> If I simply would package libpll-2 in the very place where libpll was 
> packaged and I keep *that* name (without the -2) this would be pretty 
> convenient since its not a new Debian package and does not need any new 
> processing. Do you think this is the correct way to go?

Yes, I think this is the way to go.

In fact, in the next major raxml-ng release, both `libpll-2` and `pll-modules` 
will be superseded by the new lib `coraxlib`:

https://codeberg.org/Exelixis-Lab/coraxlib

This should hopefully solve the long-lasting historical name confusion.

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