BasePairProbabilityWriter.h

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#ifndef INTARNA_BASEPAIRPROBABILITYWRITER_H_
#define INTARNA_BASEPAIRPROBABILITYWRITER_H_
#include "IntaRNA/BasePairProbabilities.h"
#include "IntaRNA/RnaSequence.h"
#include <ostream>
#include <string>
 
namespace IntaRNA {
class InteractionEnergy;
class Interaction;
class BasePairProbabilityWriter {
public:
    static void write(std::ostream & out,const BasePairProbabilities & result,
            const RnaSequence & target,const RnaSequence & query,const std::string & separator=";");
    static void writeFile(const std::string & filename,const BasePairProbabilities & result,
            const RnaSequence & target,const RnaSequence & query,const std::string & separator=";");
    static void writeSvg(std::ostream & out,const BasePairProbabilities & result,
            const InteractionEnergy & energy,Z_type targetRT,Z_type queryRT,const Interaction * mfe = nullptr);
    static void writeSvgFile(const std::string & filename,const BasePairProbabilities & result,
            const InteractionEnergy & energy,Z_type targetRT,Z_type queryRT,const Interaction * mfe = nullptr);
private:
    static std::string svgBlock(const BasePairProbabilities & result,const InteractionEnergy & energy,
            Z_type targetRT,Z_type queryRT,const Interaction * mfe);
    static void emitFile(const std::string & name,const std::string & data);
    static std::string block(const BasePairProbabilities & result,const RnaSequence & target,
            const RnaSequence & query,const std::string & separator);
    static void emit(std::ostream & out,const std::string & data);
};
}
#endif