X-Git-Url: http://source.jalview.org/gitweb/?a=blobdiff_plain;f=src%2Fjalview%2Fgui%2FFeatureRenderer.java;h=8c4b4d03792278ef2b7e70efe329d54f28a42d45;hb=db93a1adcbe0a4eaaf06e0a70ade0d6c5c1961c3;hp=0e0e2cb25f3216c6d3201378310a88c7389e0183;hpb=497958b4e5217efaa3ddeece38f38c3a6e98cb96;p=jalview.git diff --git a/src/jalview/gui/FeatureRenderer.java b/src/jalview/gui/FeatureRenderer.java index 0e0e2cb..8c4b4d0 100644 --- a/src/jalview/gui/FeatureRenderer.java +++ b/src/jalview/gui/FeatureRenderer.java @@ -1,6 +1,6 @@ /* - * Jalview - A Sequence Alignment Editor and Viewer (Version 2.8.2) - * Copyright (C) 2014 The Jalview Authors + * Jalview - A Sequence Alignment Editor and Viewer (Version 2.9.0b2) + * Copyright (C) 2015 The Jalview Authors * * This file is part of Jalview. * @@ -20,25 +20,48 @@ */ package jalview.gui; -import java.util.*; -import java.awt.*; -import java.awt.event.*; -import java.awt.image.*; -import java.beans.PropertyChangeListener; - -import javax.swing.*; - -import jalview.datamodel.*; -import jalview.schemes.GraduatedColor; +import jalview.api.FeatureColourI; +import jalview.datamodel.SearchResults; +import jalview.datamodel.SequenceFeature; +import jalview.datamodel.SequenceI; +import jalview.schemes.FeatureColour; +import jalview.schemes.UserColourScheme; import jalview.util.MessageManager; +import java.awt.BorderLayout; +import java.awt.Color; +import java.awt.Dimension; +import java.awt.Font; +import java.awt.GridLayout; +import java.awt.event.ActionEvent; +import java.awt.event.ActionListener; +import java.awt.event.ItemEvent; +import java.awt.event.ItemListener; +import java.awt.event.MouseAdapter; +import java.awt.event.MouseEvent; +import java.util.Arrays; +import java.util.Comparator; + +import javax.swing.JColorChooser; +import javax.swing.JComboBox; +import javax.swing.JLabel; +import javax.swing.JOptionPane; +import javax.swing.JPanel; +import javax.swing.JScrollPane; +import javax.swing.JSpinner; +import javax.swing.JTextArea; +import javax.swing.JTextField; +import javax.swing.SwingConstants; + /** * DOCUMENT ME! * * @author $author$ * @version $Revision$ */ -public class FeatureRenderer extends jalview.renderer.seqfeatures.FeatureRenderer implements jalview.api.FeatureRenderer +public class FeatureRenderer extends + jalview.renderer.seqfeatures.FeatureRenderer implements + jalview.api.FeatureRenderer { Color resBoxColour; @@ -52,13 +75,13 @@ public class FeatureRenderer extends jalview.renderer.seqfeatures.FeatureRendere */ public FeatureRenderer(AlignmentPanel ap) { - super(); + super(ap.av); this.ap = ap; - this.av = ap.av; - if (ap != null && ap.seqPanel != null && ap.seqPanel.seqCanvas != null - && ap.seqPanel.seqCanvas.fr != null) + if (ap != null && ap.getSeqPanel() != null + && ap.getSeqPanel().seqCanvas != null + && ap.getSeqPanel().seqCanvas.fr != null) { - transferSettings(ap.seqPanel.seqCanvas.fr); + transferSettings(ap.getSeqPanel().seqCanvas.fr); } } @@ -72,7 +95,7 @@ public class FeatureRenderer extends jalview.renderer.seqfeatures.FeatureRendere static String lastDescriptionAdded; - Object oldcol, fcol; + FeatureColourI oldcol, fcol; int featureIndex = 0; @@ -101,21 +124,22 @@ public class FeatureRenderer extends jalview.renderer.seqfeatures.FeatureRendere { FeatureColourChooser fcc = null; + @Override public void mousePressed(MouseEvent evt) { - if (fcol instanceof Color) + if (fcol.isSimpleColour()) { Color col = JColorChooser.showDialog(Desktop.desktop, - MessageManager.getString("label.select_feature_colour"), ((Color) fcol)); + MessageManager.getString("label.select_feature_colour"), + fcol.getColour()); if (col != null) { - fcol = col; - updateColourButton(bigPanel, colour, col); + fcol = new FeatureColour(col); + updateColourButton(bigPanel, colour, new FeatureColour(col)); } } else { - if (fcc == null) { final String type = features[featureIndex].getType(); @@ -126,6 +150,7 @@ public class FeatureRenderer extends jalview.renderer.seqfeatures.FeatureRendere fcc.addActionListener(new ActionListener() { + @Override public void actionPerformed(ActionEvent e) { fcol = fcc.getLastColour(); @@ -148,7 +173,8 @@ public class FeatureRenderer extends jalview.renderer.seqfeatures.FeatureRendere { panel = new JPanel(new GridLayout(4, 1)); tmp = new JPanel(); - tmp.add(new JLabel(MessageManager.getString("label.select_feature"))); + tmp.add(new JLabel(MessageManager.getString("label.select_feature") + + ":")); overlaps = new JComboBox(); for (int i = 0; i < features.length; i++) { @@ -161,6 +187,7 @@ public class FeatureRenderer extends jalview.renderer.seqfeatures.FeatureRendere overlaps.addItemListener(new ItemListener() { + @Override public void itemStateChanged(ItemEvent e) { int index = overlaps.getSelectedIndex(); @@ -177,14 +204,14 @@ public class FeatureRenderer extends jalview.renderer.seqfeatures.FeatureRendere highlight.addResult(sequences[0], features[index].getBegin(), features[index].getEnd()); - ap.seqPanel.seqCanvas.highlightSearchResults(highlight); + ap.getSeqPanel().seqCanvas.highlightSearchResults(highlight); } - Object col = getFeatureStyle(name.getText()); + FeatureColourI col = getFeatureStyle(name.getText()); if (col == null) { - col = new jalview.schemes.UserColourScheme() - .createColourFromName(name.getText()); + col = new FeatureColour(UserColourScheme + .createColourFromName(name.getText())); } oldcol = fcol = col; updateColourButton(bigPanel, colour, col); @@ -198,12 +225,13 @@ public class FeatureRenderer extends jalview.renderer.seqfeatures.FeatureRendere tmp = new JPanel(); panel.add(tmp); - tmp.add(new JLabel(MessageManager.getString("label.name"), JLabel.RIGHT)); + tmp.add(new JLabel(MessageManager.getString("label.name:"), + JLabel.RIGHT)); tmp.add(name); tmp = new JPanel(); panel.add(tmp); - tmp.add(new JLabel(MessageManager.getString("label.group") + ":", + tmp.add(new JLabel(MessageManager.getString("label.group:"), JLabel.RIGHT)); tmp.add(source); @@ -222,7 +250,7 @@ public class FeatureRenderer extends jalview.renderer.seqfeatures.FeatureRendere bigPanel.add(panel, BorderLayout.NORTH); panel = new JPanel(); - panel.add(new JLabel(MessageManager.getString("label.description"), + panel.add(new JLabel(MessageManager.getString("label.description:"), JLabel.RIGHT)); description.setFont(JvSwingUtils.getTextAreaFont()); description.setLineWrap(true); @@ -289,21 +317,22 @@ public class FeatureRenderer extends jalview.renderer.seqfeatures.FeatureRendere Object[] options; if (!newFeatures) { - options = new Object[] - { "Amend", "Delete", "Cancel" }; + options = new Object[] { "Amend", "Delete", "Cancel" }; } else { - options = new Object[] - { "OK", "Cancel" }; + options = new Object[] { "OK", "Cancel" }; } - String title = newFeatures ? MessageManager.getString("label.create_new_sequence_features") - : MessageManager.formatMessage("label.amend_delete_features", new String[]{sequences[0].getName()}); + String title = newFeatures ? MessageManager + .getString("label.create_new_sequence_features") + : MessageManager.formatMessage("label.amend_delete_features", + new String[] { sequences[0].getName() }); int reply = JOptionPane.showInternalOptionDialog(Desktop.desktop, bigPanel, title, JOptionPane.YES_NO_CANCEL_OPTION, - JOptionPane.QUESTION_MESSAGE, null, options, MessageManager.getString("action.ok")); + JOptionPane.QUESTION_MESSAGE, null, options, + MessageManager.getString("action.ok")); jalview.io.FeaturesFile ffile = new jalview.io.FeaturesFile(); @@ -317,7 +346,9 @@ public class FeatureRenderer extends jalview.renderer.seqfeatures.FeatureRendere lastDescriptionAdded = description.getText().replaceAll("\n", " "); // TODO: determine if the null feature group is valid if (lastFeatureGroupAdded.length() < 1) + { lastFeatureGroupAdded = null; + } } if (!newFeatures) @@ -363,7 +394,6 @@ public class FeatureRenderer extends jalview.renderer.seqfeatures.FeatureRendere ffile.parseDescriptionHTML(features[i], false); } - if (lastFeatureGroupAdded != null) { setGroupVisibility(lastFeatureGroupAdded, true); @@ -388,32 +418,41 @@ public class FeatureRenderer extends jalview.renderer.seqfeatures.FeatureRendere return true; } - /** * update the amend feature button dependent on the given style * * @param bigPanel * @param col - * @param col2 + * @param col */ protected void updateColourButton(JPanel bigPanel, JLabel colour, - Object col2) + FeatureColourI col) { colour.removeAll(); colour.setIcon(null); colour.setToolTipText(null); colour.setText(""); - if (col2 instanceof Color) + if (col.isSimpleColour()) { - colour.setBackground((Color) col2); + colour.setBackground(col.getColour()); } else { colour.setBackground(bigPanel.getBackground()); colour.setForeground(Color.black); - FeatureSettings.renderGraduatedColor(colour, (GraduatedColor) col2); - // colour.setForeground(colour.getBackground()); + FeatureSettings.renderGraduatedColor(colour, col); } } + + /** + * Orders features in render precedence (last in order is last to render, so + * displayed on top of other features) + * + * @param order + */ + public void orderFeatures(Comparator order) + { + Arrays.sort(renderOrder, order); + } }