The real philisophical battle of the age isn't between science and religion, and Edward Feser has an excellent article on TCS that clearly (if not concisely) describes the true nature of the conflict.

The hoary "science vs. religion" conflict is, then, a myth. What exists in reality is a dispute between rival metaphysical systems: the theism, dualism, and Platonism of traditional Western philosophy and the modern naturalism or materialism that is less a result of modern science than an ideologically secularist interpretation of it. But for contemporary intellectuals there is, we might say, public relations value in maintaining the fiction that there is a war between science per se and religion, and that religion is losing: it is easier thereby to insinuate that in the real battle -- the philosophical one -- the "naturalists" rather than their opponents ought to be given the benefit of the doubt. There is, again, no rational justification for such an attitude; but there is a motive, which the philosopher Thomas Nagel has given voice to in a moment of frankness rare among the members of his profession. In his book The Last Word, he acknowledges that it is a "fear of religion" among contemporary intellectuals that keeps them from facing up to the deep problems facing naturalistic attempts to account for the nature of the human mind and human knowledge:

"I speak from experience, being strongly subject to this fear myself: I want atheism to be true and am made uneasy by the fact that some of the most intelligent and well-informed people I know are religious believers. It isn't just that I don't believe in God and, naturally, hope that I'm right in my belief. It's that I hope there is no God! I don't want there to be a God; I don't want the universe to be like that. My guess is that this cosmic authority problem is not a rare condition and that it is responsible for much of the scientism and reductionism of our time. One of the tendencies it supports is the ludicrous overuse of evolutionary biology to explain everything about human life, including everything about the human mind."

I've written similar things before, but not with so much eloquence and detail.
This moral challenge is, I suggest, the aspect of the Judeo-Christian tradition that is hated by the modern intellectual, and that the challenge follows from the unique metaphysical vision of the West is the reason for his hostility toward the latter. Disputes over Darwinism are tangential, and even a creationist who was sufficiently "pro-choice" would, I daresay, be welcomed as part of the great multicultural smorgasbord. The real target is the idea of a metaphysically implacable natural order to which one must submit, with all that that implies about human nature and moral law. Its rejection is the deep source of the perversity that so dominates modern intellectual life.

So strong is the modern intellectual's hatred for the traditional morality of the West and the metaphysics that justifies it that he goes as far as to treat the Leftism that is defined by opposition to them as a dogma, an unchallengeable posit that must be propagated, and its opponents crushed, at all costs and in the face of all evidence against it. He treats it, that is to say, in exactly the way he accuses the Christian fundamentalist of treating his own religion.

I could just quote it all... go read the whole thing.



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