I'm not aware of anything like this, but I think it would be much more valuable than continuing the proliferation of GUI tools like this one. A GUI forces me to use your tool. A file format allows me to create my own tools and integrate it with any other part of my workflow. This would be especially nice for larger microcontrollers and application processors.

There's pcf (physical constraints file) for FPGAs (e.g. https://github.com/cliffordwolf/picorv32/blob/master/picosoc...).

There's CMSIS-SVD to describe register maps for peripherals, which is useful, but not exactly what you're describing.