*/
package jalview.gui;
-import jalview.datamodel.AlignmentAnnotation;
-import jalview.datamodel.AlignmentI;
-import jalview.datamodel.Annotation;
-import jalview.datamodel.ColumnSelection;
-import jalview.datamodel.HiddenColumns;
-import jalview.datamodel.SequenceI;
-import jalview.gui.JalviewColourChooser.ColourChooserListener;
-import jalview.renderer.AnnotationRenderer;
-import jalview.renderer.AwtRenderPanelI;
-import jalview.schemes.ResidueProperties;
-import jalview.util.Comparison;
-import jalview.util.MessageManager;
-import jalview.util.Platform;
-import jalview.viewmodel.ViewportListenerI;
-import jalview.viewmodel.ViewportRanges;
-
import java.awt.AlphaComposite;
import java.awt.Color;
import java.awt.Dimension;
import javax.swing.Scrollable;
import javax.swing.ToolTipManager;
+import jalview.api.AlignViewportI;
+import jalview.datamodel.AlignmentAnnotation;
+import jalview.datamodel.AlignmentI;
+import jalview.datamodel.Annotation;
+import jalview.datamodel.ColumnSelection;
+import jalview.datamodel.ContactListI;
+import jalview.datamodel.HiddenColumns;
+import jalview.datamodel.SequenceI;
+import jalview.gui.JalviewColourChooser.ColourChooserListener;
+import jalview.renderer.AnnotationRenderer;
+import jalview.renderer.AwtRenderPanelI;
+import jalview.renderer.ContactGeometry;
+import jalview.schemes.ResidueProperties;
+import jalview.util.Comparison;
+import jalview.util.MessageManager;
+import jalview.util.Platform;
+import jalview.viewmodel.ViewportListenerI;
+import jalview.viewmodel.ViewportRanges;
+
/**
* AnnotationPanel displays visible portion of annotation rows below unwrapped
* alignment
*/
public AnnotationPanel(AlignmentPanel ap)
{
-// setBackground(Color.white); // BH 2019
-
- ToolTipManager.sharedInstance().registerComponent(this);
+ ToolTipManager.sharedInstance().registerComponent(this);
ToolTipManager.sharedInstance().setInitialDelay(0);
ToolTipManager.sharedInstance().setDismissDelay(10000);
this.ap = ap;
@Override
public void colourSelected(Color c)
{
- HiddenColumns hiddenColumns = av.getAlignment().getHiddenColumns();
+ HiddenColumns hiddenColumns = av.getAlignment()
+ .getHiddenColumns();
for (int index : av.getColumnSelection().getSelected())
{
if (hiddenColumns.isVisible(index))
}
fAnot[index].colour = c;
}
- }};
+ }
+ };
};
- JalviewColourChooser.showColourChooser(this,
- title, Color.black, listener);
+ JalviewColourChooser.showColourChooser(this, title, Color.black,
+ listener);
}
else
// HELIX, SHEET or STEM
{
activeRow = i;
}
- else if (aa[i].graph > 0)
+ else if (aa[i].graph != 0)
{
/*
* we have clicked on a resizable graph annotation
mouseDragLastX = -1;
mouseDragLastY = -1;
mouseDragging = false;
+ if (dragMode == DragMode.Resize)
+ {
+ ap.adjustAnnotationHeight();
+ }
dragMode = DragMode.Undefined;
ap.getScalePanel().mouseReleased(evt);
}
/**
- * DOCUMENT ME!
+ * Action on starting or continuing a mouse drag. There are two possible
+ * actions:
+ * <ul>
+ * <li>drag up or down on a graphed annotation increases or decreases the
+ * height of the graph</li>
+ * <li>dragging left or right selects the columns dragged across</li>
+ * </ul>
+ * A drag on a graph annotation is treated as column selection if it starts
+ * with more horizontal than vertical movement, and as resize if it starts
+ * with more vertical than horizontal movement. Once started, the drag does
+ * not change mode.
*
* @param evt
- * DOCUMENT ME!
*/
@Override
public void mouseDragged(MouseEvent evt)
{
/*
- * todo: if dragMode is Undefined:
+ * if dragMode is Undefined:
* - set to Select if dx > dy
* - set to Resize if dy > dx
* - do nothing if dx == dy
{
int yPos = evt.getY();
AlignmentAnnotation[] aa = av.getAlignment().getAlignmentAnnotation();
-
- int row = getRowIndex(yPos, aa);
+ int rowAndOffset[] = getRowIndexAndOffset(yPos, aa);
+ int row = rowAndOffset[0];
if (row == -1)
{
if (row > -1 && ann.annotations != null
&& column < ann.annotations.length)
{
- setToolTipText(buildToolTip(ann, column, aa));
- String msg = getStatusMessage(av.getAlignment(), column, ann);
+ String toolTip = buildToolTip(ann, column, aa, rowAndOffset[1], av);
+ setToolTipText(toolTip == null ? null
+ : JvSwingUtils.wrapTooltip(true, toolTip));
+ String msg = getStatusMessage(av.getAlignment(), column, ann,
+ rowAndOffset[1], av);
ap.alignFrame.setStatus(msg);
}
else
{
return -1;
}
+ return getRowIndexAndOffset(yPos, aa)[0];
+ }
+
+ static int[] getRowIndexAndOffset(int yPos, AlignmentAnnotation[] aa)
+ {
+ int[] res = new int[2];
+ if (aa == null)
+ {
+ res[0] = -1;
+ res[1] = 0;
+ return res;
+ }
int row = -1;
- int height = 0;
+ int height = 0, lheight = 0;
for (int i = 0; i < aa.length; i++)
{
if (aa[i].visible)
{
+ lheight = height;
height += aa[i].height;
}
if (height > yPos)
{
row = i;
+ res[0] = row;
+ res[1] = yPos - lheight;
break;
}
}
- return row;
+ return res;
}
/**
- * Answers a tooltip for the annotation at the current mouse position
+ * Answers a tooltip for the annotation at the current mouse position, not
+ * wrapped in <html> tags (apply if wanted). Answers null if there is no
+ * tooltip to show.
*
* @param ann
* @param column
* @param anns
+ * @param rowAndOffset
*/
static String buildToolTip(AlignmentAnnotation ann, int column,
- AlignmentAnnotation[] anns)
+ AlignmentAnnotation[] anns, int rowAndOffset, AlignViewportI av)
{
String tooltip = null;
if (ann.graphGroup > -1)
{
StringBuilder tip = new StringBuilder(32);
- tip.append("<html>");
+ boolean first = true;
for (int i = 0; i < anns.length; i++)
{
if (anns[i].graphGroup == ann.graphGroup
&& anns[i].annotations[column] != null)
{
+ if (!first)
+ {
+ tip.append("<br>");
+ }
+ first = false;
tip.append(anns[i].label);
String description = anns[i].annotations[column].description;
if (description != null && description.length() > 0)
{
tip.append(" ").append(description);
}
- tip.append("<br>");
}
}
- if (tip.length() != 6)
- {
- tip.setLength(tip.length() - 4);
- tooltip = tip.toString() + "</html>";
- }
+ tooltip = first ? null : tip.toString();
}
else if (column < ann.annotations.length
&& ann.annotations[column] != null)
{
- String description = ann.annotations[column].description;
- if (description != null && description.length() > 0)
- {
- tooltip = JvSwingUtils.wrapTooltip(true, description);
- }
- else
- {
- tooltip = null; // no tooltip if null or empty description
- }
+ tooltip = ann.annotations[column].description;
}
- else
+ // TODO abstract tooltip generator so different implementations can be built
+ if (ann.graph == AlignmentAnnotation.CUSTOMRENDERER)
{
- // clear the tooltip.
- tooltip = null;
+ ContactListI clist = av.getContactList(ann, column);
+ if (clist != null)
+ {
+ ContactGeometry cgeom = new ContactGeometry(clist, ann.graphHeight);
+ ContactGeometry.contactInterval ci = cgeom.mapFor(rowAndOffset,
+ rowAndOffset);
+ tooltip += "Contact from " + ci.cStart + " to " + ci.cEnd;
+ }
}
return tooltip;
}
* @param al
* @param column
* @param ann
+ * @param rowAndOffset
*/
static String getStatusMessage(AlignmentI al, int column,
- AlignmentAnnotation ann)
+ AlignmentAnnotation ann, int rowAndOffset, AlignViewportI av)
{
/*
* show alignment column and annotation description if any
}
private volatile boolean imageFresh = false;
- private Rectangle visibleRect = new Rectangle(), clipBounds = new Rectangle();
+
+ private Rectangle visibleRect = new Rectangle(),
+ clipBounds = new Rectangle();
/**
* DOCUMENT ME!
@Override
public void paintComponent(Graphics g)
{
-
- // BH: note that this method is generally recommended to
- // call super.paintComponent(g). Otherwise, the children of this
- // component will not be rendered. That is not needed here
- // because AnnotationPanel does not have any children. It is
- // just a JPanel contained in a JViewPort.
+
+ // BH: note that this method is generally recommended to
+ // call super.paintComponent(g). Otherwise, the children of this
+ // component will not be rendered. That is not needed here
+ // because AnnotationPanel does not have any children. It is
+ // just a JPanel contained in a JViewPort.
computeVisibleRect(visibleRect);
-
+
g.setColor(Color.white);
g.fillRect(0, 0, visibleRect.width, visibleRect.height);
if (image != null)
{
- // BH 2018 optimizing generation of new Rectangle().
- if (fastPaint || (visibleRect.width != (clipBounds = g.getClipBounds(clipBounds)).width)
- || (visibleRect.height != clipBounds.height))
+ // BH 2018 optimizing generation of new Rectangle().
+ if (fastPaint
+ || (visibleRect.width != (clipBounds = g
+ .getClipBounds(clipBounds)).width)
+ || (visibleRect.height != clipBounds.height))
{
-
- g.drawImage(image, 0, 0, this);
+ g.drawImage(image, 0, 0, this);
fastPaint = false;
return;
}
gg.setColor(Color.white);
gg.fillRect(0, 0, imgWidth, image.getHeight());
imageFresh = true;
- } else {
- gg = (Graphics2D) image.getGraphics();
+ }
+ else
+ {
+ gg = (Graphics2D) image.getGraphics();
}
-
+
drawComponent(gg, av.getRanges().getStartRes(),
av.getRanges().getEndRes() + 1);
gg.dispose();
Graphics2D gg = (Graphics2D) image.getGraphics();
- gg.copyArea(0, 0, imgWidth, getHeight(),
- -horizontal * av.getCharWidth(), 0);
-
- if (horizontal > 0) // scrollbar pulled right, image to the left
+ if (imgWidth > Math.abs(horizontal * av.getCharWidth()))
{
- transX = (er - sr - horizontal) * av.getCharWidth();
- sr = er - horizontal;
- }
- else if (horizontal < 0)
- {
- er = sr - horizontal;
- }
+ // scroll is less than imgWidth away so can re-use buffered graphics
+ gg.copyArea(0, 0, imgWidth, getHeight(),
+ -horizontal * av.getCharWidth(), 0);
+ if (horizontal > 0) // scrollbar pulled right, image to the left
+ {
+ transX = (er - sr - horizontal) * av.getCharWidth();
+ sr = er - horizontal;
+ }
+ else if (horizontal < 0)
+ {
+ er = sr - horizontal;
+ }
+ }
gg.translate(transX, 0);
drawComponent(gg, sr, er);
gg.translate(-transX, 0);
gg.dispose();
-
+
fastPaint = true;
// Call repaint on alignment panel so that repaints from other alignment
ap = null;
image = null;
fadedImage = null;
-// gg = null;
+ // gg = null;
_mwl = null;
/*