@Override
public void actionPerformed(ActionEvent e) {
Object src = e.getSource();
if (src == thresholdCombo) {
PeakThresholdMode mode = (PeakThresholdMode) this.thresholdCombo.getSelectedItem();
switch (mode) {
case ABOVE_INTENSITY_PEAKS:
peakTextField.setText(String.valueOf(thresholdSettings.getIntensityThreshold()));
peakTextField.setEnabled(true);
break;
case ALL_PEAKS:
peakTextField.setEnabled(false);
break;
case TOP_PEAKS:
case TOP_PEAKS_AREA:
peakTextField.setText(String.valueOf(thresholdSettings.getTopPeaksThreshold()));
peakTextField.setEnabled(true);
break;
}
thresholdSettings.setMode(mode);
}
if (src == peakTextField) {
PeakThresholdMode mode = (PeakThresholdMode) this.thresholdCombo.getSelectedItem();
String value = peakTextField.getText();
switch (mode) {
case ABOVE_INTENSITY_PEAKS:
double topInt = Double.parseDouble(value);
thresholdSettings.setIntensityThreshold(topInt);
break;
case TOP_PEAKS:
case TOP_PEAKS_AREA:
int topPeaks = Integer.parseInt(value);
thresholdSettings.setTopPeaksThreshold(topPeaks);
break;
default:
break;
}
}
PeakList selectedPeakList = getPeaksInThreshold();
if (selectedPeakList != null) masterFrame.getPlot().loadPeakList(selectedPeakList);
}
/**
* Returns a peak list different peaks depending on the selected option of the "peak Threshold"
* combo box
*/
PeakList getPeaksInThreshold() {
PeakList selectedPeakList = (PeakList) peakListSelector.getSelectedItem();
PeakThresholdMode mode = (PeakThresholdMode) thresholdCombo.getSelectedItem();
switch (mode) {
case ABOVE_INTENSITY_PEAKS:
double threshold = thresholdSettings.getIntensityThreshold();
return getIntensityThresholdPeakList(threshold);
case ALL_PEAKS:
return selectedPeakList;
case TOP_PEAKS:
case TOP_PEAKS_AREA:
int topPeaks = thresholdSettings.getTopPeaksThreshold();
return getTopThresholdPeakList(topPeaks);
}
return null;
}
MsMsBottomPanel(MsMsVisualizerWindow masterFrame, RawDataFile dataFile, ParameterSet parameters) {
this.dataFile = dataFile;
this.masterFrame = masterFrame;
setLayout(new BoxLayout(this, BoxLayout.X_AXIS));
setBackground(Color.white);
setBorder(new EmptyBorder(5, 5, 5, 0));
add(Box.createHorizontalGlue());
GUIUtils.addLabel(this, "Show: ", SwingConstants.RIGHT);
thresholdCombo = new JComboBox<Object>(PeakThresholdMode.values());
thresholdCombo.setSelectedItem(PeakThresholdMode.NONE);
thresholdCombo.setBackground(Color.white);
thresholdCombo.setFont(smallFont);
thresholdCombo.addActionListener(this);
add(thresholdCombo);
JPanel peakThresholdPanel = new JPanel();
peakThresholdPanel.setBackground(Color.white);
peakThresholdPanel.setLayout(new BoxLayout(peakThresholdPanel, BoxLayout.X_AXIS));
GUIUtils.addLabel(peakThresholdPanel, "Value: ", SwingConstants.RIGHT);
peakTextField = new JTextField();
peakTextField.setPreferredSize(new Dimension(50, 15));
peakTextField.setFont(smallFont);
peakTextField.addActionListener(this);
peakThresholdPanel.add(peakTextField);
add(peakThresholdPanel);
GUIUtils.addLabel(this, " from peak list: ", SwingConstants.RIGHT);
peakListSelector = new JComboBox<PeakList>();
peakListSelector.setBackground(Color.white);
peakListSelector.setFont(smallFont);
peakListSelector.addActionListener(masterFrame);
peakListSelector.setActionCommand("PEAKLIST_CHANGE");
add(peakListSelector);
thresholdSettings = parameters.getParameter(MsMsParameters.peakThresholdSettings);
thresholdCombo.setSelectedItem(thresholdSettings.getMode());
add(Box.createHorizontalStrut(10));
add(Box.createHorizontalGlue());
}
