Minor code cleanup and documentation update.

Chore: Fixed some typos in the in code documentation
Chore: Reorganized some methods to improve readibility
Update Command.php

Added setter and getter to flags
Update CommandTest.php

Addded tests for set and get command
Merge pull request #2 from Sophie-OS/develop

New feature: 'Flags' Setter and Getter

! Feature: [Command] Added setter and getter for ´flags. This enables flag modification after Command object initialization.
Added Sophie-OS to contributors list