prv_plugins_upgrade: fix compilation of upgraded plugins #2315
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this fixes the issue where using 'rebar3 plugins upgrade P'
would result in a plugin's .app file having an empty
modules list. The code this replaces hadn't been touched
since rebar3 3.0.0-beta.3 and a lot of improvements have
gone into dep handling and the compiler since then. This
change should take advantage of those changes.