copying annotations from other species

Due to some limitation of CellDesigner, some annotations are missing in xml file. Therefore, there are two other places where we look for annotations:

• notes,
• other elements with the same name and type.

Currently this is done before project is being annotated.Therefore it would also happen for other formats (SBGN, SBML, GPML).

I would like to apply it only to CD projects and separate it from annotating (we are planing on changing annotations to be run after the project is uploaded). I have two suggestions:

• change this functionality to an annotator
• do it always when CellDesigner file is uploaded after parsing the file

@marek.ostaszewski what do you think?