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[edited by: Robert_Charlton at 7:50 am (utc) on Jul 6, 2013]
Can nofollow links still be classed as "Link schemes" in violation of google guidelines, I guess that's what im asking?
Answering that will tell you everything you need to know, but you have to do it honestly.
"and if they manually look at it WITHOUT going into the code"
if the links have a rel=nofollow then they're not used by our algorithms and not used for manual webspam action (which is where you'd get an unnatural links notification from).