@Override
public void renderBorder(Track track, RenderContext context, Rectangle arect) {
Rectangle adjustedRect = calculateDrawingRect(arect);
// Draw boundaries if there is room
if (adjustedRect.getHeight() >= 10) {
/// TrackProperties pros = track.getProperties();
// midline
DataRange axisDefinition = track.getDataRange();
float maxValue = axisDefinition.getMaximum();
float baseValue = axisDefinition.getBaseline();
float minValue = axisDefinition.getMinimum();
double maxX = adjustedRect.getMaxX();
double x = adjustedRect.getX();
double y = adjustedRect.getY();
if ((baseValue > minValue) && (baseValue < maxValue)) {
int baseY = computeYPixelValue(adjustedRect, axisDefinition, baseValue);
getBaselineGraphics(context).drawLine((int) x, baseY, (int) maxX, baseY);
}
PreferenceManager prefs = PreferenceManager.getInstance();
Color altColor = track.getAltColor();
Color borderColor =
(prefs.getAsBoolean(PreferenceManager.CHART_COLOR_BORDERS)
&& altColor != null
&& altColor.equals(track.getColor()))
? track.getColor()
: Color.lightGray;
Graphics2D borderGraphics = context.getGraphic2DForColor(borderColor);
// Draw the baseline -- todo, this is a wig track option?
double zeroValue = axisDefinition.getBaseline();
int zeroY = computeYPixelValue(adjustedRect, axisDefinition, zeroValue);
borderGraphics.drawLine(adjustedRect.x, zeroY, adjustedRect.x + adjustedRect.width, zeroY);
// Optionally draw "Y" line (UCSC track line option)
if (track.isDrawYLine()) {
Graphics2D yLineGraphics = context.getGraphic2DForColor(Color.gray);
int yLine = computeYPixelValue(adjustedRect, axisDefinition, track.getYLine());
GraphicUtils.drawDashedLine(
borderGraphics, adjustedRect.x, yLine, adjustedRect.x + adjustedRect.width, yLine);
}
// If the chart has + and - numbers draw both borders or none. This
// needs documented somewhere.
boolean drawBorders = true;
if (minValue * maxValue < 0) {
drawBorders =
prefs.getAsBoolean(PreferenceManager.CHART_DRAW_BOTTOM_BORDER)
&& prefs.getAsBoolean(PreferenceManager.CHART_DRAW_TOP_BORDER);
}
if (drawBorders && prefs.getAsBoolean(PreferenceManager.CHART_DRAW_TOP_BORDER)) {
borderGraphics.drawLine(
adjustedRect.x, adjustedRect.y, adjustedRect.x + adjustedRect.width, adjustedRect.y);
}
if (drawBorders && prefs.getAsBoolean(PreferenceManager.CHART_DRAW_BOTTOM_BORDER)) {
borderGraphics.drawLine(
adjustedRect.x,
adjustedRect.y + adjustedRect.height,
adjustedRect.x + adjustedRect.width,
adjustedRect.y + adjustedRect.height);
}
}
/*
(CHART_DRAW_TOP_BORDER));
prefs.setDrawBottomBorder(getBooleanPreference(CHART_DRAW_BOTTOM_BORDER));
prefs.setColorBorders(getBooleanPreference(CHART_COLOR_BORDERS));
prefs.setDrawAxis(getBooleanPreference(CHART_DRAW_Y_AXIS));
prefs.setDrawTrackName(getBooleanPreference(CHART_DRAW_TRACK_NAME));
prefs.setColorTrackName(getBooleanPreference(CHART_COLOR_TRACK_NAME));
prefs.setAutoscale(getBooleanPreference(CHART_AUTOSCALE));
prefs.setShowDataRange(getBooleanPreference(CHART_SHOW_DATA_RANGE));
*/
}
/**
* Method description
*
* @param track
* @param context
* @param arect
*/
@Override
public void renderAxis(Track track, RenderContext context, Rectangle arect) {
// For now disable axes for all chromosome view
if (context.getChr().equals(Globals.CHR_ALL)) {
return;
}
super.renderAxis(track, context, arect);
Rectangle drawingRect = calculateDrawingRect(arect);
PreferenceManager prefs = PreferenceManager.getInstance();
Color labelColor =
prefs.getAsBoolean(PreferenceManager.CHART_COLOR_TRACK_NAME)
? track.getColor()
: Color.black;
Graphics2D labelGraphics = context.getGraphic2DForColor(labelColor);
labelGraphics.setFont(FontManager.getFont(8));
if (prefs.getAsBoolean(PreferenceManager.CHART_DRAW_TRACK_NAME)) {
// Only attempt if track height is > 25 pixels
if (arect.getHeight() > 25) {
Rectangle labelRect = new Rectangle(arect.x, arect.y + 10, arect.width, 10);
labelGraphics.setFont(FontManager.getFont(10));
GraphicUtils.drawCenteredText(track.getName(), labelRect, labelGraphics);
}
}
if (prefs.getAsBoolean(PreferenceManager.CHART_DRAW_Y_AXIS)) {
Rectangle axisRect = new Rectangle(arect.x, arect.y + 1, AXIS_AREA_WIDTH, arect.height);
DataRange axisDefinition = track.getDataRange();
float maxValue = axisDefinition.getMaximum();
float baseValue = axisDefinition.getBaseline();
float minValue = axisDefinition.getMinimum();
// Bottom (minimum tick mark)
int pY = computeYPixelValue(drawingRect, axisDefinition, minValue);
labelGraphics.drawLine(
axisRect.x + AXIS_AREA_WIDTH - 10, pY, axisRect.x + AXIS_AREA_WIDTH - 5, pY);
GraphicUtils.drawRightJustifiedText(
formatter.format(minValue), axisRect.x + AXIS_AREA_WIDTH - 15, pY, labelGraphics);
// Top (maximum tick mark)
int topPY = computeYPixelValue(drawingRect, axisDefinition, maxValue);
labelGraphics.drawLine(
axisRect.x + AXIS_AREA_WIDTH - 10, topPY, axisRect.x + AXIS_AREA_WIDTH - 5, topPY);
GraphicUtils.drawRightJustifiedText(
formatter.format(maxValue), axisRect.x + AXIS_AREA_WIDTH - 15, topPY + 4, labelGraphics);
// Connect top and bottom
labelGraphics.drawLine(
axisRect.x + AXIS_AREA_WIDTH - 10, topPY, axisRect.x + AXIS_AREA_WIDTH - 10, pY);
// Middle tick mark. Draw only if room
int midPY = computeYPixelValue(drawingRect, axisDefinition, baseValue);
if ((midPY < pY - 15) && (midPY > topPY + 15)) {
labelGraphics.drawLine(
axisRect.x + AXIS_AREA_WIDTH - 10, midPY, axisRect.x + AXIS_AREA_WIDTH - 5, midPY);
GraphicUtils.drawRightJustifiedText(
formatter.format(baseValue),
axisRect.x + AXIS_AREA_WIDTH - 15,
midPY + 4,
labelGraphics);
}
} else if (track.isShowDataRange() && arect.height > 20) {
drawScale(track.getDataRange(), context, arect);
}
}