Fix detection of deletions

.eslintrc.js

@@ -0,0 +1,28 @@
+module.exports = {
+  parser: '@typescript-eslint/parser',
+  extends: [
+    'eslint:recommended',
+    'plugin:@typescript-eslint/recommended'
+  ],
+  parserOptions: {
+    ecmaVersion: 2022,
+    sourceType: 'module',
+    project: './tsconfig.json'
+  },
+  env: {
+    node: true,
+    es2022: true,
+    jest: true
+  },
+  plugins: ['@typescript-eslint'],
+  rules: {
+    '@typescript-eslint/explicit-module-boundary-types': 'off',
+    '@typescript-eslint/no-explicit-any': 'warn',
+    '@typescript-eslint/no-unused-vars': ['error', { argsIgnorePattern: '^_' }],
+    'no-console': 'off',
+    'semi': ['error', 'always'],
+    'quotes': ['error', 'single'],
+    'comma-dangle': ['error', 'never']
+  },
+  ignorePatterns: ['dist/', 'node_modules/', 'coverage/', '*.js']
+};

.gitignore

@@ -144,3 +144,5 @@ dist
 .yarn/build-state.yml
 .yarn/install-state.gz
 .pnp.*
+
+e2e-tests/dummy-repo/

TODO.md

@@ -11,4 +11,5 @@
 - [ ] How should we deal with it if the local shadow repo falls behind the remote branch? Options:
   - a. Let user merge changes from remote to local: We would need to implement a conflict resolver somehow.
   - b. If conflicts arise, we could just block the operation and let user dump the current state in order not to lose work. This is the simplest option.
-  - Either way, we need to think about how to apply new commits from the remote, because changes currently only flow from the sandbox to the shadow repo.
+  - Either way, we need to think about how to apply new commits from the remote, because changes currently only flow from the sandbox to the shadow repo.
+- [ ] rsync, inotifywait, etc. should be included in the image, not installed in the fly

jest.config.js

@@ -0,0 +1,39 @@
+module.exports = {
+  preset: 'ts-jest',
+  testEnvironment: 'node',
+  roots: ['<rootDir>/test'],
+  testMatch: [
+    '**/test/**/*.test.ts',
+    '**/test/**/*.test.js',
+    '**/test/**/*.spec.ts',
+    '**/test/**/*.spec.js'
+  ],
+  moduleFileExtensions: ['ts', 'tsx', 'js', 'jsx', 'json', 'node'],
+  transform: {
+    '^.+\\.tsx?$': 'ts-jest',
+    '^.+\\.jsx?$': 'babel-jest'
+  },
+  collectCoverageFrom: [
+    'src/**/*.{ts,tsx}',
+    '!src/**/*.d.ts',
+    '!src/**/*.test.{ts,tsx}',
+    '!src/**/*.spec.{ts,tsx}'
+  ],
+  coverageDirectory: '<rootDir>/coverage',
+  coverageReporters: ['text', 'lcov', 'html'],
+  testPathIgnorePatterns: [
+    '/node_modules/',
+    '/dist/'
+  ],
+  moduleNameMapper: {
+    '^@/(.*)$': '<rootDir>/src/$1'
+  },
+  globals: {
+    'ts-jest': {
+      tsconfig: {
+        esModuleInterop: true,
+        allowJs: true
+      }
+    }
+  }
+};

package.json

@@ -12,6 +12,11 @@
     "start": "node dist/cli.js",
     "lint": "eslint src/**/*.ts",
     "test": "jest",
+    "test:watch": "jest --watch",
+    "test:unit": "jest test/unit",
+    "test:integration": "jest test/integration",
+    "test:e2e": "cd test/e2e && ./run-tests.sh",
+    "test:coverage": "jest --coverage",
     "purge-containers": "docker ps -a --filter \"ancestor=claude-code-sandbox:latest\" -q | xargs -r docker rm -f && docker rmi claude-code-sandbox:latest"
   },
   "keywords": [
@@ -37,6 +42,7 @@
     "simple-git": "^3.22.0",
     "socket.io": "^4.8.1",
     "tar-stream": "^3.1.7",
+    "ws": "^8.18.2",
     "xterm": "^5.3.0",
     "xterm-addon-fit": "^0.8.0",
     "xterm-addon-web-links": "^0.9.0"

src/git/shadow-repository.ts

@@ -166,6 +166,10 @@ export class ShadowRepository {
       try {
         await execAsync("git add .", { cwd: this.shadowPath });
         console.log(chalk.gray("  Staged all files for tracking"));
+
+        // Create initial commit to ensure deletions can be tracked
+        await execAsync('git commit -m "Initial snapshot of working directory" --allow-empty', { cwd: this.shadowPath });
+        console.log(chalk.gray("  Created initial commit for change tracking"));
       } catch (stageError: any) {
         console.log(chalk.gray("  Could not stage files:", stageError.message));
       }
@@ -342,6 +346,13 @@ export class ShadowRepository {
       await this.syncWithDockerCp(containerId, containerPath);
     }
 
+    // Stage all changes including deletions
+    try {
+      await execAsync("git add -A", { cwd: this.shadowPath });
+    } catch (stageError) {
+      console.log(chalk.gray("  Could not stage changes:", stageError));
+    }
+
     console.log(chalk.green("✓ Files synced successfully"));
   }
 
@@ -413,6 +424,10 @@ export class ShadowRepository {
       `docker cp ${this.rsyncExcludeFile} ${containerId}:${containerExcludeFile}`,
     );
 
+    // Rsync directly from container to shadow repo with proper deletion handling
+    // First, clear the shadow repo (except .git) to ensure deletions are reflected
+    await execAsync(`find ${this.shadowPath} -mindepth 1 -not -path '${this.shadowPath}/.git*' -delete`);
+
     // Rsync within container to staging area using exclude file
     const rsyncCmd = `docker exec ${containerId} rsync -av --delete \
       --exclude-from=${containerExcludeFile} \

test/README.md

@@ -1,23 +1,69 @@
-# Claude Code Sandbox Tests
+# Test Directory Structure
 
-This directory contains tests for the Claude Code Sandbox project.
+This directory contains all tests for the Claude Code Sandbox project.
 
-## Test Structure
+## Directory Layout
 
-- `unit/` - Unit tests for individual components
-- `integration/` - Integration tests for testing multiple components together
-- `e2e/` - End-to-end tests for testing full workflows
+```
+test/
+├── unit/              # Unit tests for individual modules
+├── integration/       # Integration tests for module interactions
+├── e2e/              # End-to-end tests for full workflow scenarios
+├── fixtures/         # Test data, mock responses, sample files
+└── helpers/          # Shared test utilities and helpers
+```
 
 ## Running Tests
 
 ```bash
 # Run all tests
 npm test
 
-# Run specific test file
-npm test test/unit/container.test.js
+# Run tests in watch mode
+npm run test:watch
+
+# Run only unit tests
+npm run test:unit
+
+# Run only integration tests
+npm run test:integration
+
+# Run only E2E tests
+npm run test:e2e
+
+# Run tests with coverage
+npm run test:coverage
 ```
 
+## Test Naming Conventions
+
+- Unit tests: `*.test.ts` or `*.spec.ts`
+- Test files should mirror the source structure
+  - Example: `test/unit/container.test.ts` tests `src/container.ts`
+
 ## Writing Tests
 
-Tests should be written using a testing framework like Jest or Mocha. Each test file should be self-contained and test a specific component or feature.
+Tests are written using Jest with TypeScript support. The Jest configuration is in `jest.config.js` at the project root.
+
+### Example Unit Test
+
+```typescript
+import { someFunction } from '../../src/someModule';
+
+describe('someFunction', () => {
+  it('should do something', () => {
+    const result = someFunction('input');
+    expect(result).toBe('expected output');
+  });
+});
+```
+
+## E2E Tests
+
+End-to-end tests are located in `test/e2e/` and test the complete workflow of the CLI tool. These tests:
+- Create actual Docker containers
+- Run Claude commands
+- Verify git operations
+- Test the full user experience
+
+Run E2E tests with: `npm run test:e2e`