Hello.
I've fixed the error (there was a problem in Windows target).
However we have some problems with updating Eclipse plugin. We'll try to fix it later.
So, if you want to run it now, please do it from the command line:
svn co
https://clonedigger.svn.sourceforge.net/svnroot/clonedigger/trunk clonedigger
cd clonedigger/clonedigger
python ./clonedigger.py --lang=java <path to the source tree>
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Best regards,
Peter Bulychev.