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/**
* @author Mark Larkin, Conway Institute, UCD. mark.larkin@ucd.ie
*
* Changes:
*
* 16-01-07,Nigel Brown(EMBL): added drawContents() called by paintEvent().
*
* 20-02-07,Nigel Brown(EMBL): constructor and changeBoxSizeAndFontSize()
* parameters reordered.
*
* 12-4-07, Mark Larkin, Removed destructor. No need to delete QObjects.
*
* 25-04-07,Nigel Brown(EMBL): Removed keyPressEvent(), keyReleaseEvent(),
* shiftPressed. Keyboard events handled by KeyController singleton. Fixed
* problem in shift-selection of columns which did not extend selection
* backwards by replacing with new procedure selectColumns().
*
* 04-05-07,Nigel Brown(EMBL): moved getFirstSelectedCol() and
* getSecondSelectedCol() into AlignmentWidget.cpp.
*
* 09-05-07,Nigel Brown(EMBL): Added 'mousePressed', mouseMoveEvent()
* and mouseReleaseEvent(); Changed 'rowSelected' to 'firstRow' and
* added 'secondRow' store row range information.
*
* 09-05-07,Nigel Brown(EMBL): Added 'scrollArea' and registerScrollArea()
* allowing the instance to know its own containing QScrollArea (This is not
* the same as parentWidget()).
****************************************************************************/
#ifndef ALIGNMENTWIDGET_H
#define ALIGNMENTWIDGET_H
#include <QFont>
#include <QPoint>
#include <QSize>
#include <QString>
#include <QWidget>
#include <QVector>
#include <vector>
#include <string>
#include "clustalW/alignment/Alignment.h"
#include "ColorParameters.h"
#include <QKeyEvent>
#include <QPixmap>
class QMouseEvent;
class QPaintEvent;
class QMessageBox;
class QKeyEvent;
class QScrollArea; //- nige
/**
* The AlignmentWidget is used to display a multiple alignment. It takes sequences
* in the form of QString objects. The conservation information is displayed,
* if it is available.
*/
class AlignmentWidget : public QWidget
{
Q_OBJECT
public:
AlignmentWidget(int boxWidth, int boxSize, QFont* font, QWidget *parent = 0);
QSize sizeHint() const;
void changeBoxSizeAndFontSize(int _boxWidth, int _boxSize, QFont* fontPtr);
void updateSizeHint();
void setAlignment(const clustalw::SeqArray* align,
clustalw::Alignment* _alignObjPtr);
void updateDisplay(int firstSeq, int lastSeq, clustalw::Array2D<int>* exRes, int nhead,
QString secStruct);
void updateLowScoreSeg();
void showExceptionalResidues(bool show);
bool getShowExceptionalResidues(){return showExceptionalRes;}
void showLowScoreSeg(bool show, clustalw::Array2D<int>* _lowScoreRes);
bool getShowLowScoreSeg(){return showLowScoreRes;}
void setColorScheme(ColorParameters* colors);
void setPrintoutColorScheme(ColorParameters colors);
void setBlackAndWhite();
void setBackGroundColoring(bool backgroundColor);
bool getBackGroundColor(){return backGroundColor;}
void clearRangeSelection();
QString getConservationInfo(){return QString(conservationInfo.c_str());}
QString getSecStructInfo(){return secStructInfo;}
clustalw::Array2D<QColor> getPrintoutColorMask();
ColorParameters* getPtrToCurrentColorScheme(){return currentColorScheme;}
int getFirstSelectedCol();
int getSecondSelectedCol();
void registerScrollArea(QScrollArea *s) { scrollArea = s; }; //- nige
public slots:
signals:
void characterSelected(const QString &character);
protected:
void mousePressEvent(QMouseEvent *event);
void mouseMoveEvent(QMouseEvent *event);
void mouseReleaseEvent(QMouseEvent *event);
void paintEvent(QPaintEvent *event);
void selectColumns(int column); //nige
void drawContents(QPainter *p, int cx, int cy, int cw, int ch); //nige
private:
char getAminoAcidCode(int i);
void setUpWeakAndStrongGroups();
void calcConserveInfo();
void calculatePixMaps();
void makeColorMask(clustalw::Array2D<QColor>* colMask,
ColorParameters* colorScheme);
void makeColorMask(clustalw::Array2D<int>* colMask,
ColorParameters* colorScheme);
void generatePixMaps();
void generateSecStructurePixmaps();
QString initConsensus();
int getExtraRowNum();
int firstSeq, lastSeq;
QFont displayFont;
int firstColumnSelected;
int secondColumn;
int boxSize;
int boxWidth;
int pixelsize;
int alignLength;
int numSequencesSoFar;
int offSetFromTop;
int displayStartPos;
QPixmap defaultPixMap;
QPixmap defaultGreyPixMap;
QString conserveInfo;
QColor *selectedColor; // This will stay here!!!!! Others will go!!!
QColor *lightGrey;
QColor *slateGrey;
QColor *backGroundGrey;
bool conserveDisplay;
bool mousePressed;
const clustalw::SeqArray* alignment;
clustalw::Alignment* alignObjPtr;
bool alignmentSet;
bool showAlignment;
std::vector<std::string> strongGroup;
std::vector<std::string> weakGroup;
std::string conservationInfo;
clustalw::Array2D<int>* exceptionalRes;
bool exResLoaded;
bool showExceptionalRes;
std::string conservationChars;
bool lowScoreResLoaded;
bool showLowScoreRes;
int colorScheme;
clustalw::Array2D<int>* lowScoreRes;
clustalw::Array2D<QPixmap*>* colorAlignment;
clustalw::Array2D<QColor> colorMask;
clustalw::Array2D<int> colMask;
QColor defaultColor;
clustalw::Array2D<QPixmap> coloredLetters;
std::vector<QPixmap>* selectedColoredRes;
std::vector<QPixmap>* lowScoreColoredRes;
std::vector<QPixmap>* exceptionalColoredRes;
std::vector<QPixmap>* conservationPixmaps;
std::vector<QPixmap>* secStructPixmaps;
// Color scheme stuff!!!
ColorParameters* currentColorScheme;
ColorParameters printoutColorScheme;
bool blackAndWhite;
bool backGroundColor;
int secStruct;
QString secStructInfo;
int defaultIndex;
QScrollArea *scrollArea; //-nige
};
#endif
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