alignPanel);
viewport.updateConservation(alignPanel);
viewport.updateConsensus(alignPanel);
+ viewport.initInformationWorker(alignPanel);
displayNonconservedMenuItem.setState(viewport.getShowUnconserved());
followMouseOverFlag.setState(viewport.isFollowHighlight());
{
sortGroupMenuItem_actionPerformed();
}
+ else if (source == sortEValueMenuItem)
+ {
+ sortEValueMenuItem_actionPerformed();
+ }
+ else if (source == sortBitScoreMenuItem)
+ {
+ sortBitScoreMenuItem_actionPerformed();
+ }
else if (source == removeRedundancyMenuItem)
{
removeRedundancyMenuItem_actionPerformed();
}
+ public void sortEValueMenuItem_actionPerformed()
+ {
+ SequenceI[] oldOrder = viewport.getAlignment().getSequencesArray();
+ AlignmentSorter.sortByEValue(viewport.getAlignment());
+ addHistoryItem(new OrderCommand("Group Sort", oldOrder,
+ viewport.getAlignment()));
+ alignPanel.paintAlignment(true, false);
+
+ }
+
+ public void sortBitScoreMenuItem_actionPerformed()
+ {
+ SequenceI[] oldOrder = viewport.getAlignment().getSequencesArray();
+ AlignmentSorter.sortByBitScore(viewport.getAlignment());
+ addHistoryItem(new OrderCommand("Group Sort", oldOrder,
+ viewport.getAlignment()));
+ alignPanel.paintAlignment(true, false);
+
+ }
+
public void removeRedundancyMenuItem_actionPerformed()
{
new RedundancyPanel(alignPanel);
MenuItem sortGroupMenuItem = new MenuItem();
+ MenuItem sortEValueMenuItem = new MenuItem();
+
+ MenuItem sortBitScoreMenuItem = new MenuItem();
+
MenuItem removeRedundancyMenuItem = new MenuItem();
MenuItem pairwiseAlignmentMenuItem = new MenuItem();