basic VamsasSession gui bits.

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

diff --git a/src/jalview/gui/AnnotationLabels.java b/src/jalview/gui/AnnotationLabels.java
index 7418e48..bffa89a 100755 (executable)
--- a/src/jalview/gui/AnnotationLabels.java
+++ b/src/jalview/gui/AnnotationLabels.java
@@ -128,10 +128,12 @@ public class AnnotationLabels extends JPanel implements MouseListener,
                 label = "";\r
             }\r
 \r
-            ap.av.alignment.addAnnotation(new AlignmentAnnotation(label,\r
+            AlignmentAnnotation newAnnotation = new AlignmentAnnotation(label,\r
                     "New description",\r
-                    new Annotation[ap.av.alignment.getWidth()]));\r
+                    new Annotation[ap.av.alignment.getWidth()]);\r
 \r
+            ap.av.alignment.addAnnotation(newAnnotation);\r
+            ap.av.alignment.setAnnotationIndex(newAnnotation, 0);\r
             dif = aa[aa.length - 1].height;\r
         }\r
         else if (evt.getActionCommand().equals(HIDE))\r
@@ -447,7 +449,7 @@ public class AnnotationLabels extends JPanel implements MouseListener,
 \r
                 if (aa[i].graph>0)\r
                 {\r
-                  if (aa[i].graphLines != null)\r
+                /*  if (aa[i].graphLines != null)\r
                   {\r
                     for (int gl = 0; gl < aa[i].graphLines.size(); gl++)\r
                     {\r
@@ -468,7 +470,7 @@ public class AnnotationLabels extends JPanel implements MouseListener,
                                  graphExtras);\r
                       g2.setStroke(new BasicStroke());\r
                     }\r
-                  }\r
+                  }*/\r
                     y += ((2 * aa[i].height) / 3);\r
                 }\r
                 else\r