Commit your changes.
project_dir$ git add -A
project_dir$ git commit -am "import changes made"
Now you need to add an upstream remote and pull any changes that have been made while you were working.
project_dir$ git remote add upstream <<ORIGINAL REPO>>
project_dir$ git pull upstream master
Everything is up to date. Now we need to push our changes back to our forked repo.
project_dir$ git push origin master
Now you are ready to create the pull request on Github.