2.4 to 2.5 warning messages

After updating to 2.5 I get this message whenever i open any of the sourcefiles made with the older version

Can you please explain the changes requested to be applied and what’s the cost of ignoring it?

The message explains it already: the indicated components will be moved when auto-aligned, unless you select and keep them. Auto-alignment has become more universal than before, and more glyphs are aligned by default than in previous versions. That is why the message is necessary.

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