As you may know, using the Transform menu dialog in PictureSnapApp one can manually rotate images 90 CW, 90 CCW and 180 degrees.
Previously the code only rotated the screen calibration points, but in the latest version, 1.6.1, the point and FOV annotations and sub image fields also get rotated automatically.
Here is an image with a point annotation, FOV annotation and a sub image field using the image locator feature:
Now rotating it 90 degrees CW, we see this:
Anyway, it seems to be working so if you are moving a sample from one instrument to another and need to orientate the sample differently in the new instrument, this will work well for you.
You still need to re-find your calibration points for the new instrument stage, but then the rest is automatic.