SpectraIDViewTab.h

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// --------------------------------------------------------------------------
//                   OpenMS -- Open-Source Mass Spectrometry
// --------------------------------------------------------------------------
// Copyright The OpenMS Team -- Eberhard Karls University Tuebingen,
// ETH Zurich, and Freie Universitaet Berlin 2002-2022.
//
// This software is released under a three-clause BSD license:
//  * Redistributions of source code must retain the above copyright
//    notice, this list of conditions and the following disclaimer.
//  * Redistributions in binary form must reproduce the above copyright
//    notice, this list of conditions and the following disclaimer in the
//    documentation and/or other materials provided with the distribution.
//  * Neither the name of any author or any participating institution
//    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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// THIS SOFTWARE IS PROVIDED BY THE COPYRIGHT HOLDERS AND CONTRIBUTORS "AS IS"
// AND ANY EXPRESS OR IMPLIED WARRANTIES, INCLUDING, BUT NOT LIMITED TO, THE
// IMPLIED WARRANTIES OF MERCHANTABILITY AND FITNESS FOR A PARTICULAR PURPOSE
// ARE DISCLAIMED. IN NO EVENT SHALL ANY OF THE AUTHORS OR THE CONTRIBUTING
// INSTITUTIONS BE LIABLE FOR ANY DIRECT, INDIRECT, INCIDENTAL, SPECIAL,
// EXEMPLARY, OR CONSEQUENTIAL DAMAGES (INCLUDING, BUT NOT LIMITED TO,
// PROCUREMENT OF SUBSTITUTE GOODS OR SERVICES; LOSS OF USE, DATA, OR PROFITS;
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// --------------------------------------------------------------------------
// $Maintainer: Timo Sachsenberg $
// $Authors: Timo Sachsenberg $
// --------------------------------------------------------------------------

#pragma once

#include <OpenMS/VISUAL/DataSelectionTabs.h>
#include <OpenMS/VISUAL/LayerDataBase.h>
#include <OpenMS/VISUAL/TableView.h>
#include <OpenMS/DATASTRUCTURES/DefaultParamHandler.h>

#include <QtWidgets>
#include <QLineEdit>
#include <QComboBox>
#include <QTableWidget>
#include <QCheckBox>
#include <QWidget>

#include <unordered_map>
#include <vector>

namespace OpenMS
{
  class OPENMS_GUI_DLLAPI SpectraIDViewTab :
    public QWidget,
    public DefaultParamHandler,
    public DataTabBase
  {
    Q_OBJECT
  public:
    SpectraIDViewTab(const Param& preferences, QWidget* parent = nullptr);
    ~SpectraIDViewTab() override = default;

    // docu in base class
    bool hasData(const LayerDataBase* layer) override;

    void updateEntries(LayerDataBase* model) override;
    LayerDataBase* getLayer();

    void clear() override;

    bool ignore_update = false; 
  
  protected slots:
    void updateEntries_();
    void updateProteinEntries_(int spec_cell_row_idx);
    void switchOrientation_();
  signals:
    void spectrumSelected(int spectrum_index, int pep_id_index, int pep_hit_index);
    void spectrumDeselected(int spectrum_index);
    void requestVisibleArea1D(double lower_mz, double upper_mz);

  private:
    void fillRow_(const MSSpectrum& spectrum, const int spec_index, const QColor& background_color);
    static QString extractNumFromAccession_(const QString& listItem);
    void openUniProtSiteWithAccession_(const QString& accession);

    class SelfResizingTableView_ : TableView
    {
      void resizeEvent(QResizeEvent * event) override;
    };

    LayerDataBase* layer_ = nullptr;
    QCheckBox* hide_no_identification_ = nullptr;
    QCheckBox* create_rows_for_commmon_metavalue_ = nullptr;
    TableView* table_widget_ = nullptr;
    TableView* protein_table_widget_ = nullptr;
    QTableWidget* fragment_window_ = nullptr;
    QSplitter* tables_splitter_ = nullptr;
    bool is_first_time_loading_ = true;
    std::unordered_map<String, std::vector<const PeptideIdentification*>> protein_to_peptide_id_map;

  private slots:
    void saveIDs_();
    void updatedSingleCell_(QTableWidgetItem* item);
    void currentCellChanged_(int row, int column, int old_row, int old_column);

    void createProteinToPeptideIDMap_();

    void currentSpectraSelectionChanged_();

    void updatedSingleProteinCell_(QTableWidgetItem* /*item*/);
    void proteinCellClicked_(int row, int column);
  };
}