/*
- * Jalview - A Sequence Alignment Editor and Viewer (Development Version 2.4.1)
- * Copyright (C) 2009 AM Waterhouse, J Procter, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.5)
+ * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
- * This program is free software; you can redistribute it and/or
- * modify it under the terms of the GNU General Public License
- * as published by the Free Software Foundation; either version 2
- * of the License, or (at your option) any later version.
+ * This file is part of Jalview.
*
- * This program is distributed in the hope that it will be useful,
- * but WITHOUT ANY WARRANTY; without even the implied warranty of
- * MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the
- * GNU General Public License for more details.
+ * Jalview is free software: you can redistribute it and/or
+ * modify it under the terms of the GNU General Public License
+ * as published by the Free Software Foundation, either version 3 of the License, or (at your option) any later version.
*
- * You should have received a copy of the GNU General Public License
- * along with this program; if not, write to the Free Software
- * Foundation, Inc., 51 Franklin Street, Fifth Floor, Boston, MA 02110-1301, USA
+ * Jalview is distributed in the hope that it will be useful, but
+ * WITHOUT ANY WARRANTY; without even the implied warranty
+ * of MERCHANTABILITY or FITNESS FOR A PARTICULAR
+ * PURPOSE. See the GNU General Public License for more details.
+ *
+ * You should have received a copy of the GNU General Public License along with Jalview. If not, see <http://www.gnu.org/licenses/>.
*/
package jalview.appletgui;
* Creates a new TreePanel object.
*
* @param av
- * DOCUMENT ME!
+ * DOCUMENT ME!
* @param seqVector
- * DOCUMENT ME!
+ * DOCUMENT ME!
* @param type
- * DOCUMENT ME!
+ * DOCUMENT ME!
* @param pwtype
- * DOCUMENT ME!
+ * DOCUMENT ME!
* @param s
- * DOCUMENT ME!
+ * DOCUMENT ME!
* @param e
- * DOCUMENT ME!
+ * DOCUMENT ME!
*/
public TreePanel(AlignViewport av, String type, String pwtype)
{
* Creates a new TreePanel object.
*
* @param av
- * DOCUMENT ME!
+ * DOCUMENT ME!
* @param seqVector
- * DOCUMENT ME!
+ * DOCUMENT ME!
* @param newtree
- * DOCUMENT ME!
+ * DOCUMENT ME!
* @param type
- * DOCUMENT ME!
+ * DOCUMENT ME!
* @param pwtype
- * DOCUMENT ME!
+ * DOCUMENT ME!
*/
public TreePanel(AlignViewport av, String type, String pwtype,
NewickFile newtree)
treeCanvas.setTree(tree);
if (newtree != null)
{
- // Set default view, paying lip service to any overriding tree view parameter settings
- boolean showDist = newtree.HasDistances() && av.applet.getDefaultParameter("showTreeDistances", newtree.HasDistances());
- boolean showBoots = newtree.HasBootstrap() && av.applet.getDefaultParameter("showTreeBootstraps", newtree.HasBootstrap());
+ // Set default view, paying lip service to any overriding tree view
+ // parameter settings
+ boolean showDist = newtree.HasDistances()
+ && av.applet.getDefaultParameter("showTreeDistances",
+ newtree.HasDistances());
+ boolean showBoots = newtree.HasBootstrap()
+ && av.applet.getDefaultParameter("showTreeBootstraps",
+ newtree.HasBootstrap());
distanceMenu.setState(showDist);
bootstrapMenu.setState(showBoots);
treeCanvas.setShowBootstrap(showBoots);
treeCanvas.setShowDistances(showDist);
- treeCanvas.setMarkPlaceholders(av.applet.getDefaultParameter("showUnlinkedTreeNodes", false));
+ treeCanvas.setMarkPlaceholders(av.applet.getDefaultParameter(
+ "showUnlinkedTreeNodes", false));
}
treeCanvas.repaint();