src/org/gel/mauve/gui/sequence/MatchPopupMenu.java

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package org.gel.mauve.gui.sequence;

import java.awt.MenuItem;
import java.awt.PopupMenu;
import java.awt.event.ActionEvent;
import java.awt.event.ActionListener;
import java.awt.event.ItemEvent;
import java.awt.event.ItemListener;
import java.util.LinkedList;

import javax.swing.JCheckBoxMenuItem;

import org.gel.mauve.BaseViewerModel;
import org.gel.mauve.Genome;
import org.gel.mauve.Match;
import org.gel.mauve.gui.RearrangementPanel;

class MatchPopupMenu extends PopupMenu implements ActionListener, ItemListener {
        LinkedList match_list;

        RearrangementPanel rrpanel;

        Genome g;

        BaseViewerModel model;

        int lcb_id;

        int remove_item = Integer.MAX_VALUE;

        int keep_item = Integer.MAX_VALUE;

        static final String remove_string = "Remove this LCB";

        static final String keep_string = "Keep this LCB";

        public MatchPopupMenu (RearrangementPanel rrpanel, BaseViewerModel model,
                        Genome g) {
                this.rrpanel = rrpanel;
                this.g = g;
                match_list = new LinkedList ();
                addActionListener (this);
        }

        public void addLCBOptions (int lcb_id) {
                // remove_item = getItemCount();
                // add( new MenuItem( remove_string ) );
                keep_item = getItemCount ();
                JCheckBoxMenuItem keep_checkbox = new JCheckBoxMenuItem (keep_string);
                keep_checkbox.setState (false);
                keep_checkbox.addItemListener (this);
                // add( keep_checkbox );
        }

        public void addMatch (Match m) {
                add (new MenuItem ("Align display to " + m.toString ()));
                // add( new MenuItem( new String( "Show annotation between " ) +
                // m.starts[ sequence ] + new String(" and ") + (m.starts[ sequence ] +
                // m.lengths[ sequence ] - 1) ) );
                match_list.addLast (m);
        }

        public void actionPerformed (ActionEvent e) {
                String act_command = e.getActionCommand ();
                int itemI = 0;
                for (; itemI < getItemCount (); itemI++) {
                        if (getItem (itemI).getActionCommand () == act_command)
                                break;
                }
                if (itemI == remove_item) {
                        // rrpanel.removeLCB( lcb_id );
                } else if (itemI == keep_item) {
                        // rrpanel.keepLCB( lcb_id );
                } else {
                        if (itemI > keep_item) {
                                itemI -= 1;
                        }
                        int matchI = itemI;
                        Match selected_match = (Match) match_list.get (matchI);
                        model.alignView (selected_match, g);
                }
        }

        public void itemStateChanged (ItemEvent e) {
                // rrpanel.toggleKeepLCB( lcb_id );
        }

}

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