Untrack *.pyc binary files from git

git update-index should do what you want

This will tell git you want to start ignoring the changes to the file

# git update-index --assume-unchanged path/to/file

When you want to start keeping track again

# git update-index --no-assume-unchanged path/to/file

Github Documentation: update-index

or

# git rm -r --cached path/to/file

Reference:

http://stackoverflow.com/questions/6964297/untrack-files-from-git