Gradle and Eclipse plugin on WSL generate configuration with Linux native directories

I’m starting to use the Windows Subsystem for Linux (aka WSL) as seems a really good development environment, switching from Cygwin.
But when I try to generate Eclipse configuration for my projects from a WSL command line I got Linux native directories.
Is this the expected behaviour? I mean, if the Cygwin case is treated as special, should WSL also treated as special, even is an almost trully Linux OS?
I’ve created the repository as an example.
I’ve pushed the two .classpath's created by WSL and Cygwin environments.