From: James Procter <j.procter@dundee.ac.uk>
Date: Fri, 26 May 2023 14:11:28 +0000 (+0100)
Subject: JAL-4134 internationalise popup menu entries and show a ‘tree calculation in progress... 
X-Git-Tag: Release_2_11_3_0~14^2~3^2^2~7
X-Git-Url: http://source.jalview.org/gitweb/?a=commitdiff_plain;h=b25d6f028eaea9c382500355b5d118cd40799a8e;p=jalview.git

JAL-4134 internationalise popup menu entries and show a ‘tree calculation in progress’ progress bar in align panel.
---

diff --git a/resources/lang/Messages.properties b/resources/lang/Messages.properties
index d20f63c..4200a46 100644
--- a/resources/lang/Messages.properties
+++ b/resources/lang/Messages.properties
@@ -1452,4 +1452,12 @@ label.choose_tempfac_type = Choose Temperature Factor type
 label.interpret_tempfac_as = Interpret Temperature Factor as
 label.add_pae_matrix_file = Add PAE matrix file
 label.nothing_selected = Nothing selected
-label.working_ellipsis = Working ... 
\ No newline at end of file
+label.working_ellipsis = Working ... 
+action.show_groups_on_matrix = Show groups on matrix
+action.show_groups_on_matrix_tooltip = When enabled, clusters defined on the matrix's associated tree or below the assigned threshold are shown as different colours on the matrix annotation row
+action.show_tree_for_matrix = Show tree for matrix
+action.show_tree_for_matrix_tooltip = Opens a tree viewer to display the average distance tree for the matrix
+action.cluster_matrix = Cluster matrix
+action.clustering_matrix_for = Calculating tree for matrix {0} and clustering at {1}
+action.cluster_matrix_tooltip = Computes an average distance tree for the matrix and displays it
+
diff --git a/src/jalview/gui/AnnotationLabels.java b/src/jalview/gui/AnnotationLabels.java
index 4148998..6b82a37 100755
--- a/src/jalview/gui/AnnotationLabels.java
+++ b/src/jalview/gui/AnnotationLabels.java
@@ -485,7 +485,8 @@ public class AnnotationLabels extends JPanel
 
       if (cm.hasGroups())
       {
-        JCheckBoxMenuItem chitem = new JCheckBoxMenuItem("Show Groups on Matrix");
+        JCheckBoxMenuItem chitem = new JCheckBoxMenuItem(MessageManager.getString("action.show_groups_on_matrix"));
+        chitem.setToolTipText(MessageManager.getString("action.show_groups_on_matrix_tooltip"));
         boolean showGroups = alignmentAnnotation.isShowGroupsForContactMatrix();
         final AlignmentAnnotation sel_row=alignmentAnnotation;
         chitem.setState(showGroups);
@@ -504,7 +505,8 @@ public class AnnotationLabels extends JPanel
       }
       if (cm.hasTree())
       {
-        item = new JMenuItem("Show Tree for Matrix");
+        item = new JMenuItem(MessageManager.getString("action.show_tree_for_matrix"));
+        item.setToolTipText(MessageManager.getString("action.show_tree_for_matrix_tooltip"));
         item.addActionListener(new ActionListener()
         {
 
@@ -520,10 +522,10 @@ public class AnnotationLabels extends JPanel
       }
       else
       {
-        item = new JMenuItem("Calculate Tree for Matrix");
+        item = new JMenuItem(MessageManager.getString("action.cluster_matrix"));
+        item.setToolTipText(MessageManager.getString("action.cluster_matrix_tooltip"));
         item.addActionListener(new ActionListener()
         {
-          // TODO - refactor to analysis background thread
           @Override
           public void actionPerformed(ActionEvent e)
           {
@@ -532,9 +534,11 @@ public class AnnotationLabels extends JPanel
               @Override
               public void run()
               {
-                AlignmentAnnotation alan = alignmentAnnotation;
+                final long progBar;
+                ap.alignFrame.setProgressBar(MessageManager.formatMessage("action.clustering_matrix_for",cm.getAnnotDescr(),5f), progBar = System.currentTimeMillis());
                 cm.setGroupSet(GroupSet.makeGroups(cm, 5f, true));
-                ap.alignFrame.showContactMapTree(alan, cm);
+                ap.alignFrame.showContactMapTree(alignmentAnnotation, cm);
+                ap.alignFrame.setProgressBar(null, progBar);
               }
             }).start();
           }