X-Git-Url: http://source.jalview.org/gitweb/?a=blobdiff_plain;f=src%2Fjalview%2Fappletgui%2FSliderPanel.java;h=1bd5fd871da16653e7b36a9c53fe3f8b10d9236a;hb=854fa199e6dd89266237dc803ddc88bf7ba5bdcc;hp=a05bbf0d9e2859472801a07d0ecef8a3d60bc432;hpb=506d60f0e188723ddc91c26824b41ac7034df3fe;p=jalview.git

diff --git a/src/jalview/appletgui/SliderPanel.java b/src/jalview/appletgui/SliderPanel.java
old mode 100755
new mode 100644
index a05bbf0..1bd5fd8
--- a/src/jalview/appletgui/SliderPanel.java
+++ b/src/jalview/appletgui/SliderPanel.java
@@ -1,20 +1,20 @@
 /*
- * 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 2.8.0b1)
+ * Copyright (C) 2014 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
+ * You should have received a copy of the GNU General Public License along with Jalview.  If not, see <http://www.gnu.org/licenses/>.
+ * The Jalview Authors are detailed in the 'AUTHORS' file.
  */
 package jalview.appletgui;
 
@@ -25,6 +25,7 @@ import java.awt.event.*;
 
 import jalview.datamodel.*;
 import jalview.schemes.*;
+import jalview.util.MessageManager;
 
 public class SliderPanel extends Panel implements ActionListener,
         AdjustmentListener, MouseListener
@@ -58,7 +59,7 @@ public class SliderPanel extends Panel implements ActionListener,
 
     conservationSlider.setTitle("Conservation Colour Increment  (" + source
             + ")");
-    if (ap.av.alignment.getGroups() != null)
+    if (ap.av.getAlignment().getGroups() != null)
     {
       sp.setAllGroupsCheckEnabled(true);
     }
@@ -113,7 +114,7 @@ public class SliderPanel extends Panel implements ActionListener,
     }
     PIDSlider.setTitle("Percentage Identity Threshold (" + source + ")");
 
-    if (ap.av.alignment.getGroups() != null)
+    if (ap.av.getAlignment().getGroups() != null)
     {
       pid.setAllGroupsCheckEnabled(true);
     }
@@ -168,14 +169,14 @@ public class SliderPanel extends Panel implements ActionListener,
     applyButton.setVisible(false);
     if (forConservation)
     {
-      label.setText("Modify conservation visibility");
+      label.setText(MessageManager.getString("label.modify_conservation_visibility"));
       slider.setMinimum(0);
       slider.setMaximum(50 + slider.getVisibleAmount());
       slider.setUnitIncrement(1);
     }
     else
     {
-      label.setText("Colour residues above % occurence");
+      label.setText(MessageManager.getString("label.colour_residues_above_occurence"));
       slider.setMinimum(0);
       slider.setMaximum(100 + slider.getVisibleAmount());
       slider.setBlockIncrement(1);
@@ -195,27 +196,16 @@ public class SliderPanel extends Panel implements ActionListener,
       return;
     }
 
-    ColourSchemeI toChange = null;
-    Vector allGroups = null;
-    int groupIndex = 0;
+    ColourSchemeI toChange = cs;
+    Iterator<SequenceGroup> allGroups = null;
 
     if (allGroupsCheck.getState())
     {
-      allGroups = ap.av.alignment.getGroups();
-      groupIndex = allGroups.size() - 1;
-    }
-    else
-    {
-      toChange = cs;
+      allGroups = ap.av.getAlignment().getGroups().listIterator();
     }
 
-    while (groupIndex > -1)
+    while (toChange != null)
     {
-      if (allGroups != null)
-      {
-        toChange = ((SequenceGroup) allGroups.elementAt(groupIndex)).cs;
-      }
-
       if (forConservation)
       {
         toChange.setConservationInc(i);
@@ -224,8 +214,16 @@ public class SliderPanel extends Panel implements ActionListener,
       {
         toChange.setThreshold(i, ap.av.getIgnoreGapsConsensus());
       }
-
-      groupIndex--;
+      if (allGroups != null && allGroups.hasNext())
+      {
+        while ((toChange = allGroups.next().cs) == null
+                && allGroups.hasNext())
+          ;
+      }
+      else
+      {
+        toChange = null;
+      }
     }
 
     ap.seqPanel.seqCanvas.repaint();
@@ -317,23 +315,24 @@ public class SliderPanel extends Panel implements ActionListener,
     slider.setFont(new java.awt.Font("Verdana", 0, 11));
     slider.setOrientation(0);
     valueField.setFont(new java.awt.Font("Verdana", 0, 11));
-    valueField.setText("      ");
-    valueField.addActionListener(this);
+    valueField.setText("   ");
+    valueField.addActionListener(this); 
+    valueField.setColumns(3);
     label.setFont(new java.awt.Font("Verdana", 0, 11));
-    label.setText("set this label text");
+    label.setText(MessageManager.getString("label.set_this_label_text"));
     jPanel1.setLayout(borderLayout1);
     jPanel2.setLayout(flowLayout1);
     applyButton.setFont(new java.awt.Font("Verdana", 0, 11));
-    applyButton.setLabel("Apply");
+    applyButton.setLabel(MessageManager.getString("action.apply"));
     applyButton.addActionListener(this);
     undoButton.setEnabled(false);
     undoButton.setFont(new java.awt.Font("Verdana", 0, 11));
-    undoButton.setLabel("Undo");
+    undoButton.setLabel(MessageManager.getString("action.undo"));
     undoButton.addActionListener(this);
     allGroupsCheck.setEnabled(false);
     allGroupsCheck.setFont(new java.awt.Font("Verdana", 0, 11));
-    allGroupsCheck.setLabel("Apply threshold to all groups");
-    allGroupsCheck.setName("Apply to all Groups");
+    allGroupsCheck.setLabel(MessageManager.getString("action.apply_threshold_all_groups"));
+    allGroupsCheck.setName(MessageManager.getString("action.apply_all_groups"));
     this.setBackground(Color.white);
     this.setForeground(Color.black);
     jPanel2.add(label, null);