Remove the last 0.2 deprecations

Three deprecations in Pkg was forgotten when we removed the deprecations
before releaseing 0.3.0. It seems like this is as good time as any to
remove them for good.

The deprecations was introduced in
af854d72, 51376f63 and 4b92a8cd
Merge pull request #9311 from ivarne/deprecate

Remove the last 0.2 deprecations