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When parsing query the positions in the diagram should be preserved. It is even changed when the "Run Query" is selected. It looks like the boxes just shift to right with every parse.
related to this: It should try to position the boxes so that I do not need scroll bars. It is strange when I have one small box that is much smaller then the diagram area but it is hiddnen from view and I have to scroll to see it. (When I rearrange it it will move out of sight again, see previous point).
*** Issue 109579 has been marked as a duplicate of this issue. ***
Move visualsqleditor subcomponents below visualweb