I am trying to create a .exe from a very simple script that I have written. The script only include glob and pandas. But pyinstaller is including matplotlib,numpy,scipy,qt4,
Not sure if this really counts as a solutions. But by ignoring winpython all together and using a standard installation of python that only had pip installs of pyinstaller and pandas added to it I was easily able generate a functional .exe that was 18MB. I guess it had something to do with winpython.
Pyinstaller may have figured those dependencies from your current ones. If you're sure, use --exclude-module
flag to list all the modules you want to exclude.
http://pythonhosted.org/PyInstaller/#general-options