chore(lint): upgrade biome to v2.2.4 and fix all lint errors

biome.json

@@ -1,40 +1,59 @@
 {
-  "$schema": "https://biomejs.dev/schemas/1.8.3/schema.json",
+  "$schema": "https://biomejs.dev/schemas/2.2.4/schema.json",
   "files": {
-    "include": [
-      "./bin/**",
-      "./src/**",
-      "./tests/**",
-      "./website/**",
-      "./browser/**",
-      "./.devcontainer/**",
-      "./.github/**",
-      "package.json",
-      "biome.json",
-      ".secretlintrc.json",
-      "tsconfig.json",
-      "tsconfig.build.json",
-      "vite.config.ts",
-      "repomix.config.json"
-    ],
-    "ignore": [
-      "website/client/.vitepress/.temp",
-      "website/client/.vitepress/dist",
-      "website/client/.vitepress/cache",
-      "website/server/dist",
-      "browser/dist",
-      "browser/packages"
+    "includes": [
+      "bin/**",
+      "src/**",
+      "tests/**",
+      "website/**",
+      "browser/**",
+      ".devcontainer/**",
+      ".github/**",
+      "**/package.json",
+      "**/biome.json",
+      "**/.secretlintrc.json",
+      "**/tsconfig.json",
+      "**/tsconfig.build.json",
+      "**/vite.config.ts",
+      "**/repomix.config.json",
+      "!**/website/client/.vitepress/.temp",
+      "!**/website/client/.vitepress/dist",
+      "!**/website/client/.vitepress/cache",
+      "!**/website/server/dist",
+      "!**/browser/dist",
+      "!**/browser/packages"
     ]
   },
-  "organizeImports": {
-    "enabled": true
-  },
+  "assist": { "actions": { "source": { "organizeImports": "on" } } },
   "linter": {
     "enabled": true,
     "rules": {
       "recommended": true
     }
   },
+  "overrides": [
+    {
+      "includes": ["**/*.vue"],
+      "linter": {
+        "rules": {
+          "correctness": {
+            "noUnusedVariables": "off",
+            "noUnusedImports": "off"
+          }
+        }
+      }
+    },
+    {
+      "includes": ["src/index.ts"],
+      "assist": {
+        "actions": {
+          "source": {
+            "organizeImports": "off"
+          }
+        }
+      }
+    }
+  ],
   "formatter": {
     "enabled": true,
     "formatWithErrors": false,

package.json

@@ -104,7 +104,7 @@
     "zod": "^3.24.3"
   },
   "devDependencies": {
-    "@biomejs/biome": "^1.9.4",
+    "@biomejs/biome": "^2.2.4",
     "@secretlint/types": "^9.3.4",
     "@types/node": "^22.14.1",
     "@types/strip-comments": "^2.0.4",

src/cli/actions/initAction.ts

@@ -3,10 +3,10 @@ import path from 'node:path';
 import * as prompts from '@clack/prompts';
 import pc from 'picocolors';
 import {
-  type RepomixConfigFile,
-  type RepomixOutputStyle,
   defaultConfig,
   defaultFilePathMap,
+  type RepomixConfigFile,
+  type RepomixOutputStyle,
 } from '../../config/configSchema.js';
 import { getGlobalDirectory } from '../../config/globalDirectory.js';
 import { logger } from '../../shared/logger.js';

src/cli/cliReport.ts

@@ -173,7 +173,7 @@ export const reportTopFiles = (
   });
 };
 
-export const reportSkippedFiles = (rootDir: string, skippedFiles: SkippedFileInfo[]) => {
+export const reportSkippedFiles = (_rootDir: string, skippedFiles: SkippedFileInfo[]) => {
   const binaryContentFiles = skippedFiles.filter((file) => file.reason === 'binary-content');
 
   if (binaryContentFiles.length === 0) {

src/cli/cliRun.ts

@@ -2,7 +2,7 @@ import process from 'node:process';
 import { Option, program } from 'commander';
 import pc from 'picocolors';
 import { getVersion } from '../core/file/packageJsonParse.js';
-import { RepomixError, handleError } from '../shared/errorHandle.js';
+import { handleError, RepomixError } from '../shared/errorHandle.js';
 import { logger, repomixLogLevels } from '../shared/logger.js';
 import { runDefaultAction } from './actions/defaultAction.js';
 import { runInitAction } from './actions/initAction.js';

src/cli/reporters/tokenCountTreeReporter.ts

@@ -2,9 +2,9 @@ import pc from 'picocolors';
 import type { RepomixConfigMerged } from '../../config/configSchema.js';
 import type { ProcessedFile } from '../../core/file/fileTypes.js';
 import {
+  buildTokenCountTree,
   type FileWithTokens,
   type TreeNode,
-  buildTokenCountTree,
 } from '../../core/tokenCount/buildTokenCountStructure.js';
 import { logger } from '../../shared/logger.js';
 

src/config/configLoad.ts

@@ -5,11 +5,11 @@ import pc from 'picocolors';
 import { RepomixError, rethrowValidationErrorIfZodError } from '../shared/errorHandle.js';
 import { logger } from '../shared/logger.js';
 import {
+  defaultConfig,
+  defaultFilePathMap,
   type RepomixConfigCli,
   type RepomixConfigFile,
   type RepomixConfigMerged,
-  defaultConfig,
-  defaultFilePathMap,
   repomixConfigFileSchema,
   repomixConfigMergedSchema,
 } from './configSchema.js';

src/core/file/fileSearch.ts

@@ -9,7 +9,7 @@ import { RepomixError } from '../../shared/errorHandle.js';
 import { logger } from '../../shared/logger.js';
 import { sortPaths } from './filePathSort.js';
 
-import { PermissionError, checkDirectoryPermissions } from './permissionCheck.js';
+import { checkDirectoryPermissions, PermissionError } from './permissionCheck.js';
 
 export interface FileSearchResult {
   filePaths: string[];

src/core/git/gitHubArchiveApi.ts

@@ -79,7 +79,7 @@ export const checkGitHubResponse = (response: Response): void => {
     const rateLimitRemaining = response.headers.get('X-RateLimit-Remaining');
     if (rateLimitRemaining === '0') {
       const resetTime = response.headers.get('X-RateLimit-Reset');
-      const resetDate = resetTime ? new Date(Number.parseInt(resetTime) * 1000) : null;
+      const resetDate = resetTime ? new Date(Number.parseInt(resetTime, 10) * 1000) : null;
       throw new RepomixError(
         `GitHub API rate limit exceeded. ${resetDate ? `Rate limit resets at ${resetDate.toISOString()}` : 'Please try again later.'}`,
       );

src/core/metrics/TokenCounter.ts

@@ -1,4 +1,4 @@
-import { type Tiktoken, type TiktokenEncoding, get_encoding } from 'tiktoken';
+import { get_encoding, type Tiktoken, type TiktokenEncoding } from 'tiktoken';
 import { logger } from '../../shared/logger.js';
 
 export class TokenCounter {

src/core/metrics/calculateMetrics.ts

@@ -1,5 +1,5 @@
 import type { RepomixConfigMerged } from '../../config/configSchema.js';
-import { type TaskRunner, initTaskRunner } from '../../shared/processConcurrency.js';
+import { initTaskRunner, type TaskRunner } from '../../shared/processConcurrency.js';
 import type { RepomixProgressCallback } from '../../shared/types.js';
 import type { ProcessedFile } from '../file/fileTypes.js';
 import type { GitDiffResult } from '../git/gitDiffHandle.js';

src/core/packager.ts

@@ -1,7 +1,7 @@
 import type { RepomixConfigMerged } from '../config/configSchema.js';
 import { logMemoryUsage, withMemoryLogging } from '../shared/memoryUtils.js';
 import type { RepomixProgressCallback } from '../shared/types.js';
-import { type SkippedFileInfo, collectFiles } from './file/fileCollect.js';
+import { collectFiles, type SkippedFileInfo } from './file/fileCollect.js';
 import { sortPaths } from './file/filePathSort.js';
 import { processFiles } from './file/fileProcess.js';
 import { searchFiles } from './file/fileSearch.js';

src/core/security/validateFileSafety.ts

@@ -5,7 +5,7 @@ import type { RawFile } from '../file/fileTypes.js';
 import type { GitDiffResult } from '../git/gitDiffHandle.js';
 import type { GitLogResult } from '../git/gitLogHandle.js';
 import { filterOutUntrustedFiles } from './filterOutUntrustedFiles.js';
-import { type SuspiciousFileResult, runSecurityCheck } from './securityCheck.js';
+import { runSecurityCheck, type SuspiciousFileResult } from './securityCheck.js';
 
 // Marks which files are suspicious and which are safe
 // Returns Git diff results separately so they can be included in the output

src/core/treeSitter/lang2Query.ts

@@ -1,6 +1,6 @@
 import { queryC } from './queries/queryC.js';
-import { queryCSharp } from './queries/queryCSharp.js';
 import { queryCpp } from './queries/queryCpp.js';
+import { queryCSharp } from './queries/queryCSharp.js';
 import { queryCss } from './queries/queryCss.js';
 import { queryGo } from './queries/queryGo.js';
 import { queryJava } from './queries/queryJava.js';

src/core/treeSitter/languageParser.ts

@@ -4,9 +4,9 @@ import Parser from 'web-tree-sitter';
 import { RepomixError } from '../../shared/errorHandle.js';
 import { logger } from '../../shared/logger.js';
 import { ext2Lang } from './ext2Lang.js';
-import { type SupportedLang, lang2Query } from './lang2Query.js';
+import { lang2Query, type SupportedLang } from './lang2Query.js';
 import { loadLanguage } from './loadLanguage.js';
-import { type ParseStrategy, createParseStrategy } from './parseStrategies/ParseStrategy.js';
+import { createParseStrategy, type ParseStrategy } from './parseStrategies/ParseStrategy.js';
 
 interface LanguageResources {
   lang: SupportedLang;

src/core/treeSitter/parseFile.ts

@@ -2,7 +2,7 @@ import type { RepomixConfigMerged } from '../../config/configSchema.js';
 import { logger } from '../../shared/logger.js';
 import type { SupportedLang } from './lang2Query.js';
 import { LanguageParser } from './languageParser.js';
-import { type ParseContext, createParseStrategy } from './parseStrategies/ParseStrategy.js';
+import { createParseStrategy, type ParseContext } from './parseStrategies/ParseStrategy.js';
 
 interface CapturedChunk {
   content: string;

src/core/treeSitter/parseStrategies/GoParseStrategy.ts

@@ -121,7 +121,7 @@ export class GoParseStrategy implements ParseStrategy {
     lines: string[],
     startRow: number,
     endRow: number,
-    openToken: string,
+    _openToken: string,
     closeToken: string,
   ): number {
     for (let i = startRow; i <= endRow; i++) {

src/mcp/tools/attachPackedOutputTool.ts

@@ -6,10 +6,10 @@ import { z } from 'zod';
 import { defaultFilePathMap } from '../../config/configSchema.js';
 import type { ProcessedFile } from '../../core/file/fileTypes.js';
 import {
-  type McpToolMetrics,
   buildMcpToolErrorResponse,
   convertErrorToJson,
   formatPackToolResponse,
+  type McpToolMetrics,
 } from './mcpToolRuntime.js';
 
 /**