From: amwaterhouse <Andrew Waterhouse>
Date: Wed, 16 Nov 2005 16:40:02 +0000 (+0000)
Subject: Parsing updates
X-Git-Url: http://source.jalview.org/gitweb/?a=commitdiff_plain;h=7b5ff2f535d8daa50b43d6bdc11707ec70f32712;p=jalview.git

Parsing updates
---

diff --git a/src/MCview/Atom.java b/src/MCview/Atom.java
index 0aaf040..e38d7aa 100755
--- a/src/MCview/Atom.java
+++ b/src/MCview/Atom.java
@@ -24,9 +24,9 @@ import java.util.*;
 
 
 public class Atom {
-    double x;
-    double y;
-    double z;
+    float x;
+    float y;
+    float z;
     int number;
     String name;
     String resName;
@@ -35,35 +35,37 @@ public class Atom {
     Color color;
     String chain;
 
-    public Atom(StringTokenizer str) {
-        this.number = (new Integer(str.nextToken())).intValue();
-        this.name = str.nextToken();
+    public boolean isSelected = false;
+
+    public Atom(StringTokenizer str)
+    {
+        str.nextToken(); // Number, not used in MCview
+        this.name = str.nextToken(); // Name, not used in MCview
+
         this.resName = str.nextToken();
 
-        String tmpstr = new String();
+        String token1 = str.nextToken();
+
+        String token2 = str.nextToken();
 
-        try {
-            tmpstr = str.nextToken();
+        try{
 
-            this.resNumber = (new Integer(tmpstr).intValue());
-            this.chain = "A";
-            this.color = Color.green;
-        } catch (NumberFormatException e) {
-            this.chain = tmpstr;
+          this.chain = token1;
+          resNumber = Integer.parseInt(token2);
 
-            if (tmpstr.equals("A")) {
-                this.color = new Color((float) Math.random(),
-                        (float) Math.random(), (float) Math.random());
-            } else {
-                this.color = Color.red;
-            }
+          this.x = (float) (new Float(str.nextToken()).floatValue());
+          this.y = (float) (new Float(str.nextToken()).floatValue());
+          this.z = (float) (new Float(str.nextToken()).floatValue());
 
-            this.resNumber = (new Integer(str.nextToken()).intValue());
+        }catch(NumberFormatException ex)
+        {
+          chain = "A";
+          resNumber = Integer.parseInt(token1);
+          this.x = (float) (new Float(token2).floatValue());
+          this.y = (float) (new Float(str.nextToken()).floatValue());
+          this.z = (float) (new Float(str.nextToken()).floatValue());
         }
 
-        this.x = (double) (new Double(str.nextToken()).floatValue());
-        this.y = (double) (new Double(str.nextToken()).floatValue());
-        this.z = (double) (new Double(str.nextToken()).floatValue());
     }
 
     public void setColor(Color col) {