You are right, this was a hacky workaround.
I couldn't get rosrun to find PlotJuggler without modifying the OUTPUT_DIRECTORY variables :
https://github.com/mikaelarguedas/PlotJuggler/commit/43f6781fc829ef5383e1e050980d964bbafbd139
I must have messed up someting in my config because now it's working just fine with the current version on master. So please discard my previous comment. Sorry for the noise.
Thanks for the explanation!
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