract published date from CSL item\n */\nfunction extractPublishedDate(item: CslItem): Date | undefined {\n  const dateParts = item.issued?.[\"date-parts\"];\n  if (!dateParts || dateParts.length === 0) return undefined;\n  const firstDatePart = dateParts[0];\n  if (!firstDatePart || firstDatePart.length === 0) return undefined;\n  const [year, month = 1, day = 1] = firstDatePart;\n  if (year === undefined) return undefined;\n  return new Date(year, month - 1, day);\n}\n\n/**\n * Extract updated date from CSL item (from custom.timestamp)\n */\nfunction extractUpdatedDate(item: CslItem): Date | undefined {\n  const dateStr = item.custom?.timestamp;\n  if (!dateStr || typeof dateStr !== \"string\") return undefined;\n  const date = new Date(dateStr);\n  return Number.isNaN(date.getTime()) ? undefined : date;\n}\n\n/**\n * Extract created date from CSL item (from custom.created_at)\n */\nfunction extractCreatedDate(item: CslItem): Date | undefined {\n  const dateStr = item.custom?.created_at;\n  if (!dateStr || typeof dateStr !== \"string\") return undefined;\n  const date = new Date(dateStr);\n  return Number.isNaN(date.getTime()) ? undefined : date;\n}\n\n/**\n * Format item type for display\n */\nfunction formatType(type: string): string {\n  const typeMap: Record<string, string> = {\n    \"article-journal\": \"Journal article\",\n    \"article-magazine\": \"Magazine article\",\n    \"article-newspaper\": \"Newspaper article\",\n    book: \"Book\",\n    chapter: \"Book chapter\",\n    \"paper-conference\": \"Conference paper\",\n    thesis: \"Thesis\",\n    report: \"Report\",\n    webpage: \"Web page\",\n  };\n  return typeMap[type] ?? type;\n}\n\n/**\n * Convert CslItem to Choice for SearchableMultiSelect\n */\nfunction toChoice(item: CslItem): Choice<CslItem> {\n  const authors = formatAuthors(item.author);\n  const year = extractYear(item);\n  const identifiers = formatIdentifiers(item);\n  const itemType = formatType(item.type);\n\n  // Build meta line: Year · Type · Identifiers\n  const metaParts: string[] = [];\n  if (year) metaParts.push(String(year));\n  metaParts.push(itemType);\n  if (identifiers) metaParts.push(identifiers);\n\n  const updatedDate = extractUpdatedDate(item);\n  const createdDate = extractCreatedDate(item);\n  const publishedDate = extractPublishedDate(item);\n\n  return {\n    id: item.id,\n    title: item.title ?? \"(No title)\",\n    subtitle: authors || \"(No authors)\",\n    meta: metaParts.join(\" · \"),\n    value: item,\n    ...(updatedDate && { updatedDate }),\n    ...(createdDate && { createdDate }),\n    ...(publishedDate && { publishedDate }),\n  };\n}\n\n/**\n * Options for running the cite flow\n */\nexport interface RunCiteFlowOptions {\n  /** All references available for selection */\n  allReferences: CslItem[];\n  /** Search function for filtering */\n  searchFn: SearchFunction;\n  /** Flow configuration */\n  config: CiteFlowConfig;\n  /** Style options for style selection */\n  styleOptions: SelectOption<string>[];\n  /** Whether to show style selection */\n  showStyleSelect: boolean;\n}\n\n/**\n * Run the cite flow (reference selection → style selection if needed)\n *\n * This is the main entry point for interactive cite command.\n */\nexport async function runCiteFlow(options: RunCiteFlowOptions): Promise<CiteFlowResult> {\n  const { allReferences, searchFn, config, styleOptions, showStyleSelect } = options;\n\n  // Convert references to choices\n  const choices = allReferences.map(toChoice);\n\n  // Calculate effective visible count\n  const effectiveLimit = calculateEffectiveLimit(config.limit);\n\n  // Create filter function using the provided search function\n  const filterFn = (query: string, choices: Choice<CslItem>[]): Choice<CslItem>[] => {\n    if (!query.trim()) return choices;\n\n    const results = searchFn(query);\n    return results.map((r) => toChoice(r.reference));\n  };\n\n  // Default sort option\n  const defaultSort: SortOption = \"updated-desc\";\n\n  // Create a promise to capture the result\n  return new Promise<CiteFlowResult>((resolve) => {\n    let flowResult: CiteFlowResult = {\n      identifiers: [],\n      cancelled: true,\n    };\n\n    const handleComplete = (result: CiteFlowResult): void => {\n      flowResult = result;\n    };\n\n    const handleCancel = (): void => {\n      flowResult = {\n        identifiers: [],\n        cancelled: true,\n      };\n    };\n\n    // Render the Ink app (single render for entire flow)\n    const { waitUntilExit } = render(\n      createElement(CiteFlowApp, {\n        choices,\n        filterFn,\n        visibleCount: effectiveLimit,\n        defaultSort,\n        styleOptions,\n        showStyleSelect,\n        onComplete: handleComplete,\n        onCancel: handleCancel,\n      })\n    );\n\n    // Wait for the app to exit, then resolve\n    waitUntilExit()\n      .then(() => {\n        restoreStdinAfterInk();\n        resolve(flowResult);\n      })\n      .catch(() => {\n        restoreStdinAfterInk();\n        resolve({\n          identifiers: [],\n          cancelled: true,\n        });\n      });\n  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package/dist/chunks/{loader-B-fte1uv.js → loader-B6sytmQd.js}

@@ -5,7 +5,7 @@ import path__default, { join } from "node:path";
 import { parse } from "@iarna/toml";
 import process$1 from "node:process";
 import { z } from "zod";
-import { a as sortOrderSchema, b as sortFieldSchema } from "./file-watcher-Dlx0PolG.js";
+import { a as sortOrderSchema, b as sortFieldSchema } from "./file-watcher-CWHg1yol.js";
 function isWSL() {
   if (process.env.WSL_DISTRO_NAME !== void 0) {
     return true;
@@ -850,4 +850,4 @@ export {
   partialConfigSchema as p,
   watchConfigSchema as w
 };
-//# sourceMappingURL=loader-B-fte1uv.js.map
+//# sourceMappingURL=loader-B6sytmQd.js.map

package/dist/chunks/{loader-B-fte1uv.js.map → loader-B6sytmQd.js.map}

@@ -1 +1 @@
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Combined with proc.unref(), this can cause Node.js to exit\n  // before the close event fires.\n  const keepAliveTimer = setInterval(() => {\n    // No-op: timer exists solely to keep event loop active\n  }, 60000);\n\n  return new Promise<void>((resolve, reject) => {\n    const proc: ChildProcess = spawn(command as string, args, {\n      detached: true,\n      stdio: \"ignore\",\n    });\n\n    const cleanup = (): void => {\n      clearInterval(keepAliveTimer);\n    };\n\n    proc.on(\"error\", (err: NodeJS.ErrnoException) => {\n      cleanup();\n      // Check if the command was not found (ENOENT)\n      if (err.code === \"ENOENT\") {\n        if (wsl && command === \"wslview\") {\n          reject(new Error(\"wslview not found. Install with: sudo apt install wslu\"));\n        } else if (command === \"xdg-open\") {\n          reject(new Error(\"xdg-open not found. 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defaultLocale: z.string(),\n  defaultFormat: citationFormatSchema,\n  defaultKeyFormat: citationKeyFormatSchema,\n});\n\n/**\n * PubMed API configuration schema\n */\nexport const pubmedConfigSchema = z.object({\n  email: z.string().optional(),\n  apiKey: z.string().optional(),\n});\n\n/**\n * Fulltext source enum schema\n */\nexport const fulltextSourceSchema = z.enum([\"pmc\", \"arxiv\", \"unpaywall\", \"core\"]);\nconst fulltextPreferredTypeSchema = z.enum([\"pdf\", \"markdown\"]);\n\n/**\n * Fulltext retrieval configuration schema\n */\nexport const fulltextConfigSchema = z.object({\n  preferSources: z.array(fulltextSourceSchema),\n  preferredType: fulltextPreferredTypeSchema.optional(),\n  autoFetchOnAdd: z.boolean(),\n  sources: z.object({\n    unpaywallEmail: z.string().optional(),\n    coreApiKey: z.string().optional(),\n    ncbiEmail: z.string().optional(),\n    ncbiTool: z.string().optional(),\n  }),\n});\n\n/**\n * Attachments storage configuration schema\n */\nexport const attachmentsConfigSchema = z.object({\n  directory: z.string().min(1),\n});\n\n/**\n * Complete configuration schema\n */\nexport const configSchema = z.object({\n  library: z.string().min(1),\n  logLevel: logLevelSchema,\n  email: z.string().optional(),\n  backup: backupConfigSchema,\n  watch: watchConfigSchema,\n  server: serverConfigSchema,\n  citation: citationConfigSchema,\n  pubmed: pubmedConfigSchema,\n  fulltext: fulltextConfigSchema,\n  attachments: attachmentsConfigSchema,\n  cli: cliConfigSchema,\n  mcp: mcpConfigSchema,\n});\n\n/**\n * Partial configuration schema (for TOML files)\n * Supports both camelCase and snake_case field names\n */\nexport const partialConfigSchema = z\n  .object({\n    library: z.string().min(1).optional(),\n    logLevel: logLevelSchema.optional(),\n    log_level: logLevelSchema.optional(), // snake_case support\n    email: z.string().optional(),\n    backup: z\n      .object({\n        maxGenerations: z.number().int().positive().optional(),\n        max_generations: z.number().int().positive().optional(),\n        maxAgeDays: z.number().int().positive().optional(),\n        max_age_days: z.number().int().positive().optional(),\n        directory: z.string().min(1).optional(),\n      })\n      .optional(),\n    watch: z\n      .object({\n        debounceMs: z.number().int().nonnegative().optional(),\n        debounce_ms: z.number().int().nonnegative().optional(),\n        pollIntervalMs: z.number().int().positive().optional(),\n        poll_interval_ms: z.number().int().positive().optional(),\n        retryIntervalMs: z.number().int().positive().optional(),\n        retry_interval_ms: z.number().int().positive().optional(),\n        maxRetries: z.number().int().nonnegative().optional(),\n        max_retries: z.number().int().nonnegative().optional(),\n      })\n      .optional(),\n    server: z\n      .object({\n        autoStart: z.boolean().optional(),\n        auto_start: z.boolean().optional(),\n        autoStopMinutes: z.number().int().nonnegative().optional(),\n        auto_stop_minutes: z.number().int().nonnegative().optional(),\n      })\n      .optional(),\n    citation: z\n      .object({\n        defaultStyle: z.string().optional(),\n        default_style: z.string().optional(),\n        cslDirectory: z.union([z.string(), z.array(z.string())]).optional(),\n        csl_directory: z.union([z.string(), z.array(z.string())]).optional(),\n        defaultLocale: z.string().optional(),\n        default_locale: z.string().optional(),\n        defaultFormat: citationFormatSchema.optional(),\n        default_format: citationFormatSchema.optional(),\n        defaultKeyFormat: citationKeyFormatSchema.optional(),\n        default_key_format: citationKeyFormatSchema.optional(),\n      })\n      .optional(),\n    pubmed: z\n      .object({\n        email: z.string().optional(),\n        apiKey: z.string().optional(),\n        api_key: z.string().optional(),\n      })\n      .optional(),\n    fulltext: z\n      .object({\n        preferSources: z.array(fulltextSourceSchema).optional(),\n        prefer_sources: z.array(fulltextSourceSchema).optional(),\n        preferredType: fulltextPreferredTypeSchema.optional(),\n        preferred_type: fulltextPreferredTypeSchema.optional(),\n        autoFetchOnAdd: z.boolean().optional(),\n        auto_fetch_on_add: z.boolean().optional(),\n        sources: z\n          .object({\n            unpaywallEmail: z.string().optional(),\n            unpaywall_email: z.string().optional(),\n            coreApiKey: z.string().optional(),\n            core_api_key: z.string().optional(),\n            ncbiEmail: z.string().optional(),\n            ncbi_email: z.string().optional(),\n            ncbiTool: z.string().optional(),\n            ncbi_tool: z.string().optional(),\n          })\n          .optional(),\n      })\n      .optional(),\n    attachments: z\n      .object({\n        directory: z.string().min(1).optional(),\n      })\n      .optional(),\n    cli: z\n      .object({\n        defaultLimit: z.number().int().nonnegative().optional(),\n        default_limit: z.number().int().nonnegative().optional(),\n        defaultSort: sortFieldSchema.optional(),\n        default_sort: sortFieldSchema.optional(),\n        defaultOrder: sortOrderSchema.optional(),\n        default_order: sortOrderSchema.optional(),\n        tui: z\n          .object({\n            limit: z.number().int().nonnegative().optional(),\n            debounceMs: z.number().int().nonnegative().optional(),\n            debounce_ms: z.number().int().nonnegative().optional(),\n            clipboardAutoCopy: z.boolean().optional(),\n            clipboard_auto_copy: z.boolean().optional(),\n          })\n          .optional(),\n        edit: z\n          .object({\n            defaultFormat: editFormatSchema.optional(),\n            default_format: editFormatSchema.optional(),\n          })\n          .optional(),\n      })\n      .optional(),\n    mcp: z\n      .object({\n        defaultLimit: z.number().int().nonnegative().optional(),\n        default_limit: z.number().int().nonnegative().optional(),\n      })\n      .optional(),\n  })\n  .passthrough(); // Allow unknown fields in TOML files\n\n/**\n * Inferred types from schemas\n */\nexport type LogLevel = z.infer<typeof logLevelSchema>;\nexport type BackupConfig = z.infer<typeof backupConfigSchema>;\nexport type WatchConfig = z.infer<typeof watchConfigSchema>;\nexport type ServerConfig = z.infer<typeof serverConfigSchema>;\nexport type CitationFormat = z.infer<typeof citationFormatSchema>;\nexport type CitationKeyFormat = z.infer<typeof citationKeyFormatSchema>;\nexport type CitationConfig = z.infer<typeof citationConfigSchema>;\nexport type PubmedConfig = z.infer<typeof pubmedConfigSchema>;\nexport type FulltextSource = z.infer<typeof fulltextSourceSchema>;\nexport type FulltextPreferredType = z.infer<typeof fulltextPreferredTypeSchema>;\nexport type FulltextConfig = z.infer<typeof fulltextConfigSchema>;\nexport type AttachmentsConfig = z.infer<typeof attachmentsConfigSchema>;\nexport type TuiConfig = z.infer<typeof tuiConfigSchema>;\nexport type EditConfigFormat = z.infer<typeof editFormatSchema>;\nexport type EditConfig = z.infer<typeof editConfigSchema>;\nexport type CliConfig = z.infer<typeof cliConfigSchema>;\nexport type McpConfig = z.infer<typeof mcpConfigSchema>;\nexport type Config = z.infer<typeof configSchema>;\nexport type PartialConfig = z.infer<typeof partialConfigSchema>;\n\n/**\n * Deep partial type for Config\n */\nexport type DeepPartialConfig = {\n  library?: string;\n  logLevel?: LogLevel;\n  email?: string;\n  backup?: Partial<BackupConfig>;\n  watch?: Partial<WatchConfig>;\n  server?: Partial<ServerConfig>;\n  citation?: Partial<CitationConfig>;\n  pubmed?: Partial<PubmedConfig>;\n  fulltext?: Partial<Omit<FulltextConfig, \"sources\">> & {\n    sources?: Partial<FulltextConfig[\"sources\"]>;\n  };\n  attachments?: Partial<AttachmentsConfig>;\n  cli?: Partial<Omit<CliConfig, \"tui\" | \"edit\">> & {\n    tui?: Partial<TuiConfig>;\n    edit?: Partial<EditConfig>;\n  };\n  mcp?: Partial<McpConfig>;\n};\n\n/**\n * Normalize backup configuration from snake_case to camelCase\n */\nfunction normalizeBackupConfig(\n  backup: Partial<{\n    maxGenerations?: number;\n    max_generations?: number;\n    maxAgeDays?: number;\n    max_age_days?: number;\n    directory?: string;\n  }>\n): Partial<BackupConfig> | undefined {\n  const normalized: Partial<BackupConfig> = {};\n\n  const maxGenerations = backup.maxGenerations ?? backup.max_generations;\n  if (maxGenerations !== undefined) {\n    normalized.maxGenerations = maxGenerations;\n  }\n\n  const maxAgeDays = backup.maxAgeDays ?? backup.max_age_days;\n  if (maxAgeDays !== undefined) {\n    normalized.maxAgeDays = maxAgeDays;\n  }\n\n  if (backup.directory !== undefined) {\n    normalized.directory = backup.directory;\n  }\n\n  return Object.keys(normalized).length > 0 ? normalized : undefined;\n}\n\n/**\n * Normalize watch configuration from snake_case to camelCase\n */\nfunction normalizeWatchConfig(\n  watch: Partial<{\n    debounceMs?: number;\n    debounce_ms?: number;\n    pollIntervalMs?: number;\n    poll_interval_ms?: number;\n    retryIntervalMs?: number;\n    retry_interval_ms?: number;\n    maxRetries?: number;\n    max_retries?: number;\n  }>\n): Partial<WatchConfig> | undefined {\n  const normalized: Partial<WatchConfig> = {};\n\n  const debounceMs = watch.debounceMs ?? watch.debounce_ms;\n  if (debounceMs !== undefined) {\n    normalized.debounceMs = debounceMs;\n  }\n\n  const pollIntervalMs = watch.pollIntervalMs ?? watch.poll_interval_ms;\n  if (pollIntervalMs !== undefined) {\n    normalized.pollIntervalMs = pollIntervalMs;\n  }\n\n  const retryIntervalMs = watch.retryIntervalMs ?? watch.retry_interval_ms;\n  if (retryIntervalMs !== undefined) {\n    normalized.retryIntervalMs = retryIntervalMs;\n  }\n\n  const maxRetries = watch.maxRetries ?? watch.max_retries;\n  if (maxRetries !== undefined) {\n    normalized.maxRetries = maxRetries;\n  }\n\n  return Object.keys(normalized).length > 0 ? normalized : undefined;\n}\n\n/**\n * Normalize server configuration from snake_case to camelCase\n */\nfunction normalizeServerConfig(\n  server: Partial<{\n    autoStart?: boolean;\n    auto_start?: boolean;\n    autoStopMinutes?: number;\n    auto_stop_minutes?: number;\n  }>\n): Partial<ServerConfig> | undefined {\n  const normalized: Partial<ServerConfig> = {};\n\n  const autoStart = server.autoStart ?? server.auto_start;\n  if (autoStart !== undefined) {\n    normalized.autoStart = autoStart;\n  }\n\n  const autoStopMinutes = server.autoStopMinutes ?? server.auto_stop_minutes;\n  if (autoStopMinutes !== undefined) {\n    normalized.autoStopMinutes = autoStopMinutes;\n  }\n\n  return Object.keys(normalized).length > 0 ? normalized : undefined;\n}\n\n/**\n * Normalize citation configuration from snake_case to camelCase\n */\nfunction normalizeCitationConfig(\n  citation: Partial<{\n    defaultStyle?: string;\n    default_style?: string;\n    cslDirectory?: string | string[];\n    csl_directory?: string | string[];\n    defaultLocale?: string;\n    default_locale?: string;\n    defaultFormat?: CitationFormat;\n    default_format?: CitationFormat;\n    defaultKeyFormat?: CitationKeyFormat;\n    default_key_format?: CitationKeyFormat;\n  }>\n): Partial<CitationConfig> | undefined {\n  const normalized: Partial<CitationConfig> = {};\n\n  const defaultStyle = citation.defaultStyle ?? citation.default_style;\n  if (defaultStyle !== undefined) {\n    normalized.defaultStyle = defaultStyle;\n  }\n\n  const cslDirectory = citation.cslDirectory ?? citation.csl_directory;\n  if (cslDirectory !== undefined) {\n    // Normalize to array: string -> [string]\n    normalized.cslDirectory = Array.isArray(cslDirectory) ? cslDirectory : [cslDirectory];\n  }\n\n  const defaultLocale = citation.defaultLocale ?? citation.default_locale;\n  if (defaultLocale !== undefined) {\n    normalized.defaultLocale = defaultLocale;\n  }\n\n  const defaultFormat = citation.defaultFormat ?? citation.default_format;\n  if (defaultFormat !== undefined) {\n    normalized.defaultFormat = defaultFormat;\n  }\n\n  const defaultKeyFormat =\n    (citation as Record<string, unknown>).defaultKeyFormat ??\n    (citation as Record<string, unknown>).default_key_format;\n  if (defaultKeyFormat !== undefined) {\n    normalized.defaultKeyFormat = defaultKeyFormat as CitationKeyFormat;\n  }\n\n  return Object.keys(normalized).length > 0 ? normalized : undefined;\n}\n\n/**\n * Normalize pubmed configuration from snake_case to camelCase\n */\nfunction normalizePubmedConfig(\n  pubmed: Partial<{\n    email?: string;\n    apiKey?: string;\n    api_key?: string;\n  }>\n): Partial<PubmedConfig> | undefined {\n  const normalized: Partial<PubmedConfig> = {};\n\n  if (pubmed.email !== undefined) {\n    normalized.email = pubmed.email;\n  }\n\n  const apiKey = pubmed.apiKey ?? pubmed.api_key;\n  if (apiKey !== undefined) {\n    normalized.apiKey = apiKey;\n  }\n\n  return Object.keys(normalized).length > 0 ? normalized : undefined;\n}\n\n/**\n * Normalize fulltext configuration from snake_case to camelCase\n */\nfunction normalizeFulltextConfig(\n  fulltext: Partial<{\n    preferSources?: FulltextSource[];\n    prefer_sources?: FulltextSource[];\n    preferredType?: FulltextPreferredType;\n    preferred_type?: FulltextPreferredType;\n    autoFetchOnAdd?: boolean;\n    auto_fetch_on_add?: boolean;\n    sources?: Partial<{\n      unpaywallEmail?: string;\n      unpaywall_email?: string;\n      coreApiKey?: string;\n      core_api_key?: string;\n    }>;\n  }>\n): DeepPartialConfig[\"fulltext\"] | undefined {\n  const normalized: NonNullable<DeepPartialConfig[\"fulltext\"]> = {};\n\n  const preferSources = fulltext.preferSources ?? fulltext.prefer_sources;\n  if (preferSources !== undefined) {\n    normalized.preferSources = preferSources;\n  }\n\n  const preferredType = fulltext.preferredType ?? fulltext.preferred_type;\n  if (preferredType !== undefined) {\n    normalized.preferredType = preferredType;\n  }\n\n  const autoFetchOnAdd = fulltext.autoFetchOnAdd ?? fulltext.auto_fetch_on_add;\n  if (autoFetchOnAdd !== undefined) {\n    normalized.autoFetchOnAdd = autoFetchOnAdd;\n  }\n\n  const sources = normalizeFulltextSources(fulltext.sources);\n  if (sources !== undefined) {\n    normalized.sources = sources;\n  }\n\n  return Object.keys(normalized).length > 0 ? normalized : undefined;\n}\n\nfunction normalizeFulltextSources(\n  sources?: Partial<{\n    unpaywallEmail?: string;\n    unpaywall_email?: string;\n    coreApiKey?: string;\n    core_api_key?: string;\n    ncbiEmail?: string;\n    ncbi_email?: string;\n    ncbiTool?: string;\n    ncbi_tool?: string;\n  }>\n): Partial<FulltextConfig[\"sources\"]> | undefined {\n  if (sources === undefined) {\n    return undefined;\n  }\n\n  const normalized: Partial<FulltextConfig[\"sources\"]> = {};\n\n  const unpaywallEmail = sources.unpaywallEmail ?? sources.unpaywall_email;\n  if (unpaywallEmail !== undefined) {\n    normalized.unpaywallEmail = unpaywallEmail;\n  }\n\n  const coreApiKey = sources.coreApiKey ?? sources.core_api_key;\n  if (coreApiKey !== undefined) {\n    normalized.coreApiKey = coreApiKey;\n  }\n\n  const ncbiEmail = sources.ncbiEmail ?? sources.ncbi_email;\n  if (ncbiEmail !== undefined) {\n    normalized.ncbiEmail = ncbiEmail;\n  }\n\n  const ncbiTool = sources.ncbiTool ?? sources.ncbi_tool;\n  if (ncbiTool !== undefined) {\n    normalized.ncbiTool = ncbiTool;\n  }\n\n  return Object.keys(normalized).length > 0 ? normalized : undefined;\n}\n\n/**\n * Section normalizers mapping\n */\nconst sectionNormalizers = {\n  backup: normalizeBackupConfig,\n  watch: normalizeWatchConfig,\n  server: normalizeServerConfig,\n  citation: normalizeCitationConfig,\n  pubmed: normalizePubmedConfig,\n  fulltext: normalizeFulltextConfig,\n  attachments: normalizeAttachmentsConfig,\n  cli: normalizeCliConfig,\n  mcp: normalizeMcpConfig,\n} as const;\n\ntype SectionKey = keyof typeof sectionNormalizers;\n\n/**\n * Helper to apply a normalizer function to a config section\n */\nfunction applyNormalizer<K extends SectionKey>(\n  normalized: DeepPartialConfig,\n  partial: PartialConfig,\n  key: K,\n  normalizer: (typeof sectionNormalizers)[K]\n): void {\n  const value = partial[key];\n  if (value !== undefined) {\n    const result = (normalizer as (input: unknown) => DeepPartialConfig[K] | undefined)(value);\n    if (result) {\n      normalized[key] = result;\n    }\n  }\n}\n\n/**\n * Normalize snake_case fields to camelCase\n */\nexport function normalizePartialConfig(partial: PartialConfig): DeepPartialConfig {\n  const normalized: DeepPartialConfig = {};\n\n  // Simple fields\n  if (partial.library !== undefined) {\n    normalized.library = partial.library;\n  }\n  const logLevel = partial.logLevel ?? partial.log_level;\n  if (logLevel !== undefined) {\n    normalized.logLevel = logLevel;\n  }\n  if (partial.email !== undefined) {\n    normalized.email = partial.email;\n  }\n\n  // Section fields\n  for (const key of Object.keys(sectionNormalizers) as SectionKey[]) {\n    applyNormalizer(normalized, partial, key, sectionNormalizers[key]);\n  }\n\n  return normalized;\n}\n\n/**\n * Normalize attachments configuration\n */\nfunction normalizeAttachmentsConfig(attachments: {\n  directory?: string | undefined;\n}): Partial<AttachmentsConfig> | undefined {\n  const normalized: Partial<AttachmentsConfig> = {};\n\n  if (attachments.directory !== undefined) {\n    normalized.directory = attachments.directory;\n  }\n\n  return Object.keys(normalized).length > 0 ? normalized : undefined;\n}\n\n/**\n * Normalize TUI config subsection\n */\nfunction normalizeTuiSection(\n  tui: Partial<{\n    limit?: number;\n    debounceMs?: number;\n    debounce_ms?: number;\n    clipboardAutoCopy?: boolean;\n    clipboard_auto_copy?: boolean;\n  }>\n): Partial<TuiConfig> | undefined {\n  const normalized: Partial<TuiConfig> = {};\n  if (tui.limit !== undefined) {\n    normalized.limit = tui.limit;\n  }\n  const debounceMs = tui.debounceMs ?? tui.debounce_ms;\n  if (debounceMs !== undefined) {\n    normalized.debounceMs = debounceMs;\n  }\n  const clipboardAutoCopy = tui.clipboardAutoCopy ?? tui.clipboard_auto_copy;\n  if (clipboardAutoCopy !== undefined) {\n    normalized.clipboardAutoCopy = clipboardAutoCopy;\n  }\n  return Object.keys(normalized).length > 0 ? normalized : undefined;\n}\n\n/**\n * Normalize edit config subsection\n */\nfunction normalizeEditSection(\n  edit: Partial<{\n    defaultFormat?: EditConfigFormat;\n    default_format?: EditConfigFormat;\n  }>\n): Partial<EditConfig> | undefined {\n  const normalized: Partial<EditConfig> = {};\n  const defaultFormat = edit.defaultFormat ?? edit.default_format;\n  if (defaultFormat !== undefined) {\n    normalized.defaultFormat = defaultFormat;\n  }\n  return Object.keys(normalized).length > 0 ? normalized : undefined;\n}\n\n/**\n * Normalize CLI configuration from snake_case to camelCase\n */\nfunction normalizeCliConfig(\n  cli: Partial<{\n    defaultLimit?: number;\n    default_limit?: number;\n    defaultSort?: CliConfig[\"defaultSort\"];\n    default_sort?: CliConfig[\"defaultSort\"];\n    defaultOrder?: CliConfig[\"defaultOrder\"];\n    default_order?: CliConfig[\"defaultOrder\"];\n    tui?: Partial<{\n      limit?: number;\n      debounceMs?: number;\n      debounce_ms?: number;\n    }>;\n    edit?: Partial<{\n      defaultFormat?: EditConfigFormat;\n      default_format?: EditConfigFormat;\n    }>;\n  }>\n): Partial<CliConfig> | undefined {\n  const normalized: Partial<CliConfig> = {};\n\n  const defaultLimit = cli.defaultLimit ?? cli.default_limit;\n  if (defaultLimit !== undefined) {\n    normalized.defaultLimit = defaultLimit;\n  }\n\n  const defaultSort = cli.defaultSort ?? cli.default_sort;\n  if (defaultSort !== undefined) {\n    normalized.defaultSort = defaultSort;\n  }\n\n  const defaultOrder = cli.defaultOrder ?? cli.default_order;\n  if (defaultOrder !== undefined) {\n    normalized.defaultOrder = defaultOrder;\n  }\n\n  if (cli.tui !== undefined) {\n    const tui = normalizeTuiSection(cli.tui);\n    if (tui) {\n      normalized.tui = tui as TuiConfig;\n    }\n  }\n\n  if (cli.edit !== undefined) {\n    const edit = normalizeEditSection(cli.edit);\n    if (edit) {\n      normalized.edit = edit as EditConfig;\n    }\n  }\n\n  return Object.keys(normalized).length > 0 ? normalized : undefined;\n}\n\n/**\n * Normalize MCP configuration from snake_case to camelCase\n */\nfunction normalizeMcpConfig(\n  mcp: Partial<{\n    defaultLimit?: number;\n    default_limit?: number;\n  }>\n): Partial<McpConfig> | undefined {\n  const normalized: Partial<McpConfig> = {};\n\n  const defaultLimit = mcp.defaultLimit ?? mcp.default_limit;\n  if (defaultLimit !== undefined) {\n    normalized.defaultLimit = defaultLimit;\n  }\n\n  return Object.keys(normalized).length > 0 ? normalized : undefined;\n}\n","import path from 'node:path';\nimport os from 'node:os';\nimport process from 'node:process';\n\nconst homedir = os.homedir();\nconst tmpdir = os.tmpdir();\nconst {env} = process;\n\nconst macos = name => {\n\tconst library = path.join(homedir, 'Library');\n\n\treturn {\n\t\tdata: path.join(library, 'Application Support', name),\n\t\tconfig: path.join(library, 'Preferences', name),\n\t\tcache: path.join(library, 'Caches', name),\n\t\tlog: path.join(library, 'Logs', name),\n\t\ttemp: path.join(tmpdir, name),\n\t};\n};\n\nconst windows = name => {\n\tconst appData = env.APPDATA || path.join(homedir, 'AppData', 'Roaming');\n\tconst localAppData = env.LOCALAPPDATA || path.join(homedir, 'AppData', 'Local');\n\n\treturn {\n\t\t// Data/config/cache/log are invented by me as Windows isn't opinionated about this\n\t\tdata: path.join(localAppData, name, 'Data'),\n\t\tconfig: path.join(appData, name, 'Config'),\n\t\tcache: path.join(localAppData, name, 'Cache'),\n\t\tlog: path.join(localAppData, name, 'Log'),\n\t\ttemp: path.join(tmpdir, name),\n\t};\n};\n\n// https://specifications.freedesktop.org/basedir-spec/basedir-spec-latest.html\nconst linux = name => {\n\tconst username = path.basename(homedir);\n\n\treturn {\n\t\tdata: path.join(env.XDG_DATA_HOME || path.join(homedir, '.local', 'share'), name),\n\t\tconfig: path.join(env.XDG_CONFIG_HOME || path.join(homedir, '.config'), name),\n\t\tcache: path.join(env.XDG_CACHE_HOME || path.join(homedir, '.cache'), name),\n\t\t// https://wiki.debian.org/XDGBaseDirectorySpecification#state\n\t\tlog: path.join(env.XDG_STATE_HOME || path.join(homedir, '.local', 'state'), name),\n\t\ttemp: path.join(tmpdir, username, name),\n\t};\n};\n\nexport default function envPaths(name, {suffix = 'nodejs'} = {}) {\n\tif (typeof name !== 'string') {\n\t\tthrow new TypeError(`Expected a string, got ${typeof name}`);\n\t}\n\n\tif (suffix) {\n\t\t// Add suffix to prevent possible conflict with native apps\n\t\tname += `-${suffix}`;\n\t}\n\n\tif (process.platform === 'darwin') {\n\t\treturn macos(name);\n\t}\n\n\tif (process.platform === 'win32') {\n\t\treturn windows(name);\n\t}\n\n\treturn linux(name);\n}\n","/**\n * Platform-specific paths using env-paths\n *\n * Returns XDG-compliant paths on Linux, standard paths on macOS/Windows\n */\n\nimport envPaths from \"env-paths\";\n\nconst paths = envPaths(\"reference-manager\", { suffix: \"\" });\n\nexport interface Paths {\n  config: string;\n  data: string;\n  cache: string;\n}\n\n/**\n * Get platform-specific paths for config, data, and cache directories\n *\n * - Linux: XDG Base Directory Specification (~/.config, ~/.local/share, ~/.cache)\n * - macOS: ~/Library/Preferences, ~/Library/Application Support, ~/Library/Caches\n * - Windows: %APPDATA%, %LOCALAPPDATA%\n */\nexport function getPaths(): Paths {\n  return {\n    config: paths.config,\n    data: paths.data,\n    cache: paths.cache,\n  };\n}\n","/**\n * Default configuration values\n */\n\nimport { join } from \"node:path\";\nimport { getPaths } from \"./paths.js\";\nimport type { Config } from \"./schema.js\";\n\n/**\n * Get the default backup directory\n * Uses platform-specific cache path + backups/\n */\nexport function getDefaultBackupDirectory(): string {\n  return join(getPaths().cache, \"backups\");\n}\n\n/**\n * Get the default library path\n * Uses platform-specific data path + library.json\n */\nexport function getDefaultLibraryPath(): string {\n  return join(getPaths().data, \"library.json\");\n}\n\n/**\n * Get the default user config path\n * Uses platform-specific config path + config.toml\n */\nexport function getDefaultUserConfigPath(): string {\n  return join(getPaths().config, \"config.toml\");\n}\n\n/**\n * Get the default current directory config filename\n * Uses .reference-manager.config.toml\n */\nexport function getDefaultCurrentDirConfigFilename(): string {\n  return \".reference-manager.config.toml\";\n}\n\n/**\n * Get the default CSL directory\n * Uses platform-specific data path + csl/\n */\nexport function getDefaultCslDirectory(): string {\n  return join(getPaths().data, \"csl\");\n}\n\n/**\n * Get the default attachments directory\n * Uses platform-specific data path + attachments/\n */\nexport function getDefaultAttachmentsDirectory(): string {\n  return join(getPaths().data, \"attachments\");\n}\n\n/**\n * Default configuration\n */\nexport const defaultConfig: Config = {\n  library: getDefaultLibraryPath(),\n  logLevel: \"info\",\n  email: undefined,\n  backup: {\n    maxGenerations: 50,\n    maxAgeDays: 365,\n    directory: getDefaultBackupDirectory(),\n  },\n  watch: {\n    debounceMs: 500,\n    pollIntervalMs: 5000,\n    retryIntervalMs: 200,\n    maxRetries: 10,\n  },\n  server: {\n    autoStart: false,\n    autoStopMinutes: 0,\n  },\n  citation: {\n    defaultStyle: \"apa\",\n    cslDirectory: [getDefaultCslDirectory()],\n    defaultLocale: \"en-US\",\n    defaultFormat: \"text\",\n    defaultKeyFormat: \"pandoc\",\n  },\n  pubmed: {\n    email: undefined,\n    apiKey: undefined,\n  },\n  fulltext: {\n    preferSources: [\"pmc\", \"arxiv\", \"unpaywall\", \"core\"],\n    preferredType: undefined,\n    autoFetchOnAdd: false,\n    sources: {\n      unpaywallEmail: undefined,\n      coreApiKey: undefined,\n      ncbiEmail: undefined,\n      ncbiTool: undefined,\n    },\n  },\n  attachments: {\n    directory: getDefaultAttachmentsDirectory(),\n  },\n  cli: {\n    defaultLimit: 0,\n    defaultSort: \"updated\",\n    defaultOrder: \"desc\",\n    tui: {\n      limit: 20,\n      debounceMs: 200,\n      clipboardAutoCopy: false,\n    },\n    edit: {\n      defaultFormat: \"yaml\",\n    },\n  },\n  mcp: {\n    defaultLimit: 20,\n  },\n};\n","/**\n * Configuration loader\n */\n\nimport { existsSync, readFileSync } from \"node:fs\";\nimport { 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+{"version":3,"file":"loader-B6sytmQd.js","sources":["../../src/utils/opener.ts","../../src/config/schema.ts","../../node_modules/env-paths/index.js","../../src/config/paths.ts","../../src/config/defaults.ts","../../src/config/loader.ts"],"sourcesContent":["import { type ChildProcess, spawn } from \"node:child_process\";\nimport fs from \"node:fs\";\n\n/**\n * Detect if running in Windows Subsystem for Linux (WSL)\n */\nexport function isWSL(): boolean {\n  // Check for WSL_DISTRO_NAME environment variable\n  if (process.env.WSL_DISTRO_NAME !== undefined) {\n    return true;\n  }\n\n  // Check for WSLInterop file\n  try {\n    return fs.existsSync(\"/proc/sys/fs/binfmt_misc/WSLInterop\");\n  } catch {\n    return false;\n  }\n}\n\n/**\n * Get the system opener command for the specified platform.\n * @param platform - The platform (darwin, linux, win32)\n * @param wsl - Whether running in WSL (defaults to isWSL())\n * @returns The command array to execute\n */\nexport function getOpenerCommand(platform: string, wsl: boolean = isWSL()): string[] {\n  switch (platform) {\n    case \"darwin\":\n      return [\"open\"];\n    case \"linux\":\n      if (wsl) {\n        return [\"wslview\"];\n      }\n      return [\"xdg-open\"];\n    case \"win32\":\n      return [\"cmd\", \"/c\", \"start\", \"\"];\n    default:\n      throw new Error(`Unsupported platform: ${platform}`);\n  }\n}\n\n/**\n * Open a file with the system's default application.\n * @param filePath - The path to the file to open\n * @param platform - The platform (defaults to process.platform)\n */\nexport async function openWithSystemApp(\n  filePath: string,\n  platform: string = process.platform\n): Promise<void> {\n  const wsl = isWSL();\n  const commandParts = getOpenerCommand(platform, wsl);\n  const [command, ...baseArgs] = commandParts;\n  const args = [...baseArgs, filePath];\n\n  // Use a timer to keep the event loop alive while waiting for the close event.\n  // In Node.js 22+, after enquirer prompts complete, the event loop may have no\n  // active handles. Combined with proc.unref(), this can cause Node.js to exit\n  // before the close event fires.\n  const keepAliveTimer = setInterval(() => {\n    // No-op: timer exists solely to keep event loop active\n  }, 60000);\n\n  return new Promise<void>((resolve, reject) => {\n    const proc: ChildProcess = spawn(command as string, args, {\n      detached: true,\n      stdio: \"ignore\",\n    });\n\n    const cleanup = (): void => {\n      clearInterval(keepAliveTimer);\n    };\n\n    proc.on(\"error\", (err: NodeJS.ErrnoException) => {\n      cleanup();\n      // Check if the command was not found (ENOENT)\n      if (err.code === \"ENOENT\") {\n        if (wsl && command === \"wslview\") {\n          reject(new Error(\"wslview not found. Install with: sudo apt install wslu\"));\n        } else if (command === \"xdg-open\") {\n          reject(new Error(\"xdg-open not found. Install a desktop environment or xdg-utils.\"));\n        } else {\n          reject(new Error(`Opener command '${command}' not found`));\n        }\n      } else {\n        reject(new Error(`Failed to open: ${filePath}`));\n      }\n    });\n\n    proc.on(\"close\", (code: number | null) => {\n      cleanup();\n      // wslview may return non-zero exit codes even on success\n      // We treat the operation as successful if the process exited without error\n      if (code === 0 || (wsl && command === \"wslview\")) {\n        resolve();\n      } else {\n        reject(new Error(`Failed to open: ${filePath}`));\n      }\n    });\n\n    proc.unref();\n  });\n}\n","/**\n * Configuration schema using Zod\n */\n\nimport { z } from \"zod\";\nimport { sortFieldSchema, sortOrderSchema } from \"../features/pagination/types.js\";\n\n/**\n * Log level schema\n */\nexport const logLevelSchema = z.enum([\"silent\", \"info\", \"debug\"]);\n\n/**\n * TUI (interactive) search configuration schema\n */\nexport const tuiConfigSchema = z.object({\n  limit: z.number().int().nonnegative(),\n  debounceMs: z.number().int().nonnegative(),\n  clipboardAutoCopy: z.boolean(),\n});\n\n/**\n * Edit format schema\n */\nexport const editFormatSchema = z.enum([\"yaml\", \"json\"]);\n\n/**\n * Edit command configuration schema\n */\nexport const editConfigSchema = z.object({\n  defaultFormat: editFormatSchema,\n});\n\n/**\n * CLI configuration schema\n */\nexport const cliConfigSchema = z.object({\n  defaultLimit: z.number().int().nonnegative(),\n  defaultSort: sortFieldSchema,\n  defaultOrder: sortOrderSchema,\n  tui: tuiConfigSchema,\n  edit: editConfigSchema,\n});\n\n/**\n * MCP configuration schema\n */\nexport const mcpConfigSchema = z.object({\n  defaultLimit: z.number().int().nonnegative(),\n});\n\n/**\n * Backup configuration schema\n */\nexport const backupConfigSchema = z.object({\n  maxGenerations: z.number().int().positive(),\n  maxAgeDays: z.number().int().positive(),\n  directory: z.string().min(1),\n});\n\n/**\n * File watching configuration schema\n * Note: File watching is always enabled in server mode (HTTP/MCP).\n * CLI mode does not use file watching.\n */\nexport const watchConfigSchema = z.object({\n  debounceMs: z.number().int().nonnegative(),\n  pollIntervalMs: z.number().int().positive(),\n  retryIntervalMs: z.number().int().positive(),\n  maxRetries: z.number().int().nonnegative(),\n});\n\n/**\n * Server configuration schema\n */\nexport const serverConfigSchema = z.object({\n  autoStart: z.boolean(),\n  autoStopMinutes: z.number().int().nonnegative(),\n});\n\n/**\n * Citation format schema\n */\nexport const citationFormatSchema = z.enum([\"text\", \"html\", \"rtf\"]);\n\n/**\n * Citation key format schema\n */\nexport const citationKeyFormatSchema = z.enum([\"pandoc\", \"latex\"]);\n\n/**\n * Citation configuration schema\n */\nexport const citationConfigSchema = z.object({\n  defaultStyle: z.string(),\n  cslDirectory: z.array(z.string()),\n  defaultLocale: z.string(),\n  defaultFormat: citationFormatSchema,\n  defaultKeyFormat: citationKeyFormatSchema,\n});\n\n/**\n * PubMed API configuration schema\n */\nexport const pubmedConfigSchema = z.object({\n  email: z.string().optional(),\n  apiKey: z.string().optional(),\n});\n\n/**\n * Fulltext source enum schema\n */\nexport const fulltextSourceSchema = z.enum([\"pmc\", \"arxiv\", \"unpaywall\", \"core\"]);\nconst fulltextPreferredTypeSchema = z.enum([\"pdf\", \"markdown\"]);\n\n/**\n * Fulltext retrieval configuration schema\n */\nexport const fulltextConfigSchema = z.object({\n  preferSources: z.array(fulltextSourceSchema),\n  preferredType: fulltextPreferredTypeSchema.optional(),\n  autoFetchOnAdd: z.boolean(),\n  sources: z.object({\n    unpaywallEmail: z.string().optional(),\n    coreApiKey: z.string().optional(),\n    ncbiEmail: z.string().optional(),\n    ncbiTool: z.string().optional(),\n  }),\n});\n\n/**\n * Attachments storage configuration schema\n */\nexport const attachmentsConfigSchema = z.object({\n  directory: z.string().min(1),\n});\n\n/**\n * Complete configuration schema\n */\nexport const configSchema = z.object({\n  library: z.string().min(1),\n  logLevel: logLevelSchema,\n  email: z.string().optional(),\n  backup: backupConfigSchema,\n  watch: watchConfigSchema,\n  server: serverConfigSchema,\n  citation: citationConfigSchema,\n  pubmed: pubmedConfigSchema,\n  fulltext: fulltextConfigSchema,\n  attachments: attachmentsConfigSchema,\n  cli: cliConfigSchema,\n  mcp: mcpConfigSchema,\n});\n\n/**\n * Partial configuration schema (for TOML files)\n * Supports both camelCase and snake_case field names\n */\nexport const partialConfigSchema = z\n  .object({\n    library: z.string().min(1).optional(),\n    logLevel: logLevelSchema.optional(),\n    log_level: logLevelSchema.optional(), // snake_case support\n    email: z.string().optional(),\n    backup: z\n      .object({\n        maxGenerations: z.number().int().positive().optional(),\n        max_generations: z.number().int().positive().optional(),\n        maxAgeDays: z.number().int().positive().optional(),\n        max_age_days: z.number().int().positive().optional(),\n        directory: z.string().min(1).optional(),\n      })\n      .optional(),\n    watch: z\n      .object({\n        debounceMs: z.number().int().nonnegative().optional(),\n        debounce_ms: z.number().int().nonnegative().optional(),\n        pollIntervalMs: z.number().int().positive().optional(),\n        poll_interval_ms: z.number().int().positive().optional(),\n        retryIntervalMs: z.number().int().positive().optional(),\n        retry_interval_ms: z.number().int().positive().optional(),\n        maxRetries: z.number().int().nonnegative().optional(),\n        max_retries: z.number().int().nonnegative().optional(),\n      })\n      .optional(),\n    server: z\n      .object({\n        autoStart: z.boolean().optional(),\n        auto_start: z.boolean().optional(),\n        autoStopMinutes: z.number().int().nonnegative().optional(),\n        auto_stop_minutes: z.number().int().nonnegative().optional(),\n      })\n      .optional(),\n    citation: z\n      .object({\n        defaultStyle: z.string().optional(),\n        default_style: z.string().optional(),\n        cslDirectory: z.union([z.string(), z.array(z.string())]).optional(),\n        csl_directory: z.union([z.string(), z.array(z.string())]).optional(),\n        defaultLocale: z.string().optional(),\n        default_locale: z.string().optional(),\n        defaultFormat: citationFormatSchema.optional(),\n        default_format: citationFormatSchema.optional(),\n        defaultKeyFormat: citationKeyFormatSchema.optional(),\n        default_key_format: citationKeyFormatSchema.optional(),\n      })\n      .optional(),\n    pubmed: z\n      .object({\n        email: z.string().optional(),\n        apiKey: z.string().optional(),\n        api_key: z.string().optional(),\n      })\n      .optional(),\n    fulltext: z\n      .object({\n        preferSources: z.array(fulltextSourceSchema).optional(),\n        prefer_sources: z.array(fulltextSourceSchema).optional(),\n        preferredType: fulltextPreferredTypeSchema.optional(),\n        preferred_type: fulltextPreferredTypeSchema.optional(),\n        autoFetchOnAdd: z.boolean().optional(),\n        auto_fetch_on_add: z.boolean().optional(),\n        sources: z\n          .object({\n            unpaywallEmail: z.string().optional(),\n            unpaywall_email: z.string().optional(),\n            coreApiKey: z.string().optional(),\n            core_api_key: z.string().optional(),\n            ncbiEmail: z.string().optional(),\n            ncbi_email: z.string().optional(),\n            ncbiTool: z.string().optional(),\n            ncbi_tool: z.string().optional(),\n          })\n          .optional(),\n      })\n      .optional(),\n    attachments: z\n      .object({\n        directory: z.string().min(1).optional(),\n      })\n      .optional(),\n    cli: z\n      .object({\n        defaultLimit: z.number().int().nonnegative().optional(),\n        default_limit: z.number().int().nonnegative().optional(),\n        defaultSort: sortFieldSchema.optional(),\n        default_sort: sortFieldSchema.optional(),\n        defaultOrder: sortOrderSchema.optional(),\n        default_order: sortOrderSchema.optional(),\n        tui: z\n          .object({\n            limit: z.number().int().nonnegative().optional(),\n            debounceMs: z.number().int().nonnegative().optional(),\n            debounce_ms: z.number().int().nonnegative().optional(),\n            clipboardAutoCopy: z.boolean().optional(),\n            clipboard_auto_copy: z.boolean().optional(),\n          })\n          .optional(),\n        edit: z\n          .object({\n            defaultFormat: editFormatSchema.optional(),\n            default_format: editFormatSchema.optional(),\n          })\n          .optional(),\n      })\n      .optional(),\n    mcp: z\n      .object({\n        defaultLimit: z.number().int().nonnegative().optional(),\n        default_limit: z.number().int().nonnegative().optional(),\n      })\n      .optional(),\n  })\n  .passthrough(); // Allow unknown fields in TOML files\n\n/**\n * Inferred types from schemas\n */\nexport type LogLevel = z.infer<typeof logLevelSchema>;\nexport type BackupConfig = z.infer<typeof backupConfigSchema>;\nexport type WatchConfig = z.infer<typeof watchConfigSchema>;\nexport type ServerConfig = z.infer<typeof serverConfigSchema>;\nexport type CitationFormat = z.infer<typeof citationFormatSchema>;\nexport type CitationKeyFormat = z.infer<typeof citationKeyFormatSchema>;\nexport type CitationConfig = z.infer<typeof citationConfigSchema>;\nexport type PubmedConfig = z.infer<typeof pubmedConfigSchema>;\nexport type FulltextSource = z.infer<typeof fulltextSourceSchema>;\nexport type FulltextPreferredType = z.infer<typeof fulltextPreferredTypeSchema>;\nexport type FulltextConfig = z.infer<typeof fulltextConfigSchema>;\nexport type AttachmentsConfig = z.infer<typeof attachmentsConfigSchema>;\nexport type TuiConfig = z.infer<typeof tuiConfigSchema>;\nexport type EditConfigFormat = z.infer<typeof editFormatSchema>;\nexport type EditConfig = z.infer<typeof editConfigSchema>;\nexport type CliConfig = z.infer<typeof cliConfigSchema>;\nexport type McpConfig = z.infer<typeof mcpConfigSchema>;\nexport type Config = z.infer<typeof configSchema>;\nexport type PartialConfig = z.infer<typeof partialConfigSchema>;\n\n/**\n * Deep partial type for Config\n */\nexport type DeepPartialConfig = {\n  library?: string;\n  logLevel?: LogLevel;\n  email?: string;\n  backup?: Partial<BackupConfig>;\n  watch?: Partial<WatchConfig>;\n  server?: Partial<ServerConfig>;\n  citation?: Partial<CitationConfig>;\n  pubmed?: Partial<PubmedConfig>;\n  fulltext?: Partial<Omit<FulltextConfig, \"sources\">> & {\n    sources?: Partial<FulltextConfig[\"sources\"]>;\n  };\n  attachments?: Partial<AttachmentsConfig>;\n  cli?: Partial<Omit<CliConfig, \"tui\" | \"edit\">> & {\n    tui?: Partial<TuiConfig>;\n    edit?: Partial<EditConfig>;\n  };\n  mcp?: Partial<McpConfig>;\n};\n\n/**\n * Normalize backup configuration from snake_case to camelCase\n */\nfunction normalizeBackupConfig(\n  backup: Partial<{\n    maxGenerations?: number;\n    max_generations?: number;\n    maxAgeDays?: number;\n    max_age_days?: number;\n    directory?: string;\n  }>\n): Partial<BackupConfig> | undefined {\n  const normalized: Partial<BackupConfig> = {};\n\n  const maxGenerations = backup.maxGenerations ?? backup.max_generations;\n  if (maxGenerations !== undefined) {\n    normalized.maxGenerations = maxGenerations;\n  }\n\n  const maxAgeDays = backup.maxAgeDays ?? backup.max_age_days;\n  if (maxAgeDays !== undefined) {\n    normalized.maxAgeDays = maxAgeDays;\n  }\n\n  if (backup.directory !== undefined) {\n    normalized.directory = backup.directory;\n  }\n\n  return Object.keys(normalized).length > 0 ? normalized : undefined;\n}\n\n/**\n * Normalize watch configuration from snake_case to camelCase\n */\nfunction normalizeWatchConfig(\n  watch: Partial<{\n    debounceMs?: number;\n    debounce_ms?: number;\n    pollIntervalMs?: number;\n    poll_interval_ms?: number;\n    retryIntervalMs?: number;\n    retry_interval_ms?: number;\n    maxRetries?: number;\n    max_retries?: number;\n  }>\n): Partial<WatchConfig> | undefined {\n  const normalized: Partial<WatchConfig> = {};\n\n  const debounceMs = watch.debounceMs ?? watch.debounce_ms;\n  if (debounceMs !== undefined) {\n    normalized.debounceMs = debounceMs;\n  }\n\n  const pollIntervalMs = watch.pollIntervalMs ?? watch.poll_interval_ms;\n  if (pollIntervalMs !== undefined) {\n    normalized.pollIntervalMs = pollIntervalMs;\n  }\n\n  const retryIntervalMs = watch.retryIntervalMs ?? watch.retry_interval_ms;\n  if (retryIntervalMs !== undefined) {\n    normalized.retryIntervalMs = retryIntervalMs;\n  }\n\n  const maxRetries = watch.maxRetries ?? watch.max_retries;\n  if (maxRetries !== undefined) {\n    normalized.maxRetries = maxRetries;\n  }\n\n  return Object.keys(normalized).length > 0 ? normalized : undefined;\n}\n\n/**\n * Normalize server configuration from snake_case to camelCase\n */\nfunction normalizeServerConfig(\n  server: Partial<{\n    autoStart?: boolean;\n    auto_start?: boolean;\n    autoStopMinutes?: number;\n    auto_stop_minutes?: number;\n  }>\n): Partial<ServerConfig> | undefined {\n  const normalized: Partial<ServerConfig> = {};\n\n  const autoStart = server.autoStart ?? server.auto_start;\n  if (autoStart !== undefined) {\n    normalized.autoStart = autoStart;\n  }\n\n  const autoStopMinutes = server.autoStopMinutes ?? server.auto_stop_minutes;\n  if (autoStopMinutes !== undefined) {\n    normalized.autoStopMinutes = autoStopMinutes;\n  }\n\n  return Object.keys(normalized).length > 0 ? normalized : undefined;\n}\n\n/**\n * Normalize citation configuration from snake_case to camelCase\n */\nfunction normalizeCitationConfig(\n  citation: Partial<{\n    defaultStyle?: string;\n    default_style?: string;\n    cslDirectory?: string | string[];\n    csl_directory?: string | string[];\n    defaultLocale?: string;\n    default_locale?: string;\n    defaultFormat?: CitationFormat;\n    default_format?: CitationFormat;\n    defaultKeyFormat?: CitationKeyFormat;\n    default_key_format?: CitationKeyFormat;\n  }>\n): Partial<CitationConfig> | undefined {\n  const normalized: Partial<CitationConfig> = {};\n\n  const defaultStyle = citation.defaultStyle ?? citation.default_style;\n  if (defaultStyle !== undefined) {\n    normalized.defaultStyle = defaultStyle;\n  }\n\n  const cslDirectory = citation.cslDirectory ?? citation.csl_directory;\n  if (cslDirectory !== undefined) {\n    // Normalize to array: string -> [string]\n    normalized.cslDirectory = Array.isArray(cslDirectory) ? cslDirectory : [cslDirectory];\n  }\n\n  const defaultLocale = citation.defaultLocale ?? citation.default_locale;\n  if (defaultLocale !== undefined) {\n    normalized.defaultLocale = defaultLocale;\n  }\n\n  const defaultFormat = citation.defaultFormat ?? citation.default_format;\n  if (defaultFormat !== undefined) {\n    normalized.defaultFormat = defaultFormat;\n  }\n\n  const defaultKeyFormat =\n    (citation as Record<string, unknown>).defaultKeyFormat ??\n    (citation as Record<string, unknown>).default_key_format;\n  if (defaultKeyFormat !== undefined) {\n    normalized.defaultKeyFormat = defaultKeyFormat as CitationKeyFormat;\n  }\n\n  return Object.keys(normalized).length > 0 ? normalized : undefined;\n}\n\n/**\n * Normalize pubmed configuration from snake_case to camelCase\n */\nfunction normalizePubmedConfig(\n  pubmed: Partial<{\n    email?: string;\n    apiKey?: string;\n    api_key?: string;\n  }>\n): Partial<PubmedConfig> | undefined {\n  const normalized: Partial<PubmedConfig> = {};\n\n  if (pubmed.email !== undefined) {\n    normalized.email = pubmed.email;\n  }\n\n  const apiKey = pubmed.apiKey ?? pubmed.api_key;\n  if (apiKey !== undefined) {\n    normalized.apiKey = apiKey;\n  }\n\n  return Object.keys(normalized).length > 0 ? normalized : undefined;\n}\n\n/**\n * Normalize fulltext configuration from snake_case to camelCase\n */\nfunction normalizeFulltextConfig(\n  fulltext: Partial<{\n    preferSources?: FulltextSource[];\n    prefer_sources?: FulltextSource[];\n    preferredType?: FulltextPreferredType;\n    preferred_type?: FulltextPreferredType;\n    autoFetchOnAdd?: boolean;\n    auto_fetch_on_add?: boolean;\n    sources?: Partial<{\n      unpaywallEmail?: string;\n      unpaywall_email?: string;\n      coreApiKey?: string;\n      core_api_key?: string;\n    }>;\n  }>\n): DeepPartialConfig[\"fulltext\"] | undefined {\n  const normalized: NonNullable<DeepPartialConfig[\"fulltext\"]> = {};\n\n  const preferSources = fulltext.preferSources ?? fulltext.prefer_sources;\n  if (preferSources !== undefined) {\n    normalized.preferSources = preferSources;\n  }\n\n  const preferredType = fulltext.preferredType ?? fulltext.preferred_type;\n  if (preferredType !== undefined) {\n    normalized.preferredType = preferredType;\n  }\n\n  const autoFetchOnAdd = fulltext.autoFetchOnAdd ?? fulltext.auto_fetch_on_add;\n  if (autoFetchOnAdd !== undefined) {\n    normalized.autoFetchOnAdd = autoFetchOnAdd;\n  }\n\n  const sources = normalizeFulltextSources(fulltext.sources);\n  if (sources !== undefined) {\n    normalized.sources = sources;\n  }\n\n  return Object.keys(normalized).length > 0 ? normalized : undefined;\n}\n\nfunction normalizeFulltextSources(\n  sources?: Partial<{\n    unpaywallEmail?: string;\n    unpaywall_email?: string;\n    coreApiKey?: string;\n    core_api_key?: string;\n    ncbiEmail?: string;\n    ncbi_email?: string;\n    ncbiTool?: string;\n    ncbi_tool?: string;\n  }>\n): Partial<FulltextConfig[\"sources\"]> | undefined {\n  if (sources === undefined) {\n    return undefined;\n  }\n\n  const normalized: Partial<FulltextConfig[\"sources\"]> = {};\n\n  const unpaywallEmail = sources.unpaywallEmail ?? sources.unpaywall_email;\n  if (unpaywallEmail !== undefined) {\n    normalized.unpaywallEmail = unpaywallEmail;\n  }\n\n  const coreApiKey = sources.coreApiKey ?? sources.core_api_key;\n  if (coreApiKey !== undefined) {\n    normalized.coreApiKey = coreApiKey;\n  }\n\n  const ncbiEmail = sources.ncbiEmail ?? sources.ncbi_email;\n  if (ncbiEmail !== undefined) {\n    normalized.ncbiEmail = ncbiEmail;\n  }\n\n  const ncbiTool = sources.ncbiTool ?? sources.ncbi_tool;\n  if (ncbiTool !== undefined) {\n    normalized.ncbiTool = ncbiTool;\n  }\n\n  return Object.keys(normalized).length > 0 ? normalized : undefined;\n}\n\n/**\n * Section normalizers mapping\n */\nconst sectionNormalizers = {\n  backup: normalizeBackupConfig,\n  watch: normalizeWatchConfig,\n  server: normalizeServerConfig,\n  citation: normalizeCitationConfig,\n  pubmed: normalizePubmedConfig,\n  fulltext: normalizeFulltextConfig,\n  attachments: normalizeAttachmentsConfig,\n  cli: normalizeCliConfig,\n  mcp: normalizeMcpConfig,\n} as const;\n\ntype SectionKey = keyof typeof sectionNormalizers;\n\n/**\n * Helper to apply a normalizer function to a config section\n */\nfunction applyNormalizer<K extends SectionKey>(\n  normalized: DeepPartialConfig,\n  partial: PartialConfig,\n  key: K,\n  normalizer: (typeof sectionNormalizers)[K]\n): void {\n  const value = partial[key];\n  if (value !== undefined) {\n    const result = (normalizer as (input: unknown) => DeepPartialConfig[K] | undefined)(value);\n    if (result) {\n      normalized[key] = result;\n    }\n  }\n}\n\n/**\n * Normalize snake_case fields to camelCase\n */\nexport function normalizePartialConfig(partial: PartialConfig): DeepPartialConfig {\n  const normalized: DeepPartialConfig = {};\n\n  // Simple fields\n  if (partial.library !== undefined) {\n    normalized.library = partial.library;\n  }\n  const logLevel = partial.logLevel ?? partial.log_level;\n  if (logLevel !== undefined) {\n    normalized.logLevel = logLevel;\n  }\n  if (partial.email !== undefined) {\n    normalized.email = partial.email;\n  }\n\n  // Section fields\n  for (const key of Object.keys(sectionNormalizers) as SectionKey[]) {\n    applyNormalizer(normalized, partial, key, sectionNormalizers[key]);\n  }\n\n  return normalized;\n}\n\n/**\n * Normalize attachments configuration\n */\nfunction normalizeAttachmentsConfig(attachments: {\n  directory?: string | undefined;\n}): Partial<AttachmentsConfig> | undefined {\n  const normalized: Partial<AttachmentsConfig> = {};\n\n  if (attachments.directory !== undefined) {\n    normalized.directory = attachments.directory;\n  }\n\n  return Object.keys(normalized).length > 0 ? normalized : undefined;\n}\n\n/**\n * Normalize TUI config subsection\n */\nfunction normalizeTuiSection(\n  tui: Partial<{\n    limit?: number;\n    debounceMs?: number;\n    debounce_ms?: number;\n    clipboardAutoCopy?: boolean;\n    clipboard_auto_copy?: boolean;\n  }>\n): Partial<TuiConfig> | undefined {\n  const normalized: Partial<TuiConfig> = {};\n  if (tui.limit !== undefined) {\n    normalized.limit = tui.limit;\n  }\n  const debounceMs = tui.debounceMs ?? tui.debounce_ms;\n  if (debounceMs !== undefined) {\n    normalized.debounceMs = debounceMs;\n  }\n  const clipboardAutoCopy = tui.clipboardAutoCopy ?? tui.clipboard_auto_copy;\n  if (clipboardAutoCopy !== undefined) {\n    normalized.clipboardAutoCopy = clipboardAutoCopy;\n  }\n  return Object.keys(normalized).length > 0 ? normalized : undefined;\n}\n\n/**\n * Normalize edit config subsection\n */\nfunction normalizeEditSection(\n  edit: Partial<{\n    defaultFormat?: EditConfigFormat;\n    default_format?: EditConfigFormat;\n  }>\n): Partial<EditConfig> | undefined {\n  const normalized: Partial<EditConfig> = {};\n  const defaultFormat = edit.defaultFormat ?? edit.default_format;\n  if (defaultFormat !== undefined) {\n    normalized.defaultFormat = defaultFormat;\n  }\n  return Object.keys(normalized).length > 0 ? normalized : undefined;\n}\n\n/**\n * Normalize CLI configuration from snake_case to camelCase\n */\nfunction normalizeCliConfig(\n  cli: Partial<{\n    defaultLimit?: number;\n    default_limit?: number;\n    defaultSort?: CliConfig[\"defaultSort\"];\n    default_sort?: CliConfig[\"defaultSort\"];\n    defaultOrder?: CliConfig[\"defaultOrder\"];\n    default_order?: CliConfig[\"defaultOrder\"];\n    tui?: Partial<{\n      limit?: number;\n      debounceMs?: number;\n      debounce_ms?: number;\n    }>;\n    edit?: Partial<{\n      defaultFormat?: EditConfigFormat;\n      default_format?: EditConfigFormat;\n    }>;\n  }>\n): Partial<CliConfig> | undefined {\n  const normalized: Partial<CliConfig> = {};\n\n  const defaultLimit = cli.defaultLimit ?? cli.default_limit;\n  if (defaultLimit !== undefined) {\n    normalized.defaultLimit = defaultLimit;\n  }\n\n  const defaultSort = cli.defaultSort ?? cli.default_sort;\n  if (defaultSort !== undefined) {\n    normalized.defaultSort = defaultSort;\n  }\n\n  const defaultOrder = cli.defaultOrder ?? cli.default_order;\n  if (defaultOrder !== undefined) {\n    normalized.defaultOrder = defaultOrder;\n  }\n\n  if (cli.tui !== undefined) {\n    const tui = normalizeTuiSection(cli.tui);\n    if (tui) {\n      normalized.tui = tui as TuiConfig;\n    }\n  }\n\n  if (cli.edit !== undefined) {\n    const edit = normalizeEditSection(cli.edit);\n    if (edit) {\n      normalized.edit = edit as EditConfig;\n    }\n  }\n\n  return Object.keys(normalized).length > 0 ? normalized : undefined;\n}\n\n/**\n * Normalize MCP configuration from snake_case to camelCase\n */\nfunction normalizeMcpConfig(\n  mcp: Partial<{\n    defaultLimit?: number;\n    default_limit?: number;\n  }>\n): Partial<McpConfig> | undefined {\n  const normalized: Partial<McpConfig> = {};\n\n  const defaultLimit = mcp.defaultLimit ?? mcp.default_limit;\n  if (defaultLimit !== undefined) {\n    normalized.defaultLimit = defaultLimit;\n  }\n\n  return Object.keys(normalized).length > 0 ? normalized : undefined;\n}\n","import path from 'node:path';\nimport os from 'node:os';\nimport process from 'node:process';\n\nconst homedir = os.homedir();\nconst tmpdir = os.tmpdir();\nconst {env} = process;\n\nconst macos = name => {\n\tconst library = path.join(homedir, 'Library');\n\n\treturn {\n\t\tdata: path.join(library, 'Application Support', name),\n\t\tconfig: path.join(library, 'Preferences', name),\n\t\tcache: path.join(library, 'Caches', name),\n\t\tlog: path.join(library, 'Logs', name),\n\t\ttemp: path.join(tmpdir, name),\n\t};\n};\n\nconst windows = name => {\n\tconst appData = env.APPDATA || path.join(homedir, 'AppData', 'Roaming');\n\tconst localAppData = env.LOCALAPPDATA || path.join(homedir, 'AppData', 'Local');\n\n\treturn {\n\t\t// Data/config/cache/log are invented by me as Windows isn't opinionated about this\n\t\tdata: path.join(localAppData, name, 'Data'),\n\t\tconfig: path.join(appData, name, 'Config'),\n\t\tcache: path.join(localAppData, name, 'Cache'),\n\t\tlog: path.join(localAppData, name, 'Log'),\n\t\ttemp: path.join(tmpdir, name),\n\t};\n};\n\n// https://specifications.freedesktop.org/basedir-spec/basedir-spec-latest.html\nconst linux = name => {\n\tconst username = path.basename(homedir);\n\n\treturn {\n\t\tdata: path.join(env.XDG_DATA_HOME || path.join(homedir, '.local', 'share'), name),\n\t\tconfig: path.join(env.XDG_CONFIG_HOME || path.join(homedir, '.config'), name),\n\t\tcache: path.join(env.XDG_CACHE_HOME || path.join(homedir, '.cache'), name),\n\t\t// https://wiki.debian.org/XDGBaseDirectorySpecification#state\n\t\tlog: path.join(env.XDG_STATE_HOME || path.join(homedir, '.local', 'state'), name),\n\t\ttemp: path.join(tmpdir, username, name),\n\t};\n};\n\nexport default function envPaths(name, {suffix = 'nodejs'} = {}) {\n\tif (typeof name !== 'string') {\n\t\tthrow new TypeError(`Expected a string, got ${typeof name}`);\n\t}\n\n\tif (suffix) {\n\t\t// Add suffix to prevent possible conflict with native apps\n\t\tname += `-${suffix}`;\n\t}\n\n\tif (process.platform === 'darwin') {\n\t\treturn macos(name);\n\t}\n\n\tif (process.platform === 'win32') {\n\t\treturn windows(name);\n\t}\n\n\treturn linux(name);\n}\n","/**\n * Platform-specific paths using env-paths\n *\n * Returns XDG-compliant paths on Linux, standard paths on macOS/Windows\n */\n\nimport envPaths from \"env-paths\";\n\nconst paths = envPaths(\"reference-manager\", { suffix: \"\" });\n\nexport interface Paths {\n  config: string;\n  data: string;\n  cache: string;\n}\n\n/**\n * Get platform-specific paths for config, data, and cache directories\n *\n * - Linux: XDG Base Directory Specification (~/.config, ~/.local/share, ~/.cache)\n * - macOS: ~/Library/Preferences, ~/Library/Application Support, ~/Library/Caches\n * - Windows: %APPDATA%, %LOCALAPPDATA%\n */\nexport function getPaths(): Paths {\n  return {\n    config: paths.config,\n    data: paths.data,\n    cache: paths.cache,\n  };\n}\n","/**\n * Default configuration values\n */\n\nimport { join } from \"node:path\";\nimport { getPaths } from \"./paths.js\";\nimport type { Config } from \"./schema.js\";\n\n/**\n * Get the default backup directory\n * Uses platform-specific cache path + backups/\n */\nexport function getDefaultBackupDirectory(): string {\n  return join(getPaths().cache, \"backups\");\n}\n\n/**\n * Get the default library path\n * Uses platform-specific data path + library.json\n */\nexport function getDefaultLibraryPath(): string {\n  return join(getPaths().data, \"library.json\");\n}\n\n/**\n * Get the default user config path\n * Uses platform-specific config path + config.toml\n */\nexport function getDefaultUserConfigPath(): string {\n  return join(getPaths().config, \"config.toml\");\n}\n\n/**\n * Get the default current directory config filename\n * Uses .reference-manager.config.toml\n */\nexport function getDefaultCurrentDirConfigFilename(): string {\n  return \".reference-manager.config.toml\";\n}\n\n/**\n * Get the default CSL directory\n * Uses platform-specific data path + csl/\n */\nexport function getDefaultCslDirectory(): string {\n  return join(getPaths().data, \"csl\");\n}\n\n/**\n * Get the default attachments directory\n * Uses platform-specific data path + attachments/\n */\nexport function getDefaultAttachmentsDirectory(): string {\n  return join(getPaths().data, \"attachments\");\n}\n\n/**\n * Default configuration\n */\nexport const defaultConfig: Config = {\n  library: getDefaultLibraryPath(),\n  logLevel: \"info\",\n  email: undefined,\n  backup: {\n    maxGenerations: 50,\n    maxAgeDays: 365,\n    directory: getDefaultBackupDirectory(),\n  },\n  watch: {\n    debounceMs: 500,\n    pollIntervalMs: 5000,\n    retryIntervalMs: 200,\n    maxRetries: 10,\n  },\n  server: {\n    autoStart: false,\n    autoStopMinutes: 0,\n  },\n  citation: {\n    defaultStyle: \"apa\",\n    cslDirectory: [getDefaultCslDirectory()],\n    defaultLocale: \"en-US\",\n    defaultFormat: \"text\",\n    defaultKeyFormat: \"pandoc\",\n  },\n  pubmed: {\n    email: undefined,\n    apiKey: undefined,\n  },\n  fulltext: {\n    preferSources: [\"pmc\", \"arxiv\", \"unpaywall\", \"core\"],\n    preferredType: undefined,\n    autoFetchOnAdd: false,\n    sources: {\n      unpaywallEmail: undefined,\n      coreApiKey: undefined,\n      ncbiEmail: undefined,\n      ncbiTool: undefined,\n    },\n  },\n  attachments: {\n    directory: getDefaultAttachmentsDirectory(),\n  },\n  cli: {\n    defaultLimit: 0,\n    defaultSort: \"updated\",\n    defaultOrder: \"desc\",\n    tui: {\n      limit: 20,\n      debounceMs: 200,\n      clipboardAutoCopy: false,\n    },\n    edit: {\n      defaultFormat: \"yaml\",\n    },\n  },\n  mcp: {\n    defaultLimit: 20,\n  },\n};\n","/**\n * Configuration loader\n */\n\nimport { existsSync, readFileSync } from \"node:fs\";\nimport { homedir } from \"node:os\";\nimport { join } from \"node:path\";\nimport { parse as parseTOML } from \"@iarna/toml\";\nimport {\n  defaultConfig,\n  getDefaultCurrentDirConfigFilename,\n  getDefaultUserConfigPath,\n} from \"./defaults.js\";\nimport {\n  type Config,\n  type DeepPartialConfig,\n  type PartialConfig,\n  configSchema,\n  normalizePartialConfig,\n  partialConfigSchema,\n} from \"./schema.js\";\n\n/**\n * Options for loading configuration\n */\nexport interface LoadConfigOptions {\n  /** Current working directory (default: process.cwd()) */\n  cwd?: string;\n  /** User config path (default: ~/.reference-manager/config.toml) */\n  userConfigPath?: string;\n  /** CLI --config flag: explicit config file path (highest file priority) */\n  configPath?: string;\n  /** CLI argument overrides */\n  overrides?: Partial<Config>;\n}\n\n/**\n * Load and parse a TOML config file\n */\nfunction loadTOMLFile(path: string): PartialConfig | null {\n  if (!existsSync(path)) {\n    return null;\n  }\n\n  try {\n    const content = readFileSync(path, \"utf-8\");\n    const parsed = parseTOML(content);\n\n    // Validate with partial schema\n    const validated = partialConfigSchema.parse(parsed);\n    return validated;\n  } catch (error) {\n    throw new Error(\n      `Failed to load config from ${path}: ${error instanceof Error ? error.message : String(error)}`\n    );\n  }\n}\n\n/**\n * Merge CLI config with nested interactive section\n */\nfunction mergeCliConfig(\n  base: DeepPartialConfig[\"cli\"],\n  override: NonNullable<DeepPartialConfig[\"cli\"]>\n): NonNullable<DeepPartialConfig[\"cli\"]> {\n  const { tui: overrideTui, ...overrideCliRest } = override;\n  const { tui: baseTui, ...baseCliRest } = base ?? {};\n  const mergedTui = overrideTui !== undefined ? { ...baseTui, ...overrideTui } : baseTui;\n  return {\n    ...baseCliRest,\n    ...overrideCliRest,\n    ...(mergedTui !== undefined ? { tui: mergedTui } : {}),\n  };\n}\n\n/**\n * Merge fulltext config with nested sources section\n */\nfunction mergeFulltextConfig(\n  base: DeepPartialConfig[\"fulltext\"],\n  override: NonNullable<DeepPartialConfig[\"fulltext\"]>\n): NonNullable<DeepPartialConfig[\"fulltext\"]> {\n  const { sources: overrideSources, ...overrideRest } = override;\n  const { sources: baseSources, ...baseRest } = base ?? {};\n  const mergedSources =\n    overrideSources !== undefined ? { ...baseSources, ...overrideSources } : baseSources;\n  return {\n    ...baseRest,\n    ...overrideRest,\n    ...(mergedSources !== undefined ? { sources: mergedSources } : {}),\n  };\n}\n\nconst flatSectionKeys = [\n  \"backup\",\n  \"watch\",\n  \"server\",\n  \"citation\",\n  \"pubmed\",\n  \"attachments\",\n  \"mcp\",\n] as const;\n\n/**\n * Apply a single override to the result config\n */\nfunction applyOverride(result: DeepPartialConfig, override: DeepPartialConfig): void {\n  // Merge top-level primitive fields\n  if (override.library !== undefined) {\n    result.library = override.library;\n  }\n  if (override.logLevel !== undefined) {\n    result.logLevel = override.logLevel;\n  }\n  if (override.email !== undefined) {\n    result.email = override.email;\n  }\n\n  // Merge flat section configs\n  for (const key of flatSectionKeys) {\n    if (override[key] !== undefined) {\n      result[key] = {\n        ...result[key],\n        ...override[key],\n      };\n    }\n  }\n\n  // Merge nested section configs\n  if (override.fulltext !== undefined) {\n    result.fulltext = mergeFulltextConfig(result.fulltext, override.fulltext);\n  }\n  if (override.cli !== undefined) {\n    result.cli = mergeCliConfig(result.cli, override.cli);\n  }\n}\n\n/**\n * Merge partial configurations\n * Later configs override earlier ones\n */\nfunction mergeConfigs(\n  base: DeepPartialConfig,\n  ...overrides: (DeepPartialConfig | null | undefined)[]\n): DeepPartialConfig {\n  const result: DeepPartialConfig = { ...base };\n\n  for (const override of overrides) {\n    if (!override) continue;\n    applyOverride(result, override);\n  }\n\n  return result;\n}\n\n/**\n * Fill missing fields with defaults\n */\nfunction fillDefaults(partial: DeepPartialConfig): Config {\n  const envLibrary = process.env.REFERENCE_MANAGER_LIBRARY;\n  const library = envLibrary ?? partial.library ?? defaultConfig.library;\n  const email = process.env.EMAIL ?? partial.email ?? defaultConfig.email;\n  return {\n    library: expandTilde(library),\n    logLevel: partial.logLevel ?? defaultConfig.logLevel,\n    email,\n    backup: {\n      maxGenerations: partial.backup?.maxGenerations ?? defaultConfig.backup.maxGenerations,\n      maxAgeDays: partial.backup?.maxAgeDays ?? defaultConfig.backup.maxAgeDays,\n      directory: partial.backup?.directory ?? defaultConfig.backup.directory,\n    },\n    watch: {\n      debounceMs: partial.watch?.debounceMs ?? defaultConfig.watch.debounceMs,\n      pollIntervalMs: partial.watch?.pollIntervalMs ?? defaultConfig.watch.pollIntervalMs,\n      retryIntervalMs: partial.watch?.retryIntervalMs ?? defaultConfig.watch.retryIntervalMs,\n      maxRetries: partial.watch?.maxRetries ?? defaultConfig.watch.maxRetries,\n    },\n    server: {\n      autoStart: partial.server?.autoStart ?? defaultConfig.server.autoStart,\n      autoStopMinutes: partial.server?.autoStopMinutes ?? defaultConfig.server.autoStopMinutes,\n    },\n    citation: fillCitationDefaults(partial.citation),\n    pubmed: fillPubmedDefaults(partial.pubmed, email),\n    fulltext: fillFulltextDefaults(partial.fulltext, email),\n    attachments: fillAttachmentsDefaults(partial.attachments),\n    cli: fillCliDefaults(partial.cli),\n    mcp: fillMcpDefaults(partial.mcp),\n  };\n}\n\n/**\n * Fill citation config with defaults\n */\nfunction fillCitationDefaults(partial: DeepPartialConfig[\"citation\"]): Config[\"citation\"] {\n  return {\n    defaultStyle: partial?.defaultStyle ?? defaultConfig.citation.defaultStyle,\n    cslDirectory: partial?.cslDirectory ?? defaultConfig.citation.cslDirectory,\n    defaultLocale: partial?.defaultLocale ?? defaultConfig.citation.defaultLocale,\n    defaultFormat: partial?.defaultFormat ?? defaultConfig.citation.defaultFormat,\n    defaultKeyFormat: partial?.defaultKeyFormat ?? defaultConfig.citation.defaultKeyFormat,\n  };\n}\n\n/**\n * Fill pubmed config with defaults\n * Environment variables take priority over config file values\n */\nfunction fillPubmedDefaults(\n  partial: DeepPartialConfig[\"pubmed\"],\n  fallbackEmail?: string\n): Config[\"pubmed\"] {\n  // Priority: PUBMED_EMAIL env > pubmed.email config > EMAIL env / top-level email > undefined\n  const email =\n    process.env.PUBMED_EMAIL ?? partial?.email ?? fallbackEmail ?? defaultConfig.pubmed.email;\n  const apiKey = process.env.PUBMED_API_KEY ?? partial?.apiKey ?? defaultConfig.pubmed.apiKey;\n\n  return {\n    email,\n    apiKey,\n  };\n}\n\n/**\n * Fill fulltext config with defaults\n * Environment variables take priority over config file values\n */\nfunction fillFulltextDefaults(\n  partial: DeepPartialConfig[\"fulltext\"],\n  fallbackEmail?: string\n): Config[\"fulltext\"] {\n  // Priority: service-specific env > service-specific config > EMAIL env / top-level email > undefined\n  const unpaywallEmail =\n    process.env.UNPAYWALL_EMAIL ??\n    partial?.sources?.unpaywallEmail ??\n    fallbackEmail ??\n    defaultConfig.fulltext.sources.unpaywallEmail;\n  const coreApiKey =\n    process.env.CORE_API_KEY ??\n    partial?.sources?.coreApiKey ??\n    defaultConfig.fulltext.sources.coreApiKey;\n  const ncbiEmail =\n    process.env.NCBI_EMAIL ??\n    partial?.sources?.ncbiEmail ??\n    fallbackEmail ??\n    defaultConfig.fulltext.sources.ncbiEmail;\n  const ncbiTool =\n    process.env.NCBI_TOOL ?? partial?.sources?.ncbiTool ?? defaultConfig.fulltext.sources.ncbiTool;\n\n  const envPreferredType = process.env.REFERENCE_MANAGER_FULLTEXT_PREFERRED_TYPE;\n  if (\n    envPreferredType !== undefined &&\n    envPreferredType !== \"pdf\" &&\n    envPreferredType !== \"markdown\"\n  ) {\n    throw new Error(\n      `Invalid value for REFERENCE_MANAGER_FULLTEXT_PREFERRED_TYPE: \"${envPreferredType}\". Must be \"pdf\" or \"markdown\".`\n    );\n  }\n  const preferredType =\n    envPreferredType ?? partial?.preferredType ?? defaultConfig.fulltext.preferredType;\n\n  return {\n    preferSources: partial?.preferSources ?? defaultConfig.fulltext.preferSources,\n    preferredType,\n    autoFetchOnAdd: partial?.autoFetchOnAdd ?? defaultConfig.fulltext.autoFetchOnAdd,\n    sources: {\n      unpaywallEmail,\n      coreApiKey,\n      ncbiEmail,\n      ncbiTool,\n    },\n  };\n}\n\n/**\n * Expand ~ to home directory\n */\nfunction expandTilde(path: string): string {\n  if (path.startsWith(\"~/\")) {\n    return join(homedir(), path.slice(2));\n  }\n  return path;\n}\n\n/**\n * Fill attachments config with defaults\n *\n * Priority:\n * 1. Environment variable REFERENCE_MANAGER_ATTACHMENTS_DIR\n * 2. Config file setting\n * 3. Default value\n */\nfunction fillAttachmentsDefaults(partial: DeepPartialConfig[\"attachments\"]): Config[\"attachments\"] {\n  const envDir = process.env.REFERENCE_MANAGER_ATTACHMENTS_DIR;\n  const directory = envDir ?? partial?.directory ?? defaultConfig.attachments.directory;\n  return {\n    directory: expandTilde(directory),\n  };\n}\n\n/**\n * Fill CLI config with defaults\n *\n * Priority:\n * 1. Environment variable REFERENCE_MANAGER_CLI_DEFAULT_LIMIT\n * 2. Config file setting\n * 3. Default value\n */\nfunction fillCliDefaults(partial: DeepPartialConfig[\"cli\"]): Config[\"cli\"] {\n  const envLimit = process.env.REFERENCE_MANAGER_CLI_DEFAULT_LIMIT;\n  const defaultLimit =\n    envLimit !== undefined\n      ? Number(envLimit)\n      : (partial?.defaultLimit ?? defaultConfig.cli.defaultLimit);\n  const envClipboard = process.env.REFERENCE_MANAGER_CLIPBOARD_AUTO_COPY;\n  const clipboardAutoCopy =\n    envClipboard !== undefined\n      ? envClipboard === \"1\" || envClipboard === \"true\"\n      : (partial?.tui?.clipboardAutoCopy ?? defaultConfig.cli.tui.clipboardAutoCopy);\n  return {\n    defaultLimit,\n    defaultSort: partial?.defaultSort ?? defaultConfig.cli.defaultSort,\n    defaultOrder: partial?.defaultOrder ?? defaultConfig.cli.defaultOrder,\n    tui: {\n      limit: partial?.tui?.limit ?? defaultConfig.cli.tui.limit,\n      debounceMs: partial?.tui?.debounceMs ?? defaultConfig.cli.tui.debounceMs,\n      clipboardAutoCopy,\n    },\n    edit: {\n      defaultFormat: partial?.edit?.defaultFormat ?? defaultConfig.cli.edit.defaultFormat,\n    },\n  };\n}\n\n/**\n * Fill MCP config with defaults\n *\n * Priority:\n * 1. Environment variable REFERENCE_MANAGER_MCP_DEFAULT_LIMIT\n * 2. Config file setting\n * 3. Default value\n */\nfunction fillMcpDefaults(partial: DeepPartialConfig[\"mcp\"]): Config[\"mcp\"] {\n  const envLimit = process.env.REFERENCE_MANAGER_MCP_DEFAULT_LIMIT;\n  const defaultLimit =\n    envLimit !== undefined\n      ? Number(envLimit)\n      : (partial?.defaultLimit ?? defaultConfig.mcp.defaultLimit);\n  return {\n    defaultLimit,\n  };\n}\n\n/**\n * Load configuration from multiple sources\n *\n * Priority (highest to lowest):\n * 1. CLI argument overrides\n * 2. CLI --config file (configPath)\n * 3. Current directory config (.reference-manager.config.toml)\n * 4. Environment variable (REFERENCE_MANAGER_CONFIG)\n * 5. User config (~/.reference-manager/config.toml)\n * 6. Default values\n */\nexport function loadConfig(options: LoadConfigOptions = {}): Config {\n  const cwd = options.cwd ?? process.cwd();\n  const userConfigPath = options.userConfigPath ?? getDefaultUserConfigPath();\n\n  // If configPath is specified, it must exist (explicit user intent)\n  if (options.configPath && !existsSync(options.configPath)) {\n    throw new Error(`Config file not found: ${options.configPath}`);\n  }\n\n  // 1. Load user config (lowest priority)\n  const userConfig = loadTOMLFile(userConfigPath);\n\n  // 2. Load environment variable config\n  const envConfigPath = process.env.REFERENCE_MANAGER_CONFIG;\n  const envConfig = envConfigPath ? loadTOMLFile(envConfigPath) : null;\n\n  // 3. Load current directory config\n  const currentConfigPath = join(cwd, getDefaultCurrentDirConfigFilename());\n  const currentConfig = loadTOMLFile(currentConfigPath);\n\n  // 4. Load CLI --config file (highest file priority)\n  const cliConfig = options.configPath ? loadTOMLFile(options.configPath) : null;\n\n  // Normalize snake_case to camelCase\n  const normalizedUser = userConfig ? normalizePartialConfig(userConfig) : null;\n  const normalizedEnv = envConfig ? normalizePartialConfig(envConfig) : null;\n  const normalizedCurrent = currentConfig ? normalizePartialConfig(currentConfig) : null;\n  const normalizedCli = cliConfig ? normalizePartialConfig(cliConfig) : null;\n\n  // Merge configs (priority: cli > current > env > user > defaults)\n  const merged = mergeConfigs(\n    {},\n    normalizedUser,\n    normalizedEnv,\n    normalizedCurrent,\n    normalizedCli,\n    options.overrides as DeepPartialConfig\n  );\n\n  // Fill missing fields with defaults\n  const config = fillDefaults(merged);\n\n  // Validate final config\n  try {\n    return configSchema.parse(config);\n  } catch (error) {\n    throw new Error(\n      `Invalid configuration: ${error instanceof Error ? error.message : String(error)}`\n    );\n  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package/dist/chunks/{metadata-comparator-C5zfoYdK.js → metadata-comparator-DvqzC5tX.js}

@@ -1,4 +1,4 @@
-import { n as normalize } from "./file-watcher-Dlx0PolG.js";
+import { n as normalize } from "./file-watcher-CWHg1yol.js";
 function titleToWordSet(title) {
   const normalized = normalize(title);
   if (normalized === "") return /* @__PURE__ */ new Set();
@@ -22,7 +22,9 @@ function isTitleSimilar(local, remote) {
 function extractFamilyNames(authors) {
   const families = /* @__PURE__ */ new Set();
   for (const author of authors) {
-    if (author.family) {
+    if (author.literal) {
+      families.add(normalize(author.literal));
+    } else if (author.family) {
       families.add(normalize(author.family));
     }
   }
@@ -134,4 +136,4 @@ function compareMetadata(local, remote) {
 export {
   compareMetadata
 };
-//# sourceMappingURL=metadata-comparator-C5zfoYdK.js.map
+//# sourceMappingURL=metadata-comparator-DvqzC5tX.js.map

package/dist/chunks/metadata-comparator-DvqzC5tX.js.map

@@ -0,0 +1 @@
+{"version":3,"file":"metadata-comparator-DvqzC5tX.js","sources":["../../src/features/check/metadata-similarity.ts","../../src/features/check/metadata-comparator.ts"],"sourcesContent":["/**\n * Metadata similarity functions for comparing local vs remote reference metadata.\n */\n\nimport { normalize } from \"../search/normalizer.js\";\n\ntype AuthorName = { family?: string; given?: string; literal?: string };\n\n/**\n * Tokenize a title into a set of normalized words.\n */\nfunction titleToWordSet(title: string): Set<string> {\n  const normalized = normalize(title);\n  if (normalized === \"\") return new Set();\n  return new Set(normalized.split(\" \"));\n}\n\n/**\n * Check if two titles are similar using Jaccard similarity and Containment coefficient.\n * Returns true (similar) if Jaccard >= 0.5 OR Containment >= 0.8.\n * Returns true if either title is empty/undefined (not enough data to compare).\n */\nexport function isTitleSimilar(local: string | undefined, remote: string | undefined): boolean {\n  if (!local || !remote) return true;\n\n  const localWords = titleToWordSet(local);\n  const remoteWords = titleToWordSet(remote);\n\n  if (localWords.size === 0 || remoteWords.size === 0) return true;\n\n  // Intersection\n  let intersectionSize = 0;\n  for (const word of localWords) {\n    if (remoteWords.has(word)) intersectionSize++;\n  }\n\n  // Jaccard = |A∩B| / |A∪B|\n  const unionSize = localWords.size + remoteWords.size - intersectionSize;\n  const jaccard = unionSize > 0 ? intersectionSize / unionSize : 0;\n\n  // Containment = |A∩B| / min(|A|, |B|)\n  const minSize = Math.min(localWords.size, remoteWords.size);\n  const containment = minSize > 0 ? intersectionSize / minSize : 0;\n\n  return jaccard >= 0.5 || containment >= 0.8;\n}\n\n/**\n * Extract and normalize family names from an author array.\n */\nfunction extractFamilyNames(authors: AuthorName[]): Set<string> {\n  const families = new Set<string>();\n  for (const author of authors) {\n    if (author.literal) {\n      families.add(normalize(author.literal));\n    } else if (author.family) {\n      families.add(normalize(author.family));\n    }\n  }\n  return families;\n}\n\n/**\n * Check if author lists are similar using family name overlap ratio.\n * Overlap = |local_families ∩ remote_families| / |local_families|\n * Returns true (similar) if overlap >= 0.5.\n * Returns true if either side has no authors (not enough data).\n */\nexport function isAuthorSimilar(\n  local: AuthorName[] | undefined,\n  remote: AuthorName[] | undefined\n): boolean {\n  if (!local || !remote || local.length === 0 || remote.length === 0) return true;\n\n  const localFamilies = extractFamilyNames(local);\n  const remoteFamilies = extractFamilyNames(remote);\n\n  if (localFamilies.size === 0 || remoteFamilies.size === 0) return true;\n\n  let overlapCount = 0;\n  for (const family of localFamilies) {\n    if (remoteFamilies.has(family)) overlapCount++;\n  }\n\n  // Asymmetric by design: measures how many local authors appear in remote.\n  // This correctly handles co-authors being added to the remote record (local is\n  // a subset of remote → overlap = 1.0). The trade-off is that if remote has many\n  // extra unrelated authors plus one coincidental match, overlap could be high.\n  // In practice, this is rare for academic metadata.\n  const overlap = overlapCount / localFamilies.size;\n  return overlap >= 0.5;\n}\n","/**\n * Metadata comparator for classifying differences between local and remote metadata.\n */\n\nimport type { RemoteMetadata } from \"./crossref-client.js\";\nimport { isAuthorSimilar, isTitleSimilar } from \"./metadata-similarity.js\";\n\nexport interface MetadataComparisonResult {\n  classification: \"metadata_mismatch\" | \"metadata_outdated\" | \"no_change\";\n  changedFields: string[];\n  fieldDiffs: Array<{\n    field: string;\n    local: string | null;\n    remote: string | null;\n  }>;\n}\n\n/**\n * Local item fields relevant for metadata comparison.\n */\nexport interface LocalMetadataFields {\n  title?: string;\n  author?: Array<{ family?: string; given?: string }>;\n  \"container-title\"?: string;\n  type?: string;\n  page?: string;\n  volume?: string;\n  issue?: string;\n  issued?: { \"date-parts\"?: number[][] };\n}\n\n/**\n * Map Crossref type to CSL type for comparison.\n */\nconst CROSSREF_TO_CSL_TYPE: Record<string, string> = {\n  \"journal-article\": \"article-journal\",\n  \"book-chapter\": \"chapter\",\n  \"proceedings-article\": \"paper-conference\",\n  \"posted-content\": \"article\",\n  monograph: \"book\",\n  \"edited-book\": \"book\",\n  \"reference-book\": \"book\",\n  report: \"report\",\n  dataset: \"dataset\",\n  dissertation: \"thesis\",\n  \"peer-review\": \"review\",\n  \"book-part\": \"chapter\",\n  \"reference-entry\": \"entry\",\n  component: \"article\",\n};\n\nfunction normalizeType(type: string | undefined, isCrossref: boolean): string | null {\n  if (!type) return null;\n  if (isCrossref) return CROSSREF_TO_CSL_TYPE[type] ?? type;\n  return type;\n}\n\nfunction formatAuthors(\n  authors: Array<{ family?: string; given?: string }> | undefined\n): string | null {\n  if (!authors || authors.length === 0) return null;\n  return authors.map((a) => [a.family, a.given].filter(Boolean).join(\", \")).join(\"; \");\n}\n\nfunction formatDateParts(issued: { \"date-parts\"?: number[][] } | undefined): string | null {\n  const parts = issued?.[\"date-parts\"]?.[0];\n  if (!parts || parts.length === 0) return null;\n  return parts.join(\"-\");\n}\n\ntype FieldDiff = MetadataComparisonResult[\"fieldDiffs\"][number];\n\nfunction addDiffIfChanged(\n  diffs: FieldDiff[],\n  fields: string[],\n  name: string,\n  local: string | null,\n  remote: string | null\n): void {\n  if (local === remote) return;\n  if (local === null && remote === null) return;\n  fields.push(name);\n  diffs.push({ field: name, local, remote });\n}\n\nfunction collectFieldDiffs(\n  local: LocalMetadataFields,\n  remote: RemoteMetadata\n): { changedFields: string[]; fieldDiffs: FieldDiff[] } {\n  const changedFields: string[] = [];\n  const fieldDiffs: FieldDiff[] = [];\n\n  // Title\n  addDiffIfChanged(fieldDiffs, changedFields, \"title\", local.title ?? null, remote.title ?? null);\n\n  // Author\n  addDiffIfChanged(\n    fieldDiffs,\n    changedFields,\n    \"author\",\n    formatAuthors(local.author),\n    formatAuthors(remote.author)\n  );\n\n  // Container title\n  // NOTE: Compared as raw strings. Abbreviation differences (e.g., \"J. Am. Chem. Soc.\"\n  // vs \"Journal of the American Chemical Society\") will show as diffs. This is acceptable\n  // because such differences are classified as \"outdated\" (not \"mismatch\"), and updating\n  // to the canonical remote form is generally desirable.\n  addDiffIfChanged(\n    fieldDiffs,\n    changedFields,\n    \"container-title\",\n    local[\"container-title\"] ?? null,\n    remote.containerTitle ?? null\n  );\n\n  // Type (with mapping)\n  addDiffIfChanged(\n    fieldDiffs,\n    changedFields,\n    \"type\",\n    normalizeType(local.type, false),\n    normalizeType(remote.type, true)\n  );\n\n  // Publication fields\n  addDiffIfChanged(fieldDiffs, changedFields, \"page\", local.page ?? null, remote.page ?? null);\n  addDiffIfChanged(\n    fieldDiffs,\n    changedFields,\n    \"volume\",\n    local.volume ?? null,\n    remote.volume ?? null\n  );\n  addDiffIfChanged(fieldDiffs, changedFields, \"issue\", local.issue ?? null, remote.issue ?? null);\n  addDiffIfChanged(\n    fieldDiffs,\n    changedFields,\n    \"issued\",\n    formatDateParts(local.issued),\n    formatDateParts(remote.issued)\n  );\n\n  return { changedFields, fieldDiffs };\n}\n\n/**\n * Compare local metadata fields against remote (Crossref) metadata.\n * Classifies differences as metadata_mismatch, metadata_outdated, or no_change.\n */\nexport function compareMetadata(\n  local: LocalMetadataFields,\n  remote: RemoteMetadata\n): MetadataComparisonResult {\n  const { changedFields, fieldDiffs } = collectFieldDiffs(local, remote);\n\n  if (changedFields.length === 0) {\n    return { classification: \"no_change\", changedFields, fieldDiffs };\n  }\n\n  const titleSimilar = isTitleSimilar(local.title, remote.title);\n  const authorSimilar = isAuthorSimilar(local.author, remote.author);\n\n  if (!titleSimilar || !authorSimilar) {\n    return { classification: \"metadata_mismatch\", changedFields, fieldDiffs };\n  }\n\n  return { classification: \"metadata_outdated\", changedFields, fieldDiffs 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package/dist/chunks/{pubmed-client-DH9y2tEZ.js → pubmed-client-DEo6eaH7.js}

@@ -1,4 +1,4 @@
-import { g as getRateLimiter } from "./index-BdLVfbj0.js";
+import { g as getRateLimiter } from "./index-T-edKSzd.js";
 const PUBMED_ESUMMARY_BASE = "https://eutils.ncbi.nlm.nih.gov/entrez/eutils/esummary.fcgi";
 function buildEsummaryUrl(pmid, config) {
   const url = new URL(PUBMED_ESUMMARY_BASE);
@@ -48,4 +48,4 @@ async function queryPubmed(pmid, config) {
 export {
   queryPubmed
 };
-//# sourceMappingURL=pubmed-client-DH9y2tEZ.js.map
+//# sourceMappingURL=pubmed-client-DEo6eaH7.js.map