AlignmentI getAlignment();
StructureSelectionManager getStructureSelectionManager();
- void paintAlignment(boolean b);
+ /**
+ * repaint the alignment view after a datamodel update.
+ * @param updateOverview - if true, the overview panel will also be updated and repainted
+ */
+
+ void paintAlignment(boolean updateOverview);
+ /**
+ * automatically adjust annotation panel height for new annotation
+ * whilst ensuring the alignment is still visible.
+ */
+ void adjustAnnotationHeight();
}