Update overview if features updated

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

diff --git a/src/jalview/gui/AlignViewport.java b/src/jalview/gui/AlignViewport.java
index 7f86753..088d427 100755 (executable)
--- a/src/jalview/gui/AlignViewport.java
+++ b/src/jalview/gui/AlignViewport.java
@@ -88,6 +88,8 @@ public class AlignViewport
 \r
     boolean isDataset = false;\r
 \r
+    boolean antiAlias = false;\r
+\r
 \r
     public AlignViewport(AlignmentI al, boolean dataset)\r
     {\r
@@ -113,6 +115,8 @@ public class AlignViewport
         this.startSeq = 0;\r
         this.endSeq = alignment.getHeight() - 1;\r
 \r
+      antiAlias = Cache.getDefault("ANTI_ALIAS", false);\r
+\r
       showJVSuffix = Cache.getDefault("SHOW_JVSUFFIX", true);\r
       showAnnotation = Cache.getDefault("SHOW_ANNOTATIONS", true);\r
       showConservation = Cache.getDefault("SHOW_CONSERVATION", true);\r
@@ -264,7 +268,7 @@ public class AlignViewport
                                                  ConsPercGaps + "% gaps",\r
                                                  annotations, 0f, // cons.qualityRange[0].floatValue(),\r
                                                  11f, // cons.qualityRange[1].floatValue()\r
-                                                 1);\r
+                                                 AlignmentAnnotation.BAR_GRAPH);\r
 \r
           if (showConservation)\r
           {\r
@@ -276,7 +280,7 @@ public class AlignViewport
                                             qannotations,\r
                                             cons.qualityRange[0].floatValue(),\r
                                             cons.qualityRange[1].floatValue(),\r
-                                            1);\r
+                                            AlignmentAnnotation.BAR_GRAPH);\r
 \r
           if (showQuality)\r
           {\r
@@ -360,7 +364,7 @@ public class AlignViewport
         if (consensus == null)\r
         {\r
           consensus = new AlignmentAnnotation("Consensus", "PID",\r
-                                              annotations, 0f, 100f, 1);\r
+                                              annotations, 0f, 100f,AlignmentAnnotation.BAR_GRAPH);\r
 \r
           if (showIdentity)\r
           {\r