docs/html/c_main_window_8h_source.html

#ifndef _MAINWINDOW_H

#define _MAINWINDOW_H


#include <QMainWindow>

#include <QDesktopServices>

#include <QUrl>

#include <QFileInfo>

#include <QFile>

#include <QTableView>

#include <QStandardItemModel>

#include <QStandardItem>

#include <QItemDelegate>

#include <QComboBox>

#include "core/utilities.h"

#include "core/cTheoreticalSpectrum.h"

#include "gui/cAboutWidget.h"

#include "gui/cGraphWidget.h"

#include "gui/cParametersWidget.h"

#include "gui/cSpectrumDetailWidget.h"

#include "gui/cBricksDatabaseWidget.h"

#include "gui/cSequenceDatabaseWidget.h"

#include "gui/cModificationsWidget.h"

#include "gui/cDrawPeptideWidget.h"

#include "gui/cSummaryPeaksTableWidget.h"

#include "gui/cMainThread.h"

#include "gui/cHTMLExportDialog.h"

#include "gui/cImageWindow.h"

#include "gui/cChromatogramWindow.h"

#include "gui/cMainWindowProxyModel.h"

#include "gui/cPreferencesDialog.h"

#include "gui/cPatternSimulatorWidget.h"

#include "gui/cFormulaPredictor.h"

#include "gui/cMultipleDatasetsTableWidget.h"


// forward declaration

class QTextEdit;

class QSplitter;

class QTableWidget;


class cMainWindow : public QMainWindow

{

    Q_OBJECT


public:


    cMainWindow();


    ~cMainWindow();


protected:


    void keyPressEvent(QKeyEvent *event);


private:


    QMenuBar* menuBar;


    QMenu* menuFile;

    QMenu* menuSearch;

    QMenu* menuTools;

    QMenu* menuBookmarks;

    QMenu* menuView;

    QMenu* menuHelp;


    QToolBar* toolbarFile;

    QToolBar* toolbarSearch;

    QToolBar* toolbarTools;

    QToolBar* toolbarBookmarks;

    QToolBar* toolbarView;

    QToolBar* toolbarHelp;

    QToolBar* toolbarInputFilter;

    QToolBar* toolbarRowsFilter;


    QAction* actionOpenResults;

    QAction* actionSaveResults;

    QAction* actionExportToCsv;

    QAction* actionExportToHTML;

    QAction* actionPreferences;

    QAction* actionQuit;

    QAction* actionRun;

    QAction* actionStop;

    QAction* actionProperties;

    QAction* actionBricksDatabase;

    QAction* actionSequenceDatabase;

    QAction* actionModifications;

    QAction *actionDrawPeptide;

    QAction *actionBookMark1;

    QAction *actionBookMark2;

    QAction *actionBookMark3;

    QAction *actionBookMark4;

    QAction *actionBookMark5;

    QAction *actionBookMark6;

    QAction *actionBookMark7;

    QAction *actionBookMark8;

    QAction *actionBookMark9;

    QAction *actionBookMark10;

    QAction* actionShowIsomers;

    QAction* actionGraph;

    QAction* actionSummaryTableOfMatchedPeaks;

    QAction* actionMultipleDatasets;

    QAction* actionChromatogramWindow;

    QAction* actionImageWindow;

    QAction* actionPatternSimulatorWindow;

    QAction* actionFormulaPredictor;

    QAction* actionLog;

    QAction* actionHTMLDocumentation;

    QAction* actionPDFManual;

    QAction* actionAbout;


    QWidget* inputfilterwidget;

    QHBoxLayout* inputfilterhbox;

    QComboBox* inputfiltercombobox;

    QPushButton* inputfilterbutton;


    QWidget* rowsfilterwidget;

    QHBoxLayout* rowsfilterhbox;

    QComboBox* rowsfilteroperator;

    QComboBox* rowsfiltercombobox1;

    QComboBox* rowsfiltercomparatorcombobox1;

    QLineEdit* rowsfilterline1;

    QComboBox* rowsfiltercombobox2;

    QComboBox* rowsfiltercomparatorcombobox2;

    QLineEdit* rowsfilterline2;

    QCheckBox* rowsfiltercasesensitive;

    QCheckBox* rowsfilterwholeword;

    QPushButton* rowsfilterbutton;

    QPushButton* rowsfilterclearbutton;


    QTableView* results;

    QStandardItemModel* resultsmodel;

    cMainWindowProxyModel* resultsproxymodel;


    cTheoreticalSpectrumList listoftheoreticalspectra;

    cPeakListSeries eicchromatograms;

    vector<cSpectrumDetailWidget> spectradetails;

    vector<cSpectrumDetailWidget> avgspectra;


    cGlobalPreferences globalpreferences;

    cParameters parameters;


    cPeakListSeries rawdata;

    vector<cImzMLItem> imzmlprofilemetadata;

    bool profilemz64precision;

    bool profileintensity64precision;


    QTextEdit* logWindow;

    QSplitter* splitter;


    cAboutWidget* about;

    cGraphWidget* graph;

    cBricksDatabaseWidget* bricksdatabasewidget;

    cSequenceDatabaseWidget* sequencedatabasewidget;

    cModificationsWidget* modificationswidget;

    cDrawPeptideWidget* drawpeptidewidget;

    cSummaryPeaksTableWidget* summarytableofmatchedpeaks;

    cImageWindow* imagewindow;

    cChromatogramWindow* chromatogramwindow;

    cParametersWidget* parameterswidget;

    cHTMLExportDialog* htmlexportdialog;

    cPreferencesDialog* preferencesdialog;

    cMultipleDatasetsTableWidget* multipledatasetswidget;

    cPatternSimulatorWidget* patternsimulatorwidget;

    cFormulaPredictor* formulapredictor;


    int resultsbasecolumncount;

    int resultsspecificcolumncount;

    int searchspecificcolumncount;


    QString lastdirexporttocsv;

    QString lastdirexporttohtml;


    QString lastdirsaveresults;

    QString lastdiropenresults;


    bool summarytableisprepared;

    bool multipledatasetsisprepared;


    int lastactivedetail;


    QRect othernormalgeometry;

    bool otherismaximized;

    bool otherprofilespectrum;

    bool otherabsoluteintensity;

    bool othermatchedpeaks;

    bool otherunmatchedpeaks;

    bool otherscrambledpeaks;

    bool otherlabelspeaks;

    bool othermzselection;


    int activefileid;


    int avgspectrumused;

    bool avgspectrumabsoluteintensityenabled;

    QRect avgspectrumgeometry;

    bool avgspectrummaximized;


    bool quitapp;


    void closeEvent(QCloseEvent *event);


    void preparePeptideSequence(int row, string& peptidesequence, bool reportisomers);


    void reportSpectrum(int row, cTheoreticalSpectrum& theoreticalspectrum, bool reportisomers);


    void deleteResults();


    void applyGlobalPreferences();


    void openDetail(int rowid);


    void calculateAvgSpectrum(int minscan, int maxscan);


private slots:


    void showHideLog();


    void showAbout();


    void showBricksDatabase();


    void showSequenceDatabase();


    void showModifications();


    void showDrawPeptideWidget();


    void setAndShowDrawPeptideWidget(int peptidetypeindex, QString sequence);


    bool prepareSummaryTableOfMatchedPeaks();


    void showSummaryTableOfMatchedPeaks();


    void showImageWindow();


    void showChromatogramWindow();


    void showGraph();


    void showProperties();


    void showMultipleDatasetsOverview();


    void showPatternSimulatorWindow();


    void showFormulaPredictor();


    void run();


    void stop();


    void updateLog(QString qstr);


    void enableRunButtonAndSettings(bool enable);


    void enableStopButton(bool enable);


    void enableButtonsHandlingResults(bool enable);


    void sendParameters(cParameters parameters);


    void reportSpectra();


    void showIsomersStateChanged();


    void rowDoubleClicked(const QModelIndex& item);


    void setGraph(string s);


    void exportToCsv();


    void exportToHTML();


    void showPreferences();


    void showHTMLDocumentation();


    void showPDFManual();


    void saveResultsFile();


    void openResultsFile();


    void setSequence(int peptidetypeindex, QString sequence);


    void setTag(int peptidetypeindex, QString tag);


    void insertSequence(int peptidetypeindex, QString tag);


    void quitApplication();


    void filterResults();


    void resetFilter();


    void lastActiveDetailSlot(int rowid);


    void gotoBookMark1();


    void gotoBookMark2();


    void gotoBookMark3();


    void gotoBookMark4();


    void gotoBookMark5();


    void gotoBookMark6();


    void gotoBookMark7();


    void gotoBookMark8();


    void gotoBookMark9();


    void gotoBookMark10();


    void summaryPeaksTableCancelled();


    void multipleDatasetsTableCancelled();


    void summaryPeaksTableRowDoubleClicked(int rowid, double experimentalmz);


    void multipleDatasetsTableRowClicked(int datasetid, int spectrumid, int peakid, int datatypeview, int peakshape, string name, string iontype, string mzstr);


    void updateSummaryPeaksTableFilterSlot(int xmin, int xmax, int ymin, int ymax);


    void chromatogramDoubleClicked(int scanid);


    void imageWindowDoubleClicked(int spectrumid);


    void inputFilterButtonReleased();


    void filterSummaryTableIfPrepared();


    void showAvgSpectrum(int minscan, int maxscan);


    void avgSpectrumAbsoluteIntensityStateChanged(bool state);


    //void showContextMenu(const QPoint &pt);


signals:


    void stopComputation();


};


Q_DECLARE_METATYPE(string);


#endif

cAboutWidget.h
The implementation of the dialog 'Help->About'.

cBricksDatabaseWidget.h
An editor of building blocks database.

cChromatogramWindow.h
Chromatogram window.

cDrawPeptideWidget.h
Draw a peptide from a sequence of building blocks.

cFormulaPredictor.h
Predicts the molecular formula from the exact mass.

cGraphWidget.h
The implementation of the dialog 'View->Graph'.

cHTMLExportDialog.h
The implementation of HTML export dialog.

cImageWindow.h
Image window.

cMainThread.h
The thread launched by the command 'Search->Run'.

Q_DECLARE_METATYPE
Q_DECLARE_METATYPE(string)
Register string by Qt.

cMainWindowProxyModel.h
A table proxy model.

cModificationsWidget.h
An editor of N-/C-terminal modifications database.

cMultipleDatasetsTableWidget.h
Aggregated results from multiple datasets.

cParametersWidget.h
The widget for editing parameters of the application opened using the command 'Search->Settings'.

cPatternSimulatorWidget.h
The implementation of an isotopic pattern simulator (window).

cPreferencesDialog.h
The implementation of preferences dialog.

cSequenceDatabaseWidget.h
An editor of sequences database.

cSpectrumDetailWidget.h
The widget for visualisation of a detail of a spectrum (opened after doubleclick on a row when result...

cSummaryPeaksTableWidget.h
Summary table of matched peaks.

cTheoreticalSpectrum.h
The representation of a theoretical mass spectrum.

cAboutWidget
The widget representing the dialog 'About'.
Definition: cAboutWidget.h:24

cBricksDatabaseWidget
An editor of building blocks database.
Definition: cBricksDatabaseWidget.h:52

cChromatogramWindow
Chromatogram window.
Definition: cChromatogramWindow.h:31

cDrawPeptideWidget
Draw a peptide from a sequence of building blocks.
Definition: cDrawPeptideWidget.h:44

cFormulaPredictor
Predicts the molecular formula from the exact mass.
Definition: cFormulaPredictor.h:56

cGlobalPreferences
The class storing global preferences.
Definition: cGlobalPreferences.h:104

cGraphWidget
The widget representing the dialog 'View->Graph'.
Definition: cGraphWidget.h:31

cHTMLExportDialog
The implementation of HTML export dialog.
Definition: cHTMLExportDialog.h:23

cImageWindow
Image window.
Definition: cImageWindow.h:240

cMainWindow
The class representing the main window of the application.
Definition: cMainWindow.h:52

cMainWindow::keyPressEvent
void keyPressEvent(QKeyEvent *event)
Handle a key press event.
Definition: cMainWindow.cpp:624

cMainWindow::cMainWindow
cMainWindow()
The constructor.
Definition: cMainWindow.cpp:22

cMainWindow::~cMainWindow
~cMainWindow()
The destructor.
Definition: cMainWindow.cpp:533

cMainWindow::stopComputation
void stopComputation()
The option 'Search->Stop' has been selected.

cMainWindowProxyModel
A table proxy model.
Definition: cMainWindowProxyModel.h:21

cModificationsWidget
An editor of N-/C-terminal modifications database.
Definition: cModificationsWidget.h:43

cMultipleDatasetsTableWidget
Aggregated results from multiple datasets.
Definition: cMultipleDatasetsTableWidget.h:79

cParameters
The class storing parameters of the application.
Definition: cParameters.h:82

cParametersWidget
The class representing a widget for editing parameters of the application.
Definition: cParametersWidget.h:54

cPatternSimulatorWidget
The implementation of an isotopic pattern simulator (window).
Definition: cPatternSimulatorWidget.h:52

cPeakListSeries
The class representing a series of peaklists.
Definition: cPeakListSeries.h:21

cPreferencesDialog
Preferences dialog.
Definition: cPreferencesDialog.h:31

cSequenceDatabaseWidget
An editor of sequences database.
Definition: cSequenceDatabaseWidget.h:44

cSummaryPeaksTableWidget
Summary table of matched peaks.
Definition: cSummaryPeaksTableWidget.h:251

cTheoreticalSpectrum
The class representing a theoretical mass spectrum.
Definition: cTheoreticalSpectrum.h:106

cTheoreticalSpectrumList
The class representing lists of theoretical spectra.
Definition: cTheoreticalSpectrumList.h:25

utilities.h
Auxiliary funtions and structures.