To upgrade pypilot from github on openplotter (and all other systems) from a terminal:

cd
git clone https://github.com/pypilot/pypilot
git clone https://github.com/pypilot/pypilot_data
cp -rv pypilot_data/* pypilot
cd pypilot
python setup.py build
sudo python setup.py install

If upgrading pypilot over ssh, then change the git clone lines to:

git clone git://github.com/pypilot/pypilot
git clone git://github.com/pypilot/pypilot_data