I'm using Diskeeper 11 Pro and the pink files it refers to are system files which I don't think will be touched by the de-fragmentation process.
I used Diskeeper for a while but their agressive email advertising policy ****** me off so i moved to O&O Defrag. Glad i did, it's much better imo.

A SysInternals program. Will defrag the swap files, hibernation files and your all important registry files. 