X-Git-Url: http://source.jalview.org/gitweb/?a=blobdiff_plain;f=src%2Fjalview%2Fjbgui%2FGStructureChooser.java;h=fc035b663aa44625e27cb6421f937817c761e60a;hb=e5b2fbdb4ecc9faaadcc3e18fabad8794fca44aa;hp=7224b78110c318326ec4383a7a160abd0e1f0336;hpb=0ae0771700df811f421f8548e40dae2cd11cfae0;p=jalview.git

diff --git a/src/jalview/jbgui/GStructureChooser.java b/src/jalview/jbgui/GStructureChooser.java
index 7224b78..fc035b6 100644
--- a/src/jalview/jbgui/GStructureChooser.java
+++ b/src/jalview/jbgui/GStructureChooser.java
@@ -1,18 +1,41 @@
+/*
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.8.2)
+ * Copyright (C) 2014 The Jalview Authors
+ * 
+ * This file is part of Jalview.
+ * 
+ * Jalview is free software: you can redistribute it and/or
+ * modify it under the terms of the GNU General Public License 
+ * as published by the Free Software Foundation, either version 3
+ * of the License, or (at your option) any later version.
+ *  
+ * Jalview is distributed in the hope that it will be useful, but 
+ * WITHOUT ANY WARRANTY; without even the implied warranty 
+ * of MERCHANTABILITY or FITNESS FOR A PARTICULAR 
+ * PURPOSE.  See the GNU General Public License for more details.
+ * 
+ * You should have received a copy of the GNU General Public License
+ * along with Jalview.  If not, see <http://www.gnu.org/licenses/>.
+ * The Jalview Authors are detailed in the 'AUTHORS' file.
+ */
+
 package jalview.jbgui;
 
+import jalview.datamodel.SequenceI;
 import jalview.gui.AlignmentPanel;
 import jalview.gui.Desktop;
+import jalview.jbgui.PDBDocFieldPreferences.PreferenceSource;
 import jalview.util.MessageManager;
-import jalview.ws.uimodel.PDBSearchResponse.PDBResponseSummary;
 
 import java.awt.BorderLayout;
 import java.awt.CardLayout;
 import java.awt.Dimension;
 import java.awt.FlowLayout;
-import java.awt.Image;
 import java.awt.event.ActionEvent;
 import java.awt.event.ItemEvent;
 import java.awt.event.ItemListener;
+import java.awt.event.MouseAdapter;
+import java.awt.event.MouseEvent;
 
 import javax.swing.ImageIcon;
 import javax.swing.JButton;
@@ -21,64 +44,91 @@ import javax.swing.JComboBox;
 import javax.swing.JFrame;
 import javax.swing.JInternalFrame;
 import javax.swing.JLabel;
-import javax.swing.JList;
 import javax.swing.JPanel;
 import javax.swing.JScrollPane;
+import javax.swing.JTabbedPane;
 import javax.swing.JTable;
 import javax.swing.JTextField;
-import javax.swing.ListSelectionModel;
+import javax.swing.event.ChangeEvent;
+import javax.swing.event.ChangeListener;
+import javax.swing.event.DocumentEvent;
+import javax.swing.event.DocumentListener;
 
 @SuppressWarnings("serial")
+/**
+ * GUI layout for structure chooser 
+ * @author tcnofoegbu
+ *
+ */
 public abstract class GStructureChooser extends JPanel implements
         ItemListener
 {
-  protected String frameTitle = "Structure Chooser";
+  protected String frameTitle = MessageManager
+          .getString("label.structure_chooser");
 
   protected JInternalFrame mainFrame = new JInternalFrame(frameTitle);
 
-
-
-  protected JComboBox<FilterOptions> filterOptionsComboBox = new JComboBox<FilterOptions>();
+  protected JComboBox<FilterOption> cmb_filterOption = new JComboBox<FilterOption>();
 
   protected AlignmentPanel ap;
 
-  protected JLabel resultLabel = new JLabel("Select : ");
+  protected JLabel lbl_result = new JLabel(
+          MessageManager.getString("label.select"));
 
-  protected JButton ok = new JButton();
+  protected JButton btn_view = new JButton();
 
-  protected JButton cancel = new JButton();
+  protected JButton btn_cancel = new JButton();
 
-  protected JButton pdbFromFile = new JButton();
+  protected JButton btn_pdbFromFile = new JButton();
 
-  protected JTextField search = new JTextField(16);
+  protected JTextField txt_search = new JTextField(14);
 
-  protected JPanel actionPanel = new JPanel();
+  private JPanel pnl_actions = new JPanel();
 
-  protected JPanel filterPanel = new JPanel();
+  private JPanel pnl_main = new JPanel();
 
-  protected JPanel idInputPanel = new JPanel();
+  private JPanel pnl_idInput = new JPanel(new FlowLayout());
 
-  protected JPanel fileChooserPanel = new JPanel();
+  private JPanel pnl_fileChooser = new JPanel(new FlowLayout());
 
-  protected JPanel switchableViewsPanel = new JPanel(new CardLayout());
+  private JPanel pnl_idInputBL = new JPanel(new BorderLayout());
 
-  protected CardLayout switchableViewsLayout = (CardLayout) (switchableViewsPanel
-          .getLayout());
+  private JPanel pnl_fileChooserBL = new JPanel(new BorderLayout());
 
-  protected BorderLayout mainLayout = new BorderLayout();
+  private JPanel pnl_locPDB = new JPanel(new BorderLayout());
 
-  protected BorderLayout idInputPanelLayout = new BorderLayout();
+  protected JPanel pnl_switchableViews = new JPanel(new CardLayout());
 
-  protected BorderLayout fileChooserPanelLayout = new BorderLayout();
+  protected CardLayout layout_switchableViews = (CardLayout) (pnl_switchableViews
+          .getLayout());
+
+  private BorderLayout mainLayout = new BorderLayout();
 
-  protected JCheckBox rememberSettings = new JCheckBox("Don't ask me again");
+  protected JCheckBox chk_rememberSettings = new JCheckBox(
+          MessageManager.getString("label.dont_ask_me_again"));
 
-  protected JCheckBox invertFilter = new JCheckBox("Invert");
+  protected JCheckBox chk_invertFilter = new JCheckBox(
+          MessageManager.getString("label.invert"));
 
   protected ImageIcon loadingImage = new ImageIcon(getClass().getResource(
           "/images/loading.gif"));
 
-  protected JLabel loadingImageLabel = new JLabel(loadingImage);
+  protected ImageIcon goodImage = new ImageIcon(getClass().getResource(
+          "/images/good.png"));
+
+  protected ImageIcon errorImage = new ImageIcon(getClass().getResource(
+          "/images/error.png"));
+
+  protected JLabel lbl_loading = new JLabel(loadingImage);
+
+  protected JLabel lbl_pdbManualFetchStatus = new JLabel(errorImage);
+
+  protected JLabel lbl_fromFileStatus = new JLabel(errorImage);
+
+
+  protected AssciateSeqPanel idInputAssSeqPanel = new AssciateSeqPanel();
+
+  protected AssciateSeqPanel fileChooserAssSeqPanel = new AssciateSeqPanel();
 
   protected static final String VIEWS_FILTER = "VIEWS_FILTER";
 
@@ -86,14 +136,21 @@ public abstract class GStructureChooser extends JPanel implements
 
   protected static final String VIEWS_ENTER_ID = "VIEWS_ENTER_ID";
 
-  protected JList<PDBResponseSummary> jListFoundStructures = new JList<PDBResponseSummary>();
+  protected static final String VIEWS_LOCAL_PDB = "VIEWS_LOCAL_PDB";
+
+  protected JTable tbl_summary = new JTable();
 
-  // protected JScrollPane foundStructuresScroller = new JScrollPane(
-  // jListFoundStructures);
+  protected JScrollPane scrl_foundStructures = new JScrollPane(
+          tbl_summary);
 
-  protected JTable summaryTable = new JTable();
-  protected JScrollPane foundStructuresScroller = new JScrollPane(
-          summaryTable);
+  protected JTable tbl_local_pdb = new JTable();
+
+  protected JScrollPane scrl_localPDB = new JScrollPane(tbl_local_pdb);
+
+  private JTabbedPane pnl_filter = new JTabbedPane();
+
+  private PDBDocFieldPreferences pdbDocFieldPrefs = new PDBDocFieldPreferences(
+          PreferenceSource.STRUCTURE_CHOOSER);
 
   public GStructureChooser()
   {
@@ -109,20 +166,35 @@ public abstract class GStructureChooser extends JPanel implements
     }
   }
 
+  /**
+   * Initializes the GUI default properties
+   * 
+   * @throws Exception
+   */
   private void jbInit() throws Exception
   {
-    ok.setFont(new java.awt.Font("Verdana", 0, 12));
-    ok.setText(MessageManager.getString("action.view"));
-    ok.addActionListener(new java.awt.event.ActionListener()
+    tbl_summary.setAutoCreateRowSorter(true);
+    tbl_local_pdb.setAutoCreateRowSorter(true);
+    tbl_local_pdb.addMouseListener(new MouseAdapter()
+    {
+      public void mouseClicked(MouseEvent e)
+      {
+        updateCurrentView();
+      }
+    });
+
+    btn_view.setFont(new java.awt.Font("Verdana", 0, 12));
+    btn_view.setText(MessageManager.getString("action.view"));
+    btn_view.addActionListener(new java.awt.event.ActionListener()
     {
       public void actionPerformed(ActionEvent e)
       {
         ok_ActionPerformed();
       }
     });
-    cancel.setFont(new java.awt.Font("Verdana", 0, 12));
-    cancel.setText(MessageManager.getString("action.cancel"));
-    cancel.addActionListener(new java.awt.event.ActionListener()
+    btn_cancel.setFont(new java.awt.Font("Verdana", 0, 12));
+    btn_cancel.setText(MessageManager.getString("action.cancel"));
+    btn_cancel.addActionListener(new java.awt.event.ActionListener()
     {
       public void actionPerformed(ActionEvent e)
       {
@@ -130,9 +202,10 @@ public abstract class GStructureChooser extends JPanel implements
       }
     });
 
-    pdbFromFile.setFont(new java.awt.Font("Verdana", 0, 12));
-    pdbFromFile.setText("             Select PDB File             ");
-    pdbFromFile.addActionListener(new java.awt.event.ActionListener()
+    btn_pdbFromFile.setFont(new java.awt.Font("Verdana", 0, 12));
+    String btn_title = MessageManager.getString("label.select_pdb_file");
+    btn_pdbFromFile.setText(btn_title + "              ");
+    btn_pdbFromFile.addActionListener(new java.awt.event.ActionListener()
     {
       public void actionPerformed(ActionEvent e)
       {
@@ -140,50 +213,103 @@ public abstract class GStructureChooser extends JPanel implements
       }
     });
 
-    jListFoundStructures
-            .setSelectionMode(ListSelectionModel.MULTIPLE_INTERVAL_SELECTION);
-    jListFoundStructures.setLayoutOrientation(JList.VERTICAL);
-    jListFoundStructures.setVisibleRowCount(-1);
-    foundStructuresScroller.setPreferredSize(new Dimension(500, 300));
-    foundStructuresScroller
+    scrl_foundStructures.setPreferredSize(new Dimension(500, 300));
+    scrl_foundStructures
+            .setHorizontalScrollBarPolicy(JScrollPane.HORIZONTAL_SCROLLBAR_NEVER);
+
+    scrl_localPDB.setPreferredSize(new Dimension(500, 300));
+    scrl_localPDB
             .setHorizontalScrollBarPolicy(JScrollPane.HORIZONTAL_SCROLLBAR_NEVER);
 
-    filterOptionsComboBox.setFont(new java.awt.Font("Verdana", 0, 12));
-    invertFilter.setFont(new java.awt.Font("Verdana", 0, 12));
-    rememberSettings.setFont(new java.awt.Font("Verdana", 0, 12));
+    cmb_filterOption.setFont(new java.awt.Font("Verdana", 0, 12));
+    chk_invertFilter.setFont(new java.awt.Font("Verdana", 0, 12));
+    chk_rememberSettings.setFont(new java.awt.Font("Verdana", 0, 12));
 
-    filterOptionsComboBox.addItemListener(this);
-    invertFilter.addItemListener(this);
 
-    actionPanel.add(rememberSettings);
-    actionPanel.add(ok);
-    actionPanel.add(cancel);
+    txt_search.setToolTipText(MessageManager
+            .getString("label.enter_pdb_id"));
+    cmb_filterOption.setToolTipText(MessageManager
+            .getString("info.select_filter_option"));
+    txt_search.getDocument().addDocumentListener(new DocumentListener()
+    {
+      @Override
+      public void insertUpdate(DocumentEvent e)
+      {
+        txt_search_ActionPerformed();
+      }
+
+      @Override
+      public void removeUpdate(DocumentEvent e)
+      {
+        txt_search_ActionPerformed();
+      }
 
+      @Override
+      public void changedUpdate(DocumentEvent e)
+      {
+        txt_search_ActionPerformed();
+      }
+    });
 
-    filterPanel.add(resultLabel);
-    filterPanel.add(filterOptionsComboBox);
-    loadingImageLabel.setVisible(false);
+    cmb_filterOption.addItemListener(this);
+    chk_invertFilter.addItemListener(this);
 
-    filterPanel.add(loadingImageLabel);
+    pnl_actions.add(chk_rememberSettings);
+    pnl_actions.add(btn_view);
+    pnl_actions.add(btn_cancel);
 
-    filterPanel.add(invertFilter);
+    // pnl_filter.add(lbl_result);
+    pnl_main.add(cmb_filterOption);
+    pnl_main.add(lbl_loading);
+    pnl_main.add(chk_invertFilter);
+    lbl_loading.setVisible(false);
 
-    idInputPanel.setLayout(new FlowLayout());
-    idInputPanel.add(search);
 
+    pnl_fileChooser.add(btn_pdbFromFile);
+    pnl_fileChooser.add(lbl_fromFileStatus);
+    pnl_fileChooserBL.add(fileChooserAssSeqPanel, BorderLayout.NORTH);
+    pnl_fileChooserBL.add(pnl_fileChooser, BorderLayout.CENTER);
 
-    fileChooserPanel.setLayout(new FlowLayout());
-    fileChooserPanel.add(pdbFromFile);
+    pnl_idInput.add(txt_search);
+    pnl_idInput.add(lbl_pdbManualFetchStatus);
+    pnl_idInputBL.add(idInputAssSeqPanel, BorderLayout.NORTH);
+    pnl_idInputBL.add(pnl_idInput, BorderLayout.CENTER);
+    
+    final String foundStructureSummary = MessageManager
+            .getString("label.found_structures_summary");
 
-    switchableViewsPanel.add(fileChooserPanel, VIEWS_FROM_FILE);
-    switchableViewsPanel.add(idInputPanel, VIEWS_ENTER_ID);
-    switchableViewsPanel.add(foundStructuresScroller, VIEWS_FILTER);
+    ChangeListener changeListener = new ChangeListener()
+    {
+      public void stateChanged(ChangeEvent changeEvent)
+      {
+        JTabbedPane sourceTabbedPane = (JTabbedPane) changeEvent
+                .getSource();
+        int index = sourceTabbedPane.getSelectedIndex();
+        if (sourceTabbedPane.getTitleAt(index)
+                .equals(foundStructureSummary))
+        {
+          tabRefresh();
+        }
+      }
+    };
+    pnl_filter.addChangeListener(changeListener);
+    pnl_filter.setPreferredSize(new Dimension(500, 300));
+    pnl_filter.add(foundStructureSummary, scrl_foundStructures);
+    pnl_filter.add(
+            MessageManager.getString("label.configure_displayed_columns"),
+            pdbDocFieldPrefs);
+    
+    pnl_locPDB.add(scrl_localPDB);
 
+    pnl_switchableViews.add(pnl_fileChooserBL, VIEWS_FROM_FILE);
+    pnl_switchableViews.add(pnl_idInputBL, VIEWS_ENTER_ID);
+    pnl_switchableViews.add(pnl_filter, VIEWS_FILTER);
+    pnl_switchableViews.add(pnl_locPDB, VIEWS_LOCAL_PDB);
     
     this.setLayout(mainLayout);
-    this.add(filterPanel, java.awt.BorderLayout.NORTH);
-    this.add(switchableViewsPanel, java.awt.BorderLayout.CENTER);
-    this.add(actionPanel, java.awt.BorderLayout.SOUTH);
+    this.add(pnl_main, java.awt.BorderLayout.NORTH);
+    this.add(pnl_switchableViews, java.awt.BorderLayout.CENTER);
+    this.add(pnl_actions, java.awt.BorderLayout.SOUTH);
 
     mainFrame.setVisible(true);
     mainFrame.setContentPane(this);
@@ -192,23 +318,22 @@ public abstract class GStructureChooser extends JPanel implements
   }
 
   
-  private ImageIcon scaleImageIcone(ImageIcon imageIcon, int width, int height)
-  {
-    Image image = imageIcon.getImage(); // transform it
-
-    Image newimg = image.getScaledInstance(width, height,
-            java.awt.Image.SCALE_SMOOTH); // scale it the smooth way
-
-    return new ImageIcon(newimg);
-  }
-  
   @Override
+  /**
+   * Event listener for the 'filter' combo-box and 'invert' check-box
+   */
   public void itemStateChanged(ItemEvent e)
   {
     stateChanged(e);
   }
 
-  public class FilterOptions
+  /**
+   * This inner class provides the data model for the structure filter combo-box
+   * 
+   * @author tcnofoegbu
+   *
+   */
+  public class FilterOption
   {
     private String name;
 
@@ -216,20 +341,13 @@ public abstract class GStructureChooser extends JPanel implements
 
     private String view;
 
-    public FilterOptions(String name, String value, String view)
+    public FilterOption(String name, String value, String view)
     {
       this.name = name;
       this.value = value;
       this.view = view;
     }
 
-    // public FilterOptions(PDBDocField field, String view)
-    // {
-    // this.name = "Best " + field.getName();
-    // this.value = field.getCode();
-    // this.view = view;
-    // }
-
     public String getName()
     {
       return name;
@@ -266,13 +384,128 @@ public abstract class GStructureChooser extends JPanel implements
     }
   }
 
+  /**
+   * This inner class provides the provides the data model for associate
+   * sequence combo-box - cmb_assSeq
+   * 
+   * @author tcnofoegbu
+   *
+   */
+  public class AssociateSeqOptions
+  {
+    private SequenceI sequence;
+    private String name;
+
+    public AssociateSeqOptions(SequenceI seq)
+    {
+      this.sequence = seq;
+      this.name = (seq.getName().length() >= 23) ? seq.getName().substring(
+              0, 23) : seq.getName();
+    }
+
+    public AssociateSeqOptions(String name, SequenceI seq)
+    {
+      this.name = name;
+      this.sequence = seq;
+    }
+
+    public String toString()
+    {
+      return name;
+    }
+
+    public String getName()
+    {
+      return name;
+    }
+
+    public void setName(String name)
+    {
+      this.name = name;
+    }
+
+    public SequenceI getSequence()
+    {
+      return sequence;
+    }
+
+    public void setSequence(SequenceI sequence)
+    {
+      this.sequence = sequence;
+    }
+
+  }
+
+  /**
+   * This inner class holds the Layout and configuration of the panel which
+   * handles association of manually fetched structures to a unique sequence
+   * when more than one sequence selection is made
+   * 
+   * @author tcnofoegbu
+   *
+   */
+  public class AssciateSeqPanel extends JPanel implements ItemListener
+  {
+    private JComboBox<AssociateSeqOptions> cmb_assSeq = new JComboBox<AssociateSeqOptions>();
+
+    private JLabel lbl_associateSeq = new JLabel();
+
+    public AssciateSeqPanel()
+    {
+      this.setLayout(new FlowLayout());
+      this.add(cmb_assSeq);
+      this.add(lbl_associateSeq);
+      cmb_assSeq.setToolTipText(MessageManager
+              .getString("info.associate_wit_sequence"));
+      cmb_assSeq.addItemListener(this);
+    }
+
+    public void loadCmbAssSeq()
+    {
+      populateCmbAssociateSeqOptions(cmb_assSeq, lbl_associateSeq);
+    }
+
+    public JComboBox<AssociateSeqOptions> getCmb_assSeq()
+    {
+      return cmb_assSeq;
+    }
+
+    public void setCmb_assSeq(JComboBox<AssociateSeqOptions> cmb_assSeq)
+    {
+      this.cmb_assSeq = cmb_assSeq;
+    }
+
+    @Override
+    public void itemStateChanged(ItemEvent e)
+    {
+      if (e.getStateChange() == ItemEvent.SELECTED)
+      {
+        cmbAssSeqStateChanged();
+      }
+    }
+  }
+
+  public JComboBox<FilterOption> getCmbFilterOption()
+  {
+    return cmb_filterOption;
+  }
+
   protected abstract void stateChanged(ItemEvent e);
 
   protected abstract void updateCurrentView();
 
-  protected abstract void ok_ActionPerformed();
+  protected abstract void populateFilterComboBox();
 
-  protected abstract void populateFilterOptions();
+  protected abstract void ok_ActionPerformed();
 
   protected abstract void pdbFromFile_actionPerformed();
+
+  protected abstract void txt_search_ActionPerformed();
+
+  public abstract void populateCmbAssociateSeqOptions(
+          JComboBox<AssociateSeqOptions> cmb_assSeq, JLabel lbl_associateSeq);
+
+  public abstract void cmbAssSeqStateChanged();
+
+  public abstract void tabRefresh();
 }