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/usr/include/Bpp/Raa.all is in libbpp-raa-dev 2.0.3-1.

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#include "Raa/RaaSpeciesTree.h"
#include "Raa/parser.h"
#include "Raa/RaaList.h"
#include "Raa/RaaSeqAttributes.h"
#include "Raa/RAA_acnuc.h"
#include "Raa/RAA.h"