+ /**
+ *
+ * @param group
+ * @return true if group has been seen before and is already added to set.
+ */
+ private boolean checkGroupState(String group) {
+ boolean visible;
+ if (fr.featureGroups.containsKey(group))
+ {
+ visible = ( (Boolean) fr.featureGroups.get(group)).booleanValue();
+ } else {
+ visible=true; // new group is always made visible
+ }
+
+ if (groupPanel == null)
+ {
+ groupPanel = new JPanel();
+ }
+
+ boolean alreadyAdded = false;
+ for (int g = 0; g < groupPanel.getComponentCount(); g++)
+ {
+ if ( ( (JCheckBox) groupPanel.getComponent(g))
+ .getText().equals(group))
+ {
+ alreadyAdded = true;
+ ((JCheckBox)groupPanel.getComponent(g)).setSelected(visible);
+ break;
+ }
+ }
+
+ if (alreadyAdded)
+ {
+
+ return true;
+ }
+
+ fr.featureGroups.put(group, new Boolean(visible));
+ final String grp = group;
+ final JCheckBox check = new JCheckBox(group, visible);
+ check.setFont(new Font("Serif", Font.BOLD, 12));
+ check.addItemListener(new ItemListener()
+ {
+ public void itemStateChanged(ItemEvent evt)
+ {
+ fr.featureGroups.put(check.getText(),
+ new Boolean(check.isSelected()));
+ af.alignPanel.seqPanel.seqCanvas.repaint();
+ if (af.alignPanel.overviewPanel != null)
+ {
+ af.alignPanel.overviewPanel.updateOverviewImage();
+ }
+
+ resetTable(new String[] { grp } );
+ }
+ });
+ groupPanel.add(check);
+ return false;
+ }