Don't worry about the files in node_modules. It is what you requested via package.json all of the necessary dependencies. Essentially, just a bunch of very small files. Now, to use the npm packages, you will do it with Elixir. Basically, you just need to run the copy() method to get them to you resource/assets directory. Here is an example:
var elixir = require('laravel-elixir');
/*
|--------------------------------------------------------------------------
| Elixir Asset Management
|--------------------------------------------------------------------------
|
| Elixir provides a clean, fluent API for defining some basic Gulp tasks
| for your Laravel application. By default, we are compiling the Sass
| file for our application, as well as publishing vendor resources.
|
*/
var paths = {
'bootstrap' : 'node_modules/bootstrap-sass/assets/',
'fonts' : 'node_modules/bootstrap-sass/assets/fonts/',
'animate' : 'node_modules/animate.css/',
'datetimepicker': 'node_modules/jquery-datetimepicker/'
};
elixir(function(mix) {
'use strict';
mix.copy(paths.fonts + 'bootstrap/**', 'public/build/fonts/bootstrap')
.copy(paths.bootstrap + 'javascripts/bootstrap.js', 'resources/assets/js')
.copy(paths.bootstrap + 'stylesheets/**', 'resources/assets/sass')
.copy(paths.animate + 'animate.css', 'resources/assets/sass/_animate.scss')
.copy(paths.datetimepicker + 'build/jquery.datetimepicker.full.min.js', 'resources/assets/js/datetimepicker.js')
.copy(paths.datetimepicker + 'jquery.datetimepicker.css', 'resources/assets/sass/_datetimepicker.scss')
.copy('resources/assets/dictionaries', 'app/build/dictionaries')
.copy('resources/assets/images', 'public/build/images')
.sass('app.scss')
.scripts([
'jquery.js',
'bootstrap.js',
'datetimepicker.js',
'app.js'
])
.version(['public/css/app.css', 'public/js/all.js']);
});