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Flux by Stereopsis - Flux changes your screen to a more orange tone when the sun is down.

Terminal - OS X is built on an industry-standard UNIX foundation.

Script Editor

Grab - Take a picture of all or part of your computer screen.

Disk Utility - Create, mount, convert, compressed and encrypted disk images, hard drives, DVD.

Console - The Console utility allows you to monitor system logs from a central location.

Boot Camp Assistant

Bluetooth File Exchange - Makes it easy to share files between your Mac and Bluetooth-enabled devices.

iFunBox - iFunBox is a simple iOS file manager designed for Mac.

Photos - Photos will help you keep your growing library organized and accessible.

X11 - The X.Org project provides an open source implementation of the X Window System.

Skype - Say “hello” with an instant message, voice or video call – all for free.

Safari - Safari 5 is a web browser made by Apple for the Mac.

Reminders - Organise your life on your Mac. Make as many to-do lists as you need and easily add to them.

Preview - A simple, elegant application for viewing and working with PDF documents.

Notes by Apple Inc. - Notes is an application created to make quick records.

Messages - iMessage lets you send messages to anyone on a Mac, or an iPhone, iPad, or iPod touch running iOS 5.

Mail - Mail offers an elegant full-screen interface that makes it easy to manage all your email from a single, ad-free inbox.

Image Capture - Image Capture transfers images between a digital camera / scanner and your Mac.

iBooks - Amazing way to download and read books.

Font Book - Manage your fonts quickly and easily with the Font Book application in OS X.

Firefox - Quickly browse the web without slowing down your Mac.

Evernote - Manage, share, and organize your important notes with ease.

Contacts - A flexible and convenient place to store information for everyone you know.

Calendar by Apple Inc. - Keep track of your busy schedule and share it with others using Calendar.

Automator - With Automator, you can accomplish time-consuming, repetitive manual tasks quickly, efficiently and effortlessly.

App Store - The Mac App Store is just like the App Store for iPad, iPhone and iPod touch.

iTunes - iTunes is built-in Mac software which does far more than just play tunes.

Xcode - Xcode is the complete toolset for building Mac OS X and iOS applications.

Tunnelblick - A graphical user interface to use and configure OpenVPN.

Google Drive - Place where you can create, share, collaborate, and keep all of your stuff.

sqlitebrowser - This app allows you to create and edit database files compatible with SQLite.

Parallels Desktop - Parallels allows you to run Windows and Mac applications side by side.

adobe_licutil

AdobeIPCBroker

AAM Updates Notifier

Unclutter - Organize your desktop by keeping frequently used items at hand.

VMware Fusion - VMware Fusion 8 and Fusion 8 Pro--the latest versions of its virtualization software for running Windows on a Mac without rebooting...

Audio MIDI Setup - Control settings for all audio going into and out of your Mac.

NetBeans - Open source Java IDE.

Microsoft Outlook - Manage messages, events and tasks from a single application.

iReSign

iPhoto - Note: This is no longer an actively developed application.

Game Center - With Mountain Lion, the Game Center social gaming network is now on the Mac...

TextMate - A lightweight text editor for writing not only notes but also code.