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Here's the front cover and side before....
and here's my rough blueprint of what I want to do
The light blue is going to be plexiglass, the white square with the red X are going to be holes for a 50mm intake fan up front blowing right beneath the hdd, and a 120mm intake on the side blowing towards the GPU.
The red is part of the plexiglass front, but I will be painting it so the bare metal isn't showing underneath, and I'm going to paint the DVD drive cover to match it.