X-Git-Url: http://source.jalview.org/gitweb/?a=blobdiff_plain;f=src%2Fjalview%2Fio%2FFileLoader.java;h=216971542c859ce6ddbb537753f21827442b604f;hb=afffa24481a7d3cb65ae41e0948c16a5f490f302;hp=390e8cd3360f9dee5856d82c0e53a1472a8104d5;hpb=fab0afc9e1e7a5ca460f0cbd48545536f989a435;p=jalview.git

diff --git a/src/jalview/io/FileLoader.java b/src/jalview/io/FileLoader.java
index 390e8cd..2169715 100755
--- a/src/jalview/io/FileLoader.java
+++ b/src/jalview/io/FileLoader.java
@@ -39,6 +39,7 @@ import jalview.project.Jalview2XML;
 import jalview.schemes.ColourSchemeI;
 import jalview.structure.StructureSelectionManager;
 import jalview.util.MessageManager;
+import jalview.util.Platform;
 import jalview.ws.utils.UrlDownloadClient;
 
 import java.io.BufferedReader;
@@ -47,7 +48,6 @@ import java.io.File;
 import java.io.FileNotFoundException;
 import java.io.FileReader;
 import java.io.IOException;
-import java.io.InputStream;
 import java.io.InputStreamReader;
 import java.util.StringTokenizer;
 import java.util.Vector;
@@ -338,7 +338,8 @@ public class FileLoader implements Runnable
                   "IMPLEMENTATION ERROR: Cannot read consecutive Jalview XML projects from a stream.");
           // We read the data anyway - it might make sense.
         }
-        alignFrame = new Jalview2XML(raiseGUI).loadJalviewAlign(file);
+        // BH 2018 switch to File object here instead of filename
+        alignFrame = new Jalview2XML(raiseGUI).loadJalviewAlign(selectedFile == null ? file : selectedFile);
       }
       else
       {
@@ -648,11 +649,14 @@ public class FileLoader implements Runnable
   @SuppressWarnings("unused")
   public static BufferedReader getBuffereReader(Object file) throws FileNotFoundException {
     if (file instanceof String)
+    {
       return new BufferedReader(new FileReader((String) file));
-    
-    byte[] bytes = /** @j2sNative file._bytes || */ null;
+    }
+    byte[] bytes = Platform.getFileBytes((File) file);
     if (bytes != null)
+    {
       return new BufferedReader(new InputStreamReader(new ByteArrayInputStream(bytes)));
+    }
     return  new BufferedReader(new FileReader((File) file));
   }