From 9a5435d4f6b25c70aa7c10c66f022ccd86eb4de1 Mon Sep 17 00:00:00 2001
From: amwaterhouse <Andrew Waterhouse>
Date: Wed, 8 Mar 2006 16:58:16 +0000
Subject: [PATCH] Can read from zip file

---
 src/MCview/PDBfile.java |   21 ++++++++++++++-------
 1 file changed, 14 insertions(+), 7 deletions(-)

diff --git a/src/MCview/PDBfile.java b/src/MCview/PDBfile.java
index 26f1701..63728ae 100755
--- a/src/MCview/PDBfile.java
+++ b/src/MCview/PDBfile.java
@@ -24,18 +24,18 @@ import java.net.*;
 
 import java.util.*;
 import java.awt.Color;
+import jalview.io.AppletFormatAdapter;
 
 
 public class PDBfile extends jalview.io.FileParse {
     public Vector chains = new Vector();
     Vector lineArray = new Vector();
-    String id;
+    public String id;
 
     public PDBfile(String[] lines) {
         for (int i = 0; i < lines.length; i++)
             lineArray.addElement(lines[i]);
 
-        noLines = lineArray.size();
         parse();
     }
 
@@ -47,16 +47,24 @@ public class PDBfile extends jalview.io.FileParse {
 
         BufferedReader dataIn;
 
-        if (inType.equals("File")) {
+
+        if (inType.equals(AppletFormatAdapter.FILE)) {
             dataIn = new BufferedReader(new FileReader(inFile));
         }
-        else if(inType.equals("Paste"))
+        else if(inType.equals(AppletFormatAdapter.PASTE))
         {
             dataIn = new BufferedReader(new StringReader(inFile));
         }
-        else {
+        else if (inType.equalsIgnoreCase(AppletFormatAdapter.CLASSLOADER))
+        {
+          java.io.InputStream is = getClass().getResourceAsStream("/" +
+              inFile);
+
+          dataIn = new BufferedReader(new java.io.InputStreamReader(is));
+        }
+        else
+        {
             URL url = new URL(inFile);
-            this.fileSize = 0;
             dataIn = new BufferedReader(new InputStreamReader(url.openStream()));
         }
 
@@ -64,7 +72,6 @@ public class PDBfile extends jalview.io.FileParse {
             lineArray.addElement(line);
         }
 
-        noLines = lineArray.size();
 
         parse();
         lineArray = null;
-- 
1.7.10.2