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Remove edit menu if no group defined
[jalview.git]
/
src
/
jalview
/
gui
/
TreePanel.java
diff --git
a/src/jalview/gui/TreePanel.java
b/src/jalview/gui/TreePanel.java
index
1d197c3
..
1b01606
100755
(executable)
--- a/
src/jalview/gui/TreePanel.java
+++ b/
src/jalview/gui/TreePanel.java
@@
-56,6
+56,7
@@
public class TreePanel extends GTreePanel
int end;
\r
TreeCanvas treeCanvas;
\r
NJTree tree;
\r
int end;
\r
TreeCanvas treeCanvas;
\r
NJTree tree;
\r
+ AlignViewport av;
\r
\r
/**
\r
* Creates a new TreePanel object.
\r
\r
/**
\r
* Creates a new TreePanel object.
\r
@@
-93,6
+94,11
@@
public class TreePanel extends GTreePanel
initTreePanel(av, seqVector, type, pwtype, 0, seqVector.size(), newtree);
\r
}
\r
\r
initTreePanel(av, seqVector, type, pwtype, 0, seqVector.size(), newtree);
\r
}
\r
\r
+ public AlignmentI getAlignment()
\r
+ {
\r
+ return treeCanvas.av.getAlignment();
\r
+ }
\r
+
\r
\r
void initTreePanel(AlignViewport av, Vector seqVector, String type,
\r
String pwtype, int s, int e, NewickFile newTree)
\r
\r
void initTreePanel(AlignViewport av, Vector seqVector, String type,
\r
String pwtype, int s, int e, NewickFile newTree)
\r
@@
-129,6
+135,8
@@
public class TreePanel extends GTreePanel
}
\r
});
\r
\r
}
\r
});
\r
\r
+ this.av = av;
\r
+
\r
\r
TreeLoader tl = new TreeLoader(newTree);
\r
tl.start();
\r
\r
TreeLoader tl = new TreeLoader(newTree);
\r
tl.start();
\r
@@
-164,6
+172,8
@@
public class TreePanel extends GTreePanel
\r
treeCanvas.repaint();
\r
\r
\r
treeCanvas.repaint();
\r
\r
+ av.setCurrentTree(tree);
\r
+
\r
}
\r
}
\r
\r
}
\r
}
\r
\r
@@
-231,7
+241,7
@@
public class TreePanel extends GTreePanel
Desktop.addInternalFrame(cap, buffer.toString(), 500, 100);
\r
\r
jalview.io.NewickFile fout = new jalview.io.NewickFile(tree.getTopNode());
\r
Desktop.addInternalFrame(cap, buffer.toString(), 500, 100);
\r
\r
jalview.io.NewickFile fout = new jalview.io.NewickFile(tree.getTopNode());
\r
- cap.setText(fout.print(false, true));
\r
+ cap.setText(fout.print(tree.isHasBootstrap(), tree.isHasDistances(), tree.isHasRootDistance()));
\r
}
\r
\r
/**
\r
}
\r
\r
/**
\r
@@
-258,7
+268,7
@@
public class TreePanel extends GTreePanel
try
\r
{
\r
jalview.io.NewickFile fout = new jalview.io.NewickFile(tree.getTopNode());
\r
try
\r
{
\r
jalview.io.NewickFile fout = new jalview.io.NewickFile(tree.getTopNode());
\r
- String output = fout.print(false, true); // distances only
\r
+ String output = fout.print(tree.isHasBootstrap(), tree.isHasDistances(), tree.isHasRootDistance());
\r
java.io.PrintWriter out = new java.io.PrintWriter(new java.io.FileWriter(
\r
choice));
\r
out.println(output);
\r
java.io.PrintWriter out = new java.io.PrintWriter(new java.io.FileWriter(
\r
choice));
\r
out.println(output);
\r