Corrected hidden row feature render bug

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

diff --git a/src/jalview/gui/TreeCanvas.java b/src/jalview/gui/TreeCanvas.java
index 9524544..1628f58 100755 (executable)
--- a/src/jalview/gui/TreeCanvas.java
+++ b/src/jalview/gui/TreeCanvas.java
@@ -195,7 +195,7 @@ public class TreeCanvas extends JPanel implements MouseListener, Runnable,
 \r
             if (showDistances && (node.dist > 0))\r
             {\r
-                nodeLabel = new Format("%5.2f").form(node.dist).trim();\r
+                nodeLabel = new Format("%-.2f").form(node.dist);\r
             }\r
 \r
             if (showBootstrap)\r
@@ -228,7 +228,7 @@ public class TreeCanvas extends JPanel implements MouseListener, Runnable,
             SequenceGroup selected = av.getSelectionGroup();\r
 \r
             if ((selected != null) &&\r
-                    selected.sequences.contains((SequenceI) node.element()))\r
+                    selected.getSequences(false).contains((SequenceI) node.element()))\r
             {\r
                 g.setColor(Color.gray);\r
 \r
@@ -273,7 +273,7 @@ public class TreeCanvas extends JPanel implements MouseListener, Runnable,
 \r
             if (showDistances && (node.dist > 0))\r
             {\r
-                g.drawString(new Format("%5.2f").form(node.dist).trim(), xstart+2,\r
+                g.drawString(new Format("%-.2f").form(node.dist).trim(), xstart+2,\r
                     ypos - 2);\r
             }\r
         }\r
@@ -751,14 +751,15 @@ public class TreeCanvas extends JPanel implements MouseListener, Runnable,
 \r
                     SequenceGroup sg = new SequenceGroup(sequences,\r
                             "TreeGroup", cs, true, true, false, 0,\r
-                            av.alignment.getWidth());\r
+                            av.alignment.getWidth()-1);\r
 \r
 \r
                     if (  av.getGlobalColourScheme()!=null\r
                        && av.getGlobalColourScheme().conservationApplied())\r
                     {\r
                         Conservation c = new Conservation("Group",\r
-                                ResidueProperties.propHash, 3, sg.sequences,\r
+                                ResidueProperties.propHash, 3,\r
+                                sg.getSequences(false),\r
                                 sg.getStartRes(), sg.getEndRes());\r
 \r
                         c.calculate();\r