-/*\r
-* Jalview - A Sequence Alignment Editor and Viewer\r
-* Copyright (C) 2006 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
-\r
-public class Atom {\r
- float x;\r
- float y;\r
- float z;\r
- int number;\r
- String name;\r
- String resName;\r
- int resNumber;\r
- int type;\r
- Color color = Color.lightGray;\r
- String chain;\r
- int alignmentMapping=-1;\r
-\r
- public boolean isSelected = false;\r
-\r
- public Atom(String str)\r
- {\r
- name = str.substring(12,15).trim();\r
-\r
- resName = str.substring(17,20);\r
-\r
- chain = str.substring(21,22);\r
-\r
- resNumber = Integer.parseInt(str.substring(22,26).trim());\r
-\r
- this.x = (float) (new Float(str.substring(30,38).trim()).floatValue());\r
- this.y = (float) (new Float(str.substring(38,46).trim()).floatValue());\r
- this.z = (float) (new Float(str.substring(47,55).trim()).floatValue());\r
-\r
- }\r
-\r
- // public void setColor(Color col) {\r
- // this.color = col;\r
- // }\r
-}\r
+/*
+* Jalview - A Sequence Alignment Editor and Viewer
+* Copyright (C) 2006 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 Atom {
+ public float x;
+ public float y;
+ public float z;
+ public int number;
+ public String name;
+ public String resName;
+ public int resNumber;
+ public int type;
+ Color color = Color.lightGray;
+ public String chain;
+ int alignmentMapping=-1;
+
+ public boolean isSelected = false;
+
+ public Atom(String str)
+ {
+ name = str.substring(12,15).trim();
+
+ resName = str.substring(17,20);
+
+ chain = str.substring(21,22);
+
+ resNumber = Integer.parseInt(str.substring(22,26).trim());
+
+ this.x = (float) (new Float(str.substring(30,38).trim()).floatValue());
+ this.y = (float) (new Float(str.substring(38,46).trim()).floatValue());
+ this.z = (float) (new Float(str.substring(47,55).trim()).floatValue());
+
+ }
+ public Atom(float x,float y, float z) {
+ this.x = x;
+ this.y = y;
+ this.z = z;
+ }
+ // public void setColor(Color col) {
+ // this.color = col;
+ // }
+}