Two stage modeling #113

Organized imports in SimulatorWindow.java

Merge branch 'dynamicResourceCreation' into two-stage-modeling ...

# Conflicts:
#	AlgebraicDataflowArchitectureModel/src/application/simulator/SimulatorWindow.java

Just sorted methods in Editor.java

Cleaned up some codes in OpenAction.java

still buggy

Fixed the bug that constructed graph is collapsed after selecting PushPullSelectionStage again

Just cleaned up some codes.

Fixed the bug that mxGraph is not showing after open a model file.

Remove layer logics

Cleaned up codes in Editor.java

Restored whole layer logics

Started restoring layer logics

Finished migration but still buggy

Removed Layer logic in Stage.java

Make the window center on screen on start up

Organized imports, fixed typo and removed unnecessary comment in NewResourceAction.java

Deleted DataTransferModelingCellEditor.java

Cleaned up some codes in NavigationWindow.java

Now navigation window is working.

Added menu item to show navigation window.

Fixed that forgot to register navigation window to stage change listener

Added some fields and methods related to stage system.

Cleaned up some codes again

Cleaned up some codes

Added navigation window skeleton

Reverted all changes and added logic skeleton