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My religious ideas are nowhere near Judeo-Christian (and, like it or not, this label includes Muslims and Sikhs, at least for me), but that doesn't mean the bible is wrong or false. I do believe there are truths in most holy texts, after all they don't get to be holy if too many people disagree (it seems to me, but I'll admit some memetic research might debunk this hypothesis). The question really is: what kind of truths do they contain?
I believe man's natural mode of discourse is metaphoric. It follows from this that most ancient texts are written in this fashion. This means that when they are taken literally they are being misunderstood. I don't think the original writers realised this. I don't think they thought all that much about their mode of discourse, but formal logic and its close cousin (scientific discourse) are very modern creations. (Some of this ideas are taken from
George Lakoff, but their application to religion is very much my own. If he has any thoughts on the matter, I haven't read them.)
What I'm saying doesn't mean that historical, common sense, or other types of facts can't be found in these text, only that they are beside the point. You don't need these assertions to be true for the metaphysical claims to pan out, and furthermore, to fixate on these "facts" detracts from the proper analysis of metaphorical arguments.
(I don't mean any disrespect. Your trip may be very different from mine. You're welcome to fixate on whatever you like, but I think its counter-productive.)
Now, as to Science. I am a scientist and a mathematician, and what many of my colleagues don't realise, is that this disciplines are quasi-religious. Sort of like Zen Buddhism, they don't talk about god, but many adherents act as if they did. Scientists should realise (some of them do, but in my humble experience, most of them don't) that they pick such intense fights with fundamentalist because they themselves believe in a sort of revealed truth (revealed by man, but revealed nonetheless). Scientific papers are very much the opposite of sacred texts, and people do both religion and science a disservice when they discuss them as if they shared a mode of discourse. I'm not saying that scientists should stay out of religion, but they should argue religion in the native mode of discourse, which is metaphorical.
So, to sum up, religion shouldn't be argued literally, and science shouldn't be argued metaphorically. Though, of course, it can be quite fun to mix and match, but it is ultimately flawed, it leads nowhere.