When you install CMTK from source there is an option during the Cmake configuration to build optional tools (one of which is munger). It is easiest to do this via the ccmake gui.

Alternatively the binary installs should already have munger.

There is a GitHub issue to enable use of system CMTK.

https://github.com/jefferis/fiji-cmtk-gu...

You can subscribe to this / +1 it to remind me to take a look.

Best,

Greg.