import jalview.gui.JvOptionPane;
import jalview.gui.JvSwingUtils;
import jalview.gui.Preferences;
+import jalview.io.FileFormats;
import jalview.schemes.ColourSchemeProperty;
import jalview.util.MessageManager;
protected JMenuItem modifyConservation = new JMenuItem();
+ protected JMenuItem modifyPID = new JMenuItem();
+
protected JMenu sortByTreeMenu = new JMenu();
protected JMenu sort = new JMenu();
setJMenuBar(alignFrameMenuBar);
// dynamically fill save as menu with available formats
- for (int i = 0; i < jalview.io.FormatAdapter.WRITEABLE_FORMATS.length; i++)
+ for (String ff : FileFormats.getInstance().getWritableFormats(true))
{
- JMenuItem item = new JMenuItem(
- jalview.io.FormatAdapter.WRITEABLE_FORMATS[i]);
+ JMenuItem item = new JMenuItem(ff);
item.addActionListener(new ActionListener()
{
@Override
public void actionPerformed(ActionEvent e)
{
- conservationMenuItem_actionPerformed(e);
+ conservationMenuItem_actionPerformed();
}
});
noColourmenuItem.setText(MessageManager.getString("label.none"));
@Override
public void actionPerformed(ActionEvent e)
{
- abovePIDThreshold_actionPerformed(e);
+ abovePIDThreshold_actionPerformed();
}
});
showSeqFeatures.setText(MessageManager
});
- JMenuItem modifyPID = new JMenuItem(
+ modifyPID = new JMenuItem(
MessageManager.getString("label.modify_identity_threshold"));
modifyPID.addActionListener(new ActionListener()
{
@Override
public void actionPerformed(ActionEvent e)
{
- modifyPID_actionPerformed(e);
+ modifyPID_actionPerformed();
}
});
modifyConservation.setText(MessageManager
@Override
public void actionPerformed(ActionEvent e)
{
- modifyConservation_actionPerformed(e);
+ modifyConservation_actionPerformed();
}
});
sortByTreeMenu
colourMenu.add(buriedColour);
colourMenu.add(nucleotideColour);
colourMenu.add(purinePyrimidineColour);
- colourMenu.add(RNAInteractionColour);
+ // colourMenu.add(RNAInteractionColour);
// colourMenu.add(covariationColour);
colourMenu.add(tcoffeeColour);
colourMenu.add(userDefinedColour);
{
}
- protected void conservationMenuItem_actionPerformed(ActionEvent e)
+ protected void conservationMenuItem_actionPerformed()
{
}
{
}
- protected void abovePIDThreshold_actionPerformed(ActionEvent e)
+ protected void abovePIDThreshold_actionPerformed()
{
}
{
}
- protected void modifyPID_actionPerformed(ActionEvent e)
+ protected void modifyPID_actionPerformed()
{
}
- protected void modifyConservation_actionPerformed(ActionEvent e)
+ protected void modifyConservation_actionPerformed()
{
}