Load pdb file with applet

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

diff --git a/src/jalview/gui/AlignFrame.java b/src/jalview/gui/AlignFrame.java
index 74f081b..575746a 100755 (executable)
--- a/src/jalview/gui/AlignFrame.java
+++ b/src/jalview/gui/AlignFrame.java
@@ -276,7 +276,6 @@ public class AlignFrame
       }\r
 \r
       viewport.showSequenceFeatures = true;\r
-      ((Alignment)viewport.alignment).featuresAdded = true;\r
 \r
       alignPanel.repaint();\r
 \r
@@ -736,7 +735,6 @@ public class AlignFrame
     }\r
 \r
     FastaFile ff = new FastaFile();\r
-    ff.addDBPrefix( viewport.showDBPrefix );\r
     ff.addJVSuffix( viewport.showJVSuffix );\r
     c.setContents(new StringSelection( ff.print(seqs)), this);\r
     Desktop.jalviewClipboard = new Object[]{seqs,  viewport.alignment.getDataset()};\r
@@ -1322,14 +1320,6 @@ public class AlignFrame
     alignPanel.repaint();\r
   }\r
 \r
-  public void seqDBRef_actionPerformed(ActionEvent e)\r
-  {\r
-    viewport.setShowDBPrefix(seqDBRef.isSelected());\r
-\r
-    alignPanel.idPanel.idCanvas.setPreferredSize(alignPanel.calculateIdWidth());\r
-    alignPanel.repaint();\r
-  }\r
-\r
 \r
   /**\r
    * DOCUMENT ME!\r
@@ -1432,7 +1422,7 @@ public class AlignFrame
   {\r
     viewport.showSequenceFeatures(sequenceFeatures.isSelected());\r
 \r
-    if (viewport.showSequenceFeatures &&\r
+  /*  if (viewport.showSequenceFeatures &&\r
         ! ( (Alignment) viewport.alignment.getDataset()).featuresAdded)\r
     {\r
       System.out.println("new fetcher");\r
@@ -1440,7 +1430,7 @@ public class AlignFrame
          alignment,\r
           alignPanel);\r
     }\r
-\r
+*/\r
     featureSettings.setEnabled(true);\r
 \r
     alignPanel.repaint();\r
@@ -1918,7 +1908,7 @@ public class AlignFrame
   {\r
     addHistoryItem(new HistoryItem("ID Sort", viewport.alignment,\r
                                    HistoryItem.SORT));\r
-    AlignmentSorter.sortByID(viewport.getAlignment(), viewport.showDBPrefix);\r
+    AlignmentSorter.sortByID(viewport.getAlignment());\r
     alignPanel.repaint();\r
   }\r
 \r