import jalview.jbgui.GSequenceLink;
import jalview.schemes.ColourSchemeProperty;
import jalview.util.MessageManager;
+import jalview.ws.sifts.SiftsSettings;
import java.awt.BorderLayout;
import java.awt.Color;
public static final String SHOW_AUTOCALC_ABOVE = "SHOW_AUTOCALC_ABOVE";
+ public static final String HIDE_INTRONS = "HIDE_INTRONS";
+
private static final int MIN_FONT_SIZE = 1;
private static final int MAX_FONT_SIZE = 30;
dasTab.add(dasSource, BorderLayout.CENTER);
wsPrefs = new WsPreferences();
wsTab.add(wsPrefs, BorderLayout.CENTER);
- int width = 500, height = 450;
+ int width = 500, height = 470;
if (new jalview.util.Platform().isAMac())
{
width = 570;
- height = 480;
+ height = 500;
}
Desktop.addInternalFrame(frame,
idItalics.setSelected(Cache.getDefault("ID_ITALICS", true));
wrap.setSelected(Cache.getDefault("WRAP_ALIGNMENT", false));
+ hideIntrons.setSelected(Cache.getDefault(HIDE_INTRONS, true));
gapSymbolCB.addItem("-");
gapSymbolCB.addItem(".");
}
});
+ if (Cache.getDefault("MAP_WITH_SIFTS", false))
+ {
+ siftsMapping.setSelected(true);
+ }
+ else
+ {
+ nwMapping.setSelected(true);
+ }
+
+ SiftsSettings
+ .setMapWithSifts(Cache.getDefault("MAP_WITH_SIFTS", false));
+
/*
* Set Connections tab defaults
*/
*
* @param e
*/
+ @Override
public void ok_actionPerformed(ActionEvent e)
{
if (!validateSettings())
Cache.applicationProperties.setProperty("WRAP_ALIGNMENT",
Boolean.toString(wrap.isSelected()));
+ Cache.applicationProperties.setProperty(HIDE_INTRONS,
+ Boolean.toString(hideIntrons.isSelected()));
Cache.applicationProperties.setProperty("STARTUP_FILE",
startupFileTextfield.getText());
Cache.applicationProperties.setProperty(STRUCTURE_DISPLAY, structViewer
.getSelectedItem().toString());
Cache.setOrRemove(CHIMERA_PATH, chimeraPath.getText());
+ Cache.applicationProperties.setProperty("MAP_WITH_SIFTS",
+ Boolean.toString(siftsMapping.isSelected()));
+ SiftsSettings.setMapWithSifts(siftsMapping.isSelected());
/*
* Save Output settings
/**
* DOCUMENT ME!
*/
+ @Override
public void startupFileTextfield_mouseClicked()
{
JalviewFileChooser chooser = new JalviewFileChooser(
* @param e
* DOCUMENT ME!
*/
+ @Override
public void cancel_actionPerformed(ActionEvent e)
{
try
* @param e
* DOCUMENT ME!
*/
+ @Override
public void annotations_actionPerformed(ActionEvent e)
{
conservation.setEnabled(annotations.isSelected());
&& (identity.isSelected() || showGroupConsensus.isSelected()));
}
+ @Override
public void newLink_actionPerformed(ActionEvent e)
{
}
}
+ @Override
public void editLink_actionPerformed(ActionEvent e)
{
GSequenceLink link = new GSequenceLink();
}
}
+ @Override
public void deleteLink_actionPerformed(ActionEvent e)
{
int index = linkNameList.getSelectedIndex();
linkURLList.setListData(urlLinks);
}
+ @Override
public void defaultBrowser_mouseClicked(MouseEvent e)
{
JFileChooser chooser = new JFileChooser(".");
* jalview.jbgui.GPreferences#showunconserved_actionPerformed(java.awt.event
* .ActionEvent)
*/
+ @Override
protected void showunconserved_actionPerformed(ActionEvent e)
{
// TODO Auto-generated method stub