Resolve merge conflict with main (gitignore + symlink rename)

Keeps the PR's visitedDirs rename and main's gitIgnoredDirs addition.

__tests__/extraction.test.ts

@@ -9,8 +9,10 @@ import * as fs from 'fs';
 import * as path from 'path';
 import * as os from 'os';
 import { CodeGraph } from '../src';
-import { extractFromSource } from '../src/extraction';
+import { extractFromSource, scanDirectory, shouldIncludeFile } from '../src/extraction';
 import { detectLanguage, isLanguageSupported, getSupportedLanguages } from '../src/extraction/grammars';
+import { normalizePath } from '../src/utils';
+import { DEFAULT_CONFIG } from '../src/types';
 
 // Create a temporary directory for each test
 function createTempDir(): string {
@@ -1981,3 +1983,106 @@ export function multiply(a: number, b: number): number {
     cg.close();
   });
 });
+
+describe('Path Normalization', () => {
+  it('should convert backslashes to forward slashes', () => {
+    expect(normalizePath('gui\\node_modules\\foo')).toBe('gui/node_modules/foo');
+    expect(normalizePath('src\\components\\Button.tsx')).toBe('src/components/Button.tsx');
+  });
+
+  it('should leave forward-slash paths unchanged', () => {
+    expect(normalizePath('src/components/Button.tsx')).toBe('src/components/Button.tsx');
+  });
+
+  it('should handle empty string', () => {
+    expect(normalizePath('')).toBe('');
+  });
+});
+
+describe('Directory Exclusion', () => {
+  let tempDir: string;
+
+  beforeEach(() => {
+    tempDir = createTempDir();
+  });
+
+  afterEach(() => {
+    cleanupTempDir(tempDir);
+  });
+
+  it('should exclude node_modules directories', () => {
+    // Create structure: src/index.ts + node_modules/pkg/index.js
+    const srcDir = path.join(tempDir, 'src');
+    const nmDir = path.join(tempDir, 'node_modules', 'pkg');
+    fs.mkdirSync(srcDir, { recursive: true });
+    fs.mkdirSync(nmDir, { recursive: true });
+    fs.writeFileSync(path.join(srcDir, 'index.ts'), 'export const x = 1;');
+    fs.writeFileSync(path.join(nmDir, 'index.js'), 'module.exports = {};');
+
+    const config = { ...DEFAULT_CONFIG, rootDir: tempDir };
+    const files = scanDirectory(tempDir, config);
+
+    expect(files).toContain('src/index.ts');
+    expect(files.every((f) => !f.includes('node_modules'))).toBe(true);
+  });
+
+  it('should exclude nested node_modules directories', () => {
+    // Create structure: packages/app/node_modules/pkg/index.js
+    const srcDir = path.join(tempDir, 'packages', 'app', 'src');
+    const nmDir = path.join(tempDir, 'packages', 'app', 'node_modules', 'pkg');
+    fs.mkdirSync(srcDir, { recursive: true });
+    fs.mkdirSync(nmDir, { recursive: true });
+    fs.writeFileSync(path.join(srcDir, 'index.ts'), 'export const x = 1;');
+    fs.writeFileSync(path.join(nmDir, 'index.js'), 'module.exports = {};');
+
+    const config = { ...DEFAULT_CONFIG, rootDir: tempDir };
+    const files = scanDirectory(tempDir, config);
+
+    expect(files).toContain('packages/app/src/index.ts');
+    expect(files.every((f) => !f.includes('node_modules'))).toBe(true);
+  });
+
+  it('should exclude .git directories', () => {
+    const srcDir = path.join(tempDir, 'src');
+    const gitDir = path.join(tempDir, '.git', 'objects');
+    fs.mkdirSync(srcDir, { recursive: true });
+    fs.mkdirSync(gitDir, { recursive: true });
+    fs.writeFileSync(path.join(srcDir, 'index.ts'), 'export const x = 1;');
+    fs.writeFileSync(path.join(gitDir, 'pack.ts'), 'export const y = 2;');
+
+    const config = { ...DEFAULT_CONFIG, rootDir: tempDir };
+    const files = scanDirectory(tempDir, config);
+
+    expect(files).toContain('src/index.ts');
+    expect(files.every((f) => !f.includes('.git'))).toBe(true);
+  });
+
+  it('should return forward-slash paths on all platforms', () => {
+    const srcDir = path.join(tempDir, 'src', 'components');
+    fs.mkdirSync(srcDir, { recursive: true });
+    fs.writeFileSync(path.join(srcDir, 'Button.tsx'), 'export function Button() {}');
+
+    const config = { ...DEFAULT_CONFIG, rootDir: tempDir };
+    const files = scanDirectory(tempDir, config);
+
+    expect(files.length).toBe(1);
+    expect(files[0]).toBe('src/components/Button.tsx');
+    expect(files[0]).not.toContain('\\');
+  });
+
+  it('should respect .codegraphignore marker', () => {
+    const srcDir = path.join(tempDir, 'src');
+    const vendorDir = path.join(tempDir, 'vendor');
+    fs.mkdirSync(srcDir, { recursive: true });
+    fs.mkdirSync(vendorDir, { recursive: true });
+    fs.writeFileSync(path.join(srcDir, 'index.ts'), 'export const x = 1;');
+    fs.writeFileSync(path.join(vendorDir, 'lib.ts'), 'export const y = 2;');
+    fs.writeFileSync(path.join(vendorDir, '.codegraphignore'), '');
+
+    const config = { ...DEFAULT_CONFIG, rootDir: tempDir };
+    const files = scanDirectory(tempDir, config);
+
+    expect(files).toContain('src/index.ts');
+    expect(files.every((f) => !f.includes('vendor'))).toBe(true);
+  });
+});