X-Git-Url: http://source.jalview.org/gitweb/?a=blobdiff_plain;f=src%2Fjalview%2Fgui%2FJalview2XML.java;h=300cbd5bf7188b4c899e833bfcb4519884b7d000;hb=77785f8807cd04f7d41e64351b8289f5c543ad1a;hp=84e356469f0a8f604858064f68add50b653f6c1b;hpb=e95068d2d315bc185ba64c986e1d1ebbd11f0cad;p=jalview.git

diff --git a/src/jalview/gui/Jalview2XML.java b/src/jalview/gui/Jalview2XML.java
index 84e3564..300cbd5 100755
--- a/src/jalview/gui/Jalview2XML.java
+++ b/src/jalview/gui/Jalview2XML.java
@@ -824,14 +824,15 @@ public class Jalview2XML
         }
         while (!entry.getName().equals(pdbId));
 
-        DataInputStream in = new DataInputStream(jin);
+        BufferedReader in = new BufferedReader(new InputStreamReader(jin));
         File outFile = File.createTempFile("jalview_pdb", ".txt");
         outFile.deleteOnExit();
-        DataOutputStream out = new DataOutputStream(new FileOutputStream(outFile));
-        int data;
-        while ( (data = in.read()) != -1)
+        PrintWriter out = new PrintWriter(new FileOutputStream(outFile));
+        String data;
+
+        while ( (data = in.readLine()) != null)
         {
-          out.write(data);
+          out.println(data);
         }
         out.close();
         return outFile.getAbsolutePath();