tsconfig.json

{
  "compilerOptions": {
    "target": "es5",
    "module": "commonjs",
    "moduleResolution": "node",
    "sourceMap": true,
    "emitDecoratorMetadata": true,
    "experimentalDecorators": true,
    "removeComments": false,
    "noImplicitAny": true,
    "suppressImplicitAnyIndexErrors": true,
    "typeRoots": [ "node_modules/@types/" ],
    "types": [ "node", "jasmine", "core-js" ]
  }
}

webpack.config.js

var path = require('path');

module.exports = {
  entry: {
    root: './src/assets/js-es6/ng/apps/main.ts'
  },
  devtool: 'source-map',
  resolve: {
    extensions: ['.ts', '.js', ''],
    root: [
      path.resolve('./src')
    ]
  },
  module: {
    loaders: [
      {
        test: /\.js$/,
        exclude: /(node_modules|bower_components)/,
        loader: 'babel'
      },
      {
        test: /\.ts$/,
        exclude: /(node_modules|bower_components)/,
        loaders: [
          'ts',
          'angular2-router-loader?debug=true'
        ]
      },
      {
        test: /\.html$/,
        exclude: /(node_modules|bower_components)/,
        loader: 'html'
      },
      {
        test: /\.json$/,
        exclude: /(node_modules|bower_components)/,
        loader: 'json'
      }
    ]
  },
  output: {
    path: path.join(__dirname, 'build', 'assets', 'js'),
    sourceMapFilename: '[name].js.map',
    filename: '[name].js',
    chunkFilename: '[id].chunk.js',
    publicPath: 'http://localhost:8080'
  }
};

Resolved. I commented the types option in tsconfig.json and also remove the declare global { ... from the src/packages/logger/module.d.ts file. And everything just work as it should. :)
For more info read my repository: https://github.com/kasir-barati/you-say