JAL-1553 added help documentation and updated AnnotationColumnChooser to exclude...

[jalview.git] / src / jalview / appletgui / AnnotationColumnChooser.java

diff --git a/src/jalview/appletgui/AnnotationColumnChooser.java b/src/jalview/appletgui/AnnotationColumnChooser.java
index 496d4a4..e25ff8f 100644 (file)
--- a/src/jalview/appletgui/AnnotationColumnChooser.java
+++ b/src/jalview/appletgui/AnnotationColumnChooser.java
@@ -30,7 +30,9 @@ import java.awt.event.TextListener;
 import java.util.Iterator;
 import java.util.Vector;
 
-import net.miginfocom.swing.MigLayout;
+import javax.swing.JPanel;
+
+//import net.miginfocom.swing.MigLayout;
 
 public class AnnotationColumnChooser extends AnnotationRowFilter implements
         ActionListener, AdjustmentListener, ItemListener, MouseListener
@@ -55,6 +57,10 @@ public class AnnotationColumnChooser extends AnnotationRowFilter implements
 
   private BorderLayout borderLayout1 = new BorderLayout();
 
+  private BorderLayout gBorderLayout = new BorderLayout();
+
+  private BorderLayout ngBorderLayout = new BorderLayout();
+
   private Choice threshold = new Choice();
 
   private StructureFilterPanel gStructureFilterPanel;
@@ -187,15 +193,15 @@ public class AnnotationColumnChooser extends AnnotationRowFilter implements
 
     thresholdPanel.setBackground(Color.white);
     thresholdPanel.setFont(JvSwingUtils.getLabelFont());
-    thresholdPanel.setLayout(new MigLayout("", "[left][right]", "[][]"));
+    // thresholdPanel.setLayout(new MigLayout("", "[left][right]", "[][]"));
 
     actionPanel.setBackground(Color.white);
     actionPanel.setFont(JvSwingUtils.getLabelFont());
 
-    graphFilterView.setLayout(new MigLayout("", "[left][right]", "[][]"));
+    graphFilterView.setLayout(gBorderLayout);
     graphFilterView.setBackground(Color.white);
 
-    noGraphFilterView.setLayout(new MigLayout("", "[left][right]", "[][]"));
+    noGraphFilterView.setLayout(ngBorderLayout);
     noGraphFilterView.setBackground(Color.white);
 
     annotationComboBoxPanel.setBackground(Color.white);
@@ -209,21 +215,29 @@ public class AnnotationColumnChooser extends AnnotationRowFilter implements
     ngStructureFilterPanel = new StructureFilterPanel(this);
 
     thresholdPanel.setTitle("Threshold Filter");
-    thresholdPanel.add(getThreshold(), "grow");
-    thresholdPanel.add(thresholdValue, "grow, wrap");
-    thresholdPanel.add(slider, "grow, span, wrap");
+    thresholdPanel.add(getThreshold());
+    thresholdPanel.add(slider);
+    thresholdPanel.add(thresholdValue);
 
     actionPanel.add(ok);
     actionPanel.add(cancel);
 
-    graphFilterView.add(gSearchPanel, "grow, span, wrap");
-    graphFilterView.add(gStructureFilterPanel, "grow, span, wrap");
-    graphFilterView.add(thresholdPanel, "grow, span, wrap");
-    graphFilterView.add(gFurtherActionPanel);
+    JPanel staticPanel = new JPanel();
+    staticPanel.setLayout(new BorderLayout());
+    staticPanel.setBackground(Color.white);
+
+    staticPanel.add(gSearchPanel, java.awt.BorderLayout.NORTH);
+    staticPanel.add(gStructureFilterPanel, java.awt.BorderLayout.SOUTH);
+
+    graphFilterView.add(staticPanel, java.awt.BorderLayout.NORTH);
+    graphFilterView.add(thresholdPanel, java.awt.BorderLayout.CENTER);
+    graphFilterView.add(gFurtherActionPanel, java.awt.BorderLayout.SOUTH);
 
-    noGraphFilterView.add(ngSearchPanel, "grow, span, wrap");
-    noGraphFilterView.add(ngStructureFilterPanel, "grow, span, wrap");
-    noGraphFilterView.add(ngFurtherActionPanel);
+    noGraphFilterView.add(ngSearchPanel, java.awt.BorderLayout.PAGE_START);
+    noGraphFilterView.add(ngStructureFilterPanel,
+            java.awt.BorderLayout.CENTER);
+    noGraphFilterView.add(ngFurtherActionPanel,
+            java.awt.BorderLayout.CENTER);
 
     annotationComboBoxPanel.add(getAnnotations());
     switchableViewsPanel.add(noGraphFilterView,