X-Git-Url: http://source.jalview.org/gitweb/?a=blobdiff_plain;f=src%2FMCview%2FBond.java;h=8e95c1b50dda3217f26a82d7ef8bb5740c1c02eb;hb=a57e62adb20b8c9be0172f2d5d1e767c3aa528ca;hp=5f162b0f2393b631a6f6acd9e34bc7c71e8bb149;hpb=8893c2ac9824d4c566ae69c73d34889c5316b058;p=jalview.git

diff --git a/src/MCview/Bond.java b/src/MCview/Bond.java
index 5f162b0..8e95c1b 100755
--- a/src/MCview/Bond.java
+++ b/src/MCview/Bond.java
@@ -1,44 +1,45 @@
 /*
-* Jalview - A Sequence Alignment Editor and Viewer
-* Copyright (C) 2005 AM Waterhouse, J Procter, 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 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.
-*
-* 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 - A Sequence Alignment Editor and Viewer
+ * Copyright (C) 2007 AM Waterhouse, J Procter, 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 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.
+ *
+ * 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
+ */
 package MCview;
 
 import java.awt.*;
 
+public class Bond
+{
+  float[] start;
+  float[] end;
+  Color startCol = Color.lightGray;
+  Color endCol = Color.lightGray;
+  public Atom at1;
+  public Atom at2;
 
-public class Bond {
-    float[] start;
-    float[] end;
-    Color startCol;
-    Color endCol;
-    public Atom at1;
-    public Atom at2;
+  public Bond(float[] start, float[] end, Atom at1, Atom at2)
+  {
+    this.start = start;
+    this.end = end;
+    this.startCol = at1.color;
+    this.endCol = at2.color;
+    this.at1 = at1;
+    this.at2 = at2;
+  }
 
-    public Bond(float[] start, float[] end, Atom at1, Atom at2) {
-        this.start = start;
-        this.end = end;
-        this.startCol = at1.color;
-        this.endCol = at2.color;
-        this.at1 = at1;
-        this.at2 = at2;
-    }
-
-    public Bond(Bond bond) {
+  /*  public Bond(Bond bond) {
         this.start = new float[3];
 
         this.start[0] = bond.start[0];
@@ -63,16 +64,17 @@ public class Bond {
         len = (float) (Math.sqrt(len));
 
         return len;
-    }
+    }*/
 
-    public void translate(float x, float y, float z) {
-        start[0] = (start[0] + x);
-        end[0] = (end[0] + x);
+  public void translate(float x, float y, float z)
+  {
+    start[0] = (start[0] + x);
+    end[0] = (end[0] + x);
 
-        start[1] = (start[1] + y);
-        end[1] = (end[1] + y);
+    start[1] = (start[1] + y);
+    end[1] = (end[1] + y);
 
-        start[2] = (start[2] + z);
-        end[2] = (end[2] + z);
-    }
+    start[2] = (start[2] + z);
+    end[2] = (end[2] + z);
+  }
 }