///
/// show(): Generates the SVG drawing output file for each pedigree.
///
void DrawingCanvas::show(const char* filename){
// If label and/or icon legends are present
// readjust the x and y extents:
if(_labelSet->getNumberOfLabels() != 0 || _iconLegendFlag){
_xMinimum -= _labelLegend.getWidth();
double height = _labelLegend.getHeight();
if(_iconLegendFlag) height += _iconLegend.getHeight();
if(height > getYRange()) {
_yMaximum += (height - getYRange());
}
}
//
// Only set the header now because at this point the
// true x and y extents (width and height) are known:
_setHeader();
//
// Add the legends:
//
_drawLegends();
std::ofstream svgfile(filename);
if(svgfile.is_open()){
svgfile << _header.str() << std::endl;
/////////////////////////////////////////////////////
//
// 2009.05.21.ET:
// Dump the bottommost layer (for curved connectors)
//
/////////////////////////////////////////////////////
svgfile << " <g id=\"bottomLayer" << "\" class=\"layer\" >\n";
svgfile << _bottomLayer.str() << std::endl;
svgfile << " </g>\n";
for(unsigned i=0;i<_layers.size();i++){
svgfile << _layers[i] << std::endl;
}
svgfile << _body.str() << std::endl;
svgfile << _footer.str() << std::endl;
svgfile.close();
}else{
std::cout << "Unable to open file " << filename << std::endl;
}
}
///
/// show(): Generates the SVG drawing output file for each pedigree.
///
void DrawingCanvas::show(const char* filename){
// DEBUG:
//std::cout << _header << std::endl;
// Show the layers before the body
//for(unsigned i=0;i<_layers.size();i++)
// std::cout << _layers[i] << std::endl;
//std::cout << _body << std::endl;
//std::cout << _footer << std::endl;
// Write to file with name : pedigree_id+".xml"
// If label and/or icon legends are present
// readjust the x and y extents:
if(_labelSet->getNumberOfLabels() != 0 || _iconLegendFlag){
_xMinimum -= _labelLegend.getWidth();
double height = _labelLegend.getHeight();
if(_iconLegendFlag) height += _iconLegend.getHeight();
if(height > getYRange()) {
_yMaximum += (height - getYRange());
}
}
//
// Only set the header now because at this point the
// true x and y extents (width and height) are known:
_setHeader();
//
// Add the legends:
//
_drawLegends();
std::ofstream svgfile(filename);
if(svgfile.is_open()){
svgfile << _header.str() << std::endl;
for(unsigned i=0;i<_layers.size();i++){
svgfile << _layers[i] << std::endl;
}
svgfile << _body.str() << std::endl;
svgfile << _footer.str() << std::endl;
svgfile.close();
}else{
std::cout << "Unable to open file " << filename << std::endl;
}
}
void
CorrelationTimeArcGrbcat::initiate()
{
TRACE("X: range = " << getXRange() << ", points = " << getXPoints() << ", delta = " << getXDelta());
TRACE("Y: range = " << getYRange() << ", points = " << getYPoints() << ", delta = " << getYDelta());
_histData.resize(getYPoints(), std::vector<std::size_t>(getXPoints(), 0));
_histModel.resize(getYPoints(), std::vector<std::size_t>(getXPoints(), 0));
_cf.resize(getYPoints(), std::vector<type::Float>(getXPoints(), 0.0));
}
// >>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>
void Graph::getBounds(Range &x, Range &y) const {
x = getXRange();
y = getYRange();
}
//
//_setHeader:
//
void DrawingCanvas::_setHeader(){
std::stringstream width,height;
width << _media.getWidth();
height << _media.getHeight();
//
// Only print the xml declaration if the
// document is not an embeddable fragment:
//
if( DrawingMetrics::getEmbeddedState()==false ){
_header << "<?xml version=\"1.0\" standalone=\"no\"?>\n";
}
_header << " <svg version=\"1.1\" id=\"svgDC\" xmlns=\"http://www.w3.org/2000/svg\" xmlns:xlink=\"http://www.w3.org/1999/xlink\" ";
//
// Viewbox only:
//
//_header << " viewBox=\"0,0," + width.str() + "," + height.str() + "\" onload=\"init()\" >\n";
//
// Based on media width and height only:
//
//_header << " width=\"" + width.str() + "\" height=\"" + height.str() + "\"";
//
// Based on actual x and y extents:
//
_header << " width=\"";
_header << getXRange();
_header << "\" height=\"";
_header << getYRange();
_header << "\" ";
_header << " onload=\"init()\" >\n";
//
// Start of <defs> section:
//
_header << " <defs>\n";
//
// Append the CSS:
//
_setCSS();
//
// Append the Javascript
//
_setJavascript();
//
// Append any SVG definitions:
//
_setSVGDefinitions();
//
// End defs section:
//
_header << " </defs>\n";
// Set up the group tag for the whole document
_header << " <g class=\"pedigree\" transform=\"translate(" << getXMinimum()*-1 << ")\">\n";
}
void MSAEditorConsensusArea::paintFullConsensus(QPainter &p) {
p.fillRect(QRect(0, 0, ui->seqArea->getXByColumnNum(ui->editor->getAlignmentLen()), getYRange(MSAEditorConsElement_RULER).startPos), Qt::white);
drawConsensus(p, 0, ui->editor->getAlignmentLen() - 1, true);
drawHistogram(p, 0, ui->editor->getAlignmentLen() - 1);
}
void MSAEditorConsensusArea::paintFullConsensus(QPixmap &pixmap) {
pixmap = QPixmap(ui->seqArea->getXByColumnNum(ui->editor->getAlignmentLen()), getYRange(MSAEditorConsElement_RULER).startPos);
QPainter p(&pixmap);
paintFullConsensus(p);
}
paintFullConsensus(p);
}
void MSAEditorConsensusArea::paintFullConsensus(QPainter &p) {
p.fillRect(QRect(0, 0, ui->seqArea->getXByColumnNum(ui->editor->getAlignmentLen()), getYRange(MSAEditorConsElement_RULER).startPos), Qt::white);
drawConsensus(p, 0, ui->editor->getAlignmentLen() - 1, true);
drawHistogram(p, 0, ui->editor->getAlignmentLen() - 1);
}
void MSAEditorConsensusArea::paintConsenusPart(QPixmap &pixmap, const U2Region ®ion, const QList<qint64> &seqIdx) {
CHECK(!region.isEmpty(), );
CHECK(!seqIdx.isEmpty(), );
CHECK(!ui->seqArea->isAlignmentEmpty(), );
CHECK(editor->getColumnWidth() * region.length < 32768, );
pixmap = QPixmap(editor->getColumnWidth() * region.length, getYRange(MSAEditorConsElement_RULER).startPos);
QPainter p(&pixmap);
paintConsenusPart(p, region, seqIdx);
}
void MSAEditorConsensusArea::paintConsenusPart(QPainter &p, const U2Region ®ion, const QList<qint64> &seqIdx) {
CHECK(!region.isEmpty(), );
CHECK(!seqIdx.isEmpty(), );
CHECK(!ui->seqArea->isAlignmentEmpty(), );
p.fillRect(QRect(0, 0, editor->getColumnWidth() * region.length, getYRange(MSAEditorConsElement_RULER).startPos), Qt::white);
//draw consensus
p.setPen(Qt::black);
QFont f = ui->editor->getFont();
