> I don't know how to get a stack trace. Is there a howto for this somewhere?

Your JDK installation contains a program named jvisualvm. jvisualvm 
gives you a list of running programs. Double click the blocking mkgmap 
instance. Then you see different tabs, one of it is "Threads" containing 
a button "Thread Dump". Hit this button and you get a full stack trace 
including some warnings if a deadlock exists.

WanMil
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