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CI: handle patches while creating a flatpak

Ghost User requested to merge (removed):wip/flatpak into master

Just in case you want/need to apply patches to upstream while (flat)packaging, make the CI job able to handle it automatically.

Just change the flatpak manifest, and:

  • create the .patch files
  • put the patches in the proper place (in build-aux/flatpak/)
  • everything else should work

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