OpenMS
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#include <OpenMS/FORMAT/IdXMLFile.h>
#include <OpenMS/APPLICATIONS/SearchEngineBase.h>
#include <OpenMS/CONCEPT/Exception.h>
#include <OpenMS/DATASTRUCTURES/String.h>
#include <OpenMS/FORMAT/DTAFile.h>
#include <OpenMS/FORMAT/MzMLFile.h>
#include <OpenMS/FORMAT/MzXMLFile.h>
#include <OpenMS/FORMAT/PepNovoInfile.h>
#include <OpenMS/FORMAT/PepNovoOutfile.h>
#include <OpenMS/FORMAT/MascotGenericFile.h>
#include <OpenMS/KERNEL/MSExperiment.h>
#include <OpenMS/METADATA/ContactPerson.h>
#include <OpenMS/SYSTEM/File.h>
#include <OpenMS/FORMAT/PTMXMLFile.h>
#include <OpenMS/FORMAT/FileHandler.h>
#include <OpenMS/FORMAT/FileTypes.h>
#include <OpenMS/CHEMISTRY/ModificationsDB.h>
#include <OpenMS/ANALYSIS/ID/IDMapper.h>
#include <QtCore/QFile>
#include <QtCore/QDir>
#include <QtCore/QProcess>
#include <cstdlib>
#include <vector>
#include <algorithm>