Merge branch 'develop' into trialMerge

[jalview.git] / src / jalview / io / FileLoader.java

diff --git a/src/jalview/io/FileLoader.java b/src/jalview/io/FileLoader.java
index bbc753b..3ad74c7 100755 (executable)
--- a/src/jalview/io/FileLoader.java
+++ b/src/jalview/io/FileLoader.java
@@ -34,6 +34,7 @@ import jalview.gui.AlignFrame;
 import jalview.gui.AlignViewport;
 import jalview.gui.Desktop;
 import jalview.gui.Jalview2XML;
+import jalview.gui.JvOptionPane;
 import jalview.json.binding.biojson.v1.ColourSchemeMapper;
 import jalview.schemes.ColourSchemeI;
 import jalview.structure.StructureSelectionManager;
@@ -42,7 +43,6 @@ import jalview.util.MessageManager;
 import java.util.StringTokenizer;
 import java.util.Vector;
 
-import javax.swing.JOptionPane;
 import javax.swing.SwingUtilities;
 
 public class FileLoader implements Runnable
@@ -258,10 +258,8 @@ public class FileLoader implements Runnable
         // just in case the caller didn't identify the file for us
         if (source != null)
         {
-          format = new IdentifyFile().identify(source, false); // identify
-          // stream and
-          // rewind rather
-          // than close
+          format = new IdentifyFile().identify(source, false);
+          // identify stream and rewind rather than close
         }
         else
         {
@@ -277,13 +275,13 @@ public class FileLoader implements Runnable
                 + "\" has null or unidentifiable data content!");
         if (!Jalview.isHeadlessMode())
         {
-          javax.swing.JOptionPane.showInternalMessageDialog(
+          JvOptionPane.showInternalMessageDialog(
                   Desktop.desktop,
                   MessageManager.getString("label.couldnt_read_data")
                           + " in " + file + "\n"
                           + AppletFormatAdapter.SUPPORTED_FORMATS,
                   MessageManager.getString("label.couldnt_read_data"),
-                  JOptionPane.WARNING_MESSAGE);
+                  JvOptionPane.WARNING_MESSAGE);
         }
         return;
       }
@@ -300,7 +298,7 @@ public class FileLoader implements Runnable
       loadtime = -System.currentTimeMillis();
       AlignmentI al = null;
 
-      if (format == FileFormat.Jalview)
+      if (FileFormat.Jalview.equals(format))
       {
         if (source != null)
         {
@@ -319,7 +317,7 @@ public class FileLoader implements Runnable
             if (source != null)
             {
               // read from the provided source
-              al = new FormatAdapter().readFromFile(source, format);
+            al = new FormatAdapter().readFromFile(source, format);
             }
             else
             {
@@ -457,10 +455,10 @@ public class FileLoader implements Runnable
               @Override
               public void run()
               {
-                JOptionPane.showInternalMessageDialog(Desktop.desktop,
+                JvOptionPane.showInternalMessageDialog(Desktop.desktop,
                         errorMessage, MessageManager
                                 .getString("label.error_loading_file"),
-                        JOptionPane.WARNING_MESSAGE);
+                        JvOptionPane.WARNING_MESSAGE);
               }
             });
           }
@@ -484,12 +482,12 @@ public class FileLoader implements Runnable
           @Override
           public void run()
           {
-            javax.swing.JOptionPane.showInternalMessageDialog(
+            JvOptionPane.showInternalMessageDialog(
                     Desktop.desktop, MessageManager.formatMessage(
                             "label.problems_opening_file",
                             new String[] { file }), MessageManager
                             .getString("label.file_open_error"),
-                    javax.swing.JOptionPane.WARNING_MESSAGE);
+                    JvOptionPane.WARNING_MESSAGE);
           }
         });
       }
@@ -506,12 +504,12 @@ public class FileLoader implements Runnable
           @Override
           public void run()
           {
-            javax.swing.JOptionPane.showInternalMessageDialog(
+            JvOptionPane.showInternalMessageDialog(
                     Desktop.desktop, MessageManager.formatMessage(
                             "warn.out_of_memory_loading_file", new String[]
                             { file }), MessageManager
                             .getString("label.out_of_memory"),
-                    javax.swing.JOptionPane.WARNING_MESSAGE);
+                    JvOptionPane.WARNING_MESSAGE);
           }
         });
       }