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/* |
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Copyright @ 1999-2004, The Institute for Genomic Research (TIGR). |
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All rights reserved. |
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*/ |
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/* |
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* $RCSfile: CastFOMContentComponentB.java,v $ |
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* $Revision: 1.6 $ |
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* $Date: 2006/03/24 15:50:09 $ |
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* $Author: eleanorahowe $ |
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* $State: Exp $ |
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*/ |
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package org.tigr.microarray.mev.cluster.gui.impl.fom; |
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|
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import java.awt.GridBagConstraints; |
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import java.awt.GridBagLayout; |
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import java.awt.event.ActionEvent; |
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import java.awt.event.ActionListener; |
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import java.awt.image.BufferedImage; |
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import java.util.Arrays; |
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import java.util.HashSet; |
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import java.util.Iterator; |
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import java.util.Vector; |
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|
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import javax.swing.JButton; |
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import javax.swing.JComponent; |
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import javax.swing.JFrame; |
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import javax.swing.JList; |
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import javax.swing.JPanel; |
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import javax.swing.JScrollPane; |
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import javax.swing.JTextArea; |
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|
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import org.tigr.microarray.mev.cluster.gui.IDisplayMenu; |
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import org.tigr.microarray.mev.cluster.gui.IFramework; |
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|
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public class CastFOMContentComponentB extends JPanel implements java.io.Serializable { |
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public static final long serialVersionUID = 202003030001L; |
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|
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//private FOMGraph fomGraphA; |
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private FOMGraph fomGraphB; |
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private int[] numOfCastClusters; |
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|
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private float[] fom_values; |
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float interval; |
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float[] sortedFomValues; |
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int[] sortedNumCastClusters; |
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JPanel listPanel; |
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|
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private GridBagConstraints gbc; |
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|
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public CastFOMContentComponentB(float[] fom_values, float interval, int[] numOfCastClusters) { // take average by default |
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setLayout(new GridBagLayout()); |
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//System.out.println("Entered CastFOMComponentB"); |
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this.fom_values = fom_values; |
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this.interval = interval; |
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this.numOfCastClusters = numOfCastClusters; |
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this.sortedFomValues = createSortedFomValues(fom_values, numOfCastClusters); |
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this.sortedNumCastClusters = createSortedClusterArray(numOfCastClusters); |
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this.fomGraphB = new FOMGraph(sortedFomValues, null, "FOM value vs. # of Clusters", "# of Clusters", "Adjusted FOM", false); |
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this.fomGraphB.setItems(createXItems(sortedFomValues.length), createYItems(sortedFomValues)); |
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this.fomGraphB.setMaxYValue((float)Math.ceil(getMaxValue(sortedFomValues))); |
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GridBagConstraints gbc = new GridBagConstraints(); |
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gbc.fill = GridBagConstraints.BOTH; |
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gbc.gridx = 0; |
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gbc.gridy = 0; |
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gbc.weightx = 0.9; |
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gbc.weighty = 1.0; |
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add(this.fomGraphB, gbc); |
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gbc.gridx = 1; |
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gbc.weightx = 0.1; |
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add(createValuesList(sortedFomValues, numOfCastClusters), gbc); |
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} |
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|
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public static String[] getPersistenceDelegateArgs(){ |
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return new String[] {"fom_values", "interval", "numOfCastClusters"}; |
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} |
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public CastFOMContentComponentB(){ |
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setLayout(new GridBagLayout()); |
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gbc = new GridBagConstraints(); |
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gbc.fill = GridBagConstraints.BOTH; |
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gbc.gridy = 0; |
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gbc.weighty = 1.0; |
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} |
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|
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/** |
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* @return Returns the fomGraphA. |
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*/ |
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public FOMGraph getFomGraphB() { |
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return fomGraphB; |
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} |
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/** |
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* @param fomGraphA The fomGraphA to set. |
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*/ |
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public void setFomGraphB(FOMGraph fomGraphB) { |
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gbc.gridx = 0; |
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gbc.weightx = 0.9; |
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this.fomGraphB = fomGraphB; |
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} |
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/* |
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public BufferedImage getImageA() { |
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return this.fomGraphA.getImage(); |
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} |
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*/ |
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public BufferedImage getImageB() { |
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return this.fomGraphB.getImage(); |
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} |
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|
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private JComponent createValuesList(float[] fom_values, int[] numOfCastClusters) { |
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String[] items = new String[fom_values.length]; |
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int[] sortedNumCastClusters = createSortedClusterArray(numOfCastClusters); |
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for (int i=0; i<fom_values.length; i++) { |
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items[i] = String.valueOf(sortedNumCastClusters[i]) + "---->" + String.valueOf(Math.round(fom_values[i]*1000)/1000f); |
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} |
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JPanel listPanel = new JPanel(new GridBagLayout()); |
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JScrollPane scroll = new JScrollPane(new JList(items)); |
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|
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GridBagConstraints gbc = new GridBagConstraints(); |
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gbc.fill = GridBagConstraints.BOTH; |
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gbc.gridx = 0; |
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gbc.gridy = 0; |
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gbc.weightx = 1.0; |
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gbc.weighty = 1.0; |
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listPanel.add(scroll, gbc); |
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gbc.fill = GridBagConstraints.HORIZONTAL; |
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gbc.gridy = 1; |
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gbc.weighty = 0.0; |
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JButton button = new JButton("Details"); |
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button.addActionListener(new ActionListener() { |
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public void actionPerformed(ActionEvent e) { |
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onDetails(); |
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} |
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}); |
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listPanel.add(button, gbc); |
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this.listPanel = listPanel; |
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return listPanel; |
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} |
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|
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private void onDetails() { |
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JFrame f = new JFrame("Details"); |
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JTextArea t = new JTextArea(); |
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t.setEditable(false); |
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JScrollPane sp = new JScrollPane(t); |
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StringBuffer sb = new StringBuffer(); |
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for (int i=0; i<sortedFomValues.length; i++) { |
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sb.append(String.valueOf(sortedNumCastClusters[i]) + "\t" + String.valueOf(Math.round(sortedFomValues[i]*1000)/1000f)+"\n"); |
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} |
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t.setText(sb.toString()); |
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t.setCaretPosition(0); |
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f.getContentPane().add(sp); |
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f.setSize(200, 200); |
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java.awt.Dimension screenSize = f.getToolkit().getScreenSize(); |
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f.setLocation(screenSize.width/2 - f.getSize().width/2, screenSize.height/2 - f.getSize().height/2); |
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f.setVisible(true); |
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} |
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|
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/* |
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private JComponent createValuesList(float[] fom_values) { |
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String[] items = new String[fom_values.length]; |
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float threshold = interval; |
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for (int i=0; i<fom_values.length; i++) { |
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String s = "0."; |
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int d = (int)Math.floor(threshold*100); |
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//System.out.println ("Inside CastFOMContentComponent.createXThresholdItems(): d = " + d); |
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if (d < 10) s = s + "0"; |
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s = s + d; |
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if (d >= 100) s = "1.00"; |
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threshold = threshold + interval; |
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items[i] = s + "---->" + String.valueOf(Math.round(fom_values[i]*1000)/1000f); |
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} |
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JPanel listPanel = new JPanel(new GridBagLayout()); |
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JScrollPane scroll = new JScrollPane(new JList(items)); |
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|
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GridBagConstraints gbc = new GridBagConstraints(); |
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gbc.fill = GridBagConstraints.BOTH; |
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gbc.gridx = 0; |
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gbc.gridy = 0; |
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gbc.weightx = 1.0; |
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gbc.weighty = 1.0; |
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listPanel.add(scroll, gbc); |
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gbc.fill = GridBagConstraints.HORIZONTAL; |
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gbc.gridy = 1; |
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gbc.weighty = 0.0; |
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JButton button = new JButton("Details"); |
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button.addActionListener(new ActionListener() { |
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public void actionPerformed(ActionEvent e) { |
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onDetails(); |
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} |
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}); |
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listPanel.add(button, gbc); |
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return listPanel; |
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} |
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|
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private void onDetails() { |
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JFrame f = new JFrame("Details"); |
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JTextArea t = new JTextArea(); |
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t.setEditable(false); |
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JScrollPane sp = new JScrollPane(t); |
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StringBuffer sb = new StringBuffer(); |
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float threshold = interval; |
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for (int i=0; i<fom_values.length; i++) { |
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String s = "0."; |
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int d = (int)Math.floor(threshold*100); |
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//System.out.println ("Inside CastFOMContentComponent.createXThresholdItems(): d = " + d); |
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if (d < 10) s = s + "0"; |
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s = s + d; |
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if (d >= 100) s = "1.00"; |
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threshold = threshold + interval; |
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sb.append(s + "\t" + String.valueOf(Math.round(fom_values[i]*1000)/1000f)+"\n"); |
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} |
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t.setText(sb.toString()); |
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t.setCaretPosition(0); |
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f.getContentPane().add(sp); |
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f.setSize(200, 200); |
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java.awt.Dimension screenSize = f.getToolkit().getScreenSize(); |
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f.setLocation(screenSize.width/2 - f.getSize().width/2, screenSize.height/2 - f.getSize().height/2); |
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f.setVisible(true); |
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} |
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*/ |
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|
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public void onSelected(IFramework framework) { |
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boolean test = framework.getDisplayMenu().isAntiAliasing(); |
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this.fomGraphB.setAntiAliasing(framework.getDisplayMenu().isAntiAliasing()); |
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} |
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|
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public void onMenuChanged(IDisplayMenu menu) { |
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this.fomGraphB.setAntiAliasing(menu.isAntiAliasing()); |
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} |
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|
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private String[] createXItems(int iterations) { |
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String[] items = new String[iterations]; |
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for (int i=0; i<items.length; i++) { |
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/*if ((i+1)%5 == 0 || i == 0 || i == items.length-1)*/ //{ |
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items[i] = String.valueOf(sortedNumCastClusters[i]); |
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//} |
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} |
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return items; |
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} |
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|
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/* |
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private String[] createXThresholdItems(int iterations) { |
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String[] items = new String[iterations]; |
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float threshold = interval; |
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for (int i=0; i<items.length; i++) { |
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//if ((i+1)%5 == 0 || i == 0 || i == items.length-1) { |
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String s = "0."; |
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int d = (int)Math.floor(threshold*100); |
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//System.out.println ("Inside CastFOMContentComponent.createXThresholdItems(): d = " + d); |
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if (d < 10) s = s + "0"; |
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s = s + d; |
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if (d >= 100) s = "1.00"; |
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items[i] = s;//String.valueOf(threshold); |
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threshold = threshold + interval; |
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//System.out.println("Inside CastFOMContentComponent.createXThresholdItems(): threshold[" + i + "] =" + threshold); |
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//} |
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} |
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return items; |
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} |
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*/ |
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|
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private int[] createSortedClusterArray(int[] numOfCastClusters) { |
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int[] localNumClusters = new int[numOfCastClusters.length]; |
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for (int i = 0; i < localNumClusters.length; i++) { |
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localNumClusters[i] = numOfCastClusters[i]; |
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} |
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/* |
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for (int i = 0; i < localNumClusters.length; i++) { |
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System.out.println("localNumClusters[" + i + "] =" + localNumClusters[i]); |
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} |
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268 |
*/ |
2 |
26 Feb 07 |
jari |
//Arrays.sort(sortedNumClusters); |
2 |
26 Feb 07 |
jari |
270 |
Vector localVector = new Vector(); |
2 |
26 Feb 07 |
jari |
271 |
for (int i = 0; i < localNumClusters.length; i++) { |
2 |
26 Feb 07 |
jari |
272 |
localVector.add(new Integer(localNumClusters[i])); |
2 |
26 Feb 07 |
jari |
273 |
} |
2 |
26 Feb 07 |
jari |
274 |
|
2 |
26 Feb 07 |
jari |
275 |
HashSet s = new HashSet(localVector); |
2 |
26 Feb 07 |
jari |
276 |
|
2 |
26 Feb 07 |
jari |
277 |
Vector setVector = new Vector(); |
2 |
26 Feb 07 |
jari |
278 |
|
2 |
26 Feb 07 |
jari |
279 |
for (Iterator it = s.iterator(); it.hasNext();) { |
2 |
26 Feb 07 |
jari |
280 |
setVector.add(it.next()); |
2 |
26 Feb 07 |
jari |
281 |
} |
2 |
26 Feb 07 |
jari |
282 |
/* |
2 |
26 Feb 07 |
jari |
for (int i = 0; i < setVector.size(); i++) { |
2 |
26 Feb 07 |
jari |
System.out.println("setVector[" + i + "] = " + ((Integer)(setVector.get(i))).intValue()); |
2 |
26 Feb 07 |
jari |
285 |
} |
2 |
26 Feb 07 |
jari |
286 |
*/ |
2 |
26 Feb 07 |
jari |
287 |
int[] setArray = new int[setVector.size()]; |
2 |
26 Feb 07 |
jari |
288 |
|
2 |
26 Feb 07 |
jari |
289 |
for (int i = 0; i < setArray.length; i++) { |
2 |
26 Feb 07 |
jari |
290 |
|
2 |
26 Feb 07 |
jari |
291 |
setArray[i] = ((Integer)(setVector.get(i))).intValue(); |
2 |
26 Feb 07 |
jari |
292 |
} |
2 |
26 Feb 07 |
jari |
293 |
|
2 |
26 Feb 07 |
jari |
294 |
Arrays.sort(setArray); |
2 |
26 Feb 07 |
jari |
295 |
|
2 |
26 Feb 07 |
jari |
296 |
int[] lastElementDeductedArray = new int[setArray.length - 1]; |
2 |
26 Feb 07 |
jari |
297 |
for (int i = 0; i < lastElementDeductedArray.length; i++) { |
2 |
26 Feb 07 |
jari |
298 |
lastElementDeductedArray[i] = setArray[i]; |
2 |
26 Feb 07 |
jari |
299 |
} |
2 |
26 Feb 07 |
jari |
300 |
/* |
2 |
26 Feb 07 |
jari |
for (int i = 0; i < lastElementDeductedArray.length; i++){ |
2 |
26 Feb 07 |
jari |
System.out.println("lastElementDeductedArray[" + i + "] = " + lastElementDeductedArray[i]); |
2 |
26 Feb 07 |
jari |
303 |
} |
2 |
26 Feb 07 |
jari |
304 |
*/ |
2 |
26 Feb 07 |
jari |
305 |
return lastElementDeductedArray; |
2 |
26 Feb 07 |
jari |
306 |
} |
2 |
26 Feb 07 |
jari |
307 |
|
2 |
26 Feb 07 |
jari |
308 |
|
2 |
26 Feb 07 |
jari |
309 |
private float[] createSortedFomValues(float[] fom_values, int[] numOfCastClusters) { |
2 |
26 Feb 07 |
jari |
310 |
|
2 |
26 Feb 07 |
jari |
311 |
int[] sortedCastClusters = createSortedClusterArray(numOfCastClusters); |
2 |
26 Feb 07 |
jari |
//System.out.println("Finished createSortedClusterArray()"); |
2 |
26 Feb 07 |
jari |
313 |
Vector sortedFomVector = new Vector(); |
2 |
26 Feb 07 |
jari |
314 |
|
2 |
26 Feb 07 |
jari |
315 |
for (int i = 0; i < sortedCastClusters.length; i++) { |
2 |
26 Feb 07 |
jari |
316 |
float currentFomValue = 0; |
2 |
26 Feb 07 |
jari |
317 |
int count = 0; |
2 |
26 Feb 07 |
jari |
318 |
for (int j = 0; j < numOfCastClusters.length; j++) { |
2 |
26 Feb 07 |
jari |
319 |
if (numOfCastClusters[j] == sortedCastClusters[i]) { |
2 |
26 Feb 07 |
jari |
320 |
currentFomValue = currentFomValue + fom_values[j]; |
2 |
26 Feb 07 |
jari |
321 |
count++; |
2 |
26 Feb 07 |
jari |
322 |
} |
2 |
26 Feb 07 |
jari |
323 |
} |
2 |
26 Feb 07 |
jari |
324 |
currentFomValue = currentFomValue/count; |
2 |
26 Feb 07 |
jari |
325 |
sortedFomVector.add(new Float(currentFomValue)); |
2 |
26 Feb 07 |
jari |
326 |
} |
2 |
26 Feb 07 |
jari |
327 |
|
2 |
26 Feb 07 |
jari |
328 |
float[] sortedFomValues = new float[sortedFomVector.size()]; |
2 |
26 Feb 07 |
jari |
329 |
for (int i = 0; i < sortedFomValues.length; i++) { |
2 |
26 Feb 07 |
jari |
330 |
sortedFomValues[i] = ((Float)(sortedFomVector.get(i))).floatValue(); |
2 |
26 Feb 07 |
jari |
331 |
} |
2 |
26 Feb 07 |
jari |
332 |
|
2 |
26 Feb 07 |
jari |
333 |
return sortedFomValues; |
2 |
26 Feb 07 |
jari |
334 |
|
2 |
26 Feb 07 |
jari |
335 |
} |
2 |
26 Feb 07 |
jari |
336 |
|
2 |
26 Feb 07 |
jari |
337 |
|
2 |
26 Feb 07 |
jari |
338 |
private float getMaxValue(float[] fom_values) { |
2 |
26 Feb 07 |
jari |
339 |
float max_value = -Float.MAX_VALUE; |
2 |
26 Feb 07 |
jari |
340 |
for (int i=0; i<fom_values.length; i++) { |
2 |
26 Feb 07 |
jari |
341 |
max_value = Math.max(max_value, fom_values[i]); |
2 |
26 Feb 07 |
jari |
342 |
} |
2 |
26 Feb 07 |
jari |
343 |
return max_value; |
2 |
26 Feb 07 |
jari |
344 |
} |
2 |
26 Feb 07 |
jari |
345 |
|
2 |
26 Feb 07 |
jari |
346 |
private String[] createYItems(float[] fom_values) { |
2 |
26 Feb 07 |
jari |
347 |
int number_of_items = (int)Math.ceil(getMaxValue(fom_values))+1; |
2 |
26 Feb 07 |
jari |
348 |
String[] items = new String[number_of_items]; |
2 |
26 Feb 07 |
jari |
349 |
for (int i=0; i<items.length; i++) { |
2 |
26 Feb 07 |
jari |
350 |
if (i%2 == 0 || i == items.length-1) { |
2 |
26 Feb 07 |
jari |
351 |
items[i] = String.valueOf(i); |
2 |
26 Feb 07 |
jari |
352 |
} |
2 |
26 Feb 07 |
jari |
353 |
} |
2 |
26 Feb 07 |
jari |
354 |
return items; |
2 |
26 Feb 07 |
jari |
355 |
} |
2 |
26 Feb 07 |
jari |
356 |
/** |
2 |
26 Feb 07 |
jari |
* @return Returns the fom_values. |
2 |
26 Feb 07 |
jari |
358 |
*/ |
2 |
26 Feb 07 |
jari |
359 |
public float[] getFom_values() { |
2 |
26 Feb 07 |
jari |
360 |
return fom_values; |
2 |
26 Feb 07 |
jari |
361 |
} |
2 |
26 Feb 07 |
jari |
362 |
/** |
2 |
26 Feb 07 |
jari |
* @param fom_values The fom_values to set. |
2 |
26 Feb 07 |
jari |
364 |
*/ |
2 |
26 Feb 07 |
jari |
365 |
public void setFom_values(float[] fom_values) { |
2 |
26 Feb 07 |
jari |
366 |
this.fom_values = fom_values; |
2 |
26 Feb 07 |
jari |
367 |
} |
2 |
26 Feb 07 |
jari |
368 |
/** |
2 |
26 Feb 07 |
jari |
* @return Returns the interval. |
2 |
26 Feb 07 |
jari |
370 |
*/ |
2 |
26 Feb 07 |
jari |
371 |
public float getInterval() { |
2 |
26 Feb 07 |
jari |
372 |
return interval; |
2 |
26 Feb 07 |
jari |
373 |
} |
2 |
26 Feb 07 |
jari |
374 |
/** |
2 |
26 Feb 07 |
jari |
* @param interval The interval to set. |
2 |
26 Feb 07 |
jari |
376 |
*/ |
2 |
26 Feb 07 |
jari |
377 |
public void setInterval(float interval) { |
2 |
26 Feb 07 |
jari |
378 |
this.interval = interval; |
2 |
26 Feb 07 |
jari |
379 |
} |
2 |
26 Feb 07 |
jari |
380 |
///////////////////////////////////////////////////////////////// |
2 |
26 Feb 07 |
jari |
/* public static void main(String[] args) throws Exception { |
2 |
26 Feb 07 |
jari |
javax.swing.JFrame frame = new javax.swing.JFrame(); |
2 |
26 Feb 07 |
jari |
frame.setDefaultCloseOperation(frame.EXIT_ON_CLOSE); |
2 |
26 Feb 07 |
jari |
float[] fom_values = new float[] {1.5f, 0.88888888888f, 0.6666666666f, 2.5f, 0.33333333333f, 0.0f}; |
2 |
26 Feb 07 |
jari |
FOMContentComponent content = new FOMContentComponent(fom_values); |
2 |
26 Feb 07 |
jari |
frame.getContentPane().add(content); |
2 |
26 Feb 07 |
jari |
frame.setSize(700, 400); |
2 |
26 Feb 07 |
jari |
java.awt.Dimension screenSize = frame.getToolkit().getScreenSize(); |
2 |
26 Feb 07 |
jari |
frame.setLocation(screenSize.width/2 - frame.getSize().width/2, screenSize.height/2 - frame.getSize().height/2); |
2 |
26 Feb 07 |
jari |
frame.setVisible(true); |
2 |
26 Feb 07 |
jari |
391 |
} |
2 |
26 Feb 07 |
jari |
392 |
**/ |
2 |
26 Feb 07 |
jari |
393 |
/** |
2 |
26 Feb 07 |
jari |
* @return Returns the numOfCastClusters. |
2 |
26 Feb 07 |
jari |
395 |
*/ |
2 |
26 Feb 07 |
jari |
396 |
public int[] getNumOfCastClusters() { |
2 |
26 Feb 07 |
jari |
397 |
return numOfCastClusters; |
2 |
26 Feb 07 |
jari |
398 |
} |
2 |
26 Feb 07 |
jari |
399 |
/** |
2 |
26 Feb 07 |
jari |
* @return Returns the sortedFomValues. |
2 |
26 Feb 07 |
jari |
401 |
*/ |
2 |
26 Feb 07 |
jari |
402 |
public float[] getSortedFomValues() { |
2 |
26 Feb 07 |
jari |
403 |
return sortedFomValues; |
2 |
26 Feb 07 |
jari |
404 |
} |
2 |
26 Feb 07 |
jari |
405 |
/** |
2 |
26 Feb 07 |
jari |
* @return Returns the sortedNumCastClusters. |
2 |
26 Feb 07 |
jari |
407 |
*/ |
2 |
26 Feb 07 |
jari |
408 |
public int[] getSortedNumCastClusters() { |
2 |
26 Feb 07 |
jari |
409 |
return sortedNumCastClusters; |
2 |
26 Feb 07 |
jari |
410 |
} |
2 |
26 Feb 07 |
jari |
411 |
} |