import jalview.datamodel.AlignmentI;
import jalview.datamodel.SequenceI;
import jalview.util.MessageManager;
+import jalview.viewmodel.seqfeatures.FeatureRendererModel.FeatureSettingsBean;
import java.awt.BorderLayout;
import java.awt.Button;
// Group selection states
void resetTable(boolean groupsChanged)
{
- List<String> displayableTypes = new ArrayList<String>();
- Set<String> foundGroups = new HashSet<String>();
+ List<String> displayableTypes = new ArrayList<>();
+ Set<String> foundGroups = new HashSet<>();
AlignmentI alignment = av.getAlignment();
* and keep track of which groups are visible
*/
Set<String> groups = seq.getFeatures().getFeatureGroups(true);
- Set<String> visibleGroups = new HashSet<String>();
+ Set<String> visibleGroups = new HashSet<>();
for (String group : groups)
{
// if (group == null || fr.checkGroupVisibility(group, true))
{
Component[] comps = featurePanel.getComponents();
int cSize = comps.length;
-
- Object[][] tmp = new Object[cSize][3];
- int tmpSize = 0;
- for (int i = 0; i < cSize; i++)
- {
- MyCheckbox check = (MyCheckbox) comps[i];
- tmp[tmpSize][0] = check.type;
- tmp[tmpSize][1] = fr.getFeatureStyle(check.type);
- tmp[tmpSize][2] = new Boolean(check.getState());
- tmpSize++;
+ FeatureSettingsBean[] rowData = new FeatureSettingsBean[cSize];
+ int i = 0;
+ for (Component comp : comps)
+ {
+ MyCheckbox check = (MyCheckbox) comp;
+ // feature filter set to null as not (yet) offered in applet
+ FeatureColourI colour = fr.getFeatureStyle(check.type);
+ rowData[i] = new FeatureSettingsBean(check.type, colour, null,
+ check.getState());
+ i++;
}
- Object[][] data = new Object[tmpSize][3];
- System.arraycopy(tmp, 0, data, 0, tmpSize);
-
- fr.setFeaturePriority(data);
+ fr.setFeaturePriority(rowData);
- ap.paintAlignment(updateOverview);
+ ap.paintAlignment(updateOverview, updateOverview);
}
MyCheckbox selectedCheck;
{
featurePanel.removeAll();
resetTable(false);
- ap.paintAlignment(true);
+ ap.paintAlignment(true, true);
}
@Override
public void adjustmentValueChanged(AdjustmentEvent evt)
{
fr.setTransparency((100 - transparency.getValue()) / 100f);
- ap.paintAlignment(true);
+ ap.paintAlignment(true, true);
}
class MyCheckbox extends Checkbox