I've never 'played Portal' but the way Eric created the animation the words make perfect sense
Yes, much in the same way Metallica's "Dyers Eve" would fit perfectly as the opening theme for an episode of The Gilmore Girls, which is to say not at all.
"We're out of beta we're releasing on time" - wtf, nothing has been "released on time" Amiga-wise in nearly 20 years.
"Aperture Science, we do what we must because we can" - I see no relevance there.
"Maybe black mesa" - Wow, if you weren't stretching it before now it's completely warped.
Nope, sorry. The animation very clever and all but hammering the song into it doesn't make it magically appropriate or a song about the Amiga.