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[jalview.git] / src / jalview / gui / ColumnSelection.java

diff --git a/src/jalview/gui/ColumnSelection.java b/src/jalview/gui/ColumnSelection.java
index 7d1e474..a7fd83a 100755 (executable)
--- a/src/jalview/gui/ColumnSelection.java
+++ b/src/jalview/gui/ColumnSelection.java
@@ -1,74 +1,182 @@
+/*\r
+ * Jalview - A Sequence Alignment Editor and Viewer\r
+ * Copyright (C) 2005 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 jalview.gui;\r
 \r
 import java.util.*;\r
 \r
+\r
 /**\r
  * NOTE: Columns are zero based.\r
  */\r
-public class ColumnSelection{\r
-  Vector selected = new Vector();\r
-\r
-  public void addElement(int col) {\r
-    selected.addElement(new Integer(col));\r
-  }\r
-\r
-  public void clear() {\r
-    selected.removeAllElements();\r
-  }\r
-\r
-  public void removeElement(int col) {\r
-    Integer colInt = new Integer(col);\r
-    if (selected.contains(colInt)) {\r
-      selected.removeElement(colInt);\r
-    } else {\r
-      System.err.println("WARNING: Tried to remove Integer NOT in ColumnSelection");\r
-    }\r
-  }\r
+public class ColumnSelection\r
+{\r
+    Vector selected = new Vector();\r
 \r
-  public boolean contains(int col) {\r
-    return selected.contains(new Integer(col));\r
-  }\r
+    /**\r
+     * DOCUMENT ME!\r
+     *\r
+     * @param col DOCUMENT ME!\r
+     */\r
+    public void addElement(int col)\r
+    {\r
+        if (!selected.contains(new Integer(col)))\r
+        {\r
+            selected.addElement(new Integer(col));\r
+        }\r
+    }\r
 \r
-  public int columnAt(int i) {\r
-    return ((Integer)selected.elementAt(i)).intValue();\r
-  }\r
+    /**\r
+     * DOCUMENT ME!\r
+     */\r
+    public void clear()\r
+    {\r
+        selected.removeAllElements();\r
+    }\r
 \r
-  public int size() {\r
-    return selected.size();\r
-  }\r
+    /**\r
+     * DOCUMENT ME!\r
+     *\r
+     * @param col DOCUMENT ME!\r
+     */\r
+    public void removeElement(int col)\r
+    {\r
+        Integer colInt = new Integer(col);\r
 \r
-  public int getMax() {\r
-    int max = -1;\r
+        if (selected.contains(colInt))\r
+        {\r
+            selected.removeElement(colInt);\r
+        }\r
+    }\r
 \r
-    for (int i=0;i<selected.size();i++) {\r
-      if (columnAt(i) > max) {\r
-        max = columnAt(i);\r
+    public void removeElements(int start, int end)\r
+    {\r
+      Integer colInt;\r
+      for(int i=start; i<end; i++)\r
+      {\r
+        colInt = new Integer(i);\r
+        if (selected.contains(colInt))\r
+        {\r
+            selected.removeElement(colInt);\r
+        }\r
       }\r
     }\r
-    return max;\r
-  }\r
 \r
-  public int getMin() {\r
-    int min = 1000000000;\r
+    /**\r
+     * DOCUMENT ME!\r
+     *\r
+     * @param col DOCUMENT ME!\r
+     *\r
+     * @return DOCUMENT ME!\r
+     */\r
+    public boolean contains(int col)\r
+    {\r
+        return selected.contains(new Integer(col));\r
+    }\r
 \r
-    for (int i=0;i<selected.size();i++) {\r
-      if (columnAt(i) < min) {\r
-        min = columnAt(i);\r
-      }\r
+    /**\r
+     * DOCUMENT ME!\r
+     *\r
+     * @param i DOCUMENT ME!\r
+     *\r
+     * @return DOCUMENT ME!\r
+     */\r
+    public int columnAt(int i)\r
+    {\r
+        return ((Integer) selected.elementAt(i)).intValue();\r
+    }\r
+\r
+    /**\r
+     * DOCUMENT ME!\r
+     *\r
+     * @return DOCUMENT ME!\r
+     */\r
+    public int size()\r
+    {\r
+        return selected.size();\r
     }\r
-    return min;\r
-  }\r
 \r
-  public Vector asVector() {\r
-    return selected;\r
-  }\r
+    /**\r
+     * DOCUMENT ME!\r
+     *\r
+     * @return DOCUMENT ME!\r
+     */\r
+    public int getMax()\r
+    {\r
+        int max = -1;\r
+\r
+        for (int i = 0; i < selected.size(); i++)\r
+        {\r
+            if (columnAt(i) > max)\r
+            {\r
+                max = columnAt(i);\r
+            }\r
+        }\r
+\r
+        return max;\r
+    }\r
+\r
+    /**\r
+     * DOCUMENT ME!\r
+     *\r
+     * @return DOCUMENT ME!\r
+     */\r
+    public int getMin()\r
+    {\r
+        int min = 1000000000;\r
+\r
+        for (int i = 0; i < selected.size(); i++)\r
+        {\r
+            if (columnAt(i) < min)\r
+            {\r
+                min = columnAt(i);\r
+            }\r
+        }\r
+\r
+        return min;\r
+    }\r
+\r
+    /**\r
+     * DOCUMENT ME!\r
+     *\r
+     * @return DOCUMENT ME!\r
+     */\r
+    public Vector asVector()\r
+    {\r
+        return selected;\r
+    }\r
 \r
-  public void compensateForEdit(int start, int change) {\r
-    for (int i=0; i < size();i++) {\r
-      int temp = columnAt(i);\r
+    /**\r
+     * DOCUMENT ME!\r
+     *\r
+     * @param start DOCUMENT ME!\r
+     * @param change DOCUMENT ME!\r
+     */\r
+    public void compensateForEdit(int start, int change)\r
+    {\r
+        for (int i = 0; i < size(); i++)\r
+        {\r
+            int temp = columnAt(i);\r
 \r
-      if (temp >= start)\r
-        selected.setElementAt(new Integer(temp-change),i);\r
+            if (temp >= start)\r
+            {\r
+                selected.setElementAt(new Integer(temp - change), i);\r
+            }\r
+        }\r
     }\r
-  }\r
 }\r