IsotopeWavelet.h

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// --------------------------------------------------------------------------
//                   OpenMS -- Open-Source Mass Spectrometry
// --------------------------------------------------------------------------
// Copyright The OpenMS Team -- Eberhard Karls University Tuebingen,
// ETH Zurich, and Freie Universitaet Berlin 2002-2018.
//
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//    may be used to endorse or promote products derived from this software
//    without specific prior written permission.
// For a full list of authors, refer to the file AUTHORS.
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// --------------------------------------------------------------------------
// $Maintainer: Timo Sachsenberg$
// $Authors: $
// --------------------------------------------------------------------------

#pragma once

#include <OpenMS/TRANSFORMATIONS/FEATUREFINDER/IsotopeWaveletConstants.h>
#include <OpenMS/KERNEL/MSSpectrum.h>
#include <OpenMS/CHEMISTRY/ISOTOPEDISTRIBUTION/CoarseIsotopePatternGenerator.h>

namespace OpenMS
{
  class OPENMS_DLLAPI IsotopeWavelet
  {
public:

    static IsotopeWavelet * init(const double max_m, const UInt max_charge);

    static IsotopeWavelet * getInstance()
    {
      return me_;
    }

    static void destroy();


    static double getValueByMass(const double t, const double m, const UInt z, const Int mode = +1)
    {
      return getValueByLambda(getLambdaL(m * z - z * mode * Constants::IW_PROTON_MASS), t * z + 1);
    }

    static double getValueByLambda(const double lambda, const double tz1);

    static double getValueByLambdaExtrapol(const double lambda, const double tz1);

    static double getValueByLambdaExact(const double lambda, const double tz1);


    static UInt getMaxCharge()
    {
      return max_charge_;
    }

    static void setMaxCharge(const UInt max_charge)
    {
      max_charge_ = max_charge;
    }

    static double getTableSteps()
    {
      return table_steps_;
    }

    static double getInvTableSteps()
    {
      return inv_table_steps_;
    }

    static void setTableSteps(const double table_steps)
    {
      inv_table_steps_ = 1. / table_steps;
      table_steps_ = table_steps;
    }

    static double getLambdaL(const double m);


    static const IsotopeDistribution::ContainerType & getAveragine(const double m, UInt * size = nullptr);


    static Size getGammaTableMaxIndex()
    {
      return gamma_table_max_index_;
    }

    static Size getExpTableMaxIndex()
    {
      return exp_table_max_index_;
    }

    static float myPow(float a, float b);

    static UInt getMzPeakCutOffAtMonoPos(const double mass, const UInt z);

    static UInt getNumPeakCutOff(const double mass, const UInt z);

    static UInt getNumPeakCutOff(const double mz);


protected:

    static IsotopeWavelet * me_;

    IsotopeWavelet();

    IsotopeWavelet(const double max_m, const UInt max_charge);


    virtual ~IsotopeWavelet();


    static void preComputeExpensiveFunctions_(const double max_m);


    static void computeIsotopeDistributionSize_(const double max_m);


    static float myPow2_(float i);

    static float myLog2_(float i);

    union fi_
    {
      Int i;
      float f;
    };

    static UInt max_charge_;

    static double table_steps_;
    static double inv_table_steps_;

    static std::vector<double> gamma_table_;
    static std::vector<double> gamma_table_new_;

    static std::vector<double> exp_table_;

    static std::vector<double> sine_table_;

    static CoarseIsotopePatternGenerator solver_;
    static IsotopeDistribution averagine_;

    static Size gamma_table_max_index_;
    static Size exp_table_max_index_;

  };

} //namespace