I investigated this problem closer today and I'm pretty convinced that
the root is the libgl1-mesa-dri package from the repository at
http://www.beerorkid.com/compiz/.
Removing that package fixed the upgrade for me (the package has e.g. the
problem that the version is bigger than the versionnumber of it in
edgy).
I change the priority of this to low because the problem only exists
with unofficial repositories.
** Changed in: update-manager (Ubuntu)
Importance: High => Low
Target: ubuntu-6.10-beta => None
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Can't calculate the upgrade with unofficial mesa/compiz packages
https://launchpad.net/bugs/58424
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