/**
* Draw a legend for this data set
*
* @param g Graphics context
* @param w Data Window
*/
protected void draw_legend(Graphics g, Rectangle w) {
Color c = g.getColor();
Markers m = null;
if (legend_text == null) return;
if (legend_text.isNull()) return;
if (legend_ix == 0 && legend_iy == 0) {
legend_ix = (int) (w.x + ((legend_dx - xmin) / xrange) * w.width);
legend_iy = (int) (w.y + (1.0 - (legend_dy - ymin) / yrange) * w.height);
}
if (linestyle != DataSet.NOLINE) {
if (linecolor != null) g.setColor(linecolor);
g.drawLine(legend_ix, legend_iy, legend_ix + legend_length, legend_iy);
}
if (marker > 0) {
m = g2d.getMarkers();
if (m != null) {
if (markercolor != null) g.setColor(markercolor);
else g.setColor(c);
m.draw(g, marker, 1.0, legend_ix + legend_length / 2, legend_iy);
}
}
legend_text.draw(
g,
legend_ix + legend_length + legend_text.charWidth(g, ' '),
legend_iy + legend_text.getAscent(g) / 3);
g.setColor(c);
}
/**
* Draw the markers. Only markers inside the specified range will be drawn. Also markers close the
* edge of the clipping region will be clipped.
*
* @param g Graphics context
* @param w data window
* @see graph.Markers
*/
protected void draw_markers(Graphics g, Rectangle w) {
int x1, y1;
int i;
// Calculate the clipping rectangle
Rectangle clip = g.getClipRect();
int xcmin = clip.x;
int xcmax = clip.x + clip.width;
int ycmin = clip.y;
int ycmax = clip.y + clip.height;
/*
** Load the marker specified for this data
*/
Markers m = g2d.getMarkers();
if (m == null) return;
// System.out.println("Drawing Data Markers!");
for (i = 0; i < length; i += stride) {
if (inside(data[i], data[i + 1])) {
x1 = (int) (w.x + ((data[i] - xmin) / xrange) * w.width);
y1 = (int) (w.y + (1.0 - (data[i + 1] - ymin) / yrange) * w.height);
if (x1 >= xcmin && x1 <= xcmax && y1 >= ycmin && y1 <= ycmax)
m.draw(g, marker, markerscale, x1, y1);
}
}
}
/** Query all genomic regions that intersect 'marker' */
@Override
public Markers query(Marker marker) {
Markers markers = new Markers();
for (Marker m : this) {
if (m.intersects(marker)) {
markers.add(m);
Markers subMarkers = m.query(marker);
if (subMarkers != null) markers.add(subMarkers);
}
}
return markers;
}
/** A list of all markers in this transcript */
public Markers markers() {
Markers markers = new Markers();
markers.addAll(subIntervals.values());
return markers;
}
