Update to graphing options, fix one access violation

This is a minor update but added new options to the graphing style, the graph editor is no longer modal so it can be left open, no need to close it to go back to running simulations. Updated antimony support to latest version 3.1.3. Access violation fixed where closing the 3d plot via the main app caused the 3d plot to be freed twice. Source code on repository is now also current, old version source code from last year deprecated.