Install MSYS2: http://www.msys2.org/
pacman -Syu
You might need to run it again (it tells you to)
pacman -Su
pacman -S mingw-w64-x86_64-gtk3 mingw-w64-x86_64-python3-gobject mingw-w64-x86_64-gettext mingw-w64-x86_64-python3-cairo mingw-w64-x86_64-poppler mingw-w64-x86_64-python3-pip
pip3 install --user PyPDF2
pip3 install --user https://github.com/carlos22/pdfshuffler/zipball/master
~/.local/bin/pdfshuffler