JAL-2136 Introduced DynamicData model, modified AnnotionFile to store Phyre meta...

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

diff --git a/src/jalview/io/JalviewFileChooser.java b/src/jalview/io/JalviewFileChooser.java
index 7ebe081..98cd162 100755 (executable)
--- a/src/jalview/io/JalviewFileChooser.java
+++ b/src/jalview/io/JalviewFileChooser.java
@@ -21,6 +21,7 @@
 //////////////////////////////////////////////////////////////////
 package jalview.io;
 
+import jalview.bin.Cache;
 import jalview.gui.JvOptionPane;
 import jalview.util.MessageManager;
 import jalview.util.Platform;
@@ -33,7 +34,6 @@ import java.awt.event.MouseAdapter;
 import java.awt.event.MouseEvent;
 import java.io.File;
 import java.util.ArrayList;
-import java.util.Collections;
 import java.util.List;
 import java.util.StringTokenizer;
 import java.util.Vector;
@@ -44,7 +44,6 @@ import javax.swing.JList;
 import javax.swing.JPanel;
 import javax.swing.JScrollPane;
 import javax.swing.SpringLayout;
-import javax.swing.filechooser.FileView;
 import javax.swing.plaf.basic.BasicFileChooserUI;
 
 /**
@@ -64,26 +63,23 @@ public class JalviewFileChooser extends JFileChooser
    * 
    * @param directory
    * @param selected
-   * @param selectAll
    * @return
    */
-  public static JalviewFileChooser forRead(String directory,
-          String selected, boolean selectAll)
+  public static JalviewFileChooser forRead(String directory, String selected)
   {
     List<String> extensions = new ArrayList<String>();
     List<String> descs = new ArrayList<String>();
-    for (FileFormatI format : FileFormat.values())
+    for (FileFormatI format : FileFormats.getInstance().getFormats())
     {
       if (format.isReadable())
       {
         extensions.add(format.getExtensions());
-        descs.add(format.toString());
+        descs.add(format.getName());
       }
     }
     return new JalviewFileChooser(directory,
             extensions.toArray(new String[extensions.size()]),
-            descs.toArray(new String[descs.size()]),
-            selected);
+            descs.toArray(new String[descs.size()]), selected, true);
   }
 
   /**
@@ -92,27 +88,26 @@ public class JalviewFileChooser extends JFileChooser
    * 
    * @param directory
    * @param selected
-   * @param selectAll
    * @return
    */
   public static JalviewFileChooser forWrite(String directory,
-          String selected, boolean selectAll)
+          String selected)
   {
     // TODO in Java 8, forRead and forWrite can be a single method
     // with a lambda expression parameter for isReadable/isWritable
     List<String> extensions = new ArrayList<String>();
     List<String> descs = new ArrayList<String>();
-    for (FileFormatI format : FileFormat.values())
+    for (FileFormatI format : FileFormats.getInstance().getFormats())
     {
       if (format.isWritable())
       {
         extensions.add(format.getExtensions());
-        descs.add(format.toString());
+        descs.add(format.getName());
       }
     }
     return new JalviewFileChooser(directory,
             extensions.toArray(new String[extensions.size()]),
-            descs.toArray(new String[descs.size()]), selected);
+            descs.toArray(new String[descs.size()]), selected, false);
   }
 
   public JalviewFileChooser(String dir)
@@ -121,16 +116,26 @@ public class JalviewFileChooser extends JFileChooser
     setAccessory(new RecentlyOpened());
   }
 
-  public JalviewFileChooser(String dir, String extension, String desc,
+  public JalviewFileChooser(String dir, String[] suffix, String[] desc,
           String selected)
   {
-    super(safePath(dir));
-    init(Collections.singletonList(new String[] { extension, desc }),
-            selected);
+    this(dir, suffix, desc, selected, true);
   }
 
-  public JalviewFileChooser(String dir, String[] extensions, String[] descs,
-          String selected)
+  /**
+   * Constructor for a single choice of file extension and description
+   * 
+   * @param extension
+   * @param desc
+   */
+  public JalviewFileChooser(String extension, String desc)
+  {
+    this(Cache.getProperty("LAST_DIRECTORY"), new String[] { extension },
+            new String[] { desc }, desc, true);
+  }
+
+  JalviewFileChooser(String dir, String[] extensions, String[] descs,
+          String selected, boolean allFiles)
   {
     super(safePath(dir));
     if (extensions.length == descs.length)
@@ -140,7 +145,7 @@ public class JalviewFileChooser extends JFileChooser
       {
         formats.add(new String[] { extensions[i], descs[i] });
       }
-      init(formats, selected);
+      init(formats, selected, allFiles);
     }
     else
     {
@@ -169,15 +174,17 @@ public class JalviewFileChooser extends JFileChooser
    * @param formats
    *          a list of {extensions, description} for each file format
    * @param selected
+   * @param allFiles
+   *          if true, 'any format' option is included
    */
-  void init(List<String[]> formats, String selected)
+  void init(List<String[]> formats, String selected, boolean allFiles)
   {
 
     JalviewFileFilter chosen = null;
 
     // SelectAllFilter needs to be set first before adding further
     // file filters to fix bug on Mac OSX
-    setAcceptAllFileFilterUsed(true);
+    setAcceptAllFileFilterUsed(allFiles);
 
     for (String[] format : formats)
     {
@@ -260,7 +267,7 @@ public class JalviewFileChooser extends JFileChooser
       format = format.substring(0, parenPos).trim();
       try
       {
-        return FileFormat.valueOf(format);
+        return FileFormats.getInstance().forName(format);
       } catch (IllegalArgumentException e)
       {
         System.err.println("Unexpected format: " + format);