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Something else must be going on. I've made sure to have EXACTLY the same configuration. And yet it doesn't make a difference. I've got load of Java related Checkstyle warnings. But none for Scala files.
This is the instruction I run:
clean package jxr:jxr pmd:cpd pmd:pmd checkstyle:checkstyle scalastyle:check findbugs:findbugs -DskipTests=true -Djava.awt.headless=false
Maybe because I'm also running CheckStyle ? Or because it is a multi-module project ? The out files would be scattered in the different module directories.