A build and all its image substitutes disappeared?

A build in one of my projects disappeared after weeks. It began when I used the updated version of Harmony.

All the image substitutes have disappeared on the project but they still exist.

The file directory on the image substitutes is wrong.

Yes there are duplicate filenames. That was, perhaps, a bad idea. And I should have
just created extra project files.

For some reason I am only allowed to put one screenshot in a post. I cannot imagine why because the issue is explained clearly with three, and with one I am relying on people to imagine the other folders.