import java.beans.*;
import java.io.*;
import java.util.Hashtable;
-import java.util.Vector;
import java.awt.*;
import java.awt.event.*;
if (av.showAnnotation && (endSeq == av.getAlignment().getHeight()))
{
+ // draw annotation - need to offset for current scroll position
+ int offset=-alabels.scrollOffset;
+ pg.translate(0, offset);
pg.translate(-idWidth - 3, (endSeq - startSeq) * av.charHeight + 3);
alabels.drawComponent((Graphics2D) pg, idWidth);
pg.translate(idWidth + 3, 0);
annotationPanel.renderer.drawComponent(annotationPanel, av, (Graphics2D) pg, -1, startRes, endRes + 1);
+ pg.translate(0, -offset);
}
return Printable.PAGE_EXISTS;
void makeAlignmentImage(int type, File file)
{
+ long progress=System.currentTimeMillis();
+ if (alignFrame!=null) {
+ alignFrame.setProgressBar("Saving "+(type == jalview.util.ImageMaker.PNG ? "PNG image":"EPS file") , progress);
+ }
+ try {
int maxwidth = av.getAlignment().getWidth();
if (av.hasHiddenColumns())
{
{
jalview.util.ImageMaker im;
+ final String imageAction,imageTitle;
if (type == jalview.util.ImageMaker.PNG)
{
- im = new jalview.util.ImageMaker(this, jalview.util.ImageMaker.PNG,
- "Create PNG image from alignment", width, height, file,
- null);
- }
- else
- {
- im = new jalview.util.ImageMaker(this, jalview.util.ImageMaker.EPS,
- "Create EPS file from alignment", width, height, file,
- alignFrame.getTitle());
+ imageAction="Create PNG image from alignment";
+ imageTitle=null;
+ } else {
+ imageAction="Create EPS file from alignment";
+ imageTitle=alignFrame.getTitle();
}
-
+ im = new jalview.util.ImageMaker(this, type, imageAction, width, height, file,
+ imageTitle);
if (av.getWrapAlignment())
{
if (im.getGraphics() != null)
{
ex.printStackTrace();
}
+ }
+ finally {
+ if (alignFrame!=null)
+ {
+ alignFrame.setProgressBar("Export complete.", progress);
+ }
+ }
}
/**
{
// /////ONLY WORKS WITH NONE WRAPPED ALIGNMENTS
// ////////////////////////////////////////////
- int idWidth = getVisibleIdWidth(true);
+ int idWidth = getVisibleIdWidth(false);
FontMetrics fm = getFontMetrics(av.getFont());
int scaleHeight = av.charHeight + fm.getDescent();
// remove old automatic annotation
// add any new annotation
- Vector gr = av.getAlignment().getGroups(); // OrderedBy(av.getAlignment().getSequencesArray());
// intersect alignment annotation with alignment groups
AlignmentAnnotation[] aan = av.getAlignment().getAlignmentAnnotation();
}
}
}
- SequenceGroup sg;
- if (gr != null)
+ if (av.getAlignment().getGroups()!=null)
{
- for (int g = 0; g < gr.size(); g++)
+ for (SequenceGroup sg:av.getAlignment().getGroups())
{
updateCalcs = false;
- sg = (SequenceGroup) gr.elementAt(g);
if (applyGlobalSettings || !oldrfs.containsKey(sg))
{
// set defaults for this group's conservation/consensus
{
new OOMWarning(string, error, this);
}
+
+ public FeatureRenderer cloneFeatureRenderer()
+ {
+
+ return new FeatureRenderer(this);
+ }
+
+ public void updateFeatureRenderer(FeatureRenderer fr)
+ {
+ fr.transferSettings(seqPanel.seqCanvas.getFeatureRenderer());
+ }
+
+ public void updateFeatureRendererFrom(FeatureRenderer fr)
+ {
+ if (seqPanel.seqCanvas.getFeatureRenderer()!=null) {
+ seqPanel.seqCanvas.getFeatureRenderer().transferSettings(fr);
+ }
+ }
}