Analyser.h

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#ifndef ANALYSER_H
#define ANALYSER_H

#ifndef ARBDBT_H
#include <arbdbt.h>
#endif
#ifndef ALIGNEDSEQUENCELOADER_H
#include "AlignedSequenceLoader.h"
#endif
#ifndef CMA_H
#include "Cma.h"
#endif

class Analyser FINAL_TYPE : virtual Noncopyable {

    AlignedSequenceLoader *loader;

    Cma *cma;

public:
    Cma* getCma();

    GB_ERROR saveSAI(GBDATA *gb_main, vector<size_t> clusters, double threshold);
    static const char *getSAIname() { return "cma_clusters"; }

    vector<char> normalizeClusters(vector<size_t> clusters);

    AlignedSequenceLoader* getLoader();

    GB_ERROR get_error() const { return loader->get_error(); }
    bool has_error() const { return get_error(); }

    Analyser(class GBDATA *gb_main);

    virtual ~Analyser();

};

#else
#error Analyser.h included twice
#endif // ANALYSER_H