+/*\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 MCview;\r
\r
import java.awt.*;\r
\r
-public class Bond {\r
-\r
- float start[];\r
- float end[];\r
-\r
- Color startCol;\r
- Color endCol;\r
-\r
- public myAtom at1;\r
- public myAtom at2;\r
-\r
- public Bond(float[] start, float[] end, myAtom at1, myAtom at2) {\r
- this.start = start;\r
- this.end = end;\r
- this.startCol = at1.color;\r
- this.endCol = at2.color;\r
- this.at1 = at1;\r
- this.at2 = at2;\r
- }\r
- public Bond(Bond bond) {\r
- this.start = new float[3];\r
-\r
- this.start[0] = bond.start[0];\r
- this.start[1] = bond.start[1];\r
- this.start[2] = bond.start[2];\r
-\r
- this.end = new float[3];\r
-\r
- this.end[0] = bond.end[0];\r
- this.end[1] = bond.end[1];\r
- this.end[2] = bond.end[2];\r
\r
- this.startCol = bond.startCol;\r
- this.endCol = bond.endCol;\r
- }\r
-\r
- public void print() {\r
- System.out.println("Start " + start[0] + " "+ start[1] + " " + start[2]);\r
- System.out.println("End " + end[0] + " "+ end[1] + " " + end[2]);\r
- }\r
-\r
- public float length() {\r
- float len = (end[0] - start[0])*(end[0] - start[0]) +\r
- (end[1] - start[1])*(end[1] - start[1]) +\r
- (end[2] - start[2])*(end[2] - start[2]);\r
-\r
- len = (float)(Math.sqrt(len));\r
-\r
- return len;\r
- }\r
- public void translate(float x, float y, float z) {\r
- start[0] = (start[0] + x);\r
- end[0] = (end[0] + x);\r
-\r
- start[1] = (start[1] + y);\r
- end[1] = (end[1] + y);\r
-\r
- start[2] = (start[2] + z);\r
- end[2] = (end[2] + z);\r
- }\r
+public class Bond {\r
+ float[] start;\r
+ float[] end;\r
+ Color startCol;\r
+ Color endCol;\r
+ public Atom at1;\r
+ public Atom at2;\r
+\r
+ public Bond(float[] start, float[] end, Atom at1, Atom at2) {\r
+ this.start = start;\r
+ this.end = end;\r
+ this.startCol = at1.color;\r
+ this.endCol = at2.color;\r
+ this.at1 = at1;\r
+ this.at2 = at2;\r
+ }\r
+\r
+ public Bond(Bond bond) {\r
+ this.start = new float[3];\r
+\r
+ this.start[0] = bond.start[0];\r
+ this.start[1] = bond.start[1];\r
+ this.start[2] = bond.start[2];\r
+\r
+ this.end = new float[3];\r
+\r
+ this.end[0] = bond.end[0];\r
+ this.end[1] = bond.end[1];\r
+ this.end[2] = bond.end[2];\r
+\r
+ this.startCol = bond.startCol;\r
+ this.endCol = bond.endCol;\r
+ }\r
+\r
+ public void print() {\r
+ System.out.println("Start " + start[0] + " " + start[1] + " " +\r
+ start[2]);\r
+ System.out.println("End " + end[0] + " " + end[1] + " " + end[2]);\r
+ }\r
+\r
+ public float length() {\r
+ float len = ((end[0] - start[0]) * (end[0] - start[0])) +\r
+ ((end[1] - start[1]) * (end[1] - start[1])) +\r
+ ((end[2] - start[2]) * (end[2] - start[2]));\r
+\r
+ len = (float) (Math.sqrt(len));\r
+\r
+ return len;\r
+ }\r
+\r
+ public void translate(float x, float y, float z) {\r
+ start[0] = (start[0] + x);\r
+ end[0] = (end[0] + x);\r
+\r
+ start[1] = (start[1] + y);\r
+ end[1] = (end[1] + y);\r
+\r
+ start[2] = (start[2] + z);\r
+ end[2] = (end[2] + z);\r
+ }\r
}\r
git://source.jalview.org / jalview.git / blobdiff