#include <OpenMS/APPLICATIONS/TOPPBase.h>
#include <OpenMS/CONCEPT/LogStream.h>
#include <OpenMS/FORMAT/FileHandler.h>
#include <OpenMS/FORMAT/FASTAFile.h>
#include <OpenMS/FORMAT/FileTypes.h>
#include <OpenMS/METADATA/PeptideIdentification.h>
#include <OpenMS/METADATA/PeptideIdentificationList.h>
#include <OpenMS/METADATA/ProteinIdentification.h>