new selection manipulation method

diff --git a/src/jalview/appletgui/AlignViewport.java b/src/jalview/appletgui/AlignViewport.java
index 1b3af30..1147526 100755 (executable)
--- a/src/jalview/appletgui/AlignViewport.java
+++ b/src/jalview/appletgui/AlignViewport.java
@@ -1628,4 +1628,30 @@ public class AlignViewport
   {
     return this.showConsensusHistogram;
   }
+  /**
+   * synthesize a column selection if none exists so it covers the given selection group.
+   * if wholewidth is false,  no column selection is made if the selection group covers the whole alignment width.
+   * @param sg
+   * @param wholewidth 
+   */
+  public void expandColSelection(SequenceGroup sg, boolean wholewidth)
+  {
+    int sgs,sge;
+    if (sg!=null && (sgs=sg.getStartRes())>=0 && sg.getStartRes()<=(sge=sg.getEndRes())&& (colSel==null || colSel.getSelected()==null || colSel.getSelected().size()==0))
+    {
+      if (!wholewidth && alignment.getWidth()==(1+sge-sgs))
+      {
+        // do nothing 
+        return;
+      }
+      if (colSel==null)
+      {
+        colSel = new ColumnSelection();
+      }
+      for (int cspos = sg.getStartRes(); cspos<=sg.getEndRes(); cspos++) {
+        colSel.addElement(cspos);
+      }
+    }    
+  }
+
 }

diff --git a/src/jalview/gui/AlignViewport.java b/src/jalview/gui/AlignViewport.java
index fd1fa7d..f386bf3 100755 (executable)
--- a/src/jalview/gui/AlignViewport.java
+++ b/src/jalview/gui/AlignViewport.java
@@ -2177,5 +2177,29 @@ public class AlignViewport implements SelectionSource
   {
     return this.showConsensusHistogram;
   }
-  
+  /**
+   * synthesize a column selection if none exists so it covers the given selection group.
+   * if wholewidth is false,  no column selection is made if the selection group covers the whole alignment width.
+   * @param sg
+   * @param wholewidth 
+   */
+  public void expandColSelection(SequenceGroup sg, boolean wholewidth)
+  {
+    int sgs,sge;
+    if (sg!=null && (sgs=sg.getStartRes())>=0 && sg.getStartRes()<=(sge=sg.getEndRes())&& (colSel==null || colSel.getSelected()==null || colSel.getSelected().size()==0))
+    {
+      if (!wholewidth && alignment.getWidth()==(1+sge-sgs))
+      {
+        // do nothing 
+        return;
+      }
+      if (colSel==null)
+      {
+        colSel = new ColumnSelection();
+      }
+      for (int cspos = sg.getStartRes(); cspos<=sg.getEndRes(); cspos++) {
+        colSel.addElement(cspos);
+      }
+    }    
+  }
 }