rendergaps(boolean) function added

diff --git a/src/jalview/gui/AlignViewport.java b/src/jalview/gui/AlignViewport.java
index 1324c1e..03e0c5a 100755 (executable)
--- a/src/jalview/gui/AlignViewport.java
+++ b/src/jalview/gui/AlignViewport.java
@@ -14,11 +14,12 @@ public class AlignViewport
   int startSeq;\r
   int endSeq;\r
 \r
-  boolean showScores;\r
-  boolean showText;\r
-  boolean showColourText;\r
-  boolean showBoxes;\r
-  boolean wrapAlignment;\r
+  boolean showScores=false;\r
+  boolean showText=true;\r
+  boolean showColourText=false;\r
+  boolean showBoxes=true;\r
+  boolean wrapAlignment=false;\r
+  boolean renderGaps = false;\r
 \r
   boolean groupEdit    = false;\r
 \r
@@ -105,7 +106,6 @@ public class AlignViewport
   }\r
 \r
   Vector consensus = new Vector();\r
-\r
   public Vector getConsensus(boolean recalculate)\r
   {\r
     if(recalculate || consensus.size()<1)\r
@@ -220,6 +220,16 @@ public class AlignViewport
     showText = state;\r
   }\r
 \r
+  public void setRenderGaps(boolean state){\r
+    renderGaps = state;\r
+    if(renderer instanceof SequenceRenderer)\r
+    {\r
+      SequenceRenderer sr = (SequenceRenderer)renderer;\r
+      sr.renderGaps(state);\r
+    }\r
+  }\r
+\r
+\r
   public boolean getColourText()\r
   {\r
     return showColourText;\r
@@ -254,10 +264,10 @@ public class AlignViewport
   public void setGroupEdit(boolean state) {\r
     groupEdit = state;\r
   }\r
-  public String getGapCharacter() {\r
+  public char getGapCharacter() {\r
     return getAlignment().getGapCharacter();\r
   }\r
-  public void setGapCharacter(String gap) {\r
+  public void setGapCharacter(char gap) {\r
     if (getAlignment() != null) {\r
       getAlignment().setGapCharacter(gap);\r
     }\r