List of usage examples for javax.swing JTextArea getText
public String getText()
TextComponent. From source file:uk.ac.ebi.demo.picr.swing.PICRBLASTDemo.java
public PICRBLASTDemo() { //set general layout setLayout(new BoxLayout(this, BoxLayout.PAGE_AXIS)); add(Box.createVerticalStrut(5)); //create components JPanel row1 = new JPanel(); row1.setLayout(new BoxLayout(row1, BoxLayout.X_AXIS)); row1.add(Box.createHorizontalStrut(5)); row1.setBorder(BorderFactory.createTitledBorder("")); row1.add(new JLabel("Fragment:")); row1.add(Box.createHorizontalStrut(10)); final JTextArea sequenceArea = new JTextArea(5, 40); sequenceArea.setMaximumSize(sequenceArea.getPreferredSize()); row1.add(Box.createHorizontalStrut(10)); row1.add(sequenceArea);/* w w w. j a va 2 s . c o m*/ row1.add(Box.createHorizontalGlue()); JPanel row2 = new JPanel(new FlowLayout(FlowLayout.LEFT)); row2.setBorder(BorderFactory.createTitledBorder("Target Databases")); final JList databaseList = new JList(); JScrollPane listScroller = new JScrollPane(databaseList); listScroller.setMaximumSize(new Dimension(100, 10)); JButton loadDBButton = new JButton("Load Databases"); row2.add(listScroller); row2.add(loadDBButton); JPanel row3 = new JPanel(new FlowLayout(FlowLayout.LEFT)); JCheckBox onlyActiveCheckBox = new JCheckBox("Only Active"); onlyActiveCheckBox.setSelected(true); row3.add(new JLabel("Options: ")); row3.add(onlyActiveCheckBox); add(row1); add(row2); add(row3); final String[] columns = new String[] { "Database", "Accession", "Version", "Taxon ID" }; final JTable dataTable = new JTable(new Object[0][0], columns); dataTable.setShowGrid(true); add(new JScrollPane(dataTable)); JPanel buttonPanel = new JPanel(); JButton mapAccessionButton = new JButton("Generate Mapping!"); buttonPanel.add(mapAccessionButton); add(buttonPanel); //create listeners! //update boolean flag in communication class onlyActiveCheckBox.addChangeListener(new ChangeListener() { public void stateChanged(ChangeEvent e) { client.setOnlyActive(((JCheckBox) e.getSource()).isSelected()); } }); //performs mapping call and updates interface with results mapAccessionButton.addActionListener(new ActionListener() { public void actionPerformed(ActionEvent e) { try { if (!"".equals(sequenceArea.getText())) { //TODO filters and database are hardcoded here. They should be added to the input panel at a later revision. java.util.List<UPEntry> entries = client.performBlastMapping(sequenceArea.getText(), databaseList.getSelectedValues(), "90", "", "IDENTITY", "UniprotKB", "", false, new BlastParameter()); //compute size of array if (entries != null) { int size = 0; for (UPEntry entry : entries) { for (CrossReference xref : entry.getIdenticalCrossReferences()) { size++; } for (CrossReference xref : entry.getLogicalCrossReferences()) { size++; } } if (size > 0) { final Object[][] data = new Object[size][4]; int i = 0; for (UPEntry entry : entries) { for (CrossReference xref : entry.getIdenticalCrossReferences()) { data[i][0] = xref.getDatabaseName(); data[i][1] = xref.getAccession(); data[i][2] = xref.getAccessionVersion(); data[i][3] = xref.getTaxonId(); i++; } for (CrossReference xref : entry.getLogicalCrossReferences()) { data[i][0] = xref.getDatabaseName(); data[i][1] = xref.getAccession(); data[i][2] = xref.getAccessionVersion(); data[i][3] = xref.getTaxonId(); i++; } } //refresh DefaultTableModel dataModel = new DefaultTableModel(); dataModel.setDataVector(data, columns); dataTable.setModel(dataModel); System.out.println("update done"); } else { JOptionPane.showMessageDialog(null, "No Mappind data found."); } } else { JOptionPane.showMessageDialog(null, "No Mappind data found."); } } else { JOptionPane.showMessageDialog(null, "You must enter a valid FASTA sequence to map."); } } catch (SOAPFaultException soapEx) { JOptionPane.showMessageDialog(null, "A SOAP Error occurred."); soapEx.printStackTrace(); } } }); //loads list of mapping databases from communication class loadDBButton.addActionListener(new ActionListener() { public void actionPerformed(ActionEvent e) { try { java.util.List<String> databases = client.loadDatabases(); if (databases != null && databases.size() > 0) { databaseList.setListData(databases.toArray()); System.out.println("database refresh done"); } else { JOptionPane.showMessageDialog(null, "No Databases Loaded!."); } } catch (SOAPFaultException soapEx) { JOptionPane.showMessageDialog(null, "A SOAP Error occurred."); soapEx.printStackTrace(); } } }); }
From source file:uk.nhs.cfh.dsp.srth.desktop.modules.resultexplanationpanel.QueryStatisticsCollectionPanel.java
/** * Creates the statements panel./*from w w w .j a v a 2 s . c om*/ * * @param textArea the text area * @param title the title * * @return the j panel */ private synchronized JPanel createStatementsPanel(final JTextArea textArea, String title) { JPanel panel = new JPanel(new BorderLayout()); panel.setBorder(BorderFactory.createCompoundBorder(BorderFactory.createEmptyBorder(), BorderFactory.createTitledBorder(title))); // create buttons for copy and export JButton copyButton = new JButton(new AbstractAction("Copy") { public void actionPerformed(ActionEvent event) { StringSelection selection = new StringSelection(textArea.getSelectedText()); // get contents of text area and copy to system clipboard Clipboard clipboard = Toolkit.getDefaultToolkit().getSystemClipboard(); clipboard.setContents(selection, QueryStatisticsCollectionPanel.this); } }); JButton exportButton = new JButton(new AbstractAction("Export") { public void actionPerformed(ActionEvent event) { // open a file dialog and export the contents FileDialog fd = new FileDialog(applicationService.getFrameView().getActiveFrame(), "Select file to export to", FileDialog.SAVE); fd.setVisible(true); String fileName = fd.getFile(); String fileDirectory = fd.getDirectory(); if (fileDirectory != null && fileName != null) { File file = new File(fileDirectory, fileName); try { String contents = textArea.getText(); FileWriter fw = new FileWriter(file); fw.flush(); fw.write(contents); fw.close(); // inform user // manager.getStatusMessageLabel().setText("Successfully saved contents to file "+fileName); logger.info("Successfully saved contents to file " + fileName); } catch (IOException e) { logger.warn(e.fillInStackTrace()); // manager.getStatusMessageLabel().setText("Errors saving contents to file "+fileName); } } } }); // create buttons panel JPanel buttonsPanel = new JPanel(); buttonsPanel.setLayout(new BoxLayout(buttonsPanel, BoxLayout.LINE_AXIS)); buttonsPanel.add(Box.createHorizontalStrut(200)); buttonsPanel.add(copyButton); buttonsPanel.add(exportButton); panel.add(buttonsPanel, BorderLayout.SOUTH); panel.add(new JScrollPane(textArea), BorderLayout.CENTER); return panel; }
From source file:Widgets.Simulation.java
public Simulation(final JFrame aFrame, NetworkElement item) { super(aFrame); grn = ((DynamicalModelElement) item).getGeneNetwork(); plot = new Plot2DPanel(); //closing listener this.addWindowListener(new WindowAdapter() { @Override//from w ww .j a v a 2 s .co m public void windowClosing(WindowEvent windowEvent) { if (simulation != null && simulation.myThread_.isAlive()) { simulation.stop(); System.out.print("Simulation is canceled.\n"); JOptionPane.showMessageDialog(new Frame(), "Simulation is canceled.", "Warning!", JOptionPane.INFORMATION_MESSAGE); } escapeAction(); } }); // Model model_.setModel(new DefaultComboBoxModel(new String[] { "Deterministic Model (ODEs)", "Stochastic Model (SDEs)", "Stochastic Simulation (Gillespie Algorithm)" })); model_.setSelectedIndex(0); setModelAction(); //set plot part //display result if (grn.getTimeScale().size() >= 1) { //update parameters numTimeSeries_.setValue(grn.getTraj_itsValue()); tmax_.setValue(grn.getTraj_maxTime()); sdeDiffusionCoeff_.setValue(grn.getTraj_noise()); if (grn.getTraj_model().equals("ode")) model_.setSelectedIndex(0); else if (grn.getTraj_model().equals("sde")) model_.setSelectedIndex(1); else model_.setSelectedIndex(2); //update plot trajPlot.removeAll(); trajPlot.add(trajectoryTabb()); trajPlot.updateUI(); trajPlot.setVisible(true); trajPlot.repaint(); analyzeResult.setVisible(true); } /** * ACTIONS */ model_.addActionListener(new ActionListener() { public void actionPerformed(ActionEvent arg0) { setModelAction(); } }); analyzeResult.addActionListener(new ActionListener() { public void actionPerformed(final ActionEvent arg0) { final JDialog a = new JDialog(); a.setSize(new Dimension(500, 450)); a.setModal(true); a.setTitle("Gene List (seperated by ';')"); a.setLocationRelativeTo(null); final JTextArea focusGenesArea = new JTextArea(); focusGenesArea.setLineWrap(true); focusGenesArea.setEditable(false); focusGenesArea.setRows(3); String geneNames = ""; for (int i = 0; i < grn.getNodes().size(); i++) geneNames += grn.getNodes().get(i).getLabel() + ";"; focusGenesArea.setText(geneNames); JButton submitButton = new JButton("Submit"); JButton cancelButton = new JButton("Cancel"); JPanel buttonPanel = new JPanel(); buttonPanel.setLayout(new BoxLayout(buttonPanel, BoxLayout.X_AXIS)); buttonPanel.add(submitButton); buttonPanel.add(cancelButton); cancelButton.addActionListener(new ActionListener() { public void actionPerformed(final ActionEvent arg0) { a.dispose(); } }); submitButton.addActionListener(new ActionListener() { public void actionPerformed(final ActionEvent arg0) { a.dispose(); final JDialog a = new JDialog(); a.setSize(new Dimension(500, 450)); a.setModal(true); a.setTitle("Statistics"); a.setLocationRelativeTo(null); if (grn.getTimeSeries().isEmpty()) { JOptionPane.showMessageDialog(new Frame(), "Please run the simulation first.", "Warning!", JOptionPane.INFORMATION_MESSAGE); } else { JPanel infoPanel = new JPanel(); infoPanel.setLayout(new BorderLayout()); //output String[] focusGenes = focusGenesArea.getText().split(";"); ; String content = ""; //discrete the final state int dimension = grn.getNodes().size(); //get gene index int[] focus_index = new int[focusGenes.length]; for (int j = 0; j < focusGenes.length; j++) for (int i = 0; i < dimension; i++) if (grn.getNode(i).getLabel().equals(focusGenes[j])) focus_index[j] = i; JScrollPane jsp = new JScrollPane(); //calculate steady states grn.setLand_itsValue((Integer) numTimeSeries_.getModel().getValue()); int[] isConverge = new int[grn.getTraj_itsValue()]; String out = calculateSteadyStates(focusGenes, focus_index, isConverge); //show the convergence final JDialog ifconvergent = new JDialog(); ifconvergent.setSize(new Dimension(500, 450)); ifconvergent.setModal(true); ifconvergent.setTitle("Convergence"); ifconvergent.setLocationRelativeTo(null); ConvergenceTable tablePanel = new ConvergenceTable(isConverge); JButton continueButton = new JButton("Click to check the attractors."); continueButton.addActionListener(new ActionListener() { public void actionPerformed(final ActionEvent arg0) { ifconvergent.dispose(); } }); JPanel ifconvergentPanel = new JPanel(); ifconvergentPanel.setLayout(new BorderLayout()); ifconvergentPanel.add(tablePanel, BorderLayout.NORTH); ifconvergentPanel.add(continueButton, BorderLayout.SOUTH); ifconvergent.add(ifconvergentPanel); ifconvergent.setVisible(true); //show attractors if (out.equals("ok")) { AttractorTable panel = new AttractorTable(grn, focusGenes); jsp.setViewportView(panel); } else if (grn.getSumPara().size() == 0) content += "Cannot find a steady state!"; else content += "\nI dont know why!"; if (content != "") { JLabel warningLabel = new JLabel(); warningLabel.setText(content); jsp.setViewportView(warningLabel); } grn.setSumPara(null); grn.setCounts(null); //jsp.setPreferredSize(new Dimension(280,130)); jsp.setVerticalScrollBarPolicy(ScrollPaneConstants.VERTICAL_SCROLLBAR_AS_NEEDED); jsp.setHorizontalScrollBarPolicy(ScrollPaneConstants.HORIZONTAL_SCROLLBAR_AS_NEEDED); infoPanel.add(jsp, BorderLayout.CENTER); a.add(infoPanel); a.setVisible(true); } //end of else } }); JPanel options3 = new JPanel(); options3.setLayout(new BorderLayout()); options3.add(focusGenesArea, BorderLayout.NORTH); options3.add(buttonPanel); options3.setBorder(new EmptyBorder(5, 0, 5, 0)); a.add(options3); a.setVisible(true); } }); runButton_.addActionListener(new ActionListener() { public void actionPerformed(final ActionEvent arg0) { //System.out.print("Memory start: "+s_runtime.totalMemory()+"\n"); enterAction(); } }); cancelButton_.addActionListener(new ActionListener() { public void actionPerformed(final ActionEvent arg0) { if (simulation != null) simulation.stop(); System.out.print("Simulation is canceled!\n"); } }); fixButton.addActionListener(new ActionListener() { public void actionPerformed(final ActionEvent arg0) { JDialog a = new JDialog(); a.setTitle("Fixed initial values"); a.setSize(new Dimension(400, 400)); a.setLocationRelativeTo(null); JPanel speciesPanel = new JPanel(); String[] columnName = { "Name", "InitialValue" }; boolean editable = false; //false; new SpeciesTable(speciesPanel, columnName, grn, editable); /** LAYOUT **/ JPanel wholePanel = new JPanel(); wholePanel.setLayout(new BoxLayout(wholePanel, BoxLayout.Y_AXIS)); wholePanel.add(speciesPanel); a.add(wholePanel); a.setModal(true); a.setVisible(true); } }); randomButton.addActionListener(new ActionListener() { public void actionPerformed(final ActionEvent arg0) { final JDialog a = new JDialog(); a.setTitle("Set boundaries"); a.setSize(new Dimension(300, 200)); a.setModal(true); a.setLocationRelativeTo(null); JPanel upPanel = new JPanel(); JLabel upLabel = new JLabel("Input the upper boundary: "); final JTextField upValue = new JTextField("3"); upPanel.setLayout(new BoxLayout(upPanel, BoxLayout.X_AXIS)); upPanel.add(upLabel); upPanel.add(upValue); JPanel lowPanel = new JPanel(); JLabel lowLabel = new JLabel("Input the lower boundary: "); final JTextField lowValue = new JTextField("0"); lowPanel.setLayout(new BoxLayout(lowPanel, BoxLayout.X_AXIS)); lowPanel.add(lowLabel); lowPanel.add(lowValue); JPanel buttonPanel = new JPanel(); JButton submit = new JButton("Submit"); JButton cancel = new JButton("Cancel"); buttonPanel.setLayout(new BoxLayout(buttonPanel, BoxLayout.X_AXIS)); buttonPanel.add(submit); buttonPanel.add(cancel); buttonPanel.setBorder(new EmptyBorder(5, 5, 5, 5)); submit.addActionListener(new ActionListener() { public void actionPerformed(ActionEvent e) { if (upValue.getText().equals("")) JOptionPane.showMessageDialog(null, "Please input upper boundary", "Error", JOptionPane.ERROR_MESSAGE); else { try { upbound = Double.parseDouble(upValue.getText()); if (lowValue.getText().equals("")) JOptionPane.showMessageDialog(null, "Please input lower boundary", "Error", JOptionPane.ERROR_MESSAGE); else { try { lowbound = Double.parseDouble(lowValue.getText()); if (upbound < lowbound) JOptionPane.showMessageDialog(null, "Upper boundary should be not less than lower boundary", "Error", JOptionPane.ERROR_MESSAGE); else a.dispose(); } catch (Exception er) { JOptionPane.showMessageDialog(null, "Invalid value", "Error", JOptionPane.INFORMATION_MESSAGE); MsgManager.Messages.errorMessage(er, "Error", ""); } } } catch (Exception er) { JOptionPane.showMessageDialog(null, "Invalid value", "Error", JOptionPane.INFORMATION_MESSAGE); MsgManager.Messages.errorMessage(er, "Error", ""); } } } }); cancel.addActionListener(new ActionListener() { public void actionPerformed(ActionEvent e) { JOptionPane.showMessageDialog(null, "The default values are used!", "", JOptionPane.INFORMATION_MESSAGE); a.dispose(); } }); JPanel wholePanel = new JPanel(); wholePanel.setLayout(new BoxLayout(wholePanel, BoxLayout.Y_AXIS)); wholePanel.add(upPanel); wholePanel.add(lowPanel); wholePanel.add(buttonPanel); wholePanel.setBorder(new EmptyBorder(5, 5, 5, 5)); a.add(wholePanel); a.setVisible(true); } }); }