package jalview.gui;
import jalview.api.AlignViewportI;
-import jalview.renderer.seqfeatures.FeatureColourFinder;
+import jalview.bin.Cache;
+import jalview.renderer.OverviewRenderer;
+import jalview.renderer.OverviewResColourFinder;
import jalview.viewmodel.OverviewDimensions;
+import java.awt.AlphaComposite;
import java.awt.Color;
import java.awt.Dimension;
import java.awt.Graphics;
+import java.awt.Graphics2D;
+import java.awt.event.ActionEvent;
+import java.awt.event.ActionListener;
import java.awt.image.BufferedImage;
import javax.swing.JComponent;
+import javax.swing.Timer;
public class OverviewCanvas extends JComponent
{
+ private static final long RUNNING_TIME = 1000;
+
+ private static final int SPEED = 40;
+
private static final Color TRANS_GREY = new Color(100, 100, 100, 25);
// This is set true if the alignment view changes whilst
private volatile boolean updaterunning = false;
+ private boolean dispose = false;
+
private BufferedImage miniMe;
private BufferedImage lastMiniMe = null;
+ private BufferedImage veryLastMiniMe = null;
+
// Can set different properties in this seqCanvas than
// main visible SeqCanvas
private SequenceRenderer sr;
private OverviewDimensions od;
+ private OverviewRenderer or = null;
+
private AlignViewportI av;
+
+ private OverviewResColourFinder cf;
+
+ private float alpha = 0f;
+
+ private long startTime = -1;
+
+ private final Timer timer;
+
+ private ProgressPanel progressPanel;
+
public OverviewCanvas(OverviewDimensions overviewDims,
- AlignViewportI alignvp)
+ AlignViewportI alignvp, ProgressPanel pp)
{
od = overviewDims;
av = alignvp;
+ progressPanel = pp;
sr = new SequenceRenderer(av);
sr.renderGaps = false;
- sr.forOverview = true;
fr = new jalview.renderer.seqfeatures.FeatureRenderer(av);
+
+ boolean useLegacy = Cache.getDefault(Preferences.USE_LEGACY_GAP, false);
+ Color gapCol = Cache.getDefaultColour(Preferences.GAP_COLOUR,
+ jalview.renderer.OverviewResColourFinder.OVERVIEW_DEFAULT_GAP);
+ Color hiddenCol = Cache.getDefaultColour(Preferences.HIDDEN_COLOUR,
+ jalview.renderer.OverviewResColourFinder.OVERVIEW_DEFAULT_HIDDEN);
+ cf = new OverviewResColourFinder(useLegacy, gapCol, hiddenCol);
+
+ setSize(od.getWidth(), od.getHeight());
+
+ timer = new Timer(SPEED, new ActionListener()
+ {
+
+ @Override
+ public void actionPerformed(ActionEvent e)
+ {
+ if (startTime < 0)
+ {
+ startTime = System.currentTimeMillis();
+ }
+ else
+ {
+
+ long time = System.currentTimeMillis();
+ long duration = time - startTime;
+ if (duration >= RUNNING_TIME)
+ {
+ startTime = -1;
+ ((Timer) e.getSource()).stop();
+ alpha = 0f;
+ }
+ else
+ {
+ alpha = 1f - ((float) duration / (float) RUNNING_TIME);
+ }
+ repaint();
+ }
+ }
+ });
+
}
/**
if (updaterunning)
{
restart = true;
+ if (or != null)
+ {
+ or.setRedraw(true);
+ }
}
else
{
FeatureRenderer transferRenderer)
{
miniMe = null;
+ veryLastMiniMe = lastMiniMe;
if (showSequenceFeatures)
{
fr.transferSettings(transferRenderer);
}
- FeatureColourFinder finder = new FeatureColourFinder(fr);
- // why do we need to set preferred size again? was set in
- // updateOverviewImage
setPreferredSize(new Dimension(od.getWidth(), od.getHeight()));
- OverviewRenderer or = new OverviewRenderer(sr, finder, od);
- miniMe = or.draw(od.getRows(av.getRanges(), av.getAlignment()),
- od
- .getColumns(av.getRanges(), av.getAlignment()
- .getHiddenColumns()));
+ or = new OverviewRenderer(fr, od, av.getAlignment(),
+ av.getResidueShading(), cf);
+
+ or.addPropertyChangeListener(progressPanel);
+
+ miniMe = or.draw(od.getRows(av.getAlignment()),
+ od.getColumns(av.getAlignment()));
Graphics mg = miniMe.getGraphics();
mg.translate(0, od.getSequencesHeight());
or.drawGraph(mg, av.getAlignmentConservationAnnotation(),
av.getCharWidth(), od.getGraphHeight(),
- od.getColumns(
- av.getRanges(), av.getAlignment().getHiddenColumns()));
+ od.getColumns(av.getAlignment()));
mg.translate(0, -od.getSequencesHeight());
}
System.gc();
+ or.removePropertyChangeListener(progressPanel);
+ or = null;
if (restart)
{
restart = false;
- draw(showSequenceFeatures, showAnnotation, transferRenderer);
+ if (!dispose)
+ {
+ draw(showSequenceFeatures, showAnnotation, transferRenderer);
+ }
}
else
{
updaterunning = false;
lastMiniMe = miniMe;
+ alpha = 1f;
+ timer.start();
}
}
}
else if (lastMiniMe != null)
{
- g.drawImage(lastMiniMe, 0, 0, this);
- if (lastMiniMe != miniMe)
+ // is this a resize?
+ if ((getWidth() > 0) && (getHeight() > 0)
+ && ((getWidth() != od.getWidth())
+ || (getHeight() != od.getHeight())))
{
- g.setColor(TRANS_GREY);
- g.fillRect(0, 0, getWidth(), getHeight());
+ // if there is annotation, scale the alignment and annotation separately
+ if (od.getGraphHeight() > 0)
+ {
+ BufferedImage topImage = lastMiniMe.getSubimage(0, 0,
+ od.getWidth(), od.getSequencesHeight());
+ BufferedImage bottomImage = lastMiniMe.getSubimage(0,
+ od.getSequencesHeight(), od.getWidth(),
+ od.getGraphHeight());
+
+ // must be done at this point as we rely on using old width/height
+ // above, and new width/height below
+ od.setWidth(getWidth());
+ od.setHeight(getHeight());
+
+ // stick the images back together so lastMiniMe is consistent in the
+ // event of a repaint - BUT probably not thread safe
+ lastMiniMe = new BufferedImage(od.getWidth(), od.getHeight(),
+ BufferedImage.TYPE_INT_RGB);
+ Graphics lg = lastMiniMe.getGraphics();
+ lg.drawImage(topImage, 0, 0, od.getWidth(),
+ od.getSequencesHeight(), null);
+ lg.drawImage(bottomImage, 0, od.getSequencesHeight(),
+ od.getWidth(), od.getGraphHeight(), this);
+ lg.dispose();
+ }
+ else
+ {
+ od.setWidth(getWidth());
+ od.setHeight(getHeight());
+ }
+
+ // scale lastMiniMe to the new size
+ g.drawImage(lastMiniMe, 0, 0, getWidth(), getHeight(), this);
+
+ // make sure the box is in the right place
+ od.setBoxPosition(av.getAlignment().getHiddenSequences(),
+ av.getAlignment().getHiddenColumns());
+ }
+ else // not a resize
+ {
+ if (alpha != 0) // this is a timer triggered dissolve
+ {
+ Graphics2D g2d = (Graphics2D) g.create();
+
+ // draw the original image
+ g2d.drawImage(veryLastMiniMe, 0, 0, getWidth(), getHeight(),
+ this);
+
+ // draw the new image on top with varying degrees of transparency
+ g2d.setComposite(AlphaComposite.SrcOver.derive(1f - alpha));
+ g2d.drawImage(lastMiniMe, 0, 0, getWidth(), getHeight(), this);
+
+ g2d.dispose();
+ }
+ else
+ {
+ // fall back to normal behaviour
+ g.drawImage(lastMiniMe, 0, 0, getWidth(), getHeight(), this);
+ }
}
}
+ // draw the box
g.setColor(Color.red);
od.drawBox(g);
}
+ public void dispose()
+ {
+ dispose = true;
+ synchronized (this)
+ {
+ restart = true;
+ if (or != null)
+ {
+ or.setRedraw(true);
+ }
+ }
+ }
}
git://source.jalview.org / jalview.git / blobdiff