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Setup missing installed packages

I was just about to update my Cygwin installation when setup would list only a fraction of my installed packages. For instance git is missing but I have it installed. setup_version is 2.893 and running it with -v it tells there are 69 packages installed. But

$ wc /etc/setup/installed.db
  835  2504 36779 /etc/setup/installed.db

and I also see all these tar files in the installation directory. This is a 32bit installation on Win10 64bit.

What is going on, how can I debug this?

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