X-Git-Url: http://source.jalview.org/gitweb/?a=blobdiff_plain;f=src%2Fjalview%2Fio%2FJalviewFileFilter.java;h=cc63a2240afb19699e753dc897f4218e4ef7af86;hb=c4c37610dc373b9b3349e5c0915c6eddda2efe31;hp=7178aae3eba700417cb71bdb65e24bf9206fc1d4;hpb=506d60f0e188723ddc91c26824b41ac7034df3fe;p=jalview.git

diff --git a/src/jalview/io/JalviewFileFilter.java b/src/jalview/io/JalviewFileFilter.java
index 7178aae..cc63a22 100755
--- a/src/jalview/io/JalviewFileFilter.java
+++ b/src/jalview/io/JalviewFileFilter.java
@@ -1,33 +1,36 @@
 /*
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.4)
- * Copyright (C) 2008 AM Waterhouse, J Procter, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer ($$Version-Rel$$)
+ * Copyright (C) $$Year-Rel$$ The Jalview Authors
  * 
- * This program is free software; you can redistribute it and/or
- * modify it under the terms of the GNU General Public License
- * as published by the Free Software Foundation; either version 2
- * of the License, or (at your option) any later version.
+ * This file is part of Jalview.
  * 
- * This program is distributed in the hope that it will be useful,
- * but WITHOUT ANY WARRANTY; without even the implied warranty of
- * MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE.  See the
- * GNU General Public License for more details.
+ * Jalview is free software: you can redistribute it and/or
+ * modify it under the terms of the GNU General Public License 
+ * as published by the Free Software Foundation, either version 3
+ * of the License, or (at your option) any later version.
+ *  
+ * Jalview is distributed in the hope that it will be useful, but 
+ * WITHOUT ANY WARRANTY; without even the implied warranty 
+ * of MERCHANTABILITY or FITNESS FOR A PARTICULAR 
+ * PURPOSE.  See the GNU General Public License for more details.
  * 
  * You should have received a copy of the GNU General Public License
- * along with this program; if not, write to the Free Software
- * Foundation, Inc., 51 Franklin Street, Fifth Floor, Boston, MA  02110-1301, USA
+ * along with Jalview.  If not, see <http://www.gnu.org/licenses/>.
+ * The Jalview Authors are detailed in the 'AUTHORS' file.
  */
 package jalview.io;
 
-import java.io.*;
-import java.util.*;
+import java.io.File;
+import java.util.Iterator;
+import java.util.LinkedHashMap;
+import java.util.Map;
+import java.util.StringTokenizer;
 
 import javax.swing.filechooser.FileFilter;
 
 public class JalviewFileFilter extends FileFilter
 {
-  public static Hashtable suffixHash = new Hashtable();
-
-  private Hashtable filters = null;
+  private Map<String, JalviewFileFilter> filters = null;
 
   private String description = "no description";
 
@@ -35,6 +38,8 @@ public class JalviewFileFilter extends FileFilter
 
   private boolean useExtensionsInDescription = true;
 
+  private JalviewFileChooser parentJFC = null;
+
   public JalviewFileFilter(String extension, String description)
   {
     StringTokenizer st = new StringTokenizer(extension, ",");
@@ -68,12 +73,14 @@ public class JalviewFileFilter extends FileFilter
 
   public String getAcceptableExtension()
   {
-    return filters.keys().nextElement().toString();
+    return filters.keySet().iterator().next().toString();
   }
 
   // takes account of the fact that database is a directory
+  @Override
   public boolean accept(File f)
   {
+
     if (f != null)
     {
       String extension = getExtension(f);
@@ -83,12 +90,35 @@ public class JalviewFileFilter extends FileFilter
         return true;
       }
 
-      if ((extension != null) && (filters.get(getExtension(f)) != null))
+      if ((extension != null) && (filters.get(extension) != null))
       {
         return true;
       }
+
     }
 
+    if (parentJFC != null && parentJFC.includeBackupFiles)
+    {
+      Iterator<String> it = filters.keySet().iterator();
+      EXTENSION: while (it.hasNext())
+      {
+        String ext = it.next();
+
+        // quick negative test
+        if (!f.getName().contains(ext))
+        {
+          continue EXTENSION;
+        }
+
+        BackupFilenameParts bfp = BackupFilenameParts
+                .currentBackupFilenameParts(f.getName(), ext, true);
+        if (bfp.isBackupFile())
+        {
+          return true;
+        }
+      }
+    }
+    
     return false;
   }
 
@@ -103,8 +133,6 @@ public class JalviewFileFilter extends FileFilter
       {
         return filename.substring(i + 1).toLowerCase();
       }
-
-      ;
     }
 
     return "";
@@ -114,13 +142,14 @@ public class JalviewFileFilter extends FileFilter
   {
     if (filters == null)
     {
-      filters = new Hashtable(5);
+      filters = new LinkedHashMap<>(5);
     }
 
     filters.put(extension.toLowerCase(), this);
     fullDescription = null;
   }
 
+  @Override
   public String getDescription()
   {
     if (fullDescription == null)
@@ -131,15 +160,15 @@ public class JalviewFileFilter extends FileFilter
                 : (description + " (");
 
         // build the description from the extension list
-        Enumeration extensions = filters.keys();
+        Iterator<String> extensions = filters.keySet().iterator();
 
         if (extensions != null)
         {
-          fullDescription += ("." + (String) extensions.nextElement());
+          fullDescription += ("." + extensions.next());
 
-          while (extensions.hasMoreElements())
+          while (extensions.hasNext())
           {
-            fullDescription += (", " + (String) extensions.nextElement());
+            fullDescription += (", " + extensions.next());
           }
         }
 
@@ -170,4 +199,10 @@ public class JalviewFileFilter extends FileFilter
   {
     return useExtensionsInDescription;
   }
+
+  protected void setParentJFC(JalviewFileChooser p)
+  {
+    this.parentJFC = p;
+  }
+
 }