processing.h

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/* processing.h : Mass spectrum processing functions
 * Copyright (C) 2018  Daniel Haley
 * 
 * This program is free software: you can redistribute it and/or modify
 * it under the terms of the GNU General Public License as published by
 * the Free Software Foundation, either version 3 of the License, or
 * (at your option) any later version.
 * 
 * This program is distributed in the hope that it will be useful,
 * but WITHOUT ANY WARRANTY; without even the implied warranty of
 * MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE.  See the
 * GNU General Public License for more details.
 * 
 * You should have received a copy of the GNU General Public License
 * along with this program.  If not, see <http://www.gnu.org/licenses/>.
 */
#ifndef ATOMPROBE_PROCESSING_H
#define ATOMPROBE_PROCESSING_H
namespace AtomProbe
{
enum
{
    BACK_FIT_MODE_CONST_TOF,
    BACK_FIT_MODE_ENUM_END,
};

struct BACKGROUND_PARAMS
{
    enum
    {
        FIT_FAIL_MIN_REQ_BINS=1,
        FIT_FAIL_AVG_COUNTS,
        FIT_FAIL_INSUFF_DATA,
        FIT_FAIL_DATA_NON_GAUSSIAN,
        FIT_FAIL_END
    };
    //background fitting mode to use
    unsigned int mode;
    //-- start/end window for const tof background fit
    float massStart, massEnd;
    //step size in bins for fitting histogram
    float binWidth;

    //result parameters
    float intensity,stdev; 

};



unsigned int doFitBackground(const std::vector<float> &massData, BACKGROUND_PARAMS &params) ;

std::string getFitErrorMsg(unsigned int errCode); 


void createMassBackground(float massStart, float massEnd, unsigned int nBinsMass,
            float tofBackIntensity, std::vector<float> &histogram);

// for your application
void findPeaks(const std::vector<float> &x0, std::vector<unsigned int>& peakInds, float sel, 
        bool autoSel=true,bool includeEndpoints=true);

#ifdef DEBUG
bool testBackgroundFitMaths();
#endif
}
#endif