Pycharm Python Console doesn't read interpreter variables

Using Windows 7, Pycharm Community version 2016.2 with IronPython 2.7.1

Need interpreter to load as ipy.exe -X:Frames (for scipy to import).

I have set the interpreter options and environment variables (X:Frames) through File>Settings>..>..>Python Console

And in the Project configuration.

When running the Python Console, the default interpreter is loaded without the variables. /Path/ipy.exe

For example, importing a module through the run and debug modes work but through the Python Console an error is thrown that the -X:Frames is not set.