consclipbrd.addActionListener(this);
pop.add(consclipbrd);
}
- if (aa[selectedRow].graph == AlignmentAnnotation.CONTACT_MAP
+ if (aa[selectedRow].graph == AlignmentAnnotation.CONTACT_MAP
&& PAEContactMatrix.PAEMATRIX
.equals(aa[selectedRow].getCalcId()))
{
final PAEContactMatrix cm = (PAEContactMatrix) av
.getContactMatrix(aa[selectedRow]);
- if (cm!=null && cm.getNewick()!=null && cm.getNewick().length()>0)
+ if (cm != null && cm.getNewick() != null
+ && cm.getNewick().length() > 0)
{
item = new JMenuItem("Show Tree for Matrix");
item.addActionListener(new ActionListener()
public void actionPerformed(ActionEvent e)
{
- ap.alignFrame.showContactMapTree(aa[selectedRow],cm);
+ ap.alignFrame.showContactMapTree(aa[selectedRow], cm);
}
});
}
olY = y;
// look ahead to next annotation
- for (nexAA=i+1; nexAA<aa.length && !aa[nexAA].visible; nexAA++)
+ for (nexAA = i + 1; nexAA < aa.length
+ && !aa[nexAA].visible; nexAA++)
;
y += aa[i].height;
if (clip)
{
if (vertBar)
{
- g.drawLine(width-3, y + offset-fontHeight, width-3, (int)(y - 1.5*aa[i].height-offset-fontHeight));
+ g.drawLine(width - 3, y + offset - fontHeight, width - 3,
+ (int) (y - 1.5 * aa[i].height - offset - fontHeight));
// g.drawLine(20, y + offset, x - 20, y + offset);
}