[...]
> 
> The problem is that perl and perl-modules really are one package that was
> split apart solely to get the (large) architecture-independent parts into
> an arch: all package.
> 

Wouldn't this problem be solved by moving the contents of perl to, e.g.,
perl-bin, making perl a dummy package, and the following relations:

Package: perl
Depends: perl-bin, perl-modules

Package: perl-bin

Package: perl-modules
Depends: perl-bin (= ${Source-Version})


But this solution seems so simple that I must be missing something.

Best,
Michael

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