Examples with TextField java.awt.TextField used on opensource projects

Example 6 with TextField

use of java.awt.TextField in project GDSC-SMLM by aherbert.

the class SpotAnalysis method createFrame.

@SuppressWarnings({ "rawtypes", "unchecked" })
private void createFrame() {
    Panel mainPanel = new Panel();
    add(mainPanel);
    inputChoice = new Choice();
    mainPanel.add(createChoicePanel(inputChoice, ""));
    widthTextField = new TextField();
    mainPanel.add(createTextPanel(widthTextField, "PSF width", "1.2"));
    blurTextField = new TextField();
    mainPanel.add(createTextPanel(blurTextField, "Blur (relative to width)", "1"));
    gainTextField = new TextField();
    mainPanel.add(createTextPanel(gainTextField, "Gain", "37.7"));
    exposureTextField = new TextField();
    mainPanel.add(createTextPanel(exposureTextField, "ms/Frame", "20"));
    smoothingTextField = new TextField();
    mainPanel.add(createTextPanel(smoothingTextField, "Smoothing", "0.25"));
    profileButton = new Button("Profile");
    profileButton.addActionListener(this);
    addButton = new Button("Add");
    addButton.addActionListener(this);
    deleteButton = new Button("Remove");
    deleteButton.addActionListener(this);
    saveButton = new Button("Save");
    saveButton.addActionListener(this);
    saveTracesButton = new Button("Save Traces");
    saveTracesButton.addActionListener(this);
    currentLabel = new Label();
    mainPanel.add(createLabelPanel(currentLabel, "", ""));
    rawFittedLabel = new Label();
    mainPanel.add(createLabelPanel(rawFittedLabel, "", ""));
    blurFittedLabel = new Label();
    mainPanel.add(createLabelPanel(blurFittedLabel, "", ""));
    JPanel buttonPanel = new JPanel();
    FlowLayout l = new FlowLayout();
    l.setVgap(0);
    buttonPanel.setLayout(l);
    buttonPanel.add(profileButton, BorderLayout.CENTER);
    buttonPanel.add(addButton, BorderLayout.CENTER);
    buttonPanel.add(deleteButton, BorderLayout.CENTER);
    buttonPanel.add(saveButton, BorderLayout.CENTER);
    buttonPanel.add(saveTracesButton, BorderLayout.CENTER);
    mainPanel.add(buttonPanel);
    listModel = new DefaultListModel();
    onFramesList = new JList(listModel);
    onFramesList.setVisibleRowCount(15);
    onFramesList.addListSelectionListener(this);
    //mainPanel.add(onFramesList);
    JScrollPane scrollPane = new JScrollPane(onFramesList);
    scrollPane.getVerticalScrollBarPolicy();
    mainPanel.add(scrollPane);
    GridBagLayout mainGrid = new GridBagLayout();
    int y = 0;
    GridBagConstraints c = new GridBagConstraints();
    c.gridx = 0;
    c.fill = GridBagConstraints.BOTH;
    c.anchor = GridBagConstraints.WEST;
    c.gridwidth = 1;
    c.insets = new Insets(2, 2, 2, 2);
    for (Component comp : mainPanel.getComponents()) {
        c.gridy = y++;
        mainGrid.setConstraints(comp, c);
    }
    mainPanel.setLayout(mainGrid);
}

Example 7 with TextField

use of java.awt.TextField in project GDSC-SMLM by aherbert.

the class CreateData method mouseClicked.

public void mouseClicked(MouseEvent e) {
    if (// Double-click
    e.getClickCount() > 1) {
        if (e.getSource() instanceof TextField) {
            TextField textFile = (TextField) e.getSource();
            String newFilename = Utils.getFilename("Config_File", textFile.getText());
            if (newFilename != null) {
                textFile.setText(newFilename);
            }
        }
    }
}

Example 8 with TextField

use of java.awt.TextField in project GDSC-SMLM by aherbert.

the class FolderOpenerDialog method getNumber.

public int getNumber(Object field) {
    TextField tf = (TextField) field;
    String theText = tf.getText();
    Double d;
    try {
        d = new Double(theText);
    } catch (NumberFormatException e) {
        d = null;
    }
    if (d != null)
        return (int) d.doubleValue();
    else
        return 0;
}

Example 9 with TextField

use of java.awt.TextField in project GDSC-SMLM by aherbert.

the class FolderOpenerDialog method setStackInfo.

void setStackInfo() {
    int n = getNumber(numberField.elementAt(0));
    int start = getNumber(numberField.elementAt(1));
    int inc = getNumber(numberField.elementAt(2));
    // Filter by name
    TextField tf = (TextField) stringField.elementAt(0);
    String filter = tf.getText();
    tf = (TextField) stringField.elementAt(1);
    String regex = tf.getText();
    java.util.regex.Pattern p = null;
    if (!regex.equals("")) {
        filter = regex;
        p = java.util.regex.Pattern.compile(filter);
    }
    if (!filter.equals("") && !filter.equals("*")) {
        int n2 = 0;
        for (int i = 0; i < list.length; i++) {
            if (p != null && p.matcher(list[i]).matches())
                n2++;
            else if (list[i].indexOf(filter) >= 0)
                n2++;
        }
        if (n2 < n)
            n = n2;
    }
    // Now count using the input settings
    if (start < 1 || start > n)
        start = 1;
    if (inc < 1)
        inc = 1;
    int count = 0;
    for (int i = start - 1; i < list.length && count < n; i += inc, count++) ;
    int frames = imp.getStackSize() * count;
    ((Label) theLabel).setText(String.format("%d image%s (%d frame%s)", count, (count == 1) ? "" : "s", frames, (frames == 1) ? "" : "s"));
}

Example 10 with TextField

use of java.awt.TextField in project GDSC-SMLM by aherbert.

the class BenchmarkSpotFit method showDialog.

@SuppressWarnings("unchecked")
private boolean showDialog() {
    GenericDialog gd = new GenericDialog(TITLE);
    gd.addHelp(About.HELP_URL);
    gd.addMessage(String.format("Fit candidate spots in the benchmark image created by " + CreateData.TITLE + " plugin\nand identified by the " + BenchmarkSpotFilter.TITLE + " plugin.\nPSF width = %s nm (Square pixel adjustment = %s nm)\n \nConfigure the fitting:", Utils.rounded(simulationParameters.s), Utils.rounded(getSa())));
    gd.addSlider("Fraction_positives", 50, 100, fractionPositives);
    gd.addSlider("Fraction_negatives_after_positives", 0, 100, fractionNegativesAfterAllPositives);
    gd.addSlider("Min_negatives_after_positives", 0, 10, negativesAfterAllPositives);
    gd.addSlider("Match_distance", 0.5, 3.5, distance);
    gd.addSlider("Lower_distance", 0, 3.5, lowerDistance);
    gd.addSlider("Match_signal", 0, 3.5, signalFactor);
    gd.addSlider("Lower_signal", 0, 3.5, lowerSignalFactor);
    // Collect options for fitting
    final double sa = getSa();
    gd.addNumericField("Initial_StdDev", Maths.round(sa / simulationParameters.a), 3);
    gd.addSlider("Fitting_width", 2, 4.5, config.getFitting());
    String[] solverNames = SettingsManager.getNames((Object[]) FitSolver.values());
    gd.addChoice("Fit_solver", solverNames, solverNames[fitConfig.getFitSolver().ordinal()]);
    String[] functionNames = SettingsManager.getNames((Object[]) FitFunction.values());
    gd.addChoice("Fit_function", functionNames, functionNames[fitConfig.getFitFunction().ordinal()]);
    gd.addMessage("Multi-path filter (used to pick optimum results during fitting)");
    // Allow loading the best filter fot these results
    boolean benchmarkSettingsCheckbox = fitResultsId == BenchmarkFilterAnalysis.lastId;
    // This should always be an opt-in decision. Otherwise the user cannot use the previous settings
    useBenchmarkSettings = false;
    if (benchmarkSettingsCheckbox)
        gd.addCheckbox("Benchmark_settings", useBenchmarkSettings);
    gd.addTextAreas(XmlUtils.convertQuotes(multiFilter.toXML()), null, 6, 60);
    gd.addNumericField("Fail_limit", config.getFailuresLimit(), 0);
    gd.addCheckbox("Include_neighbours", config.isIncludeNeighbours());
    gd.addSlider("Neighbour_height", 0.01, 1, config.getNeighbourHeightThreshold());
    //gd.addSlider("Residuals_threshold", 0.01, 1, config.getResidualsThreshold());
    gd.addCheckbox("Compute_doublets", computeDoublets);
    gd.addNumericField("Duplicate_distance", fitConfig.getDuplicateDistance(), 2);
    gd.addCheckbox("Show_score_histograms", showFilterScoreHistograms);
    gd.addCheckbox("Show_correlation", showCorrelation);
    gd.addCheckbox("Plot_rank_by_intensity", rankByIntensity);
    gd.addCheckbox("Save_filter_range", saveFilterRange);
    if (extraOptions) {
    }
    // Add a mouse listener to the config file field
    if (benchmarkSettingsCheckbox && Utils.isShowGenericDialog()) {
        Vector<TextField> numerics = (Vector<TextField>) gd.getNumericFields();
        Vector<Checkbox> checkboxes = (Vector<Checkbox>) gd.getCheckboxes();
        taFilterXml = gd.getTextArea1();
        Checkbox b = checkboxes.get(0);
        b.addItemListener(this);
        textFailLimit = numerics.get(9);
        cbIncludeNeighbours = checkboxes.get(1);
        textNeighbourHeight = numerics.get(10);
        cbComputeDoublets = checkboxes.get(2);
        if (useBenchmarkSettings) {
            FitConfiguration tmpFitConfig = new FitConfiguration();
            FitEngineConfiguration tmp = new FitEngineConfiguration(tmpFitConfig);
            // Collect the residuals threshold
            tmpFitConfig.setComputeResiduals(true);
            if (BenchmarkFilterAnalysis.updateConfiguration(tmp, false)) {
                textFailLimit.setText("" + tmp.getFailuresLimit());
                cbIncludeNeighbours.setState(tmp.isIncludeNeighbours());
                textNeighbourHeight.setText(Utils.rounded(tmp.getNeighbourHeightThreshold()));
                cbComputeDoublets.setState(tmp.getResidualsThreshold() < 1);
                final DirectFilter primaryFilter = tmpFitConfig.getSmartFilter();
                final double residualsThreshold = tmp.getResidualsThreshold();
                taFilterXml.setText(new MultiPathFilter(primaryFilter, minimalFilter, residualsThreshold).toXML());
            }
        }
    }
    gd.showDialog();
    if (gd.wasCanceled())
        return false;
    fractionPositives = Math.abs(gd.getNextNumber());
    fractionNegativesAfterAllPositives = Math.abs(gd.getNextNumber());
    negativesAfterAllPositives = (int) Math.abs(gd.getNextNumber());
    distance = Math.abs(gd.getNextNumber());
    lowerDistance = Math.abs(gd.getNextNumber());
    signalFactor = Math.abs(gd.getNextNumber());
    lowerSignalFactor = Math.abs(gd.getNextNumber());
    fitConfig.setInitialPeakStdDev(gd.getNextNumber());
    config.setFitting(gd.getNextNumber());
    fitConfig.setFitSolver(gd.getNextChoiceIndex());
    fitConfig.setFitFunction(gd.getNextChoiceIndex());
    boolean myUseBenchmarkSettings = false;
    if (benchmarkSettingsCheckbox)
        //useBenchmarkSettings = 
        myUseBenchmarkSettings = gd.getNextBoolean();
    // Read dialog settings
    String xml = gd.getNextText();
    int failLimit = (int) gd.getNextNumber();
    boolean includeNeighbours = gd.getNextBoolean();
    double neighbourHeightThreshold = gd.getNextNumber();
    boolean myComputeDoublets = gd.getNextBoolean();
    double myDuplicateDistance = gd.getNextNumber();
    MultiPathFilter myMultiFilter = null;
    if (myUseBenchmarkSettings && !Utils.isShowGenericDialog()) {
        // Only copy the benchmark settings if not interactive
        FitConfiguration tmpFitConfig = new FitConfiguration();
        FitEngineConfiguration tmp = new FitEngineConfiguration(tmpFitConfig);
        // Collect the residuals threshold
        tmpFitConfig.setComputeResiduals(true);
        if (BenchmarkFilterAnalysis.updateConfiguration(tmp, false)) {
            config.setFailuresLimit(tmp.getFailuresLimit());
            config.setIncludeNeighbours(tmp.isIncludeNeighbours());
            config.setNeighbourHeightThreshold(tmp.getNeighbourHeightThreshold());
            computeDoublets = (tmp.getResidualsThreshold() < 1);
            fitConfig.setDuplicateDistance(tmpFitConfig.getDuplicateDistance());
            final DirectFilter primaryFilter = tmpFitConfig.getSmartFilter();
            final double residualsThreshold = tmp.getResidualsThreshold();
            myMultiFilter = new MultiPathFilter(primaryFilter, minimalFilter, residualsThreshold);
        }
    } else {
        myMultiFilter = MultiPathFilter.fromXML(xml);
        config.setFailuresLimit(failLimit);
        config.setIncludeNeighbours(includeNeighbours);
        config.setNeighbourHeightThreshold(neighbourHeightThreshold);
        computeDoublets = myComputeDoublets;
        fitConfig.setDuplicateDistance(myDuplicateDistance);
    }
    if (myMultiFilter == null) {
        gd = new GenericDialog(TITLE);
        gd.addMessage("The multi-path filter was invalid.\n \nContinue with a default filter?");
        gd.enableYesNoCancel();
        gd.hideCancelButton();
        gd.showDialog();
        if (!gd.wasOKed())
            return false;
    } else {
        multiFilter = myMultiFilter;
    }
    if (computeDoublets) {
        //config.setComputeResiduals(true);
        config.setResidualsThreshold(0);
        fitConfig.setComputeResiduals(true);
    } else {
        config.setResidualsThreshold(1);
        fitConfig.setComputeResiduals(false);
    }
    showFilterScoreHistograms = gd.getNextBoolean();
    showCorrelation = gd.getNextBoolean();
    rankByIntensity = gd.getNextBoolean();
    saveFilterRange = gd.getNextBoolean();
    // Avoid stupidness, i.e. things that move outside the fit window and are bad widths
    // TODO - Fix this for simple or smart filter...
    fitConfig.setDisableSimpleFilter(false);
    // Realistically we cannot fit lower than this
    fitConfig.setMinPhotons(15);
    // Disable shift as candidates may be re-mapped to alternative candidates so the initial position is wrong.
    fitConfig.setCoordinateShiftFactor(0);
    fitConfig.setMinWidthFactor(1.0 / 5);
    fitConfig.setWidthFactor(5);
    // Disable the direct filter
    fitConfig.setDirectFilter(null);
    if (extraOptions) {
    }
    if (gd.invalidNumber())
        return false;
    if (lowerDistance > distance)
        lowerDistance = distance;
    if (lowerSignalFactor > signalFactor)
        lowerSignalFactor = signalFactor;
    // Distances relative to sa (not s) as this is the same as the BenchmarkSpotFilter plugin 
    distanceInPixels = distance * sa / simulationParameters.a;
    lowerDistanceInPixels = lowerDistance * sa / simulationParameters.a;
    GlobalSettings settings = new GlobalSettings();
    settings.setFitEngineConfiguration(config);
    settings.setCalibration(cal);
    // Copy simulation defaults if a new simulation
    if (lastId != simulationParameters.id) {
        cal.setNmPerPixel(simulationParameters.a);
        cal.setGain(simulationParameters.gain);
        cal.setAmplification(simulationParameters.amplification);
        cal.setExposureTime(100);
        cal.setReadNoise(simulationParameters.readNoise);
        cal.setBias(simulationParameters.bias);
        cal.setEmCCD(simulationParameters.emCCD);
        // This is needed to configure the fit solver
        fitConfig.setNmPerPixel(Maths.round(cal.getNmPerPixel()));
        fitConfig.setGain(Maths.round(cal.getGain()));
        fitConfig.setBias(Maths.round(cal.getBias()));
        fitConfig.setReadNoise(Maths.round(cal.getReadNoise()));
        fitConfig.setAmplification(Maths.round(cal.getAmplification()));
        fitConfig.setEmCCD(cal.isEmCCD());
    }
    if (!PeakFit.configureFitSolver(settings, null, extraOptions))
        return false;
    return true;
}