Change the Html export to utilize svg

[jalview.git] / src / jalview / gui / FeatureRenderer.java

diff --git a/src/jalview/gui/FeatureRenderer.java b/src/jalview/gui/FeatureRenderer.java
index c07fdcf..cbdf2ef 100644 (file)
--- a/src/jalview/gui/FeatureRenderer.java
+++ b/src/jalview/gui/FeatureRenderer.java
@@ -1,19 +1,21 @@
 /*
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.8.0b1)
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.8.2)
  * Copyright (C) 2014 The Jalview Authors
  * 
  * This file is part of Jalview.
  * 
  * 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.
+ * 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 Jalview.  If not, see <http://www.gnu.org/licenses/>.
+ * 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.gui;
@@ -82,10 +84,10 @@ public class FeatureRenderer implements jalview.api.FeatureRenderer
   {
     this.ap = ap;
     this.av = ap.av;
-    if (ap != null && ap.seqPanel != null && ap.seqPanel.seqCanvas != null
-            && ap.seqPanel.seqCanvas.fr != null)
+    if (ap != null && ap.getSeqPanel() != null && ap.getSeqPanel().seqCanvas != null
+            && ap.getSeqPanel().seqCanvas.fr != null)
     {
-      transferSettings(ap.seqPanel.seqCanvas.fr);
+      transferSettings(ap.getSeqPanel().seqCanvas.fr);
     }
   }
 
@@ -170,9 +172,12 @@ public class FeatureRenderer implements jalview.api.FeatureRenderer
     this.transparency = fr.transparency;
     this.featureOrder = fr.featureOrder;
   }
+
   /**
    * update from another feature renderer
-   * @param fr settings to copy
+   * 
+   * @param fr
+   *          settings to copy
    */
   public void transferSettings(FeatureRenderer fr)
   {
@@ -935,8 +940,7 @@ public class FeatureRenderer implements jalview.api.FeatureRenderer
         return ((GraduatedColor) fc).getMaxColor();
       }
     }
-    throw new Error("Implementation Error: Unrecognised render object "
-            + fc.getClass() + " for features of type " + featureType);
+    throw new Error(MessageManager.formatMessage("error.implementation_error_unrecognised_render_object_for_features_type", new String[]{fc.getClass().toString(),featureType}));
   }
 
   /**
@@ -960,8 +964,7 @@ public class FeatureRenderer implements jalview.api.FeatureRenderer
         return ((GraduatedColor) fc).findColor(feature);
       }
     }
-    throw new Error("Implementation Error: Unrecognised render object "
-            + fc.getClass() + " for features of type " + feature.getType());
+    throw new Error(MessageManager.formatMessage("error.implementation_error_unrecognised_render_object_for_features_type", new String[]{fc.getClass().toString(),feature.getType()}));
   }
 
   private boolean showFeature(SequenceFeature sequenceFeature)
@@ -1021,7 +1024,7 @@ public class FeatureRenderer implements jalview.api.FeatureRenderer
         if (fcol instanceof Color)
         {
           Color col = JColorChooser.showDialog(Desktop.desktop,
-                  "Select Feature Colour", ((Color) fcol));
+                  MessageManager.getString("label.select_feature_colour"), ((Color) fcol));
           if (col != null)
           {
             fcol = col;
@@ -1092,7 +1095,7 @@ public class FeatureRenderer implements jalview.api.FeatureRenderer
             highlight.addResult(sequences[0], features[index].getBegin(),
                     features[index].getEnd());
 
-            ap.seqPanel.seqCanvas.highlightSearchResults(highlight);
+            ap.getSeqPanel().seqCanvas.highlightSearchResults(highlight);
 
           }
           Object col = getFeatureStyle(name.getText());
@@ -1118,12 +1121,14 @@ public class FeatureRenderer implements jalview.api.FeatureRenderer
 
     tmp = new JPanel();
     panel.add(tmp);
-    tmp.add(new JLabel(MessageManager.getString("label.group")+":", JLabel.RIGHT));
+    tmp.add(new JLabel(MessageManager.getString("label.group") + ":",
+            JLabel.RIGHT));
     tmp.add(source);
 
     tmp = new JPanel();
     panel.add(tmp);
-    tmp.add(new JLabel(MessageManager.getString("label.colour"), JLabel.RIGHT));
+    tmp.add(new JLabel(MessageManager.getString("label.colour"),
+            JLabel.RIGHT));
     tmp.add(colour);
     colour.setPreferredSize(new Dimension(150, 15));
     colour.setFont(new java.awt.Font("Verdana", Font.PLAIN, 9));
@@ -1135,7 +1140,8 @@ public class FeatureRenderer implements jalview.api.FeatureRenderer
     bigPanel.add(panel, BorderLayout.NORTH);
 
     panel = new JPanel();
-    panel.add(new JLabel(MessageManager.getString("label.description"), JLabel.RIGHT));
+    panel.add(new JLabel(MessageManager.getString("label.description"),
+            JLabel.RIGHT));
     description.setFont(JvSwingUtils.getTextAreaFont());
     description.setLineWrap(true);
     panel.add(new JScrollPane(description));
@@ -1145,9 +1151,11 @@ public class FeatureRenderer implements jalview.api.FeatureRenderer
       bigPanel.add(panel, BorderLayout.SOUTH);
 
       panel = new JPanel();
-      panel.add(new JLabel(MessageManager.getString("label.start"), JLabel.RIGHT));
+      panel.add(new JLabel(MessageManager.getString("label.start"),
+              JLabel.RIGHT));
       panel.add(start);
-      panel.add(new JLabel(MessageManager.getString("label.end"), JLabel.RIGHT));
+      panel.add(new JLabel(MessageManager.getString("label.end"),
+              JLabel.RIGHT));
       panel.add(end);
       bigPanel.add(panel, BorderLayout.CENTER);
     }
@@ -1208,12 +1216,12 @@ public class FeatureRenderer implements jalview.api.FeatureRenderer
       { "OK", "Cancel" };
     }
 
-    String title = newFeatures ? "Create New Sequence Feature(s)"
-            : "Amend/Delete Features for " + sequences[0].getName();
+    String title = newFeatures ? MessageManager.getString("label.create_new_sequence_features")
+            : MessageManager.formatMessage("label.amend_delete_features", new String[]{sequences[0].getName()});
 
     int reply = JOptionPane.showInternalOptionDialog(Desktop.desktop,
             bigPanel, title, JOptionPane.YES_NO_CANCEL_OPTION,
-            JOptionPane.QUESTION_MESSAGE, null, options, "OK");
+            JOptionPane.QUESTION_MESSAGE, null, options, MessageManager.getString("action.ok"));
 
     jalview.io.FeaturesFile ffile = new jalview.io.FeaturesFile();