- fixed some outstanding issues from the PyQt6 port
- PEP8 fixes
- minor fixes
- updated the saving of Preferences to update the self.options too: the `Apply` action will update the self.options but the `Save` action will save the updated preferences to the file on disk
- fixed crash when trying to do a `select all` and there are app Scripts present
- updated the `drillcncjob` Tcl command to make a script exit in case of an error
- in Excellon Editor made sure that the tool diameter is always updated before adding a new drill (or drill array)
- changing units is not possible while in Editors
- changing units outside the Preferences will make no permanent changes
- deleting all shapes from the shapes collection (OpenGl graphics) will reset also the index in the collection data dict
- replaced some icons in the app
- in Code Editor, when changing text, the Save Code button will change color (text and icon) to red and after save it will revert the color to the default one
- in Code Editor some methods rework
- fixed the issue with factory_defaults being saved every time the app start
- fixed the preferences not being saved to a file when the Save button is pressed in Edit -> Preferences
- fixed and updated the Transform Tools in the Editors
