/* BEGIN software license
 *
 * msXpertSuite - mass spectrometry software suite
 * -----------------------------------------------
 * Copyright(C) 2009,...,2019 Filippo Rusconi
 *
 * http://www.msxpertsuite.org
 *
 * This file is part of the msXpertSuite project.
 *
 * The msXpertSuite project is the successor of the massXpert project. This
 * project now includes various independent modules:
 *
 * - massXpert, model polymer chemistries and simulate mass spectrometric data;
 * - mineXpert, a powerful TIC chromatogram/mass spectrum viewer/miner;
 *
 * 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/>.
 *
 * END software license
 */

#pragma once


/////////////////////// StdLib includes


/////////////////////// Qt includes


/////////////////////// pappsomspp includes


/////////////////////// Local includes
#include "BaseTracePlotWnd.hpp"
#include "../nongui/QualifiedMassSpectrumVectorMassDataIntegratorToMz.hpp"
#include <pappsomspp/core/trace/trace.h>

namespace MsXpS
{
namespace MineXpert
{


class MassSpecTracePlotWnd: public BaseTracePlotWnd
{
  Q_OBJECT

  public:
  // Construction/destruction
  MassSpecTracePlotWnd(QWidget *parent,
                       const QString &title,
                       const QString &description = QString());

  virtual ~MassSpecTracePlotWnd();

  void createMainMenu();

  void keyPressEvent(QKeyEvent *event);
  void keyReleaseEvent(QKeyEvent *event);

  virtual QCPGraph *
  addTracePlot(const pappso::Trace &trace,
               MsRunDataSetCstSPtr ms_run_data_set_csp,
               const ProcessingFlow &processing_flow,
               const QColor &color,
               QCPAbstractPlottable *parent_plottable_p) override;

  void integrateToMz(
    QCPAbstractPlottable *parent_plottable_p,
    std::shared_ptr<std::vector<pappso::QualifiedMassSpectrumCstSPtr>>
      qualified_mass_spectra_sp,
    const ProcessingFlow &processing_flow);

  void integrateToRt(QCPAbstractPlottable *plottable_p,
                     const ProcessingFlow &processing_flow);

  void integrateToMzRt(QCPAbstractPlottable *plottable_p,
                       const ProcessingFlow &processing_flow);

  void integrateToDt(QCPAbstractPlottable *plottable_p,
                     const ProcessingFlow &processing_flow);

  void integrateToDtMz(QCPAbstractPlottable *plottable_p,
                       const ProcessingFlow &processing_flow);

  void integrateToDtRt(QCPAbstractPlottable *plottable_p,
                       const ProcessingFlow &processing_flow);

  void setMinimalChargeFractionalPartPinnedDownWidgets(double value);
  void setChargeStateEnvelopePeakSpanPinnedDownWidgets(std::size_t value);
  void lowMassDeconvolvePinnedDownWidgets();

  // We can receive a mass spectrum either in the form of a trace or in the form
  // of a CBOR encoded trace with other info.
  void handleReceivedData(const QByteArray &byte_array);
  void handleReceivedData(const QString &title,
                          const QString &color_name,
                          pappso::TraceCstSPtr trace_csp);

  public slots:

  void finishedIntegratingToMz(
    QualifiedMassSpectrumVectorMassDataIntegrator *mass_data_integrator_p,
    QCPAbstractPlottable *parent_plottable_p);


  signals:

  void integrateToMzSignal(
    QualifiedMassSpectrumVectorMassDataIntegratorToMz *mass_data_integrator_p);

  protected:
  void extendMainMenu();

  double m_minimalFractionalPart = 0.99;
  std::size_t m_massPeakSpan     = 1;

  QAction *mp_setMinimalChargeFractionalPartAction = nullptr;
  QAction *mp_setMassPeakSpanAction                = nullptr;
  QMenu *mp_deconvolutionsMenu                     = nullptr;
};


} // namespace MineXpert

} // namespace MsXpS
