*/
package jalview.gui;
-import java.awt.BorderLayout;
-import java.awt.Color;
-import java.awt.Container;
-import java.awt.Dimension;
-import java.awt.Font;
-import java.awt.FontMetrics;
-import java.awt.Graphics;
-import java.awt.Graphics2D;
-import java.awt.event.AdjustmentEvent;
-import java.awt.event.AdjustmentListener;
-import java.awt.event.ComponentAdapter;
-import java.awt.event.ComponentEvent;
-import java.awt.print.PageFormat;
-import java.awt.print.Printable;
-import java.awt.print.PrinterException;
-import java.beans.PropertyChangeEvent;
-import java.beans.PropertyChangeListener;
-import java.io.File;
-import java.io.FileWriter;
-import java.io.PrintWriter;
-import java.util.List;
-
-import javax.swing.SwingUtilities;
-
import jalview.analysis.AnnotationSorter;
import jalview.api.AlignViewportI;
import jalview.api.AlignmentViewPanel;
import jalview.bin.Cache;
+import jalview.bin.Console;
import jalview.bin.Jalview;
import jalview.datamodel.AlignmentI;
import jalview.datamodel.HiddenColumns;
import jalview.viewmodel.ViewportListenerI;
import jalview.viewmodel.ViewportRanges;
+import java.awt.BorderLayout;
+import java.awt.Color;
+import java.awt.Container;
+import java.awt.Dimension;
+import java.awt.Font;
+import java.awt.FontMetrics;
+import java.awt.Graphics;
+import java.awt.Graphics2D;
+import java.awt.event.AdjustmentEvent;
+import java.awt.event.AdjustmentListener;
+import java.awt.event.ComponentAdapter;
+import java.awt.event.ComponentEvent;
+import java.awt.print.PageFormat;
+import java.awt.print.Printable;
+import java.awt.print.PrinterException;
+import java.beans.PropertyChangeEvent;
+import java.beans.PropertyChangeListener;
+import java.io.File;
+import java.io.FileWriter;
+import java.io.PrintWriter;
+import java.util.List;
+
+import javax.swing.SwingUtilities;
+
/**
* DOCUMENT ME!
*
*/
public AlignmentPanel(AlignFrame af, final AlignViewport av)
{
+ setName("AligmentPanel");
// setBackground(Color.white); // BH 2019
alignFrame = af;
this.av = av;
public Dimension calculateIdWidth(int maxwidth)
{
Container c = this;// new Container();
+
FontMetrics fm = c.getFontMetrics(
new Font(av.font.getName(), Font.ITALIC, av.font.getSize()));
int idWidth = 0;
boolean withSuffix = av.getShowJVSuffix();
-
while ((i < al.getHeight()) && (al.getSequenceAt(i) != null))
{
SequenceI s = al.getSequenceAt(i);
Dimension e = idPanel.getSize();
alabels.setSize(new Dimension(e.width, annotationHeight));
+
annotationSpaceFillerHolder.setPreferredSize(new Dimension(
annotationSpaceFillerHolder.getWidth(), annotationHeight));
annotationScroller.validate();
/**
* update alignment layout for viewport settings
- *
- * @param wrap
- * DOCUMENT ME!
*/
public void updateLayout()
{
- // BH 2020.06.09 avoiding negative values for SequencePanel and SeqCanvas
- // dimensions.
-
- if (getTopLevelAncestor() == null)
- return;
-
-
ViewportRanges ranges = av.getRanges();
fontChanged();
setAnnotationVisible(av.isShowAnnotation());
{
annotationScroller.setVisible(true);
annotationSpaceFillerHolder.setVisible(true);
+ }
+
+ idSpaceFillerPanel1.setVisible(!wrap);
+
+ /*
+ * defer dimension calculations if panel not yet added to a Window
+ * BH 2020.06.09
+ */
+ if (getTopLevelAncestor() == null)
+ {
+ repaint();
+ return;
+ }
+
+ if (!wrap && av.isShowAnnotation())
+ {
validateAnnotationDimensions(false);
}
}
}
- idSpaceFillerPanel1.setVisible(!wrap);
-
// System.out.println("ap dim = " + getSize());
-
// these values will go negative if getSize() returns (0,0):
-
// System.out.println("seqpan dim = " + getSeqPanel().getSize());
// System.out.println("seqcan dim = " + getSeqPanel().seqCanvas.getSize());
- // BH not added to anything yet! repaint();
+ repaint();
}
/**
{
int width = av.getAlignment().getVisibleWidth();
int height = av.getAlignment().getHeight();
+
hextent = Math.min(getSeqPanel().seqCanvas.getWidth() / av.getCharWidth(), width);
vextent = Math.min(getSeqPanel().seqCanvas.getHeight() / av.getCharHeight(), height);
hscroll.setValues(x, hextent, 0, width);
vscroll.setValues(y, vextent, 0, height);
}
-
/**
* Respond to adjustment event when horizontal or vertical scrollbar is
* changed
return;
}
+
if (evt.getSource() == hscroll)
{
if (!updateRanges(hscroll.getValue(), Integer.MIN_VALUE))
// could not be validated and it is not clear if it is now being
// called. Log warning here in case it is called and unforeseen
// problems occur
- Cache.log.warn(
+ Console.warn(
"Unexpected path through code: Wrapped jar file opened with wrap alignment set in preferences");
// scroll to start of panel
}
if (updateOverview)
{
- alignFrame.repaint();
+ alignFrame.repaint();
if (overviewPanel != null)
{
overviewPanel.updateOverviewImage();
}
} else {
+ invalidate(); // needed so that the id width adjuster works correctly
repaint();
}
}
@Override
public void paintComponent(Graphics g)
{
+ // BH OUCH!
invalidate(); // needed so that the id width adjuster works correctly
Dimension d = getIdPanel().getIdCanvas().getPreferredSize();
}
else
{
- if (Cache.log.isDebugEnabled())
+ if (Console.isDebugEnabled())
{
- Cache.log.warn("Closing alignment panel which is already closed.");
+ Console.warn("Closing alignment panel which is already closed.");
}
}
}
if (b)
{
- alignFrame.setDisplayedView(this);
+ setAlignFrameView();
}
}
+ public void setAlignFrameView()
+ {
+ alignFrame.setDisplayedView(this);
+ }
+
@Override
public StructureSelectionManager getStructureSelectionManager()
{
ViewportRanges ranges = av.getRanges();
setScrollValues(ranges.getStartRes(), ranges.getStartSeq());
}
-
/**
* Set the reference to the PCA/Tree chooser dialog for this panel. This
* reference should be nulled when the dialog is closed.
}
av.setSelectionGroup(null);
av.getColumnSelection().clear();
- av.setSelectionGroup(null);
+ av.setSearchResults(null);
getIdPanel().getIdCanvas().searchResults = null;
av.sendSelection();
// JAL-2034 - should delegate to
git://source.jalview.org / jalview.git / blobdiff