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For most/all of your comments you have not posted the command you and the output. For example: libopenraw-0.1.3-1.fc28.x8664 Decode camera RAW files libspiro-20150131-7.fc28.x8664 Library to simplify the drawing of beautiful curves libwmf- Windows MetaFile Library pygobject2-2.28.7-2.fc28.x8664 Python 2 bindings for GObject pygtk2-2.24.0-21.fc28.x8664 Python bindings for GTK+ python2-cairo-1.16.3-1.fc28.x8664 Python 2 bindings for the cairo library python2-xpyb-1.3.1-11.fc28.x8664 Python bindings to XCB zlib-1.2.11-8.fc28.x8664 The compression and decompression library.... I cant, see what you ran, so its difficult to see what is happening.

What happens when you try to update your system. A simple dnf update...

rpm -Va --nofiles --nodigest should show if you have some inconsistencies