I found a way to deal with the 'Updating /etc/modprobe.conf' issue on 
discussion about bug #117212 : while genkernel was compiling the kernel, I 
issued a

ln -s <cd's-kernel-version> 
/var/tmp/catalyst/tmp/default/<my-stamp>/lib/modules/<my-kernel-version>

and then modprobe.conf was successfuly updated. Seems like the --assume-kernel 
option of modules-update doesn't work when catalyst needs it.

But the weird fact is: I made another iso a few hours later; of course I forgot 
to do the symlink trick. Updating /etc/modprobe.conf failed but catalyst 
succeeded in manually updating it. Whereas it didn't!
I'm really sorry I cannot reproduce the bug. But now catalyst is working 
perfectly here.

Hey, by the way I hopefuly didn't file any bug for the 'freeze' problem.

Just a lexical question: if my filesystem holds errors but e2fsck repairs them, 
does one still say that it was corrupted? Anyway I suppose there were errors 
left on it because I had to hard-reboot it... So I didn't think it was neither 
the modprobe.conf update, nor a modprobe that caused errors.

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