/*
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.4)
- * Copyright (C) 2008 AM Waterhouse, J Procter, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer ($$Version-Rel$$)
+ * Copyright (C) $$Year-Rel$$ The Jalview Authors
*
- * 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.
+ *
+ * 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 this program; if not, write to the Free Software
- * Foundation, Inc., 51 Franklin Street, Fifth Floor, Boston, MA 02110-1301, USA
+ * along with Jalview. If not, see <http://www.gnu.org/licenses/>.
+ * The Jalview Authors are detailed in the 'AUTHORS' file.
*/
package MCview;
-import java.util.*;
+import java.util.Vector;
public class Zsort
{
- public void Zsort(Vector bonds)
+ /**
+ * Sorts the Bond list in ascending order of the z-value of the bond start
+ * atom
+ *
+ * @param bonds
+ */
+ public void sort(Vector<Bond> bonds)
{
sort(bonds, 0, bonds.size() - 1);
}
- public void sort(Vector bonds, int p, int r)
+ public void sort(Vector<Bond> bonds, int p, int r)
{
int q;
}
}
- private int partition(Vector bonds, int p, int r)
+ private int partition(Vector<Bond> bonds, int p, int r)
{
- float x = ((Bond) bonds.elementAt(p)).start[2];
+ float x = bonds.elementAt(p).start[2];
int i = p - 1;
int j = r + 1;
Bond tmp;
do
{
j--;
- } while ((j >= 0) && (((Bond) bonds.elementAt(j)).start[2] > x));
+ } while ((j >= 0) && (bonds.elementAt(j).start[2] > x));
do
{
i++;
- } while ((i < bonds.size())
- && (((Bond) bonds.elementAt(i)).start[2] < x));
+ } while ((i < bonds.size()) && (bonds.elementAt(i).start[2] < x));
if (i < j)
{
- tmp = (Bond) bonds.elementAt(i);
+ tmp = bonds.elementAt(i);
bonds.setElementAt(bonds.elementAt(j), i);
bonds.setElementAt(tmp, j);
}