[BioC] Error loading reposTools

[Warnes, Gregory R]

I've discovered that if you have old package data has been cached,
attempting to load the newest reposTools will fail with this message:

Synching your local package management information ...
Error in if (e1[i] != e2[i]) return(TRUE) : 
        missing value where TRUE/FALSE needed



In addition, the devel affy package depends on affydata, which depends on
affy, resulting in a situation where install.packages2() can't install
either one or anthing depending on them.   

-Greg


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