The nazis wanted to "unify" Europe only in the sense that they wanted to annex all European nations and exert unlimited control over them. They weren't interested in creating a European identity, they merely wanted Germans to rule all of Europe (but not make Europeans Germans -- after all Europe was full of untermenschen they wanted nothing to do with).

In other words "unifying Europe" under the doctrine of Lebensraum basically meant conquering more territory for Germans to settle (and enslaving, deporting or exterminating the local population as necessary). Unless you're saying the EU wants to literally do that, the comparison is hyperbolic at best (and defamatory at worst).