From: amwaterhouse <Andrew Waterhouse>
Date: Thu, 16 Mar 2006 15:28:30 +0000 (+0000)
Subject: Hide Sequences
X-Git-Tag: Root_VamJalview_2_07b+~44
X-Git-Url: http://source.jalview.org/gitweb/?a=commitdiff_plain;h=3fb85e9272c55b49583d558ca9c44babcf1b3a0b;p=jalview.git

Hide Sequences
---

diff --git a/src/jalview/gui/PopupMenu.java b/src/jalview/gui/PopupMenu.java
index 3114211..ba178ab 100755
--- a/src/jalview/gui/PopupMenu.java
+++ b/src/jalview/gui/PopupMenu.java
@@ -111,28 +111,58 @@ public class PopupMenu extends JPopupMenu
         }
 
 
-        if ((seq != null)
-            && seq.getDatasetSequence().getPDBId() != null)
+        if (seq != null)
         {
-          java.util.Enumeration e = seq.getDatasetSequence().getPDBId().elements();
-          while(e.hasMoreElements())
+          JMenuItem menuItem;
+          if( seq.getDatasetSequence().getPDBId() != null)
           {
-            final PDBEntry pdb = (PDBEntry)e.nextElement();
-
-            JMenuItem pdbMenuItem = new JMenuItem();
-            pdbMenuItem.setText("View PDB entry: "+pdb.getId());
-            pdbMenuItem.addActionListener(new java.awt.event.ActionListener()
+            java.util.Enumeration e = seq.getDatasetSequence().getPDBId().
+                elements();
+            while (e.hasMoreElements())
             {
+              final PDBEntry pdb = (PDBEntry) e.nextElement();
+
+              menuItem = new JMenuItem();
+              menuItem.setText("View PDB entry: " + pdb.getId());
+              menuItem.addActionListener(new java.awt.event.ActionListener()
+              {
                 public void actionPerformed(ActionEvent e)
                 {
                   new PDBViewer(pdb, sequence, ap.seqPanel.seqCanvas);
                 }
+              });
+              sequenceMenu.add(menuItem);
+            }
+          }
+
+          menuItem = new JMenuItem("Hide Sequences");
+          menuItem.addActionListener(new java.awt.event.ActionListener()
+              {
+                public void actionPerformed(ActionEvent e)
+                {
+                  hideSequences(false);
+                }
+              });
+          sequenceMenu.add(menuItem);
+
+          if(ap.av.getSelectionGroup() !=null && ap.av.getSelectionGroup().getSize()>1)
+          {
+            menuItem = new JMenuItem("Represent Group with " + seq.getName());
+            menuItem.addActionListener(new java.awt.event.ActionListener()
+            {
+              public void actionPerformed(ActionEvent e)
+              {
+                hideSequences(true);
+              }
             });
-            sequenceMenu.add(pdbMenuItem);
+            sequenceMenu.add(menuItem);
           }
 
+
         }
 
+
+
         SequenceGroup sg = ap.av.getSelectionGroup();
 
         if (sg != null)
@@ -245,6 +275,7 @@ public class PopupMenu extends JPopupMenu
         }
     }
 
+
     /**
      * DOCUMENT ME!
      *
@@ -928,4 +959,33 @@ public class PopupMenu extends JPopupMenu
         ex.printStackTrace();
       }
     }
+
+    void hideSequences(boolean representGroup)
+    {
+      SequenceGroup sg = ap.av.getSelectionGroup();
+      if(sg==null || sg.getSize()<1)
+      {
+        ap.av.hideSequence(sequence);
+        return;
+      }
+
+        int index = 0;
+        while(index < sg.sequences.size())
+        {
+          if(representGroup && sg.getSequenceAt(index)!=sequence)
+          {
+            sequence.addHiddenSequence(sg.getSequenceAt(index));
+            ap.av.hideSequence(sg.getSequenceAt(index));
+          }
+          else if(!representGroup)
+          {
+            ap.av.hideSequence(sg.getSequenceAt(index));
+          }
+          index ++;
+        }
+
+        ap.av.setSelectionGroup(null);
+        refresh();
+    }
+
 }