tranfer pdbresno features to dataset sequence.

[jalview.git] / src / MCview / Zsort.java

diff --git a/src/MCview/Zsort.java b/src/MCview/Zsort.java
index 4116ff3..f7f2c39 100755 (executable)
--- a/src/MCview/Zsort.java
+++ b/src/MCview/Zsort.java
@@ -1,50 +1,75 @@
+/*\r
+ * Jalview - A Sequence Alignment Editor and Viewer\r
+ * Copyright (C) 2007 AM Waterhouse, J Procter, G Barton, M Clamp, S Searle\r
+ *\r
+ * This program is free software; you can redistribute it and/or\r
+ * modify it under the terms of the GNU General Public License\r
+ * as published by the Free Software Foundation; either version 2\r
+ * of the License, or (at your option) any later version.\r
+ *\r
+ * This program is distributed in the hope that it will be useful,\r
+ * but WITHOUT ANY WARRANTY; without even the implied warranty of\r
+ * MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE.  See the\r
+ * GNU General Public License for more details.\r
+ *\r
+ * You should have received a copy of the GNU General Public License\r
+ * along with this program; if not, write to the Free Software\r
+ * Foundation, Inc., 51 Franklin Street, Fifth Floor, Boston, MA  02110-1301, USA\r
+ */\r
 package MCview;\r
 \r
 import java.util.*;\r
 \r
-public class Zsort {\r
-\r
-  public static void Zsort(Vector bonds) {\r
-\r
-    sort(bonds,0,bonds.size()-1);\r
+public class Zsort\r
+{\r
+  public void Zsort(Vector bonds)\r
+  {\r
+    sort(bonds, 0, bonds.size() - 1);\r
   }\r
 \r
-\r
-\r
-  public static void sort(Vector bonds,int p, int r) {\r
+  public void sort(Vector bonds, int p, int r)\r
+  {\r
     int q;\r
 \r
-    if (p < r) {\r
-      q = partition(bonds,p,r);\r
-      sort(bonds,p,q);\r
-      sort(bonds,q+1,r);\r
+    if (p < r)\r
+    {\r
+      q = partition(bonds, p, r);\r
+      sort(bonds, p, q);\r
+      sort(bonds, q + 1, r);\r
     }\r
   }\r
 \r
-  private static int partition(Vector bonds, int p, int r) {\r
-    float x = ((Bond)bonds.elementAt(p)).start[2];\r
-    int i = p-1;\r
-    int j = r+1;\r
-\r
-    while(true) {\r
-      do {\r
-        j = j-1;\r
-      }        while (j >= 0  && ((Bond)bonds.elementAt(j)).start[2] > x);\r
+  private int partition(Vector bonds, int p, int r)\r
+  {\r
+    float x = ( (Bond) bonds.elementAt(p)).start[2];\r
+    int i = p - 1;\r
+    int j = r + 1;\r
+    Bond tmp;\r
+    while (true)\r
+    {\r
+      do\r
+      {\r
+        j--;\r
+      }\r
+      while ( (j >= 0) && ( ( (Bond) bonds.elementAt(j)).start[2] > x));\r
 \r
-      do {\r
-        i = i+1;\r
-      } while (i < bonds.size() && ((Bond)bonds.elementAt(i)).start[2] < x);\r
+      do\r
+      {\r
+        i++;\r
+      }\r
+      while ( (i < bonds.size()) &&\r
+             ( ( (Bond) bonds.elementAt(i)).start[2] < x));\r
 \r
-      if ( i < j) {\r
-        Bond tmp = (Bond)bonds.elementAt(i);\r
-        bonds.setElementAt(bonds.elementAt(j),i);\r
-        bonds.setElementAt(tmp,j);\r
-      } else {\r
+      if (i < j)\r
+      {\r
+        tmp = (Bond) bonds.elementAt(i);\r
+        bonds.setElementAt(bonds.elementAt(j), i);\r
+        bonds.setElementAt(tmp, j);\r
+      }\r
+      else\r
+      {\r
         return j;\r
       }\r
     }\r
   }\r
 }\r
-\r
-\r
-\r