setOldHiddenColumns(av.getAlignment().getHiddenColumns());
adjusting = true;
- setAnnotations(new JComboBox<String>(getAnnotationItems(false)));
+ setAnnotations(new JComboBox<>(getAnnotationItems(false)));
populateThresholdComboBox(threshold);
AnnotationColumnChooser lastChooser = av
.getAnnotationColumnSelectionState();
HiddenColumns oldHidden = av
.getAnnotationColumnSelectionState()
.getOldHiddenColumns();
- if (oldHidden != null && oldHidden.getHiddenRegions() != null
- && !oldHidden.getHiddenRegions().isEmpty())
+ if (oldHidden != null)
{
- for (Iterator<int[]> itr = oldHidden.getHiddenRegions()
- .iterator(); itr.hasNext();)
+ for (Iterator<int[]> itr = oldHidden.iterator(); itr.hasNext();)
{
int positions[] = itr.next();
av.hideColumns(positions[0], positions[1]);
}
}
+ // show hidden columns here, before changing the column selection in
+ // filterAnnotations, because showing hidden columns has the side effect of
+ // adding them to the selection
+ av.showAllHiddenColumns();
av.getColumnSelection().filterAnnotations(
getCurrentAnnotation().annotations, filterParams);
- av.showAllHiddenColumns();
if (getActionOption() == ACTION_OPTION_HIDE)
{
av.hideSelectedColumns();
private static final String FILTER_BY_ANN_CACHE_KEY = "CACHE.SELECT_FILTER_BY_ANNOT";
- public JvCacheableInputBox<String> searchBox = new JvCacheableInputBox<String>(
+ public JvCacheableInputBox<String> searchBox = new JvCacheableInputBox<>(
FILTER_BY_ANN_CACHE_KEY);
public SearchPanel(AnnotationColumnChooser aColChooser)