Ah, I did miss that in his post.

Okay, then, the entry I linked above contains the following text:

If you get a long "Checking Disk Integrity" twice in a row when synchronizing, or it happens even after disabling the periodic checking in Hijack, then you might have a problem with the disks or the filesystem. First rule out disk hardware trouble as a possible culprit, then check the disks by hand.
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Tony Fabris