PredictionTrackerSpotProbAll.h

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#ifndef INTARNA_PREDICTIONTRACKERSPOTPROBALL_H_
#define INTARNA_PREDICTIONTRACKERSPOTPROBALL_H_
 
#include "IntaRNA/PredictionTracker.h"
#include "IntaRNA/InteractionEnergy.h"
 
#include <iostream>
 
#include <boost/algorithm/string.hpp>
#include "IntaRNA/Matrix.h"
 
 
namespace IntaRNA {
 
class PredictionTrackerSpotProbAll: public PredictionTracker
{
 
public:
 
    PredictionTrackerSpotProbAll(
                const InteractionEnergy & energy
                , const std::string & streamName
                , const std::string & NA_string = "NA"
                , const std::string & sep = ";"
            );
 
    PredictionTrackerSpotProbAll(
                const InteractionEnergy & energy
                , std::ostream * outStream
                , const std::string & NA_string = "NA"
                , const std::string & sep = ";"
            );
 
    virtual ~PredictionTrackerSpotProbAll();
 
 
    virtual
    void
    updateOptimumCalled( const size_t i1, const size_t j1
                        , const size_t i2, const size_t j2
                        , const E_type energy
                        );
 
 
protected:
 
    const InteractionEnergy & energy;
 
    const bool deleteStreamsOnDestruction;
 
    std::ostream * outStream;
 
    const std::string NA_string;
 
    const std::string sep;
 
    Z_type overallZ;
 
    typedef Matrix<Z_type> Z2dMatrix;
 
    Z2dMatrix pairZ;
 
 
 
    static
    void
    writeData( std::ostream &out
                , const Z2dMatrix & pairZ
                , const Z_type & overallZ
                , const InteractionEnergy & energy
                , const std::string & NA_string
                , const std::string & sep
                );
 
 
};
 
 
} // namespace
 
#endif /* INTARNA_PREDICTIONTRACKERSPOTPROBALL_H_ */